Start: 2022-12-01 01:55:32 GMT [stretch] Package: ariba Version: 2.6.1+ds-1 Installed-Size: 687 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.6), python3 (>= 3.5~), python3-dendropy (>= 4.1.0), python3-pymummer (>= 0.10.1), python3-pysam (>= 0.9.1), python3:any (>= 3.3.2-2~), libc6 (>= 2.14), libfml0, libgcc1 (>= 1:3.0), libminimap0, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer Description: Antibiotic Resistance Identification By Assembly Homepage: https://github.com/sanger-pathogens/ariba Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.6.1+ds-1_amd64.deb Size: 103872 MD5sum: 98a107d16d9c27d6a675dfa48bb0bb42 SHA256: 45b8f68dfa8b2984b7f7f72b88d62c12df265b882621a55d5f752dd39d7a0c12 [buster] Package: ariba Version: 2.13.3+ds-1 Installed-Size: 17444 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.8), python3 (>= 3.7~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc1 (>= 1:3.0), libminimap0, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Description: Antibiotic Resistance Identification By Assembly Homepage: https://github.com/sanger-pathogens/ariba Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.13.3+ds-1_amd64.deb Size: 1678912 MD5sum: 77517ce195de03a32365f34e5629bb30 SHA256: a971e793eca324e1333e4cf1c89abd795839a5b7869c10d31a2dca27675f074e Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --upgrade-before-dist-upgrade --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat --apt ariba=2.13.3+ds-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --upgrade-before-dist-upgrade --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat --apt ariba=2.13.3+ds-1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-19-amd64 #1 SMP Debian 5.10.149-2 (2022-10-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp_h01ccur 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp_h01ccur 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/proc'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/proc'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/pts'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/pts'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/ptmx'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/ptmx'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/console'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/console'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/shm'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/shm'] 0m1.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m1.3s DEBUG: Created policy-rc.d and chmodded it. 0m1.3s DEBUG: Created resolv.conf. 0m1.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp_h01ccur/tmp/scripts/ 0m1.4s INFO: Running scripts post_chroot_unpack 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'update'] 0m2.0s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'update'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-yf', 'dist-upgrade'] 0m2.3s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-yf', 'dist-upgrade'] 0m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.7s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m2.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.7s INFO: Running scripts post_setup 0m2.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_forbid_home'] 0m3.5s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_forbid_home'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.5s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_minimize'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_minimize'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_zz_backports'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_setup_zz_backports'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.5s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.10 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.25 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+b1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed login login 1:4.4-4.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.5s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stretch2Xbuster-rcmd/reference-chroot-metadata.dat 0m3.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 0m3.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 0m3.8s INFO: Running scripts is_testable 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/is_testable_uninstallable'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/is_testable_uninstallable'] 0m3.8s INFO: Running scripts pre_test 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_test_exceptions'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_test_exceptions'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_test_root_password'] 0m3.8s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_test_root_password'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 0m3.9s DUMP: Package: ariba Version: 2.6.1+ds-1 Installed-Size: 687 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.6), python3 (>= 3.5~), python3-dendropy (>= 4.1.0), python3-pymummer (>= 0.10.1), python3-pysam (>= 0.9.1), python3:any (>= 3.3.2-2~), libc6 (>= 2.14), libfml0, libgcc1 (>= 1:3.0), libminimap0, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer Description-en: Antibiotic Resistance Identification By Assembly ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes. Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Homepage: https://github.com/sanger-pathogens/ariba Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.6.1+ds-1_amd64.deb Size: 103872 MD5sum: 98a107d16d9c27d6a675dfa48bb0bb42 SHA256: 45b8f68dfa8b2984b7f7f72b88d62c12df265b882621a55d5f752dd39d7a0c12 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 0m3.9s INFO: apt-cache knows about the following packages: ariba 0m3.9s INFO: Running scripts pre_install 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_database-server'] 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_database-server'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_exceptions'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_exceptions'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_extras'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_extras'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy'] 0m4.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy', 'ariba'] 0m4.1s DUMP: ariba: Installed: (none) Candidate: 2.6.1+ds-1 Version table: 2.6.1+ds-1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy', 'ariba'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'install', 'ariba'] 0m18.1s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: bowtie2 bzip2 ca-certificates cd-hit dh-python fastaq file gawk krb5-locales libatomic1 libcapnp-0.5.3 libcurl3-gnutls libexpat1 libffi6 libfml0 libgdbm3 libgmp10 libgnutls30 libgomp1 libgpm2 libgsl2 libgssapi-krb5-2 libhogweed4 libhts1 libidn11 libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libminimap0 libmpdec2 libmpfr4 libncurses5 libnettle6 libnghttp2-14 libp11-kit0 libperl5.24 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.5-minimal libpython3.5-stdlib libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libsqlite3-0 libssh2-1 libssl1.1 libtasn1-6 libtbb2 libunistring0 mash mime-support mummer netbase openssl perl perl-modules-5.24 publicsuffix python python-minimal python2.7 python2.7-minimal python3 python3-dendropy python3-minimal python3-pkg-resources python3-pymummer python3-pysam python3.5 python3.5-minimal readline-common rename samtools xz-utils Suggested packages: bowtie2-examples bzip2-doc libdpkg-perl gawk-doc gnutls-bin gpm gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-doc krb5-user libsasl2-modules-gssapi-mit | libsasl2-modules-gssapi-heimdal libsasl2-modules-ldap libsasl2-modules-otp libsasl2-modules-sql perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make python-doc python-tk python2.7-doc binutils binfmt-support python3-doc python3-tk python3-venv python3-setuptools python3.5-venv python3.5-doc readline-doc The following NEW packages will be installed: ariba bowtie2 bzip2 ca-certificates cd-hit dh-python fastaq file gawk krb5-locales libatomic1 libcapnp-0.5.3 libcurl3-gnutls libexpat1 libffi6 libfml0 libgdbm3 libgmp10 libgnutls30 libgomp1 libgpm2 libgsl2 libgssapi-krb5-2 libhogweed4 libhts1 libidn11 libidn2-0 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libminimap0 libmpdec2 libmpfr4 libncurses5 libnettle6 libnghttp2-14 libp11-kit0 libperl5.24 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.5-minimal libpython3.5-stdlib libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libsqlite3-0 libssh2-1 libssl1.1 libtasn1-6 libtbb2 libunistring0 mash mime-support mummer netbase openssl perl perl-modules-5.24 publicsuffix python python-minimal python2.7 python2.7-minimal python3 python3-dendropy python3-minimal python3-pkg-resources python3-pymummer python3-pysam python3.5 python3.5-minimal readline-common rename samtools xz-utils 0 upgraded, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 39.3 MB of archives. After this operation, 201 MB of additional disk space will be used. 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amd64 readline-common all 7.0-3 [70.4 kB] Get:12 http://deb.debian.org/debian stretch/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:13 http://deb.debian.org/debian stretch/main amd64 libsqlite3-0 amd64 3.16.2-5+deb9u1 [572 kB] Get:14 http://deb.debian.org/debian stretch/main amd64 libssl1.1 amd64 1.1.0l-1~deb9u1 [1358 kB] Get:15 http://deb.debian.org/debian stretch/main amd64 libpython2.7-stdlib amd64 2.7.13-2+deb9u3 [1897 kB] Get:16 http://deb.debian.org/debian stretch/main amd64 python2.7 amd64 2.7.13-2+deb9u3 [285 kB] Get:17 http://deb.debian.org/debian stretch/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:18 http://deb.debian.org/debian stretch/main amd64 python amd64 2.7.13-2 [154 kB] Get:19 http://deb.debian.org/debian stretch/main amd64 libgmp10 amd64 2:6.1.2+dfsg-1 [253 kB] Get:20 http://deb.debian.org/debian stretch/main amd64 libmpfr4 amd64 3.1.5-1 [556 kB] Get:21 http://deb.debian.org/debian stretch/main amd64 libsigsegv2 amd64 2.10-5 [28.9 kB] Get:22 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6.3.0-18+deb9u1 [8966 B] Get:74 http://deb.debian.org/debian stretch/main amd64 libtbb2 amd64 4.3~20150611-2 [136 kB] Get:75 http://deb.debian.org/debian stretch/main amd64 bowtie2 amd64 2.3.0-2 [1166 kB] Get:76 http://deb.debian.org/debian stretch/main amd64 libgomp1 amd64 6.3.0-18+deb9u1 [73.3 kB] Get:77 http://deb.debian.org/debian stretch/main amd64 cd-hit amd64 4.6.6-2 [852 kB] Get:78 http://deb.debian.org/debian stretch/main amd64 libcapnp-0.5.3 amd64 0.5.3-2 [584 kB] Get:79 http://deb.debian.org/debian stretch/main amd64 libgsl2 amd64 2.3+dfsg-1 [893 kB] Get:80 http://deb.debian.org/debian stretch/main amd64 mash amd64 1.1.1-2 [126 kB] Get:81 http://deb.debian.org/debian stretch/main amd64 ariba amd64 2.6.1+ds-1 [104 kB] Get:82 http://deb.debian.org/debian stretch/main amd64 openssl amd64 1.1.0l-1~deb9u1 [749 kB] Get:83 http://deb.debian.org/debian stretch/main amd64 ca-certificates all 20200601~deb9u1 [160 kB] Get:84 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [102 kB] Get:85 http://deb.debian.org/debian stretch/main amd64 rename all 0.20-4 [12.5 kB] Get:86 http://deb.debian.org/debian stretch/main amd64 publicsuffix all 20190415.1030-0+deb9u1 [108 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 39.3 MB in 0s (98.2 MB/s) Selecting previously unselected package perl-modules-5.24. 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Selecting previously unselected package dh-python. Preparing to unpack .../8-dh-python_2.20170125_all.deb ... Unpacking dh-python (2.20170125) ... Setting up libssl1.1:amd64 (1.1.0l-1~deb9u1) ... Setting up libpython3.5-minimal:amd64 (3.5.3-1+deb9u1) ... Setting up libexpat1:amd64 (2.2.0-2+deb9u3) ... Setting up python3.5-minimal (3.5.3-1+deb9u1) ... Setting up python3-minimal (3.5.3-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 8227 files and directories currently installed.) Preparing to unpack .../00-python3_3.5.3-1_amd64.deb ... Unpacking python3 (3.5.3-1) ... Selecting previously unselected package netbase. Preparing to unpack .../01-netbase_5.4_all.deb ... Unpacking netbase (5.4) ... Selecting previously unselected package bzip2. Preparing to unpack .../02-bzip2_1.0.6-8.1_amd64.deb ... Unpacking bzip2 (1.0.6-8.1) ... Selecting previously unselected package libmagic-mgc. 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Preparing to unpack .../55-publicsuffix_20190415.1030-0+deb9u1_all.deb ... Unpacking publicsuffix (20190415.1030-0+deb9u1) ... Setting up libncurses5:amd64 (6.0+20161126-1+deb9u2) ... Setting up libgomp1:amd64 (6.3.0-18+deb9u1) ... Setting up libatomic1:amd64 (6.3.0-18+deb9u1) ... Setting up perl-modules-5.24 (5.24.1-3+deb9u7) ... Setting up libgdbm3:amd64 (1.8.3-14) ... Setting up libperl5.24:amd64 (5.24.1-3+deb9u7) ... Setting up libnettle6:amd64 (3.3-1+b2) ... Setting up libnghttp2-14:amd64 (1.18.1-1+deb9u1) ... Setting up mime-support (3.60) ... Setting up libgpm2:amd64 (1.20.4-6.2+b1) ... Setting up libldap-common (2.4.44+dfsg-5+deb9u4) ... Setting up libtbb2:amd64 (4.3~20150611-2) ... Setting up libsasl2-modules-db:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Setting up libsasl2-2:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Setting up libcapnp-0.5.3 (0.5.3-2) ... Setting up libgsl2:amd64 (2.3+dfsg-1) ... Setting up gawk (1:4.1.4+dfsg-1) ... Setting up libtasn1-6:amd64 (4.10-1.1+deb9u1) ... Setting up libmagic-mgc (1:5.30-1+deb9u3) ... Setting up bzip2 (1.0.6-8.1) ... Setting up libmagic1:amd64 (1:5.30-1+deb9u3) ... Setting up libhogweed4:amd64 (3.3-1+b2) ... Setting up perl (5.24.1-3+deb9u7) ... update-alternatives: using /usr/bin/prename to provide /usr/bin/rename (rename) in auto mode Setting up libssh2-1:amd64 (1.7.0-1+deb9u1) ... Setting up libminimap0 (0.2-3+b1) ... Setting up krb5-locales (1.15-1+deb9u1) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Setting up publicsuffix (20190415.1030-0+deb9u1) ... Setting up libunistring0:amd64 (0.9.6+really0.9.3-0.1) ... Setting up xz-utils (5.2.2-1.2+b1) ... update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode Setting up libfml0 (0.1-2+b1) ... Setting up openssl (1.1.0l-1~deb9u1) ... Setting up libsqlite3-0:amd64 (3.16.2-5+deb9u1) ... Setting up libffi6:amd64 (3.2.1-6) ... Setting up libkeyutils1:amd64 (1.5.9-9) ... Setting up libsasl2-modules:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Setting up ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 126 added, 0 removed; done. Setting up libpython2.7-stdlib:amd64 (2.7.13-2+deb9u3) ... Setting up libidn11:amd64 (1.33-1+deb9u1) ... Setting up libmpdec2:amd64 (2.4.2-1) ... Setting up netbase (5.4) ... Setting up cd-hit (4.6.6-2) ... Setting up libidn2-0:amd64 (0.16-1+deb9u1) ... Setting up mash (1.1.1-2) ... Setting up rename (0.20-4) ... update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode Setting up libpsl5:amd64 (0.17.0-3) ... Setting up mummer (3.23+dfsg-2) ... Setting up libpython3.5-stdlib:amd64 (3.5.3-1+deb9u1) ... Setting up python2.7 (2.7.13-2+deb9u3) ... Setting up file (1:5.30-1+deb9u3) ... Setting up libkrb5support0:amd64 (1.15-1+deb9u1) ... Setting up libpython-stdlib:amd64 (2.7.13-2) ... Setting up libp11-kit0:amd64 (0.23.3-2) ... Setting up python (2.7.13-2) ... Setting up python3.5 (3.5.3-1+deb9u1) ... Setting up libpython3-stdlib:amd64 (3.5.3-1) ... Setting up libk5crypto3:amd64 (1.15-1+deb9u1) ... Setting up libgnutls30:amd64 (3.5.8-5+deb9u5) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Setting up bowtie2 (2.3.0-2) ... Setting up libldap-2.4-2:amd64 (2.4.44+dfsg-5+deb9u4) ... Setting up libkrb5-3:amd64 (1.15-1+deb9u1) ... Setting up libgssapi-krb5-2:amd64 (1.15-1+deb9u1) ... Setting up libcurl3-gnutls:amd64 (7.52.1-5+deb9u10) ... Setting up libhts1:amd64 (1.3.2-2) ... Setting up samtools (1.3.1-3) ... Setting up python3 (3.5.3-1) ... Setting up python3-pkg-resources (33.1.1-1) ... Setting up fastaq (3.14.0-1) ... Setting up python3-pysam (0.10.0+ds-2) ... Setting up python3-pymummer (0.10.1-1) ... Setting up python3-dendropy (4.2.0+dfsg-1) ... Setting up dh-python (2.20170125) ... Setting up ariba (2.6.1+ds-1) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m18.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'install', 'ariba'] 0m18.1s INFO: Running scripts post_install 0m18.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_install_exceptions'] 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_install_exceptions'] 0m18.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 0m19.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 0m19.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp_h01ccur to buster 0m19.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m19.0s INFO: Running scripts pre_distupgrade 0m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_exceptions'] 0m19.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_exceptions'] 0m19.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m19.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m19.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'update'] 0m22.2s DUMP: Get:1 http://deb.debian.org/debian buster InRelease [122 kB] Get:2 http://deb.debian.org/debian buster/main amd64 Packages [7909 kB] Get:3 http://deb.debian.org/debian buster/main Translation-en [5969 kB] Fetched 14.0 MB in 2s (5869 kB/s) Reading package lists... 0m22.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'update'] 0m22.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'upgrade'] 0m29.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages have been kept back: apt ariba bash ca-certificates coreutils dash dpkg e2fslibs e2fsprogs gawk gpgv libapt-pkg5.0 libatomic1 libblkid1 libc-bin libc6 libcomerr2 libcurl3-gnutls libexpat1 libfdisk1 libgcc1 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libk5crypto3 libkrb5-3 libkrb5support0 libldap-2.4-2 libmount1 libncurses5 libncursesw5 libp11-kit0 libpam-modules libpam-modules-bin libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libreadline7 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++6 libsystemd0 libtbb2 libtinfo5 libudev1 libuuid1 login mash mount ncurses-base ncurses-bin openssl perl perl-base python python-minimal python2.7 python2.7-minimal python3 python3-minimal python3-pysam rename samtools util-linux The following packages will be upgraded: adduser base-files base-passwd bowtie2 bsdutils bzip2 cd-hit debconf debian-archive-keyring debianutils dh-python diffutils fastaq file findutils grep gzip hostname init-system-helpers krb5-locales libacl1 libattr1 libaudit-common libaudit1 libbz2-1.0 libcap-ng0 libdb5.3 libdebconfclient0 libffi6 libfml0 libgcrypt20 libgmp10 libgpm2 libhogweed4 libidn11 libkeyutils1 libldap-common liblz4-1 liblzma5 libmagic-mgc libmagic1 libminimap0 libmpdec2 libnettle6 libnghttp2-14 libpam-runtime libpam0g libpcre3 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libselinux1 libsemanage-common libsemanage1 libsepol1 libsigsegv2 libssh2-1 libtasn1-6 mime-support multiarch-support mummer netbase passwd publicsuffix python3-dendropy python3-pkg-resources python3-pymummer readline-common sed sensible-utils sysvinit-utils tar xz-utils zlib1g 75 upgraded, 0 newly installed, 0 to remove and 70 not upgraded. Need to get 13.6 MB of archives. After this operation, 65.3 MB disk space will be freed. Get:1 http://deb.debian.org/debian buster/main amd64 base-files amd64 10.3+deb10u13 [69.9 kB] Get:2 http://deb.debian.org/debian buster/main amd64 bsdutils amd64 1:2.33.1-0.1 [121 kB] Get:3 http://deb.debian.org/debian buster/main amd64 debianutils amd64 4.8.6.1 [100 kB] Get:4 http://deb.debian.org/debian buster/main amd64 diffutils amd64 1:3.7-3 [371 kB] Get:5 http://deb.debian.org/debian buster/main amd64 findutils amd64 4.6.0+git+20190209-2 [684 kB] Get:6 http://deb.debian.org/debian buster/main amd64 grep amd64 3.3-1 [373 kB] Get:7 http://deb.debian.org/debian buster/main amd64 gzip amd64 1.9-3+deb10u1 [128 kB] Get:8 http://deb.debian.org/debian buster/main amd64 hostname amd64 3.21 [14.8 kB] Get:9 http://deb.debian.org/debian buster/main amd64 sed amd64 4.7-1 [310 kB] Get:10 http://deb.debian.org/debian buster/main amd64 tar amd64 1.30+dfsg-6 [780 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libdebconfclient0 amd64 0.249 [49.1 kB] Get:12 http://deb.debian.org/debian buster/main amd64 base-passwd amd64 3.5.46 [56.7 kB] Get:13 http://deb.debian.org/debian buster/main amd64 init-system-helpers all 1.56+nmu1 [46.8 kB] Get:14 http://deb.debian.org/debian buster/main amd64 sysvinit-utils amd64 2.93-8 [78.4 kB] Get:15 http://deb.debian.org/debian buster/main amd64 debconf all 1.5.71+deb10u1 [145 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libpam-runtime all 1.3.1-5 [211 kB] Get:17 http://deb.debian.org/debian buster/main amd64 libaudit-common all 1:2.8.4-3 [22.4 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libcap-ng0 amd64 0.7.9-2 [14.3 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libaudit1 amd64 1:2.8.4-3 [57.3 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libpam0g amd64 1.3.1-5 [126 kB] Get:21 http://deb.debian.org/debian buster/main amd64 libpcre3 amd64 2:8.39-12 [341 kB] Get:22 http://deb.debian.org/debian buster/main amd64 libselinux1 amd64 2.8-1+b1 [86.9 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libsepol1 amd64 2.8-1 [263 kB] Get:24 http://deb.debian.org/debian buster/main amd64 libsemanage-common all 2.8-2 [17.7 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libsemanage1 amd64 2.8-2 [96.5 kB] Get:26 http://deb.debian.org/debian buster/main amd64 bzip2 amd64 1.0.6-9.2~deb10u1 [48.4 kB] Get:27 http://deb.debian.org/debian buster/main amd64 libbz2-1.0 amd64 1.0.6-9.2~deb10u1 [45.3 kB] Get:28 http://deb.debian.org/debian buster/main amd64 passwd amd64 1:4.5-1.1 [1005 kB] Get:29 http://deb.debian.org/debian buster/main amd64 adduser all 3.118 [240 kB] Get:30 http://deb.debian.org/debian buster/main amd64 debian-archive-keyring all 2019.1+deb10u1 [93.5 kB] Get:31 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libattr1 amd64 1:2.4.48-4 [21.3 kB] Get:33 http://deb.debian.org/debian buster/main amd64 libacl1 amd64 2.2.53-4 [30.4 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.5 [683 kB] Get:35 http://deb.debian.org/debian buster/main amd64 libgcrypt20 amd64 1.8.4-5+deb10u1 [556 kB] Get:36 http://deb.debian.org/debian buster/main amd64 liblz4-1 amd64 1.8.3-1+deb10u1 [53.3 kB] Get:37 http://deb.debian.org/debian buster/main amd64 liblzma5 amd64 5.2.4-1+deb10u1 [153 kB] Get:38 http://deb.debian.org/debian buster/main amd64 zlib1g amd64 1:1.2.11.dfsg-1+deb10u1 [90.8 kB] Get:39 http://deb.debian.org/debian buster/main amd64 netbase all 5.6 [19.4 kB] Get:40 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get:41 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get:42 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get:44 http://deb.debian.org/debian buster/main amd64 krb5-locales all 1.17-3+deb10u4 [95.6 kB] Get:45 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get:46 http://deb.debian.org/debian buster/main amd64 xz-utils amd64 5.2.4-1+deb10u1 [183 kB] Get:47 http://deb.debian.org/debian buster/main amd64 bowtie2 amd64 2.3.4.3-1 [1188 kB] Get:48 http://deb.debian.org/debian buster/main amd64 cd-hit amd64 4.6.8-2 [521 kB] Get:49 http://deb.debian.org/debian buster/main amd64 dh-python all 3.20190308 [99.3 kB] Get:50 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] Get:51 http://deb.debian.org/debian buster/main amd64 fastaq all 3.17.0-2 [47.8 kB] Get:52 http://deb.debian.org/debian buster/main amd64 libffi6 amd64 3.2.1-9 [20.8 kB] Get:53 http://deb.debian.org/debian buster/main amd64 libfml0 amd64 0.1-5 [69.3 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libgmp10 amd64 2:6.1.2+dfsg-4+deb10u1 [251 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libgpm2 amd64 1.20.7-5 [35.1 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libhogweed4 amd64 3.4.1-1+deb10u1 [141 kB] Get:57 http://deb.debian.org/debian buster/main amd64 libnettle6 amd64 3.4.1-1+deb10u1 [215 kB] Get:58 http://deb.debian.org/debian buster/main amd64 libidn11 amd64 1.33-2.2 [116 kB] Get:59 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u7 [90.1 kB] Get:61 http://deb.debian.org/debian buster/main amd64 libminimap0 amd64 0.2-4 [23.0 kB] Get:62 http://deb.debian.org/debian buster/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB] Get:63 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get:64 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get:65 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libsasl2-modules amd64 2.1.27+dfsg-1+deb10u2 [104 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:69 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:70 http://deb.debian.org/debian buster/main amd64 libtasn1-6 amd64 4.13-3 [51.9 kB] Get:71 http://deb.debian.org/debian buster/main amd64 multiarch-support amd64 2.28-10+deb10u1 [216 kB] Get:72 http://deb.debian.org/debian buster/main amd64 mummer amd64 3.23+dfsg-4 [809 kB] Get:73 http://deb.debian.org/debian buster/main amd64 publicsuffix all 20220811.1734-0+deb10u1 [127 kB] Get:74 http://deb.debian.org/debian buster/main amd64 python3-dendropy all 4.4.0-1 [265 kB] Get:75 http://deb.debian.org/debian buster/main amd64 python3-pymummer all 0.10.3-2 [9268 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.6 MB in 0s (54.6 MB/s) (Reading database ... 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Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) over (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Preparing to unpack .../27-libsasl2-2_2.1.27+dfsg-1+deb10u2_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) over (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Preparing to unpack .../28-libsasl2-modules_2.1.27+dfsg-1+deb10u2_amd64.deb ... Unpacking libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) over (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Preparing to unpack .../29-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) over (2.10-5) ... Preparing to unpack .../30-libssh2-1_1.8.0-2.1_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-2.1) over (1.7.0-1+deb9u1) ... Preparing to unpack .../31-libtasn1-6_4.13-3_amd64.deb ... Unpacking libtasn1-6:amd64 (4.13-3) over (4.10-1.1+deb9u1) ... Preparing to unpack .../32-multiarch-support_2.28-10+deb10u1_amd64.deb ... Unpacking multiarch-support (2.28-10+deb10u1) over (2.24-11+deb9u4) ... 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Setting up mummer (3.23+dfsg-4) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up fastaq (3.17.0-2) ... Setting up bowtie2 (2.3.4.3-1) ... Setting up libtasn1-6:amd64 (4.13-3) ... Setting up libmagic-mgc (1:5.35-4+deb10u2) ... Setting up bzip2 (1.0.6-9.2~deb10u1) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... Setting up libgmp10:amd64 (2:6.1.2+dfsg-4+deb10u1) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up libminimap0 (0.2-4) ... Setting up krb5-locales (1.17-3+deb10u4) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Setting up publicsuffix (20220811.1734-0+deb10u1) ... Setting up xz-utils (5.2.4-1+deb10u1) ... Setting up libfml0 (0.1-5) ... Setting up libffi6:amd64 (3.2.1-9) ... Setting up libkeyutils1:amd64 (1.6-6) ... Setting up libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up python3-pymummer (0.10.3-2) ... Setting up python3-dendropy (4.4.0-1) ... Setting up dh-python (3.20190308) ... Setting up libidn11:amd64 (1.33-2.2) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up netbase (5.6) ... Installing new version of config file /etc/services ... Setting up file (1:5.35-4+deb10u2) ... Setting up libhogweed4:amd64 (3.4.1-1+deb10u1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... 0m29.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'upgrade'] 0m29.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-yf', 'dist-upgrade'] 1m32.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: dh-python libcapnp-0.5.3 libgdbm3 libhts1 libidn11 libmpfr4 libperl5.24 libpython3.5-minimal libpython3.5-stdlib libunistring0 python3.5 python3.5-minimal rename Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libgsl2 The following NEW packages will be installed: binutils binutils-common binutils-x86-64-linux-gnu blt cpp cpp-8 cwltool e2fsprogs-l10n fdisk fontconfig-config fonts-dejavu-core fonts-glyphicons-halflings fonts-lyx g++ g++-8 gcc gcc-8 gcc-8-base gdal-data gsfonts javascript-common libaec0 libarmadillo9 libarpack2 libasan5 libbinutils libblas3 libbrotli1 libbsd0 libc-ares2 libc-dev-bin libc6-dev libcapnp-0.7.0 libcc1-0 libcharls2 libcom-err2 libdap25 libdapclient6v5 libdapserver7v5 libdeflate0 libepsilon1 libext2fs2 libfontconfig1 libfreetype6 libfreexl1 libfyba0 libgcc-8-dev libgdal20 libgdbm-compat4 libgdbm6 libgeos-3.7.1 libgeos-c1v5 libgeotiff2 libgfortran5 libgif7 libgpg-error-l10n libgsl23 libgslcblas0 libhdf4-0-alt libhdf5-103 libhts2 libicu63 libimagequant0 libisl19 libitm1 libjbig0 libjpeg62-turbo libjs-bootstrap libjs-jquery libjs-jquery-ui libjson-c3 libkmlbase1 libkmlconvenience1 libkmldom1 libkmlengine1 libkmlregionator1 libkmlxsd1 liblapack3 liblcms2-2 liblmdb0 liblsan0 libltdl7 libmariadb3 libmbedcrypto3 libmbedtls12 libmbedx509-0 libminizip1 libmpc3 libmpfr6 libmpx2 libmurmurhash1 libncurses6 libncursesw6 libnetcdf13 libnode64 libnspr4 libnss3 libodbc1 libogdi3.2 libopenjp2-7 libperl5.28 libpng16-16 libpoppler82 libpopt0 libpq5 libproj13 libpython2-stdlib libpython3.7-minimal libpython3.7-stdlib libqhull7 libquadmath0 libseccomp2 libspatialite7 libstdc++-8-dev libsuperlu5 libsz2 libtcl8.6 libtiff5 libtinfo6 libtk8.6 libtsan0 libubsan1 libunistring2 liburiparser1 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces-c3.2 libxext6 libxft2 libxml2 libxrender1 libxslt1.1 libxss1 libyaml-0-2 libzstd1 linux-libc-dev lsb-base manpages manpages-dev mariadb-common mysql-common ncbi-blast+ ncbi-data nodejs nodejs-doc odbcinst odbcinst1debian2 perl-modules-5.28 poppler-data proj-bin proj-data python-biopython python-biopython-doc python-matplotlib-data python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python3-biopython python3-bs4 python3-cachecontrol python3-certifi python3-chardet python3-cycler python3-dateutil python3-decorator python3-distutils python3-gdal python3-html5lib python3-idna python3-isodate python3-kiwisolver python3-lib2to3 python3-lockfile python3-lxml python3-matplotlib python3-mistune python3-mypy python3-mypy-extensions python3-networkx python3-numpy python3-olefile python3-pil python3-prov python3-psutil python3-pyparsing python3-rdflib python3-rdflib-jsonld python3-renderpm python3-reportlab python3-reportlab-accel python3-requests python3-ruamel.yaml python3-schema-salad python3-scipy python3-shellescape python3-six python3-soupsieve python3-sparqlwrapper python3-tk python3-typed-ast python3-typing-extensions python3-urllib3 python3-webencodings python3-yaml python3.7 python3.7-minimal tk8.6-blt2.5 ttf-bitstream-vera tzdata ucf x11-common The following packages will be upgraded: apt ariba bash ca-certificates coreutils dash dpkg e2fslibs e2fsprogs gawk gpgv libapt-pkg5.0 libatomic1 libblkid1 libc-bin libc6 libcomerr2 libcurl3-gnutls libexpat1 libfdisk1 libgcc1 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libidn2-0 libk5crypto3 libkrb5-3 libkrb5support0 libldap-2.4-2 libmount1 libncurses5 libncursesw5 libp11-kit0 libpam-modules libpam-modules-bin libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libreadline7 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++6 libsystemd0 libtbb2 libtinfo5 libudev1 libuuid1 login mash mount ncurses-base ncurses-bin openssl perl perl-base python python-minimal python2.7 python2.7-minimal python3 python3-minimal python3-pysam rename samtools util-linux 70 upgraded, 224 newly installed, 1 to remove and 0 not upgraded. Need to get 223 MB of archives. After this operation, 747 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 libc6 amd64 2.28-10+deb10u1 [2863 kB] Get:2 http://deb.debian.org/debian buster/main amd64 libc-bin amd64 2.28-10+deb10u1 [795 kB] Get:3 http://deb.debian.org/debian buster/main amd64 gcc-8-base amd64 8.3.0-6 [191 kB] Get:4 http://deb.debian.org/debian buster/main amd64 libgcc1 amd64 1:8.3.0-6 [40.6 kB] Get:5 http://deb.debian.org/debian buster/main amd64 libtinfo6 amd64 6.1+20181013-2+deb10u2 [325 kB] Get:6 http://deb.debian.org/debian buster/main amd64 bash amd64 5.0-4 [1378 kB] Get:7 http://deb.debian.org/debian buster/main amd64 coreutils amd64 8.30-3 [2708 kB] Get:8 http://deb.debian.org/debian buster/main amd64 libzstd1 amd64 1.3.8+dfsg-3+deb10u2 [237 kB] Get:9 http://deb.debian.org/debian buster/main amd64 libunistring2 amd64 0.9.10-1 [381 kB] Get:10 http://deb.debian.org/debian buster/main amd64 libidn2-0 amd64 2.0.5-1+deb10u1 [76.7 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libp11-kit0 amd64 0.23.15-2+deb10u1 [316 kB] Get:12 http://deb.debian.org/debian buster/main amd64 libgnutls30 amd64 3.6.7-4+deb10u8 [1126 kB] Get:13 http://deb.debian.org/debian buster/main amd64 libseccomp2 amd64 2.3.3-4 [41.4 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libgpg-error0 amd64 1.35-1 [71.1 kB] Get:15 http://deb.debian.org/debian buster/main amd64 gpgv amd64 2.2.12-1+deb10u2 [584 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libstdc++6 amd64 8.3.0-6 [395 kB] Get:17 http://deb.debian.org/debian buster/main amd64 libapt-pkg5.0 amd64 1.8.2.3 [967 kB] Get:18 http://deb.debian.org/debian buster/main amd64 apt amd64 1.8.2.3 [1418 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libsystemd0 amd64 241-7~deb10u8 [331 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libudev1 amd64 241-7~deb10u8 [151 kB] Get:21 http://deb.debian.org/debian buster/main amd64 dpkg amd64 1.19.8 [2210 kB] Get:22 http://deb.debian.org/debian buster/main amd64 dash amd64 0.5.10.2-5 [112 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libcom-err2 amd64 1.44.5-1+deb10u3 [68.4 kB] Get:24 http://deb.debian.org/debian buster/main amd64 libcomerr2 amd64 1.44.5-1+deb10u3 [64.2 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libext2fs2 amd64 1.44.5-1+deb10u3 [221 kB] Get:26 http://deb.debian.org/debian buster/main amd64 e2fslibs amd64 1.44.5-1+deb10u3 [64.2 kB] Get:27 http://deb.debian.org/debian buster/main amd64 e2fsprogs amd64 1.44.5-1+deb10u3 [576 kB] Get:28 http://deb.debian.org/debian buster/main amd64 libuuid1 amd64 2.33.1-0.1 [78.3 kB] Get:29 http://deb.debian.org/debian buster/main amd64 libblkid1 amd64 2.33.1-0.1 [195 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libsmartcols1 amd64 2.33.1-0.1 [150 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libfdisk1 amd64 2.33.1-0.1 [234 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libncursesw6 amd64 6.1+20181013-2+deb10u2 [132 kB] Get:33 http://deb.debian.org/debian buster/main amd64 libmount1 amd64 2.33.1-0.1 [207 kB] Get:34 http://deb.debian.org/debian buster/main amd64 fdisk amd64 2.33.1-0.1 [179 kB] Get:35 http://deb.debian.org/debian buster/main amd64 login amd64 1:4.5-1.1 [751 kB] Get:36 http://deb.debian.org/debian buster/main amd64 util-linux amd64 2.33.1-0.1 [1062 kB] Get:37 http://deb.debian.org/debian buster/main amd64 mount amd64 2.33.1-0.1 [174 kB] Get:38 http://deb.debian.org/debian buster/main amd64 ncurses-bin amd64 6.1+20181013-2+deb10u2 [406 kB] Get:39 http://deb.debian.org/debian buster/main amd64 perl-modules-5.28 all 5.28.1-6+deb10u1 [2873 kB] Get:40 http://deb.debian.org/debian buster/main amd64 libgdbm6 amd64 1.18.1-4 [64.7 kB] Get:41 http://deb.debian.org/debian buster/main amd64 libgdbm-compat4 amd64 1.18.1-4 [44.1 kB] Get:42 http://deb.debian.org/debian buster/main amd64 libperl5.28 amd64 5.28.1-6+deb10u1 [3894 kB] Get:43 http://deb.debian.org/debian buster/main amd64 perl amd64 5.28.1-6+deb10u1 [204 kB] Get:44 http://deb.debian.org/debian buster/main amd64 perl-base amd64 5.28.1-6+deb10u1 [1514 kB] Get:45 http://deb.debian.org/debian buster/main amd64 libncurses5 amd64 6.1+20181013-2+deb10u2 [96.2 kB] Get:46 http://deb.debian.org/debian buster/main amd64 libtinfo5 amd64 6.1+20181013-2+deb10u2 [321 kB] Get:47 http://deb.debian.org/debian buster/main amd64 libncursesw5 amd64 6.1+20181013-2+deb10u2 [118 kB] Get:48 http://deb.debian.org/debian buster/main amd64 ncurses-base all 6.1+20181013-2+deb10u2 [258 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libcapnp-0.7.0 amd64 0.7.0-3 [1025 kB] Get:50 http://deb.debian.org/debian buster/main amd64 mash amd64 2.1+dfsg-2 [149 kB] Get:51 http://deb.debian.org/debian buster/main amd64 libgslcblas0 amd64 2.5+dfsg-6 [101 kB] Get:52 http://deb.debian.org/debian buster/main amd64 libgsl23 amd64 2.5+dfsg-6 [880 kB] Get:53 http://deb.debian.org/debian buster/main amd64 libmurmurhash1 amd64 1.3-2 [5556 B] Get:54 http://deb.debian.org/debian buster/main amd64 libpam-modules-bin amd64 1.3.1-5 [107 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libpam-modules amd64 1.3.1-5 [309 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:57 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get:58 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u4 [108 kB] Get:59 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u1 [641 kB] Get:61 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get:62 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get:63 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get:64 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get:65 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get:66 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get:69 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get:70 http://deb.debian.org/debian buster/main amd64 libmpfr6 amd64 4.0.2-1 [775 kB] Get:71 http://deb.debian.org/debian buster/main amd64 gawk amd64 1:4.2.1+dfsg-1 [660 kB] Get:72 http://deb.debian.org/debian buster/main amd64 poppler-data all 0.4.9-2 [1473 kB] Get:73 http://deb.debian.org/debian buster/main amd64 libpython3.7-minimal amd64 3.7.3-2+deb10u3 [589 kB] Get:74 http://deb.debian.org/debian buster/main amd64 python3.7-minimal amd64 3.7.3-2+deb10u3 [1737 kB] Get:75 http://deb.debian.org/debian buster/main amd64 python3-pysam amd64 0.15.2+ds-2 [1661 kB] Get:76 http://deb.debian.org/debian buster/main amd64 ariba amd64 2.13.3+ds-1 [1679 kB] Get:77 http://deb.debian.org/debian buster/main amd64 python3-minimal amd64 3.7.3-1 [36.6 kB] Get:78 http://deb.debian.org/debian buster/main amd64 python3 amd64 3.7.3-1 [61.5 kB] Get:79 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u4 [158 kB] Get:80 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u4 [369 kB] Get:81 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u4 [122 kB] Get:82 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u4 [65.9 kB] Get:83 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u7 [224 kB] Get:84 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:85 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get:86 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 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 libpython3.7-stdlib amd64 3.7.3-2+deb10u3 [1734 kB] Get:89 http://deb.debian.org/debian buster/main amd64 python3.7 amd64 3.7.3-2+deb10u3 [330 kB] Get:90 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:91 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:92 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get:93 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get:94 http://deb.debian.org/debian buster/main amd64 python3-numpy amd64 1:1.16.2-1 [2119 kB] Get:95 http://deb.debian.org/debian buster/main amd64 python3-reportlab-accel amd64 3.5.13-1+deb10u1 [35.3 kB] Get:96 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get:97 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u3 [380 kB] Get:98 http://deb.debian.org/debian buster/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get:99 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get:100 http://deb.debian.org/debian buster/main amd64 liblcms2-2 amd64 2.9-3 [145 kB] Get:101 http://deb.debian.org/debian buster/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:102 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get:103 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u4 [271 kB] Get:104 http://deb.debian.org/debian buster/main amd64 libwebpdemux2 amd64 0.6.1-2+deb10u1 [87.6 kB] Get:105 http://deb.debian.org/debian buster/main amd64 libwebpmux3 amd64 0.6.1-2+deb10u1 [97.8 kB] Get:106 http://deb.debian.org/debian buster/main amd64 python3-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:107 http://deb.debian.org/debian buster/main amd64 python3-reportlab all 3.5.13-1+deb10u1 [541 kB] Get:108 http://deb.debian.org/debian buster/main amd64 python3-biopython amd64 1.73+dfsg-1 [1287 kB] Get:109 http://deb.debian.org/debian buster/main amd64 python3-soupsieve all 1.8+dfsg-1 [27.6 kB] Get:110 http://deb.debian.org/debian buster/main amd64 python3-bs4 all 4.7.1-1 [94.1 kB] Get:111 http://deb.debian.org/debian buster/main amd64 python3-six all 1.12.0-1 [15.7 kB] Get:112 http://deb.debian.org/debian buster/main amd64 tzdata all 2021a-0+deb10u6 [265 kB] Get:113 http://deb.debian.org/debian buster/main amd64 python3-dateutil all 2.7.3-3 [64.5 kB] Get:114 http://deb.debian.org/debian buster/main amd64 fonts-lyx all 2.3.2-1 [199 kB] Get:115 http://deb.debian.org/debian buster/main amd64 ttf-bitstream-vera all 1.10-8 [352 kB] Get:116 http://deb.debian.org/debian buster/main amd64 python-matplotlib-data all 3.0.2-2 [4138 kB] Get:117 http://deb.debian.org/debian buster/main amd64 python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB] Get:118 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get:119 http://deb.debian.org/debian buster/main amd64 libjs-jquery-ui all 1.12.1+dfsg-5 [232 kB] Get:120 http://deb.debian.org/debian buster/main amd64 python3-cycler all 0.10.0-1 [7556 B] Get:121 http://deb.debian.org/debian buster/main amd64 python3-kiwisolver amd64 1.0.1-2+b1 [65.4 kB] Get:122 http://deb.debian.org/debian buster/main amd64 python3-matplotlib amd64 3.0.2-2 [5353 kB] Get:123 http://deb.debian.org/debian buster/main amd64 libtcl8.6 amd64 8.6.9+dfsg-2 [1005 kB] Get:124 http://deb.debian.org/debian buster/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:125 http://deb.debian.org/debian buster/main amd64 fonts-dejavu-core all 2.37-1 [1068 kB] Get:126 http://deb.debian.org/debian buster/main amd64 fontconfig-config all 2.13.1-2 [280 kB] Get:127 http://deb.debian.org/debian buster/main amd64 libfontconfig1 amd64 2.13.1-2 [346 kB] Get:128 http://deb.debian.org/debian buster/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get:129 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get:130 http://deb.debian.org/debian buster/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:131 http://deb.debian.org/debian buster/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get:132 http://deb.debian.org/debian buster/main amd64 libx11-data all 2:1.6.7-1+deb10u2 [299 kB] Get:133 http://deb.debian.org/debian buster/main amd64 libx11-6 amd64 2:1.6.7-1+deb10u2 [757 kB] Get:134 http://deb.debian.org/debian buster/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get:135 http://deb.debian.org/debian buster/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:136 http://deb.debian.org/debian buster/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:137 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get:138 http://deb.debian.org/debian buster/main amd64 x11-common all 1:7.7+19 [251 kB] Get:139 http://deb.debian.org/debian buster/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:140 http://deb.debian.org/debian buster/main amd64 libtk8.6 amd64 8.6.9-2 [768 kB] Get:141 http://deb.debian.org/debian buster/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4 [587 kB] Get:142 http://deb.debian.org/debian buster/main amd64 blt amd64 2.5.3+dfsg-4 [14.8 kB] Get:143 http://deb.debian.org/debian buster/main amd64 python3-tk amd64 3.7.3-1 [97.4 kB] Get:144 http://deb.debian.org/debian buster/main amd64 libpython3-stdlib amd64 3.7.3-1 [20.0 kB] Get:145 http://deb.debian.org/debian buster/main amd64 libss2 amd64 1.44.5-1+deb10u3 [72.9 kB] Get:146 http://deb.debian.org/debian buster/main amd64 manpages all 4.16-2 [1295 kB] Get:147 http://deb.debian.org/debian buster/main amd64 binutils-common amd64 2.31.1-16 [2073 kB] Get:148 http://deb.debian.org/debian buster/main amd64 libbinutils amd64 2.31.1-16 [478 kB] Get:149 http://deb.debian.org/debian buster/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-16 [1823 kB] Get:150 http://deb.debian.org/debian buster/main amd64 binutils amd64 2.31.1-16 [56.8 kB] Get:151 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1n-0+deb10u3 [855 kB] Get:152 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get:153 http://deb.debian.org/debian buster/main amd64 libisl19 amd64 0.20-2 [587 kB] Get:154 http://deb.debian.org/debian buster/main amd64 libmpc3 amd64 1.1.0-1 [41.3 kB] Get:155 http://deb.debian.org/debian buster/main amd64 cpp-8 amd64 8.3.0-6 [8914 kB] Get:156 http://deb.debian.org/debian buster/main amd64 cpp amd64 4:8.3.0-1 [19.4 kB] Get:157 http://deb.debian.org/debian buster/main amd64 python3-typed-ast amd64 1.3.1-1 [138 kB] Get:158 http://deb.debian.org/debian buster/main amd64 python3-mypy-extensions all 0.4.1-1 [5234 B] Get:159 http://deb.debian.org/debian buster/main amd64 python3-psutil amd64 5.5.1-1 [166 kB] Get:160 http://deb.debian.org/debian buster/main amd64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get:161 http://deb.debian.org/debian buster/main amd64 python3-distutils all 3.7.3-1 [142 kB] Get:162 http://deb.debian.org/debian buster/main amd64 python3-mypy all 0.670-2 [781 kB] Get:163 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 [8293 kB] Get:164 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u4 [689 kB] Get:165 http://deb.debian.org/debian buster/main amd64 libxslt1.1 amd64 1.1.32-2.2~deb10u1 [237 kB] Get:166 http://deb.debian.org/debian buster/main amd64 python3-lxml amd64 4.3.2-1+deb10u4 [1163 kB] Get:167 http://deb.debian.org/debian buster/main amd64 python3-decorator all 4.3.0-1.1 [14.5 kB] Get:168 http://deb.debian.org/debian buster/main amd64 python3-networkx all 2.2-1 [818 kB] Get:169 http://deb.debian.org/debian buster/main amd64 python3-isodate all 0.6.0-1 [24.9 kB] Get:170 http://deb.debian.org/debian buster/main amd64 python3-rdflib all 4.2.2-2 [258 kB] Get:171 http://deb.debian.org/debian buster/main amd64 python3-prov all 1.5.2-1 [94.4 kB] Get:172 http://deb.debian.org/debian buster/main amd64 python3-certifi all 2018.8.24-1 [140 kB] Get:173 http://deb.debian.org/debian buster/main amd64 python3-chardet all 3.0.4-3 [80.5 kB] Get:174 http://deb.debian.org/debian buster/main amd64 python3-idna all 2.6-1 [34.3 kB] Get:175 http://deb.debian.org/debian buster/main amd64 python3-urllib3 all 1.24.1-1 [97.1 kB] Get:176 http://deb.debian.org/debian buster/main amd64 python3-requests all 2.21.0-1 [66.9 kB] Get:177 http://deb.debian.org/debian buster/main amd64 python3-ruamel.yaml amd64 0.15.34-1+b1 [248 kB] Get:178 http://deb.debian.org/debian buster/main amd64 python3-cachecontrol all 0.11.7-1 [15.2 kB] Get:179 http://deb.debian.org/debian buster/main amd64 python3-lockfile all 1:0.12.2-2 [17.1 kB] Get:180 http://deb.debian.org/debian buster/main amd64 python3-mistune all 0.8.4-1 [16.1 kB] Get:181 http://deb.debian.org/debian buster/main amd64 python3-rdflib-jsonld all 0.4.0-4 [12.3 kB] Get:182 http://deb.debian.org/debian buster/main amd64 python3-typing-extensions all 3.7.2-1 [23.0 kB] Get:183 http://deb.debian.org/debian buster/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-1 [164 kB] Get:184 http://deb.debian.org/debian buster/main amd64 libjs-bootstrap all 3.4.1+dfsg-1 [173 kB] Get:185 http://deb.debian.org/debian buster/main amd64 python3-schema-salad all 3.0.20181206233650-2 [272 kB] Get:186 http://deb.debian.org/debian buster/main amd64 python3-shellescape all 3.4.1-3 [4800 B] Get:187 http://deb.debian.org/debian buster/main amd64 cwltool all 1.0.20181217162649+dfsg-10 [176 kB] Get:188 http://deb.debian.org/debian buster/main amd64 e2fsprogs-l10n all 1.44.5-1+deb10u3 [504 kB] Get:189 http://deb.debian.org/debian buster/main amd64 libcc1-0 amd64 8.3.0-6 [46.6 kB] Get:190 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:191 http://deb.debian.org/debian buster/main amd64 libitm1 amd64 8.3.0-6 [27.7 kB] Get:192 http://deb.debian.org/debian buster/main amd64 libatomic1 amd64 8.3.0-6 [9032 B] Get:193 http://deb.debian.org/debian buster/main amd64 libasan5 amd64 8.3.0-6 [362 kB] Get:194 http://deb.debian.org/debian buster/main amd64 liblsan0 amd64 8.3.0-6 [131 kB] Get:195 http://deb.debian.org/debian buster/main amd64 libtsan0 amd64 8.3.0-6 [283 kB] Get:196 http://deb.debian.org/debian buster/main amd64 libubsan1 amd64 8.3.0-6 [120 kB] Get:197 http://deb.debian.org/debian buster/main amd64 libmpx2 amd64 8.3.0-6 [11.4 kB] Get:198 http://deb.debian.org/debian buster/main amd64 libgcc-8-dev amd64 8.3.0-6 [2298 kB] Get:199 http://deb.debian.org/debian buster/main amd64 gcc-8 amd64 8.3.0-6 [9452 kB] Get:200 http://deb.debian.org/debian buster/main amd64 gcc amd64 4:8.3.0-1 [5196 B] Get:201 http://deb.debian.org/debian buster/main amd64 libc-dev-bin amd64 2.28-10+deb10u1 [276 kB] Get:202 http://deb.debian.org/debian buster/main amd64 linux-libc-dev amd64 4.19.249-2 [1530 kB] Get:203 http://deb.debian.org/debian buster/main amd64 libc6-dev amd64 2.28-10+deb10u1 [2692 kB] Get:204 http://deb.debian.org/debian buster/main amd64 libstdc++-8-dev amd64 8.3.0-6 [1532 kB] Get:205 http://deb.debian.org/debian buster/main amd64 g++-8 amd64 8.3.0-6 [9752 kB] Get:206 http://deb.debian.org/debian buster/main amd64 g++ amd64 4:8.3.0-1 [1644 B] Get:207 http://deb.debian.org/debian buster/main amd64 gdal-data all 2.4.0+dfsg-1 [744 kB] Get:208 http://deb.debian.org/debian buster/main amd64 gsfonts all 1:8.11+urwcyr1.0.7~pre44-4.4 [3125 kB] Get:209 http://deb.debian.org/debian buster/main amd64 javascript-common all 11 [6120 B] Get:210 http://deb.debian.org/debian buster/main amd64 libaec0 amd64 1.0.2-1 [20.1 kB] Get:211 http://deb.debian.org/debian buster/main amd64 libarpack2 amd64 3.7.0-2 [102 kB] Get:212 http://deb.debian.org/debian buster/main amd64 libsuperlu5 amd64 5.2.1+dfsg1-4 [161 kB] Get:213 http://deb.debian.org/debian buster/main amd64 libarmadillo9 amd64 1:9.200.7+dfsg-1 [88.6 kB] Get:214 http://deb.debian.org/debian buster/main amd64 libbrotli1 amd64 1.0.7-2+deb10u1 [269 kB] Get:215 http://deb.debian.org/debian buster/main amd64 libc-ares2 amd64 1.14.0-1+deb10u1 [86.1 kB] Get:216 http://deb.debian.org/debian buster/main amd64 libcharls2 amd64 2.0.0+dfsg-1 [64.3 kB] Get:217 http://deb.debian.org/debian buster/main amd64 libdap25 amd64 3.20.3-1 [557 kB] Get:218 http://deb.debian.org/debian buster/main amd64 libdapclient6v5 amd64 3.20.3-1 [202 kB] Get:219 http://deb.debian.org/debian buster/main amd64 libdapserver7v5 amd64 3.20.3-1 [131 kB] Get:220 http://deb.debian.org/debian buster/main amd64 libpopt0 amd64 1.16-12 [49.4 kB] Get:221 http://deb.debian.org/debian buster/main amd64 libepsilon1 amd64 0.9.2+dfsg-4 [42.0 kB] Get:222 http://deb.debian.org/debian buster/main amd64 libfreexl1 amd64 1.0.5-3 [34.1 kB] Get:223 http://deb.debian.org/debian buster/main amd64 libfyba0 amd64 4.1.1-6 [114 kB] Get:224 http://deb.debian.org/debian buster/main amd64 libgeos-3.7.1 amd64 3.7.1-1 [735 kB] Get:225 http://deb.debian.org/debian buster/main amd64 libgeos-c1v5 amd64 3.7.1-1 [299 kB] Get:226 http://deb.debian.org/debian buster/main amd64 proj-data all 5.2.0-1 [6986 kB] Get:227 http://deb.debian.org/debian buster/main amd64 libproj13 amd64 5.2.0-1 [225 kB] Get:228 http://deb.debian.org/debian buster/main amd64 libgeotiff2 amd64 1.4.3-1 [72.0 kB] Get:229 http://deb.debian.org/debian buster/main amd64 libgif7 amd64 5.1.4-3 [43.3 kB] Get:230 http://deb.debian.org/debian buster/main amd64 libhdf4-0-alt amd64 4.2.13-4 [277 kB] Get:231 http://deb.debian.org/debian buster/main amd64 libsz2 amd64 1.0.2-1 [6676 B] Get:232 http://deb.debian.org/debian buster/main amd64 libhdf5-103 amd64 1.10.4+repack-10 [1325 kB] Get:233 http://deb.debian.org/debian buster/main amd64 libjson-c3 amd64 0.12.1+ds-2+deb10u1 [27.3 kB] Get:234 http://deb.debian.org/debian buster/main amd64 libminizip1 amd64 1.1-8+b1 [20.4 kB] Get:235 http://deb.debian.org/debian buster/main amd64 liburiparser1 amd64 0.9.1-1+deb10u1 [48.1 kB] Get:236 http://deb.debian.org/debian buster/main amd64 libkmlbase1 amd64 1.3.0-7 [48.9 kB] Get:237 http://deb.debian.org/debian buster/main amd64 libkmldom1 amd64 1.3.0-7 [172 kB] Get:238 http://deb.debian.org/debian buster/main amd64 libkmlengine1 amd64 1.3.0-7 [78.4 kB] Get:239 http://deb.debian.org/debian buster/main amd64 libkmlconvenience1 amd64 1.3.0-7 [50.1 kB] Get:240 http://deb.debian.org/debian buster/main amd64 libkmlregionator1 amd64 1.3.0-7 [25.1 kB] Get:241 http://deb.debian.org/debian buster/main amd64 libkmlxsd1 amd64 1.3.0-7 [34.6 kB] Get:242 http://deb.debian.org/debian buster/main amd64 mysql-common all 5.8+1.0.5 [7324 B] Get:243 http://deb.debian.org/debian buster/main amd64 mariadb-common all 1:10.3.34-0+deb10u1 [33.0 kB] Get:244 http://deb.debian.org/debian buster/main amd64 libmariadb3 amd64 1:10.3.34-0+deb10u1 [173 kB] Get:245 http://deb.debian.org/debian buster/main amd64 libnetcdf13 amd64 1:4.6.2-1 [403 kB] Get:246 http://deb.debian.org/debian buster/main amd64 libltdl7 amd64 2.4.6-9 [390 kB] Get:247 http://deb.debian.org/debian buster/main amd64 libodbc1 amd64 2.3.6-0.1 [223 kB] Get:248 http://deb.debian.org/debian buster/main amd64 libogdi3.2 amd64 3.2.1+ds-4 [241 kB] Get:249 http://deb.debian.org/debian buster/main amd64 libopenjp2-7 amd64 2.3.0-2+deb10u2 [158 kB] Get:250 http://deb.debian.org/debian buster/main amd64 libnspr4 amd64 2:4.20-1 [112 kB] Get:251 http://deb.debian.org/debian buster/main amd64 libnss3 amd64 2:3.42.1-1+deb10u5 [1160 kB] Get:252 http://deb.debian.org/debian buster/main amd64 libpoppler82 amd64 0.71.0-5 [1507 kB] Get:253 http://deb.debian.org/debian buster/main amd64 libpq5 amd64 11.16-0+deb10u1 [172 kB] Get:254 http://deb.debian.org/debian buster/main amd64 libqhull7 amd64 2015.2-4 [196 kB] Get:255 http://deb.debian.org/debian buster/main amd64 libspatialite7 amd64 4.3.0a-5+b2 [1256 kB] Get:256 http://deb.debian.org/debian buster/main amd64 libxerces-c3.2 amd64 3.2.2+debian-1+deb10u1 [886 kB] Get:257 http://deb.debian.org/debian buster/main amd64 odbcinst amd64 2.3.6-0.1 [48.4 kB] Get:258 http://deb.debian.org/debian buster/main amd64 odbcinst1debian2 amd64 2.3.6-0.1 [78.1 kB] Get:259 http://deb.debian.org/debian buster/main amd64 libgdal20 amd64 2.4.0+dfsg-1+b1 [6171 kB] Get:260 http://deb.debian.org/debian buster/main amd64 libgpg-error-l10n all 1.35-1 [97.6 kB] Get:261 http://deb.debian.org/debian buster/main amd64 liblmdb0 amd64 0.9.22-1 [45.0 kB] Get:262 http://deb.debian.org/debian buster/main amd64 libmbedcrypto3 amd64 2.16.0-1 [209 kB] Get:263 http://deb.debian.org/debian buster/main amd64 libmbedx509-0 amd64 2.16.0-1 [91.4 kB] Get:264 http://deb.debian.org/debian buster/main amd64 libmbedtls12 amd64 2.16.0-1 [130 kB] Get:265 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get:266 http://deb.debian.org/debian buster/main amd64 libuv1 amd64 1.24.1-1+deb10u1 [110 kB] Get:267 http://deb.debian.org/debian buster/main amd64 libnode64 amd64 10.24.0~dfsg-1~deb10u1 [5631 kB] Get:268 http://deb.debian.org/debian buster/main amd64 libtbb2 amd64 2018~U6-4 [147 kB] Get:269 http://deb.debian.org/debian buster/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get:270 http://deb.debian.org/debian buster/main amd64 manpages-dev all 4.16-2 [2232 kB] Get:271 http://deb.debian.org/debian buster/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb10u2 [3552 kB] Get:272 http://deb.debian.org/debian buster/main amd64 ncbi-blast+ amd64 2.8.1-1+deb10u1 [10.9 MB] Get:273 http://deb.debian.org/debian buster/main amd64 nodejs amd64 10.24.0~dfsg-1~deb10u1 [87.3 kB] Get:274 http://deb.debian.org/debian buster/main amd64 nodejs-doc all 10.24.0~dfsg-1~deb10u1 [974 kB] Get:275 http://deb.debian.org/debian buster/main amd64 proj-bin amd64 5.2.0-1 [105 kB] Get:276 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get:277 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get:278 http://deb.debian.org/debian buster/main amd64 python-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:279 http://deb.debian.org/debian buster/main amd64 python-reportlab-accel amd64 3.5.13-1+deb10u1 [39.8 kB] Get:280 http://deb.debian.org/debian buster/main amd64 python-reportlab all 3.5.13-1+deb10u1 [545 kB] Get:281 http://deb.debian.org/debian buster/main amd64 python-biopython amd64 1.73+dfsg-1 [1334 kB] Get:282 http://deb.debian.org/debian buster/main amd64 python-biopython-doc all 1.73+dfsg-1 [14.1 MB] Get:283 http://deb.debian.org/debian buster/main amd64 python-olefile all 0.46-1 [35.9 kB] Get:284 http://deb.debian.org/debian buster/main amd64 python-renderpm amd64 3.5.13-1+deb10u1 [76.6 kB] Get:285 http://deb.debian.org/debian buster/main amd64 python3-gdal amd64 2.4.0+dfsg-1+b1 [601 kB] Get:286 http://deb.debian.org/debian buster/main amd64 python3-webencodings all 0.5.1-1 [10.9 kB] Get:287 http://deb.debian.org/debian buster/main amd64 python3-html5lib all 1.0.1-1 [89.5 kB] Get:288 http://deb.debian.org/debian buster/main amd64 python3-olefile all 0.46-1 [35.9 kB] Get:289 http://deb.debian.org/debian buster/main amd64 python3-renderpm amd64 3.5.13-1+deb10u1 [76.8 kB] Get:290 http://deb.debian.org/debian buster/main amd64 python3-scipy amd64 1.1.0-7 [10.0 MB] Get:291 http://deb.debian.org/debian buster/main amd64 python3-sparqlwrapper all 1.8.2-0.1 [28.4 kB] Get:292 http://deb.debian.org/debian buster/main amd64 python3-yaml amd64 3.13-2 [121 kB] Get:293 http://deb.debian.org/debian buster/main amd64 rename all 1.10-1 [17.2 kB] Get:294 http://deb.debian.org/debian buster/main amd64 samtools amd64 1.9-4 [443 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 223 MB in 2s (94.6 MB/s) (Reading database ... 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Installing new version of config file /etc/security/access.conf ... Installing new version of config file /etc/security/limits.conf ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11665 files and directories currently installed.) Preparing to unpack .../0-libssl1.1_1.1.1n-0+deb10u3_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1n-0+deb10u3) over (1.1.0l-1~deb9u1) ... Preparing to unpack .../1-python2.7_2.7.16-2+deb10u1_amd64.deb ... 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Setting up libx11-data (2:1.6.7-1+deb10u2) ... Setting up libnspr4:amd64 (2:4.20-1) ... Setting up libgsl23:amd64 (2.5+dfsg-6) ... Setting up gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libquadmath0:amd64 (8.3.0-6) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libpng16-16:amd64 (1.6.36-6) ... Setting up libmpc3:amd64 (1.1.0-1) ... Setting up libatomic1:amd64 (8.3.0-6) ... Setting up mash (2.1+dfsg-2) ... Setting up libtcl8.6:amd64 (8.6.9+dfsg-2) ... Setting up libwebp6:amd64 (0.6.1-2+deb10u1) ... Setting up libgeos-c1v5:amd64 (3.7.1-1) ... Setting up libmariadb3:amd64 (1:10.3.34-0+deb10u1) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up util-linux (2.33.1-0.1) ... update-alternatives: warning: alternative /usr/bin/pg (part of link group pager) doesn't exist; removing from list of alternatives Setting up ucf (3.0038+nmu1) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u4) ... Setting up libltdl7:amd64 (2.4.6-9) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up libhdf4-0-alt (4.2.13-4) ... Setting up nodejs-doc (10.24.0~dfsg-1~deb10u1) ... Setting up libmpx2:amd64 (8.3.0-6) ... Setting up libubsan1:amd64 (8.3.0-6) ... Setting up libgif7:amd64 (5.1.4-3) ... Setting up liburiparser1:amd64 (0.9.1-1+deb10u1) ... Setting up libisl19:amd64 (0.20-2) ... Setting up mount (2.33.1-0.1) ... Setting up libfreexl1:amd64 (1.0.5-3) ... Setting up libcomerr2:amd64 (1.44.5-1+deb10u3) ... Setting up python-biopython-doc (1.73+dfsg-1) ... Setting up libfyba0:amd64 (4.1.1-6) ... Setting up libkmlbase1:amd64 (1.3.0-7) ... Setting up libmbedcrypto3:amd64 (2.16.0-1) ... Setting up libopenjp2-7:amd64 (2.3.0-2+deb10u2) ... Setting up libkrb5-3:amd64 (1.17-3+deb10u4) ... Setting up libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Setting up libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Setting up libbinutils:amd64 (2.31.1-16) ... Setting up cpp-8 (8.3.0-6) ... Setting up libc-dev-bin (2.28-10+deb10u1) ... Setting up python-matplotlib-data (3.0.2-2) ... Setting up openssl (1.1.1n-0+deb10u3) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libgpg-error-l10n (1.35-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Setting up libcc1-0:amd64 (8.3.0-6) ... Setting up liblsan0:amd64 (8.3.0-6) ... Setting up libsz2:amd64 (1.0.2-1) ... Setting up libjs-bootstrap (3.4.1+dfsg-1) ... Setting up libitm1:amd64 (8.3.0-6) ... Setting up libkmlxsd1:amd64 (1.3.0-7) ... Setting up libgdbm6:amd64 (1.18.1-4) ... Setting up libpopt0:amd64 (1.16-12) ... Setting up binutils-x86-64-linux-gnu (2.31.1-16) ... Setting up libtsan0:amd64 (8.3.0-6) ... Setting up libkmldom1:amd64 (1.3.0-7) ... Setting up libspatialite7:amd64 (4.3.0a-5+b2) ... Setting up manpages-dev (4.16-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Setting up libogdi3.2 (3.2.1+ds-4) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libkmlengine1:amd64 (1.3.0-7) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libkmlconvenience1:amd64 (1.3.0-7) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libmbedx509-0:amd64 (2.16.0-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Setting up libtbb2:amd64 (2018~U6-4) ... Setting up libmbedtls12:amd64 (2.16.0-1) ... Setting up libdap25:amd64 (3.20.3-1) ... Setting up libnss3:amd64 (2:3.42.1-1+deb10u5) ... Setting up binutils (2.31.1-16) ... Setting up libepsilon1:amd64 (0.9.2+dfsg-4) ... Setting up libdapserver7v5:amd64 (3.20.3-1) ... Setting up python2 (2.7.16-1) ... Setting up ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 11 added, 0 removed; done. Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up libgeotiff2:amd64 (1.4.3-1) ... Setting up libblas3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjs-jquery-ui (1.12.1+dfsg-5) ... Setting up libfreetype6:amd64 (2.9.1-3+deb10u3) ... Setting up libkmlregionator1:amd64 (1.3.0-7) ... Setting up libhdf5-103:amd64 (1.10.4+repack-10) ... Setting up libnode64:amd64 (10.24.0~dfsg-1~deb10u1) ... Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Setting up libgdbm-compat4:amd64 (1.18.1-4) ... Setting up libodbc1:amd64 (2.3.6-0.1) ... Setting up libgcc-8-dev:amd64 (8.3.0-6) ... Setting up libperl5.28:amd64 (5.28.1-6+deb10u1) ... Setting up cpp (4:8.3.0-1) ... Setting up libxslt1.1:amd64 (1.1.32-2.2~deb10u1) ... Setting up libc6-dev:amd64 (2.28-10+deb10u1) ... Setting up libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Setting up libfontconfig1:amd64 (2.13.1-2) ... Setting up python (2.7.16-1) ... Setting up libpython3-stdlib:amd64 (3.7.3-1) ... Setting up libstdc++-8-dev:amd64 (8.3.0-6) ... Setting up python3.7 (3.7.3-2+deb10u3) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up gcc-8 (8.3.0-6) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up libarpack2:amd64 (3.7.0-2) ... Setting up libpq5:amd64 (11.16-0+deb10u1) ... Setting up libsuperlu5:amd64 (5.2.1+dfsg1-4) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Setting up libnetcdf13:amd64 (1:4.6.2-1) ... Setting up python3 (3.7.3-1) ... Setting up python-pil:amd64 (5.4.1-2+deb10u3) ... Setting up nodejs (10.24.0~dfsg-1~deb10u1) ... update-alternatives: using /usr/bin/nodejs to provide /usr/bin/js (js) in auto mode Setting up python3-webencodings (0.5.1-1) ... Setting up python3-psutil (5.5.1-1) ... Setting up gcc (4:8.3.0-1) ... Setting up python-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up python3-six (1.12.0-1) ... Setting up python3-isodate (0.6.0-1) ... Setting up python3-pil:amd64 (5.4.1-2+deb10u3) ... Setting up python3-decorator (4.3.0-1.1) ... Setting up perl (5.28.1-6+deb10u1) ... Removing obsolete conffile /etc/perl/sitecustomize.pl ... Setting up python3-chardet (3.0.4-3) ... Setting up python3-pyparsing (2.2.0+dfsg1-2) ... Setting up python3-certifi (2018.8.24-1) ... Setting up python3-cycler (0.10.0-1) ... Setting up python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Setting up python3-kiwisolver (1.0.1-2+b1) ... Setting up python3-idna (2.6-1) ... Setting up python3-typing-extensions (3.7.2-1) ... Setting up python3-html5lib (1.0.1-1) ... Setting up python3-numpy (1:1.16.2-1) ... Setting up python3-urllib3 (1.24.1-1) ... Setting up python3-reportlab (3.5.13-1+deb10u1) ... Setting up python3-ruamel.yaml (0.15.34-1+b1) ... Setting up g++-8 (8.3.0-6) ... Setting up python3-lxml:amd64 (4.3.2-1+deb10u4) ... Setting up python3-rdflib (4.2.2-2) ... Setting up libdapclient6v5:amd64 (3.20.3-1) ... Setting up python3-dateutil (2.7.3-3) ... Setting up python-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up python3-shellescape (3.4.1-3) ... Setting up libarmadillo9 (1:9.200.7+dfsg-1) ... Setting up python3-biopython (1.73+dfsg-1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python-olefile (0.46-1) ... Setting up python3-mistune (0.8.4-1) ... Setting up python3-soupsieve (1.8+dfsg-1) ... Setting up python3-distutils (3.7.3-1) ... Setting up python3-lockfile (1:0.12.2-2) ... Setting up python3-rdflib-jsonld (0.4.0-4) ... Setting up python3-matplotlib (3.0.2-2) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up python3-scipy (1.1.0-7) ... Setting up python3-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up libxerces-c3.2:amd64 (3.2.2+debian-1+deb10u1) ... Setting up python3-sparqlwrapper (1.8.2-0.1) ... Setting up libhts2:amd64 (1.9-12~deb10u1) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python3-typed-ast (1.3.1-1) ... Setting up python3-mypy-extensions (0.4.1-1) ... Setting up python3-olefile (0.46-1) ... Setting up libtk8.6:amd64 (8.6.9-2) ... Setting up libpoppler82:amd64 (0.71.0-5) ... Setting up python3-yaml (3.13-2) ... Setting up rename (1.10-1) ... Setting up python3-networkx (2.2-1) ... Setting up python3-bs4 (4.7.1-1) ... Setting up python3-prov (1.5.2-1) ... Setting up samtools (1.9-4) ... Setting up ncbi-blast+ (2.8.1-1+deb10u1) ... Setting up python3-requests (2.21.0-1) ... Setting up python3-mypy (0.670-2) ... Setting up python-reportlab (3.5.13-1+deb10u1) ... Setting up g++ (4:8.3.0-1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up python3-cachecontrol (0.11.7-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4) ... Setting up python3-pysam (0.15.2+ds-2) ... Setting up blt (2.5.3+dfsg-4) ... Setting up python3-schema-salad (3.0.20181206233650-2) ... Setting up python3-tk:amd64 (3.7.3-1) ... Setting up cwltool (1.0.20181217162649+dfsg-10) ... Setting up python-biopython (1.73+dfsg-1) ... Setting up ariba (2.13.3+ds-1) ... Setting up odbcinst (2.3.6-0.1) ... Setting up odbcinst1debian2:amd64 (2.3.6-0.1) ... Setting up libgdal20 (2.4.0+dfsg-1+b1) ... Setting up python3-gdal (2.4.0+dfsg-1+b1) ... Processing triggers for mime-support (3.62) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... Processing triggers for ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 1m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-yf', 'dist-upgrade'] 1m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m33.6s DUMP: f6fc0f2636004ef589309651dfd778f4 - 1m33.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m33.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 1m33.8s DUMP: Package: ariba Version: 2.13.3+ds-1 Installed-Size: 17444 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.8), python3 (>= 3.7~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc1 (>= 1:3.0), libminimap0, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Description-en: Antibiotic Resistance Identification By Assembly ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes. Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Homepage: https://github.com/sanger-pathogens/ariba Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.13.3+ds-1_amd64.deb Size: 1678912 MD5sum: 77517ce195de03a32365f34e5629bb30 SHA256: a971e793eca324e1333e4cf1c89abd795839a5b7869c10d31a2dca27675f074e 1m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'show', '--no-all-versions', 'ariba'] 1m33.8s INFO: apt-cache knows about the following packages: ariba 1m33.8s INFO: Running scripts pre_install 1m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_database-server'] 1m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_database-server'] 1m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_exceptions'] 1m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_exceptions'] 1m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_extras'] 1m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_extras'] 1m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture'] 1m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture'] 1m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy'] 1m33.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy'] 1m33.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy', 'ariba'] 1m34.0s DUMP: ariba: Installed: 2.13.3+ds-1 Candidate: 2.13.3+ds-1 Version table: *** 2.13.3+ds-1 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m34.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy', 'ariba'] 1m34.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'install', 'ariba'] 1m34.3s DUMP: Reading package lists... Building dependency tree... Reading state information... ariba is already the newest version (2.13.3+ds-1). The following packages were automatically installed and are no longer required: dh-python libcapnp-0.5.3 libgdbm3 libhts1 libidn11 libmpfr4 libncurses5 libperl5.24 libpython3.5-minimal libpython3.5-stdlib libunistring0 python3.5 python3.5-minimal rename Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m34.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'install', 'ariba'] 1m34.3s INFO: Running scripts post_install 1m34.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_install_exceptions'] 1m34.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_install_exceptions'] 1m34.3s INFO: Running scripts post_distupgrade 1m34.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m34.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m34.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_exceptions'] 1m34.5s DUMP: Normalized /etc/ca-certificates.conf Running pam-auth-update... 1m34.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_exceptions'] 1m34.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m34.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m34.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m34.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m34.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_zz_backports'] 1m34.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_distupgrade_zz_backports'] 1m34.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 1m36.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 1m36.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 1m37.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 1m37.9s INFO: Running scripts pre_install 1m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_database-server'] 1m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_database-server'] 1m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_exceptions'] 1m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_exceptions'] 1m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_extras'] 1m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_extras'] 1m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture'] 1m37.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture'] 1m37.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m38.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m38.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy'] 1m38.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy'] 1m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy', 'ariba'] 1m38.1s DUMP: ariba: Installed: 2.13.3+ds-1 Candidate: 2.13.3+ds-1 Version table: *** 2.13.3+ds-1 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m38.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-cache', 'policy', 'ariba'] 1m38.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'install', 'ariba=2.13.3+ds-1'] 1m38.6s DUMP: Reading package lists... Building dependency tree... Reading state information... ariba is already the newest version (2.13.3+ds-1). The following packages were automatically installed and are no longer required: dh-python libcapnp-0.5.3 libgdbm3 libhts1 libidn11 libmpfr4 libncurses5 libperl5.24 libpython3.5-minimal libpython3.5-stdlib libunistring0 python3.5 python3.5-minimal rename Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m38.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', '-y', 'install', 'ariba=2.13.3+ds-1'] 1m38.6s INFO: Running scripts post_install 1m38.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_install_exceptions'] 1m38.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_install_exceptions'] 1m38.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 1m40.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 1m42.5s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', '-ac', '--ignore-obsolete'] 1m45.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', '-ac', '--ignore-obsolete'] 1m45.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m45.9s DUMP: 0.15.6 1m45.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m45.9s INFO: Running adequate version 0.15.6 now. 1m45.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'ariba'] 1m46.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'ariba'] 1m46.0s INFO: Running scripts pre_remove 1m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m46.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m46.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m52.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m52.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m53.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m53.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m53.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m53.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_exceptions'] 1m53.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/pre_remove_exceptions'] 1m53.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m53.1s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed ariba ariba 2.13.3+ds-1 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed binutils binutils 2.31.1-16 install ok installed binutils-common:amd64 binutils-common 2.31.1-16 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.31.1-16 install ok installed blt blt 2.5.3+dfsg-4 install ok installed bowtie2 bowtie2 2.3.4.3-1 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed bzip2 bzip2 1.0.6-9.2~deb10u1 install ok installed ca-certificates ca-certificates 20200601~deb10u2 install ok installed cd-hit cd-hit 4.6.8-2 install ok installed coreutils coreutils 8.30-3 install ok installed cpp cpp 4:8.3.0-1 install ok installed cpp-8 cpp-8 8.3.0-6 install ok installed cwltool cwltool 1.0.20181217162649+dfsg-10 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 dh-python dh-python 3.20190308 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fslibs:amd64 e2fslibs 1.44.5-1+deb10u3 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed e2fsprogs-l10n e2fsprogs-l10n 1.44.5-1+deb10u3 install ok installed fastaq fastaq 3.17.0-2 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed file file 1:5.35-4+deb10u2 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed fontconfig-config fontconfig-config 2.13.1-2 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-1 install ok installed fonts-glyphicons-halflings fonts-glyphicons-halflings 1.009~3.4.1+dfsg-1 install ok installed fonts-lyx fonts-lyx 2.3.2-1 install ok installed g++ g++ 4:8.3.0-1 install ok installed g++-8 g++-8 8.3.0-6 install ok installed gawk gawk 1:4.2.1+dfsg-1 install ok installed gcc gcc 4:8.3.0-1 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gcc-8 gcc-8 8.3.0-6 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gdal-data gdal-data 2.4.0+dfsg-1 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gsfonts gsfonts 1:8.11+urwcyr1.0.7~pre44-4.4 install ok installed 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 javascript-common javascript-common 11 install ok installed krb5-locales krb5-locales 1.17-3+deb10u4 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libaec0:amd64 libaec0 1.0.2-1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libarmadillo9 libarmadillo9 1:9.200.7+dfsg-1 install ok installed libarpack2:amd64 libarpack2 3.7.0-2 install ok installed libasan5:amd64 libasan5 8.3.0-6 install ok installed libatomic1:amd64 libatomic1 8.3.0-6 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libbinutils:amd64 libbinutils 2.31.1-16 install ok installed libblas3:amd64 libblas3 3.8.0-2 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbrotli1:amd64 libbrotli1 1.0.7-2+deb10u1 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-ares2:amd64 libc-ares2 1.14.0-1+deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc-dev-bin libc-dev-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libc6-dev:amd64 libc6-dev 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcapnp-0.5.3 libcapnp-0.5.3 0.5.3-2 install ok installed libcapnp-0.7.0:amd64 libcapnp-0.7.0 0.7.0-3 install ok installed libcc1-0:amd64 libcc1-0 8.3.0-6 install ok installed libcharls2:amd64 libcharls2 2.0.0+dfsg-1 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libcomerr2:amd64 libcomerr2 1.44.5-1+deb10u3 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.64.0-4+deb10u2 install ok installed libdap25:amd64 libdap25 3.20.3-1 install ok installed libdapclient6v5:amd64 libdapclient6v5 3.20.3-1 install ok installed libdapserver7v5:amd64 libdapserver7v5 3.20.3-1 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 libepsilon1:amd64 libepsilon1 0.9.2+dfsg-4 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 libfml0 libfml0 0.1-5 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-2 install ok installed libfreetype6:amd64 libfreetype6 2.9.1-3+deb10u3 install ok installed libfreexl1:amd64 libfreexl1 1.0.5-3 install ok installed libfyba0:amd64 libfyba0 4.1.1-6 install ok installed libgcc-8-dev:amd64 libgcc-8-dev 8.3.0-6 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgdal20 libgdal20 2.4.0+dfsg-1+b1 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.18.1-4 install ok installed libgdbm3:amd64 libgdbm3 1.8.3-14 install ok installed libgdbm6:amd64 libgdbm6 1.18.1-4 install ok installed libgeos-3.7.1:amd64 libgeos-3.7.1 3.7.1-1 install ok installed libgeos-c1v5:amd64 libgeos-c1v5 3.7.1-1 install ok installed libgeotiff2:amd64 libgeotiff2 1.4.3-1 install ok installed libgfortran5:amd64 libgfortran5 8.3.0-6 install ok installed libgif7:amd64 libgif7 5.1.4-3 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgomp1:amd64 libgomp1 8.3.0-6 install ok installed libgpg-error-l10n libgpg-error-l10n 1.35-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libgpm2:amd64 libgpm2 1.20.7-5 install ok installed libgsl23:amd64 libgsl23 2.5+dfsg-6 install ok installed libgslcblas0:amd64 libgslcblas0 2.5+dfsg-6 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.17-3+deb10u4 install ok installed libhdf4-0-alt libhdf4-0-alt 4.2.13-4 install ok installed libhdf5-103:amd64 libhdf5-103 1.10.4+repack-10 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libhts1:amd64 libhts1 1.3.2-2 install ok installed libhts2:amd64 libhts2 1.9-12~deb10u1 install ok installed libicu63:amd64 libicu63 63.1-6+deb10u3 install ok installed libidn11:amd64 libidn11 1.33-2.2 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed libimagequant0:amd64 libimagequant0 2.12.2-1.1 install ok installed libisl19:amd64 libisl19 0.20-2 install ok installed libitm1:amd64 libitm1 8.3.0-6 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:1.5.2-2+deb10u1 install ok installed libjs-bootstrap libjs-bootstrap 3.4.1+dfsg-1 install ok installed libjs-jquery libjs-jquery 3.3.1~dfsg-3+deb10u1 install ok installed libjs-jquery-ui libjs-jquery-ui 1.12.1+dfsg-5 install ok installed libjson-c3:amd64 libjson-c3 0.12.1+ds-2+deb10u1 install ok installed libk5crypto3:amd64 libk5crypto3 1.17-3+deb10u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6-6 install ok installed libkmlbase1:amd64 libkmlbase1 1.3.0-7 install ok installed libkmlconvenience1:amd64 libkmlconvenience1 1.3.0-7 install ok installed libkmldom1:amd64 libkmldom1 1.3.0-7 install ok installed libkmlengine1:amd64 libkmlengine1 1.3.0-7 install ok installed libkmlregionator1:amd64 libkmlregionator1 1.3.0-7 install ok installed libkmlxsd1:amd64 libkmlxsd1 1.3.0-7 install ok installed libkrb5-3:amd64 libkrb5-3 1.17-3+deb10u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.17-3+deb10u4 install ok installed liblapack3:amd64 liblapack3 3.8.0-2 install ok installed liblcms2-2:amd64 liblcms2-2 2.9-3 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.47+dfsg-3+deb10u7 install ok installed libldap-common libldap-common 2.4.47+dfsg-3+deb10u7 install ok installed liblmdb0:amd64 liblmdb0 0.9.22-1 install ok installed liblsan0:amd64 liblsan0 8.3.0-6 install ok installed 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 libmagic-mgc libmagic-mgc 1:5.35-4+deb10u2 install ok installed libmagic1:amd64 libmagic1 1:5.35-4+deb10u2 install ok installed libmariadb3:amd64 libmariadb3 1:10.3.34-0+deb10u1 install ok installed libmbedcrypto3:amd64 libmbedcrypto3 2.16.0-1 install ok installed libmbedtls12:amd64 libmbedtls12 2.16.0-1 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.16.0-1 install ok installed libminimap0 libminimap0 0.2-4 install ok installed libminizip1:amd64 libminizip1 1.1-8+b1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libmpc3:amd64 libmpc3 1.1.0-1 install ok installed libmpdec2:amd64 libmpdec2 2.4.2-2 install ok installed libmpfr4:amd64 libmpfr4 3.1.5-1 install ok installed libmpfr6:amd64 libmpfr6 4.0.2-1 install ok installed libmpx2:amd64 libmpx2 8.3.0-6 install ok installed libmurmurhash1 libmurmurhash1 1.3-2 install ok installed libncurses5:amd64 libncurses5 6.1+20181013-2+deb10u2 install ok installed libncurses6:amd64 libncurses6 6.1+20181013-2+deb10u2 install ok installed libncursesw5:amd64 libncursesw5 6.1+20181013-2+deb10u2 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnetcdf13:amd64 libnetcdf13 1:4.6.2-1 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 libnode64:amd64 libnode64 10.24.0~dfsg-1~deb10u1 install ok installed libnspr4:amd64 libnspr4 2:4.20-1 install ok installed libnss3:amd64 libnss3 2:3.42.1-1+deb10u5 install ok installed libodbc1:amd64 libodbc1 2.3.6-0.1 install ok installed libogdi3.2 libogdi3.2 3.2.1+ds-4 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.3.0-2+deb10u2 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 libperl5.24:amd64 libperl5.24 5.24.1-3+deb9u7 install ok installed libperl5.28:amd64 libperl5.28 5.28.1-6+deb10u1 install ok installed libpng16-16:amd64 libpng16-16 1.6.36-6 install ok installed libpoppler82:amd64 libpoppler82 0.71.0-5 install ok installed libpopt0:amd64 libpopt0 1.16-12 install ok installed libpq5:amd64 libpq5 11.16-0+deb10u1 install ok installed libproj13:amd64 libproj13 5.2.0-1 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 libpython3-stdlib:amd64 libpython3-stdlib 3.7.3-1 install ok installed libpython3.5-minimal:amd64 libpython3.5-minimal 3.5.3-1+deb9u1 install ok installed libpython3.5-stdlib:amd64 libpython3.5-stdlib 3.5.3-1+deb9u1 install ok installed libpython3.7-minimal:amd64 libpython3.7-minimal 3.7.3-2+deb10u3 install ok installed libpython3.7-stdlib:amd64 libpython3.7-stdlib 3.7.3-2+deb10u3 install ok installed libqhull7:amd64 libqhull7 2015.2-4 install ok installed libquadmath0:amd64 libquadmath0 8.3.0-6 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:amd64 libsasl2-modules 2.1.27+dfsg-1+deb10u2 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27+dfsg-1+deb10u2 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsigsegv2:amd64 libsigsegv2 2.12-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libspatialite7:amd64 libspatialite7 4.3.0a-5+b2 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++-8-dev:amd64 libstdc++-8-dev 8.3.0-6 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsuperlu5:amd64 libsuperlu5 5.2.1+dfsg1-4 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libsz2:amd64 libsz2 1.0.2-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtbb2:amd64 libtbb2 2018~U6-4 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.9+dfsg-2 install ok installed libtiff5:amd64 libtiff5 4.1.0+git191117-2~deb10u4 install ok installed libtinfo5:amd64 libtinfo5 6.1+20181013-2+deb10u2 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libtk8.6:amd64 libtk8.6 8.6.9-2 install ok installed libtsan0:amd64 libtsan0 8.3.0-6 install ok installed libubsan1:amd64 libubsan1 8.3.0-6 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring0:amd64 libunistring0 0.9.6+really0.9.3-0.1 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed liburiparser1:amd64 liburiparser1 0.9.1-1+deb10u1 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libuv1:amd64 libuv1 1.24.1-1+deb10u1 install ok installed libwebp6:amd64 libwebp6 0.6.1-2+deb10u1 install ok installed libwebpdemux2:amd64 libwebpdemux2 0.6.1-2+deb10u1 install ok installed libwebpmux3:amd64 libwebpmux3 0.6.1-2+deb10u1 install ok installed libx11-6:amd64 libx11-6 2:1.6.7-1+deb10u2 install ok installed libx11-data libx11-data 2:1.6.7-1+deb10u2 install ok installed libxau6:amd64 libxau6 1:1.0.8-1+b2 install ok installed libxcb1:amd64 libxcb1 1.13.1-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxerces-c3.2:amd64 libxerces-c3.2 3.2.2+debian-1+deb10u1 install ok installed libxext6:amd64 libxext6 2:1.3.3-1+b2 install ok installed libxft2:amd64 libxft2 2.3.2-2 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-7+deb10u4 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.32-2.2~deb10u1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.1-1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed linux-libc-dev:amd64 linux-libc-dev 4.19.249-2 install ok installed login login 1:4.5-1.1 install ok installed lsb-base lsb-base 10.2019051400 install ok installed manpages manpages 4.16-2 install ok installed manpages-dev manpages-dev 4.16-2 install ok installed mariadb-common mariadb-common 1:10.3.34-0+deb10u1 install ok installed mash mash 2.1+dfsg-2 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mime-support mime-support 3.62 install ok installed mount mount 2.33.1-0.1 install ok installed multiarch-support multiarch-support 2.28-10+deb10u1 install ok installed mummer mummer 3.23+dfsg-4 install ok installed mysql-common mysql-common 5.8+1.0.5 install ok installed ncbi-blast+ ncbi-blast+ 2.8.1-1+deb10u1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-0+deb10u2 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed netbase netbase 5.6 install ok installed nodejs nodejs 10.24.0~dfsg-1~deb10u1 install ok installed nodejs-doc nodejs-doc 10.24.0~dfsg-1~deb10u1 install ok installed odbcinst odbcinst 2.3.6-0.1 install ok installed odbcinst1debian2:amd64 odbcinst1debian2 2.3.6-0.1 install ok installed openssl openssl 1.1.1n-0+deb10u3 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl perl 5.28.1-6+deb10u1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed perl-modules-5.24 perl-modules-5.24 5.24.1-3+deb9u7 install ok installed perl-modules-5.28 perl-modules-5.28 5.28.1-6+deb10u1 install ok installed poppler-data poppler-data 0.4.9-2 install ok installed proj-bin proj-bin 5.2.0-1 install ok installed proj-data proj-data 5.2.0-1 install ok installed publicsuffix publicsuffix 20220811.1734-0+deb10u1 install ok installed python python 2.7.16-1 install ok installed python-biopython python-biopython 1.73+dfsg-1 install ok installed python-biopython-doc python-biopython-doc 1.73+dfsg-1 install ok installed python-matplotlib-data python-matplotlib-data 3.0.2-2 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-numpy python-numpy 1:1.16.2-1 install ok installed python-olefile python-olefile 0.46-1 install ok installed python-pil:amd64 python-pil 5.4.1-2+deb10u3 install ok installed python-pkg-resources python-pkg-resources 40.8.0-1 install ok installed python-renderpm:amd64 python-renderpm 3.5.13-1+deb10u1 install ok installed python-reportlab python-reportlab 3.5.13-1+deb10u1 install ok installed python-reportlab-accel:amd64 python-reportlab-accel 3.5.13-1+deb10u1 install ok installed 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 python3 python3 3.7.3-1 install ok installed python3-biopython python3-biopython 1.73+dfsg-1 install ok installed python3-bs4 python3-bs4 4.7.1-1 install ok installed python3-cachecontrol python3-cachecontrol 0.11.7-1 install ok installed python3-certifi python3-certifi 2018.8.24-1 install ok installed python3-chardet python3-chardet 3.0.4-3 install ok installed python3-cycler python3-cycler 0.10.0-1 install ok installed python3-dateutil python3-dateutil 2.7.3-3 install ok installed python3-decorator python3-decorator 4.3.0-1.1 install ok installed python3-dendropy python3-dendropy 4.4.0-1 install ok installed python3-distutils python3-distutils 3.7.3-1 install ok installed python3-gdal python3-gdal 2.4.0+dfsg-1+b1 install ok installed python3-html5lib python3-html5lib 1.0.1-1 install ok installed python3-idna python3-idna 2.6-1 install ok installed python3-isodate python3-isodate 0.6.0-1 install ok installed python3-kiwisolver python3-kiwisolver 1.0.1-2+b1 install ok installed python3-lib2to3 python3-lib2to3 3.7.3-1 install ok installed python3-lockfile python3-lockfile 1:0.12.2-2 install ok installed python3-lxml:amd64 python3-lxml 4.3.2-1+deb10u4 install ok installed python3-matplotlib python3-matplotlib 3.0.2-2 install ok installed python3-minimal python3-minimal 3.7.3-1 install ok installed python3-mistune python3-mistune 0.8.4-1 install ok installed python3-mypy python3-mypy 0.670-2 install ok installed python3-mypy-extensions python3-mypy-extensions 0.4.1-1 install ok installed python3-networkx python3-networkx 2.2-1 install ok installed python3-numpy python3-numpy 1:1.16.2-1 install ok installed python3-olefile python3-olefile 0.46-1 install ok installed python3-pil:amd64 python3-pil 5.4.1-2+deb10u3 install ok installed python3-pkg-resources python3-pkg-resources 40.8.0-1 install ok installed python3-prov python3-prov 1.5.2-1 install ok installed python3-psutil python3-psutil 5.5.1-1 install ok installed python3-pymummer python3-pymummer 0.10.3-2 install ok installed python3-pyparsing python3-pyparsing 2.2.0+dfsg1-2 install ok installed python3-pysam python3-pysam 0.15.2+ds-2 install ok installed python3-rdflib python3-rdflib 4.2.2-2 install ok installed python3-rdflib-jsonld python3-rdflib-jsonld 0.4.0-4 install ok installed python3-renderpm:amd64 python3-renderpm 3.5.13-1+deb10u1 install ok installed python3-reportlab python3-reportlab 3.5.13-1+deb10u1 install ok installed python3-reportlab-accel:amd64 python3-reportlab-accel 3.5.13-1+deb10u1 install ok installed python3-requests python3-requests 2.21.0-1 install ok installed python3-ruamel.yaml python3-ruamel.yaml 0.15.34-1+b1 install ok installed python3-schema-salad python3-schema-salad 3.0.20181206233650-2 install ok installed python3-scipy python3-scipy 1.1.0-7 install ok installed python3-shellescape python3-shellescape 3.4.1-3 install ok installed python3-six python3-six 1.12.0-1 install ok installed python3-soupsieve python3-soupsieve 1.8+dfsg-1 install ok installed python3-sparqlwrapper python3-sparqlwrapper 1.8.2-0.1 install ok installed python3-tk:amd64 python3-tk 3.7.3-1 install ok installed python3-typed-ast python3-typed-ast 1.3.1-1 install ok installed python3-typing-extensions python3-typing-extensions 3.7.2-1 install ok installed python3-urllib3 python3-urllib3 1.24.1-1 install ok installed python3-webencodings python3-webencodings 0.5.1-1 install ok installed python3-yaml python3-yaml 3.13-2 install ok installed python3.5 python3.5 3.5.3-1+deb9u1 install ok installed python3.5-minimal python3.5-minimal 3.5.3-1+deb9u1 install ok installed python3.7 python3.7 3.7.3-2+deb10u3 install ok installed python3.7-minimal python3.7-minimal 3.7.3-2+deb10u3 install ok installed readline-common readline-common 7.0-5 install ok installed rename rename 1.10-1 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 sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-4 install ok installed ttf-bitstream-vera ttf-bitstream-vera 1.10-8 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed ucf ucf 3.0038+nmu1 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed x11-common x11-common 1:7.7+19 install ok installed xz-utils xz-utils 5.2.4-1+deb10u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 1m53.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m53.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++-', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.5.3', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libqhull7:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libspatialite7:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.5', 'python3.5-minimal', 'python3.7', 'python3.7-minimal', 'readline-common', 'rename', 'samtools', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xz-utils', 'ariba'] 2m1.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ariba binutils binutils-common binutils-x86-64-linux-gnu blt bowtie2 bzip2 cd-hit cpp cpp-8 cwltool dh-python fastaq file fontconfig-config fonts-dejavu-core fonts-glyphicons-halflings fonts-lyx g++ g++-8 gawk gcc gcc-8 gdal-data gsfonts javascript-common krb5-locales libaec0 libarmadillo9 libarpack2 libasan5 libatomic1 libbinutils libblas3 libbrotli1 libbsd0 libc-ares2 libc-dev-bin libc6-dev libcapnp-0.5.3 libcapnp-0.7.0 libcc1-0 libcharls2 libcurl3-gnutls libdap25 libdapclient6v5 libdapserver7v5 libdeflate0 libepsilon1 libexpat1 libfml0 libfontconfig1 libfreetype6 libfreexl1 libfyba0 libgcc-8-dev libgdal20 libgdbm-compat4 libgdbm3 libgdbm6 libgeos-3.7.1 libgeos-c1v5 libgeotiff2 libgfortran5 libgif7 libgomp1 libgsl23 libgslcblas0 libgssapi-krb5-2 libhdf4-0-alt libhdf5-103 libhts1 libhts2 libicu63 libidn11 libimagequant0 libisl19 libitm1 libjbig0 libjpeg62-turbo libjs-bootstrap libjs-jquery libjs-jquery-ui libjson-c3 libk5crypto3 libkeyutils1 libkmlbase1 libkmlconvenience1 libkmldom1 libkmlengine1 libkmlregionator1 libkmlxsd1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblmdb0 liblsan0 libltdl7 libmagic-mgc libmagic1 libmariadb3 libmbedcrypto3 libmbedtls12 libmbedx509-0 libminimap0 libminizip1 libmpc3 libmpdec2 libmpfr4 libmpfr6 libmpx2 libmurmurhash1 libncurses5 libncurses6 libnetcdf13 libnghttp2-14 libnode64 libnspr4 libnss3 libodbc1 libogdi3.2 libopenjp2-7 libperl5.24 libperl5.28 libpng16-16 libpoppler82 libpopt0 libpq5 libproj13 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.5-minimal libpython3.5-stdlib libpython3.7-minimal libpython3.7-stdlib libqhull7 libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libspatialite7 libsqlite3-0 libssh2-1 libstdc++-8-dev libsuperlu5 libsz2 libtbb2 libtcl8.6 libtiff5 libtk8.6 libtsan0 libubsan1 libunistring0 liburiparser1 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces-c3.2 libxext6 libxft2 libxml2 libxrender1 libxslt1.1 libxss1 libyaml-0-2 linux-libc-dev lsb-base manpages manpages-dev mariadb-common mash mime-support mummer mysql-common ncbi-blast+ ncbi-data netbase nodejs nodejs-doc odbcinst odbcinst1debian2 perl perl-modules-5.24 perl-modules-5.28 poppler-data proj-bin proj-data publicsuffix python python-biopython python-biopython-doc python-matplotlib-data python-minimal python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python2.7 python2.7-minimal python3 python3-biopython python3-bs4 python3-cachecontrol python3-certifi python3-chardet python3-cycler python3-dateutil python3-decorator python3-dendropy python3-distutils python3-gdal python3-html5lib python3-idna python3-isodate python3-kiwisolver python3-lib2to3 python3-lockfile python3-lxml python3-matplotlib python3-minimal python3-mistune python3-mypy python3-mypy-extensions python3-networkx python3-numpy python3-olefile python3-pil python3-pkg-resources python3-prov python3-psutil python3-pymummer python3-pyparsing python3-pysam python3-rdflib python3-rdflib-jsonld python3-renderpm python3-reportlab python3-reportlab-accel python3-requests python3-ruamel.yaml python3-schema-salad python3-scipy python3-shellescape python3-six python3-soupsieve python3-sparqlwrapper python3-tk python3-typed-ast python3-typing-extensions python3-urllib3 python3-webencodings python3-yaml python3.5 python3.5-minimal python3.7 python3.7-minimal readline-common rename samtools tk8.6-blt2.5 ttf-bitstream-vera tzdata ucf x11-common xz-utils 0 upgraded, 0 newly installed, 286 to remove and 0 not upgraded. After this operation, 857 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 ... 33227 files and directories currently installed.) Removing ariba (2.13.3+ds-1) ... Removing g++ (4:8.3.0-1) ... Removing gcc (4:8.3.0-1) ... Removing python3-tk:amd64 (3.7.3-1) ... Removing blt (2.5.3+dfsg-4) ... Removing bowtie2 (2.3.4.3-1) ... Removing bzip2 (1.0.6-9.2~deb10u1) ... Removing cd-hit (4.6.8-2) ... Removing cpp (4:8.3.0-1) ... Removing cwltool (1.0.20181217162649+dfsg-10) ... Removing dh-python (3.20190308) ... Removing python3-pymummer (0.10.3-2) ... Removing fastaq (3.17.0-2) ... Removing file (1:5.35-4+deb10u2) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-4) ... Removing libtk8.6:amd64 (8.6.9-2) ... Removing libxft2:amd64 (2.3.2-2) ... Removing python3-gdal (2.4.0+dfsg-1+b1) ... Removing libgdal20 (2.4.0+dfsg-1+b1) ... Removing libpoppler82:amd64 (0.71.0-5) ... Removing libfontconfig1:amd64 (2.13.1-2) ... Removing fontconfig-config (2.13.1-2) ... Removing fonts-dejavu-core (2.37-1) ... Removing python3-schema-salad (3.0.20181206233650-2) ... Removing libjs-bootstrap (3.4.1+dfsg-1) ... Removing fonts-glyphicons-halflings (1.009~3.4.1+dfsg-1) ... Removing python3-matplotlib (3.0.2-2) ... Removing python-matplotlib-data (3.0.2-2) ... Removing fonts-lyx (2.3.2-1) ... Removing g++-8 (8.3.0-6) ... Removing mummer (3.23+dfsg-4) ... Removing gawk (1:4.2.1+dfsg-1) ... update-alternatives: using /usr/bin/mawk to provide /usr/bin/awk (awk) in auto mode Removing gdal-data (2.4.0+dfsg-1) ... Removing python3-renderpm:amd64 (3.5.13-1+deb10u1) ... Removing python-renderpm:amd64 (3.5.13-1+deb10u1) ... Removing gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Removing javascript-common (11) ... Removing krb5-locales (1.17-3+deb10u4) ... Removing libnetcdf13:amd64 (1:4.6.2-1) ... Removing libhdf5-103:amd64 (1.10.4+repack-10) ... Removing libsz2:amd64 (1.0.2-1) ... Removing libaec0:amd64 (1.0.2-1) ... Removing libarmadillo9 (1:9.200.7+dfsg-1) ... Removing libarpack2:amd64 (3.7.0-2) ... Removing libstdc++-8-dev:amd64 (8.3.0-6) ... Removing libtbb2:amd64 (2018~U6-4) ... Removing nodejs (10.24.0~dfsg-1~deb10u1) ... Removing libsuperlu5:amd64 (5.2.1+dfsg1-4) ... Removing python3-scipy (1.1.0-7) ... Removing python3-biopython (1.73+dfsg-1) ... Removing python3-numpy (1:1.16.2-1) ... Removing python-biopython (1.73+dfsg-1) ... Removing python-numpy (1:1.16.2-1) ... Removing libnode64:amd64 (10.24.0~dfsg-1~deb10u1) ... Removing libbrotli1:amd64 (1.0.7-2+deb10u1) ... Removing libxss1:amd64 (1:1.2.3-1) ... Removing libxrender1:amd64 (1:0.9.10-1) ... Removing libc-ares2:amd64 (1.14.0-1+deb10u1) ... Removing libc6-dev:amd64 (2.28-10+deb10u1) ... Removing libc-dev-bin (2.28-10+deb10u1) ... Removing libcapnp-0.5.3 (0.5.3-2) ... Removing mash (2.1+dfsg-2) ... Removing libcapnp-0.7.0:amd64 (0.7.0-3) ... Removing libcharls2:amd64 (2.0.0+dfsg-1) ... Removing libhts1:amd64 (1.3.2-2) ... Removing libxerces-c3.2:amd64 (3.2.2+debian-1+deb10u1) ... Removing libdapserver7v5:amd64 (3.20.3-1) ... Removing libdapclient6v5:amd64 (3.20.3-1) ... Removing libdap25:amd64 (3.20.3-1) ... Removing samtools (1.9-4) ... Removing python3-pysam (0.15.2+ds-2) ... Removing libhts2:amd64 (1.9-12~deb10u1) ... Removing libdeflate0:amd64 (1.2-1) ... Removing libepsilon1:amd64 (0.9.2+dfsg-4) ... Removing python3.5 (3.5.3-1+deb9u1) ... Removing python3.5-minimal (3.5.3-1+deb9u1) ... Removing python3-mypy (0.670-2) ... Removing python3-distutils (3.7.3-1) ... Removing python3-sparqlwrapper (1.8.2-0.1) ... Removing libfml0 (0.1-5) ... Removing python3-reportlab (3.5.13-1+deb10u1) ... Removing python3-pil:amd64 (5.4.1-2+deb10u3) ... Removing libspatialite7:amd64 (4.3.0a-5+b2) ... Removing libfreexl1:amd64 (1.0.5-3) ... Removing libfyba0:amd64 (4.1.1-6) ... Removing rename (1.10-1) ... Removing ncbi-blast+ (2.8.1-1+deb10u1) ... Removing perl (5.28.1-6+deb10u1) ... Removing libperl5.28:amd64 (5.28.1-6+deb10u1) ... Removing libgdbm-compat4:amd64 (1.18.1-4) ... Removing libperl5.24:amd64 (5.24.1-3+deb9u7) ... Removing libgdbm3:amd64 (1.8.3-14) ... Removing libgdbm6:amd64 (1.18.1-4) ... Removing libgeos-c1v5:amd64 (3.7.1-1) ... Removing libgeos-3.7.1:amd64 (3.7.1-1) ... Removing libgeotiff2:amd64 (1.4.3-1) ... Removing liblapack3:amd64 (3.8.0-2) ... Removing libgif7:amd64 (5.1.4-3) ... Removing libgsl23:amd64 (2.5+dfsg-6) ... Removing libgslcblas0:amd64 (2.5+dfsg-6) ... Removing libpq5:amd64 (11.16-0+deb10u1) ... Removing libhdf4-0-alt (4.2.13-4) ... Removing python3-prov (1.5.2-1) ... Removing python3-lxml:amd64 (4.3.2-1+deb10u4) ... Removing libidn11:amd64 (1.33-2.2) ... Removing python-reportlab (3.5.13-1+deb10u1) ... Removing python-pil:amd64 (5.4.1-2+deb10u3) ... Removing libimagequant0:amd64 (2.12.2-1.1) ... 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 libjs-jquery-ui (1.12.1+dfsg-5) ... Removing libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Removing libjson-c3:amd64 (0.12.1+ds-2+deb10u1) ... Removing libkmlxsd1:amd64 (1.3.0-7) ... Removing libkmlregionator1:amd64 (1.3.0-7) ... Removing libkmlconvenience1:amd64 (1.3.0-7) ... Removing libkmlengine1:amd64 (1.3.0-7) ... Removing libkmldom1:amd64 (1.3.0-7) ... Removing liblcms2-2:amd64 (2.9-3) ... Removing liblmdb0:amd64 (0.9.22-1) ... Removing libodbc1:amd64 (2.3.6-0.1) ... Removing libmagic1:amd64 (1:5.35-4+deb10u2) ... Removing libmagic-mgc (1:5.35-4+deb10u2) ... Removing libmariadb3:amd64 (1:10.3.34-0+deb10u1) ... Removing libmbedtls12:amd64 (2.16.0-1) ... Removing libmbedx509-0:amd64 (2.16.0-1) ... Removing libmbedcrypto3:amd64 (2.16.0-1) ... Removing libminimap0 (0.2-4) ... Removing libpython3.5-stdlib:amd64 (3.5.3-1+deb9u1) ... Removing libmpfr4:amd64 (3.1.5-1) ... Removing libmurmurhash1 (1.3-2) ... Removing libncurses5:amd64 (6.1+20181013-2+deb10u2) ... Removing libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Removing libnss3:amd64 (2:3.42.1-1+deb10u5) ... Removing libnspr4:amd64 (2:4.20-1) ... Removing libogdi3.2 (3.2.1+ds-4) ... Removing libopenjp2-7:amd64 (2.3.0-2+deb10u2) ... Removing libpopt0:amd64 (1.16-12) ... Removing proj-bin (5.2.0-1) ... Removing libproj13:amd64 (5.2.0-1) ... Removing python-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Removing python-pkg-resources (40.8.0-1) ... Removing python-olefile (0.46-1) ... Removing python (2.7.16-1) ... Removing libpython-stdlib:amd64 (2.7.16-1) ... Removing python2 (2.7.16-1) ... Removing libpython2-stdlib:amd64 (2.7.16-1) ... Removing python2.7 (2.7.16-2+deb10u1) ... Removing libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Removing python-minimal (2.7.16-1) ... Removing libpython3.5-minimal:amd64 (3.5.3-1+deb9u1) ... Removing libqhull7:amd64 (2015.2-4) ... Removing libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libsigsegv2:amd64 (2.12-2) ... Removing libtcl8.6:amd64 (8.6.9+dfsg-2) ... Removing libunistring0:amd64 (0.9.6+really0.9.3-0.1) ... Removing libuv1:amd64 (1.24.1-1+deb10u1) ... Removing libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Removing libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Removing libwebp6:amd64 (0.6.1-2+deb10u1) ... Removing libxext6:amd64 (2:1.3.3-1+b2) ... Removing libxslt1.1:amd64 (1.1.32-2.2~deb10u1) ... Removing python3-yaml (3.13-2) ... Removing libyaml-0-2:amd64 (0.2.1-1) ... Removing linux-libc-dev:amd64 (4.19.249-2) ... Removing x11-common (1:7.7+19) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing lsb-base (10.2019051400) ... Removing manpages-dev (4.16-2) ... Removing manpages (4.16-2) ... Removing mariadb-common (1:10.3.34-0+deb10u1) ... update-alternatives: using /etc/mysql/my.cnf.fallback to provide /etc/mysql/my.cnf (my.cnf) in auto mode Removing mysql-common (5.8+1.0.5) ... Removing ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Removing netbase (5.6) ... Removing nodejs-doc (10.24.0~dfsg-1~deb10u1) ... Removing perl-modules-5.24 (5.24.1-3+deb9u7) ... Removing perl-modules-5.28 (5.28.1-6+deb10u1) ... Removing poppler-data (0.4.9-2) ... Removing proj-data (5.2.0-1) ... Removing publicsuffix (20220811.1734-0+deb10u1) ... Removing python-biopython-doc (1.73+dfsg-1) ... Removing python2-minimal (2.7.16-1) ... Removing python3-bs4 (4.7.1-1) ... Removing python3-cachecontrol (0.11.7-1) ... Removing python3-requests (2.21.0-1) ... Removing python3-certifi (2018.8.24-1) ... Removing python3-chardet (3.0.4-3) ... Removing python3-cycler (0.10.0-1) ... Removing python3-dateutil (2.7.3-3) ... Removing python3-networkx (2.2-1) ... Removing python3-decorator (4.3.0-1.1) ... Removing python3-dendropy (4.4.0-1) ... Removing python3-html5lib (1.0.1-1) ... Removing python3-idna (2.6-1) ... Removing python3-rdflib-jsonld (0.4.0-4) ... Removing python3-rdflib (4.2.2-2) ... Removing python3-isodate (0.6.0-1) ... Removing python3-kiwisolver (1.0.1-2+b1) ... Removing python3-lib2to3 (3.7.3-1) ... Removing python3-lockfile (1:0.12.2-2) ... Removing python3-mistune (0.8.4-1) ... Removing python3-mypy-extensions (0.4.1-1) ... Removing python3-olefile (0.46-1) ... Removing python3-pkg-resources (40.8.0-1) ... Removing python3-psutil (5.5.1-1) ... Removing python3-pyparsing (2.2.0+dfsg1-2) ... Removing python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Removing python3-ruamel.yaml (0.15.34-1+b1) ... Removing python3-shellescape (3.4.1-3) ... Removing python3-urllib3 (1.24.1-1) ... Removing python3-six (1.12.0-1) ... Removing python3-soupsieve (1.8+dfsg-1) ... Removing python3-typed-ast (1.3.1-1) ... Removing python3-typing-extensions (3.7.2-1) ... Removing python3-webencodings (0.5.1-1) ... Removing ttf-bitstream-vera (1.10-8) ... Removing tzdata (2021a-0+deb10u6) ... Removing ucf (3.0038+nmu1) ... Removing xz-utils (5.2.4-1+deb10u1) ... Removing gcc-8 (8.3.0-6) ... Removing binutils (2.31.1-16) ... Removing binutils-x86-64-linux-gnu (2.31.1-16) ... Removing libbinutils:amd64 (2.31.1-16) ... Removing binutils-common:amd64 (2.31.1-16) ... Removing cpp-8 (8.3.0-6) ... Removing libgcc-8-dev:amd64 (8.3.0-6) ... Removing libasan5:amd64 (8.3.0-6) ... Removing libatomic1:amd64 (8.3.0-6) ... Removing libblas3:amd64 (3.8.0-2) ... 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 libcc1-0:amd64 (8.3.0-6) ... Removing libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Removing python3 (3.7.3-1) ... Removing python3.7 (3.7.3-2+deb10u3) ... Removing libfreetype6:amd64 (2.9.1-3+deb10u3) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Removing libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Removing libicu63:amd64 (63.1-6+deb10u3) ... Removing libisl19:amd64 (0.20-2) ... Removing libitm1:amd64 (8.3.0-6) ... Removing 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 libkmlbase1:amd64 (1.3.0-7) ... Removing libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Removing libldap-common (2.4.47+dfsg-3+deb10u7) ... Removing liblsan0:amd64 (8.3.0-6) ... Removing libminizip1:amd64 (1.1-8+b1) ... Removing libmpc3:amd64 (1.1.0-1) ... Removing libpython3-stdlib:amd64 (3.7.3-1) ... Removing libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... find: '/usr/lib/python3': No such file or directory Removing libmpdec2:amd64 (2.4.2-2) ... Removing libmpfr6:amd64 (4.0.2-1) ... Removing libmpx2:amd64 (8.3.0-6) ... Removing libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Removing libpng16-16:amd64 (1.6.36-6) ... Removing libpsl5:amd64 (0.20.2-2) ... Removing python2.7-minimal (2.7.16-2+deb10u1) ... Removing libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... find: '/usr/lib/python2.7': No such file or directory Removing libquadmath0:amd64 (8.3.0-6) ... Removing libreadline7:amd64 (7.0-5) ... 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 libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Removing libssh2-1:amd64 (1.8.0-2.1) ... Removing libtsan0:amd64 (8.3.0-6) ... Removing libubsan1:amd64 (8.3.0-6) ... Removing liburiparser1:amd64 (0.9.1-1+deb10u1) ... Removing libx11-data (2:1.6.7-1+deb10u2) ... Removing libxau6:amd64 (1:1.0.8-1+b2) ... Removing mime-support (3.62) ... Removing python3-minimal (3.7.3-1) ... Removing readline-common (7.0-5) ... Removing python3.7-minimal (3.7.3-2+deb10u3) ... Removing libexpat1:amd64 (2.2.6-2+deb10u4) ... Removing libpython3.7-minimal:amd64 (3.7.3-2+deb10u3) ... find: '/usr/lib/python3': No such file or directory Removing odbcinst (2.3.6-0.1) ... Removing odbcinst1debian2:amd64 (2.3.6-0.1) ... Removing libltdl7:amd64 (2.4.6-9) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 2m1.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++-', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.5.3', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libqhull7:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libspatialite7:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.5', 'python3.5-minimal', 'python3.7', 'python3.7-minimal', 'readline-common', 'rename', 'samtools', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xz-utils', 'ariba'] 2m1.0s INFO: Running scripts post_remove 2m1.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_remove_exceptions'] 2m1.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_remove_exceptions'] 2m1.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.5.3', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libqhull7:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libspatialite7:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.5', 'python3.5-minimal', 'python3.7', 'python3.7-minimal', 'readline-common', 'rename', 'samtools', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xz-utils'] 2m1.7s DUMP: dpkg: warning: ignoring request to remove binutils which isn't installed dpkg: warning: ignoring request to remove binutils-common which isn't installed dpkg: warning: ignoring request to remove binutils-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove blt which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed dpkg: warning: ignoring request to remove bzip2 which isn't installed dpkg: warning: ignoring request to remove cd-hit which isn't installed dpkg: warning: ignoring request to remove cpp which isn't installed dpkg: warning: ignoring request to remove cpp-8 which isn't installed dpkg: warning: ignoring request to remove cwltool which isn't installed dpkg: warning: ignoring request to remove dh-python which isn't installed dpkg: warning: ignoring request to remove fastaq which isn't installed dpkg: warning: ignoring request to remove file which isn't installed (Reading database ... 5093 files and directories currently installed.) Purging configuration files for fontconfig-config (2.13.1-2) ... Purging configuration files for fonts-dejavu-core (2.37-1) ... dpkg: warning: ignoring request to remove fonts-glyphicons-halflings which isn't installed dpkg: warning: ignoring request to remove fonts-lyx which isn't installed dpkg: warning: ignoring request to remove g++ which isn't installed dpkg: warning: ignoring request to remove g++-8 which isn't installed Purging configuration files for gawk (1:4.2.1+dfsg-1) ... dpkg: warning: ignoring request to remove gcc which isn't installed dpkg: warning: ignoring request to remove gcc-8 which isn't installed dpkg: warning: ignoring request to remove gdal-data which isn't installed Purging configuration files for gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Purging configuration files for javascript-common (11) ... dpkg: warning: ignoring request to remove krb5-locales which isn't installed dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libarmadillo9 which isn't installed dpkg: warning: ignoring request to remove libarpack2 which isn't installed dpkg: warning: ignoring request to remove libasan5 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libbinutils which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-ares2 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcapnp-0.5.3 which isn't installed dpkg: warning: ignoring request to remove libcapnp-0.7.0 which isn't installed dpkg: warning: ignoring request to remove libcc1-0 which isn't installed dpkg: warning: ignoring request to remove libcharls2 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdap25 which isn't installed dpkg: warning: ignoring request to remove libdapclient6v5 which isn't installed dpkg: warning: ignoring request to remove libdapserver7v5 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libepsilon1 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfml0 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 libfreexl1 which isn't installed dpkg: warning: ignoring request to remove libfyba0 which isn't installed dpkg: warning: ignoring request to remove libgcc-8-dev which isn't installed dpkg: warning: ignoring request to remove libgdal20 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm3 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgeos-3.7.1 which isn't installed dpkg: warning: ignoring request to remove libgeos-c1v5 which isn't installed dpkg: warning: ignoring request to remove libgeotiff2 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgif7 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgsl23 which isn't installed dpkg: warning: ignoring request to remove libgslcblas0 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... dpkg: warning: ignoring request to remove libhdf4-0-alt which isn't installed dpkg: warning: ignoring request to remove libhdf5-103 which isn't installed dpkg: warning: ignoring request to remove libhts1 which isn't installed dpkg: warning: ignoring request to remove libhts2 which isn't installed dpkg: warning: ignoring request to remove libicu63 which isn't installed dpkg: warning: ignoring request to remove libidn11 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libisl19 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjs-bootstrap which isn't installed dpkg: warning: ignoring request to remove libjs-jquery which isn't installed Purging configuration files for libjs-jquery-ui (1.12.1+dfsg-5) ... dpkg: warning: ignoring request to remove libjson-c3 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 libkmlbase1 which isn't installed dpkg: warning: ignoring request to remove libkmlconvenience1 which isn't installed dpkg: warning: ignoring request to remove libkmldom1 which isn't installed dpkg: warning: ignoring request to remove libkmlengine1 which isn't installed dpkg: warning: ignoring request to remove libkmlregionator1 which isn't installed dpkg: warning: ignoring request to remove libkmlxsd1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed Purging configuration files for libldap-common (2.4.47+dfsg-3+deb10u7) ... dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove libltdl7 which isn't installed dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.35-4+deb10u2) ... dpkg: warning: ignoring request to remove libmariadb3 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto3 which isn't installed dpkg: warning: ignoring request to remove libmbedtls12 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-0 which isn't installed dpkg: warning: ignoring request to remove libminimap0 which isn't installed dpkg: warning: ignoring request to remove libminizip1 which isn't installed dpkg: warning: ignoring request to remove libmpc3 which isn't installed dpkg: warning: ignoring request to remove libmpdec2 which isn't installed dpkg: warning: ignoring request to remove libmpfr4 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libmpx2 which isn't installed dpkg: warning: ignoring request to remove libmurmurhash1 which isn't installed dpkg: warning: ignoring request to remove libncurses5 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libnetcdf13 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnode64 which isn't installed dpkg: warning: ignoring request to remove libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 which isn't installed dpkg: warning: ignoring request to remove libodbc1 which isn't installed dpkg: warning: ignoring request to remove libogdi3.2 which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libperl5.24 which isn't installed dpkg: warning: ignoring request to remove libperl5.28 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpoppler82 which isn't installed dpkg: warning: ignoring request to remove libpopt0 which isn't installed dpkg: warning: ignoring request to remove libpq5 which isn't installed dpkg: warning: ignoring request to remove libproj13 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 libpython3-stdlib which isn't installed Purging configuration files for libpython3.5-minimal:amd64 (3.5.3-1+deb9u1) ... dpkg: warning: ignoring request to remove libpython3.5-stdlib which isn't installed Purging configuration files for libpython3.7-minimal:amd64 (3.7.3-2+deb10u3) ... dpkg: warning: ignoring request to remove libpython3.7-stdlib which isn't installed dpkg: warning: ignoring request to remove libqhull7 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline7 which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed Purging configuration files for libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsigsegv2 which isn't installed dpkg: warning: ignoring request to remove libspatialite7 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed dpkg: warning: ignoring request to remove libstdc++-8-dev which isn't installed dpkg: warning: ignoring request to remove libsuperlu5 which isn't installed dpkg: warning: ignoring request to remove libsz2 which isn't installed dpkg: warning: ignoring request to remove libtbb2 which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove libunistring0 which isn't installed dpkg: warning: ignoring request to remove liburiparser1 which isn't installed dpkg: warning: ignoring request to remove libuv1 which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxerces-c3.2 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxslt1.1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove lsb-base which isn't installed dpkg: warning: ignoring request to remove manpages which isn't installed dpkg: warning: ignoring request to remove manpages-dev which isn't installed Purging configuration files for mariadb-common (1:10.3.34-0+deb10u1) ... dpkg: warning: ignoring request to remove mash which isn't installed Purging configuration files for mime-support (3.62) ... dpkg: warning: ignoring request to remove mummer which isn't installed Purging configuration files for mysql-common (5.8+1.0.5) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Purging configuration files for netbase (5.6) ... dpkg: warning: ignoring request to remove nodejs which isn't installed dpkg: warning: ignoring request to remove nodejs-doc which isn't installed Purging configuration files for odbcinst (2.3.6-0.1) ... dpkg: warning: ignoring request to remove odbcinst1debian2 which isn't installed Purging configuration files for perl (5.28.1-6+deb10u1) ... dpkg: warning: ignoring request to remove perl-modules-5.24 which isn't installed dpkg: warning: ignoring request to remove perl-modules-5.28 which isn't installed Purging configuration files for poppler-data (0.4.9-2) ... dpkg: warning: ignoring request to remove proj-bin which isn't installed dpkg: warning: ignoring request to remove proj-data which isn't installed dpkg: warning: ignoring request to remove publicsuffix which isn't installed Purging configuration files for python (2.7.16-1) ... dpkg: warning: ignoring request to remove python-biopython which isn't installed dpkg: warning: ignoring request to remove python-biopython-doc which isn't installed Purging configuration files for python-matplotlib-data (3.0.2-2) ... dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-olefile which isn't installed dpkg: warning: ignoring request to remove python-pil which isn't installed dpkg: warning: ignoring request to remove python-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python-renderpm which isn't installed dpkg: warning: ignoring request to remove python-reportlab which isn't installed dpkg: warning: ignoring request to remove python-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove 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 python3 (3.7.3-1) ... dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-bs4 which isn't installed dpkg: warning: ignoring request to remove python3-cachecontrol which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-cycler which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-dendropy which isn't installed dpkg: warning: ignoring request to remove python3-distutils which isn't installed dpkg: warning: ignoring request to remove python3-gdal which isn't installed dpkg: warning: ignoring request to remove python3-html5lib which isn't installed dpkg: warning: ignoring request to remove python3-idna which isn't installed dpkg: warning: ignoring request to remove python3-isodate which isn't installed dpkg: warning: ignoring request to remove python3-kiwisolver which isn't installed dpkg: warning: ignoring request to remove python3-lib2to3 which isn't installed dpkg: warning: ignoring request to remove python3-lockfile which isn't installed dpkg: warning: ignoring request to remove python3-lxml which isn't installed dpkg: warning: ignoring request to remove python3-matplotlib which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-mistune which isn't installed dpkg: warning: ignoring request to remove python3-mypy which isn't installed dpkg: warning: ignoring request to remove python3-mypy-extensions which isn't installed dpkg: warning: ignoring request to remove python3-networkx which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-olefile which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-prov which isn't installed dpkg: warning: ignoring request to remove python3-psutil which isn't installed dpkg: warning: ignoring request to remove python3-pymummer which isn't installed dpkg: warning: ignoring request to remove python3-pyparsing which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-rdflib which isn't installed dpkg: warning: ignoring request to remove python3-rdflib-jsonld which isn't installed dpkg: warning: ignoring request to remove python3-renderpm which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python3-requests which isn't installed dpkg: warning: ignoring request to remove python3-ruamel.yaml which isn't installed dpkg: warning: ignoring request to remove python3-schema-salad which isn't installed dpkg: warning: ignoring request to remove python3-scipy which isn't installed dpkg: warning: ignoring request to remove python3-shellescape which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-soupsieve which isn't installed dpkg: warning: ignoring request to remove python3-sparqlwrapper which isn't installed dpkg: warning: ignoring request to remove python3-tk which isn't installed dpkg: warning: ignoring request to remove python3-typed-ast which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-urllib3 which isn't installed dpkg: warning: ignoring request to remove python3-webencodings which isn't installed dpkg: warning: ignoring request to remove python3-yaml which isn't installed dpkg: warning: ignoring request to remove python3.5 which isn't installed Purging configuration files for python3.5-minimal (3.5.3-1+deb9u1) ... dpkg: warning: ignoring request to remove python3.7 which isn't installed Purging configuration files for python3.7-minimal (3.7.3-2+deb10u3) ... Purging configuration files for readline-common (7.0-5) ... dpkg: warning: ignoring request to remove rename which isn't installed dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove ttf-bitstream-vera which isn't installed Purging configuration files for tzdata (2021a-0+deb10u6) ... Purging configuration files for ucf (3.0038+nmu1) ... Purging configuration files for x11-common (1:7.7+19) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed 2m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.5.3', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libqhull7:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsigsegv2:amd64', 'libspatialite7:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.5', 'python3.5-minimal', 'python3.7', 'python3.7-minimal', 'readline-common', 'rename', 'samtools', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'x11-common', 'xz-utils'] 2m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--purge', 'ariba'] 2m1.7s DUMP: dpkg: warning: ignoring request to remove ariba which isn't installed 2m1.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--purge', 'ariba'] 2m1.7s INFO: Running scripts post_purge 2m1.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_purge_exceptions'] 2m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_purge_exceptions'] 2m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--purge', '--pending'] 2m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--purge', '--pending'] 2m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--remove', '--pending'] 2m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg', '--remove', '--pending'] 2m1.8s INFO: Running scripts post_test 2m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_test_exceptions'] 2m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'tmp/scripts/post_test_exceptions'] 2m1.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 2m2.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg-divert', '--list'] 2m2.2s 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 2m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'dpkg-divert', '--list'] 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'clean'] 2m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_h01ccur', 'apt-get', 'clean'] 2m2.3s DEBUG: Recording chroot state 2m2.7s INFO: Warning: Package purging left files on system: /etc/ca-certificates.conf.dpkg-old not owned 2m3.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/shm'] 2m3.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/shm'] 2m3.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/console'] 2m3.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/console'] 2m3.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/ptmx'] 2m3.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/ptmx'] 2m3.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/pts'] 2m3.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/dev/pts'] 2m3.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/proc'] 2m3.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_h01ccur/proc'] 2m3.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 2m3.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_h01ccur'] 2m3.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp_h01ccur 2m3.2s INFO: PASS: Upgrading between Debian distributions. 2m3.2s INFO: PASS: All tests. 2m3.2s INFO: piuparts run ends. ret=0 End: 2022-12-01 01:57:36 GMT