Start: 2022-12-17 22:53:27 GMT [stretch] Package: circlator Version: 1.4.1-1 Installed-Size: 10292 Maintainer: Debian Med Packaging Team Architecture: all Depends: fastaq (>= 3.12.1), python3-openpyxl, python3-pymummer (>= 0.9.0), python3-pysam (>= 0.8.1), python3:any (>= 3.3.2-2~), prodigal, bwa (>= 0.7.12), mummer, samtools, spades Description: circularize genome assemblies Homepage: http://sanger-pathogens.github.io/circlator/ Description-md5: cf235cf3121c5ca347cea31d93662299 Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, role::program, science::calculation, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/c/circlator/circlator_1.4.1-1_all.deb Size: 4324612 MD5sum: 5edfac27c9c0ba6d4a985e8d0b8feaad SHA256: f63b4aed1b4a5683d5a9131be49ed32f5309c8822dbb5e5e0052d5c743cdfb7c [buster] Package: circlator Version: 1.5.5-3 Installed-Size: 10301 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.1), python3-openpyxl, python3-pymummer, python3-pysam, python3:any, prodigal, bwa (>= 0.7.12), mummer, samtools, spades Suggests: canu Description: circularize genome assemblies Homepage: http://sanger-pathogens.github.io/circlator/ Description-md5: cf235cf3121c5ca347cea31d93662299 Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, role::program, science::calculation, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/c/circlator/circlator_1.5.5-3_amd64.deb Size: 4325732 MD5sum: 48715c036e9a0f5940dfbc9ffe82ffad SHA256: cf494b1310d5175edef88c3a7dbfe54640eca73a072c6440d1220ad189db652f 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 --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/stretch2buster-rcmd/reference-chroot-metadata.dat --apt circlator=1.5.5-3 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 --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/stretch2buster-rcmd/reference-chroot-metadata.dat --apt circlator=1.5.5-3 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-20-amd64 #1 SMP Debian 5.10.158-2 (2022-12-13) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpgwfwvfkq 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpgwfwvfkq 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/proc'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/proc'] 0m1.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/pts'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/pts'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/ptmx'] 0m1.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/ptmx'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/console'] 0m1.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/4', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/console'] 0m1.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/shm'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/shm'] 0m1.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m1.6s DEBUG: Created policy-rc.d and chmodded it. 0m1.6s DEBUG: Created resolv.conf. 0m1.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpgwfwvfkq/tmp/scripts/ 0m1.6s INFO: Running scripts post_chroot_unpack 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'update'] 0m2.2s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'update'] 0m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-yf', 'dist-upgrade'] 0m2.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-yf', 'dist-upgrade'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.9s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.9s INFO: Running scripts post_setup 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_dummy_users'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_dummy_users'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_forbid_home'] 0m3.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_forbid_home'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_minimize'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_minimize'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_zz_backports'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_setup_zz_backports'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.8s 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 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.8s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stretch2buster-rcmd/reference-chroot-metadata.dat 0m3.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 0m4.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 0m4.2s INFO: Running scripts is_testable 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/is_testable_uninstallable'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/is_testable_uninstallable'] 0m4.2s INFO: Running scripts pre_test 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_test_exceptions'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_test_exceptions'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_test_root_password'] 0m4.3s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_test_root_password'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'show', '--no-all-versions', 'circlator'] 0m4.5s DUMP: Package: circlator Version: 1.4.1-1 Installed-Size: 10292 Maintainer: Debian Med Packaging Team Architecture: all Depends: fastaq (>= 3.12.1), python3-openpyxl, python3-pymummer (>= 0.9.0), python3-pysam (>= 0.8.1), python3:any (>= 3.3.2-2~), prodigal, bwa (>= 0.7.12), mummer, samtools, spades Description-en: circularize genome assemblies Circlator is a tool to automate assembly circularization for bacterial and small eukaryotic genomes and produce accurate linear representations of circular sequences. Description-md5: cf235cf3121c5ca347cea31d93662299 Homepage: http://sanger-pathogens.github.io/circlator/ Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, role::program, science::calculation, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/c/circlator/circlator_1.4.1-1_all.deb Size: 4324612 MD5sum: 5edfac27c9c0ba6d4a985e8d0b8feaad SHA256: f63b4aed1b4a5683d5a9131be49ed32f5309c8822dbb5e5e0052d5c743cdfb7c 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'show', '--no-all-versions', 'circlator'] 0m4.5s INFO: apt-cache knows about the following packages: circlator 0m4.5s INFO: Running scripts pre_install 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_database-server'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_database-server'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_exceptions'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_exceptions'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_extras'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy'] 0m4.5s 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: 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy', 'circlator'] 0m4.6s DUMP: circlator: Installed: (none) Candidate: 1.4.1-1 Version table: 1.4.1-1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy', 'circlator'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-y', 'install', 'circlator'] 0m26.7s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: bamtools bwa bzip2 ca-certificates dh-python fastaq file gawk krb5-locales libbamtools2.4.0 libblas-common libblas3 libcurl3-gnutls libexpat1 libffi6 libfreetype6 libgdbm3 libgfortran3 libgmp10 libgnutls30 libgomp1 libgpm2 libgssapi-krb5-2 libhat-trie0 libhogweed4 libhts1 libicu57 libidn11 libidn2-0 libjbig0 libjemalloc1 libjpeg62-turbo libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmpdec2 libmpfr4 libncurses5 libnettle6 libnghttp2-14 libnlopt0 libp11-kit0 libperl5.24 libpng16-16 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.5-minimal libpython3.5-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libsqlite3-0 libssh2-1 libssl1.1 libssw0 libtasn1-6 libtiff5 libunistring0 libwebp6 libwebpdemux2 libwebpmux2 libxml2 libxslt1.1 libyaml-0-2 mime-support mummer netbase openssl perl perl-modules-5.24 prodigal publicsuffix python python-joblib python-minimal python-numpy python-pkg-resources python-py python-pytest python-simplejson python-yaml python2.7 python2.7-minimal python3 python3-bs4 python3-chardet python3-html5lib python3-jdcal python3-lxml python3-minimal python3-openpyxl python3-pil python3-pkg-resources python3-py python3-pymummer python3-pysam python3-pytest python3-six python3-webencodings python3.5 python3.5-minimal readline-common rename samtools sgml-base spades xml-core xz-utils Suggested packages: bzip2-doc libdpkg-perl gawk-doc gnutls-bin gpm krb5-doc krb5-user liblcms2-utils 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 gcc gfortran python-dev python-nose python-numpy-dbg python-numpy-doc python-setuptools subversion python-pytest-xdist python-mock python2.7-doc binutils binfmt-support python3-doc python3-tk python3-venv python3-genshi python3-lxml-dbg python-lxml-doc python-pil-doc python3-pil-dbg python3-setuptools python3.5-venv python3.5-doc readline-doc sgml-base-doc debhelper The following NEW packages will be installed: bamtools bwa bzip2 ca-certificates circlator dh-python fastaq file gawk krb5-locales libbamtools2.4.0 libblas-common libblas3 libcurl3-gnutls libexpat1 libffi6 libfreetype6 libgdbm3 libgfortran3 libgmp10 libgnutls30 libgomp1 libgpm2 libgssapi-krb5-2 libhat-trie0 libhogweed4 libhts1 libicu57 libidn11 libidn2-0 libjbig0 libjemalloc1 libjpeg62-turbo libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common libmagic-mgc libmagic1 libmpdec2 libmpfr4 libncurses5 libnettle6 libnghttp2-14 libnlopt0 libp11-kit0 libperl5.24 libpng16-16 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.5-minimal libpython3.5-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libsqlite3-0 libssh2-1 libssl1.1 libssw0 libtasn1-6 libtiff5 libunistring0 libwebp6 libwebpdemux2 libwebpmux2 libxml2 libxslt1.1 libyaml-0-2 mime-support mummer netbase openssl perl perl-modules-5.24 prodigal publicsuffix python python-joblib python-minimal python-numpy python-pkg-resources python-py python-pytest python-simplejson python-yaml python2.7 python2.7-minimal python3 python3-bs4 python3-chardet python3-html5lib python3-jdcal python3-lxml python3-minimal python3-openpyxl python3-pil python3-pkg-resources python3-py python3-pymummer python3-pysam python3-pytest python3-six python3-webencodings python3.5 python3.5-minimal readline-common rename samtools sgml-base spades xml-core xz-utils 0 upgraded, 124 newly installed, 0 to remove and 0 not upgraded. Need to get 55.3 MB of archives. After this operation, 231 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian stretch/main amd64 perl-modules-5.24 all 5.24.1-3+deb9u7 [2723 kB] Get:2 http://deb.debian.org/debian stretch/main amd64 libgdbm3 amd64 1.8.3-14 [30.0 kB] Get:3 http://deb.debian.org/debian stretch/main amd64 libperl5.24 amd64 5.24.1-3+deb9u7 [3527 kB] Get:4 http://deb.debian.org/debian stretch/main amd64 perl amd64 5.24.1-3+deb9u7 [218 kB] Get:5 http://deb.debian.org/debian stretch/main amd64 libpython2.7-minimal amd64 2.7.13-2+deb9u3 [389 kB] Get:6 http://deb.debian.org/debian stretch/main amd64 python2.7-minimal amd64 2.7.13-2+deb9u3 [1382 kB] Get:7 http://deb.debian.org/debian stretch/main amd64 python-minimal amd64 2.7.13-2 [40.5 kB] Get:8 http://deb.debian.org/debian stretch/main amd64 mime-support all 3.60 [36.7 kB] Get:9 http://deb.debian.org/debian stretch/main amd64 libexpat1 amd64 2.2.0-2+deb9u3 [83.7 kB] Get:10 http://deb.debian.org/debian stretch/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:11 http://deb.debian.org/debian stretch/main amd64 readline-common all 7.0-3 [70.4 kB] Get:12 http://deb.debian.org/debian stretch/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:13 http://deb.debian.org/debian stretch/main amd64 libsqlite3-0 amd64 3.16.2-5+deb9u1 [572 kB] Get:14 http://deb.debian.org/debian stretch/main amd64 libssl1.1 amd64 1.1.0l-1~deb9u1 [1358 kB] Get:15 http://deb.debian.org/debian stretch/main amd64 libpython2.7-stdlib amd64 2.7.13-2+deb9u3 [1897 kB] Get:16 http://deb.debian.org/debian stretch/main amd64 python2.7 amd64 2.7.13-2+deb9u3 [285 kB] Get:17 http://deb.debian.org/debian stretch/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:18 http://deb.debian.org/debian stretch/main amd64 python amd64 2.7.13-2 [154 kB] Get:19 http://deb.debian.org/debian stretch/main amd64 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 http://deb.debian.org/debian stretch/main amd64 gawk amd64 1:4.1.4+dfsg-1 [571 kB] Get:23 http://deb.debian.org/debian stretch/main amd64 libpython3.5-minimal amd64 3.5.3-1+deb9u1 [573 kB] Get:24 http://deb.debian.org/debian stretch/main amd64 python3.5-minimal amd64 3.5.3-1+deb9u1 [1691 kB] Get:25 http://deb.debian.org/debian stretch/main amd64 python3-minimal amd64 3.5.3-1 [35.3 kB] Get:26 http://deb.debian.org/debian stretch/main amd64 libmpdec2 amd64 2.4.2-1 [85.2 kB] Get:27 http://deb.debian.org/debian stretch/main amd64 libpython3.5-stdlib amd64 3.5.3-1+deb9u1 [2167 kB] Get:28 http://deb.debian.org/debian stretch/main amd64 python3.5 amd64 3.5.3-1+deb9u1 [229 kB] Get:29 http://deb.debian.org/debian stretch/main amd64 libpython3-stdlib amd64 3.5.3-1 [18.6 kB] Get:30 http://deb.debian.org/debian stretch/main amd64 dh-python all 2.20170125 [86.8 kB] Get:31 http://deb.debian.org/debian stretch/main amd64 python3 amd64 3.5.3-1 [21.6 kB] Get:32 http://deb.debian.org/debian stretch/main amd64 sgml-base all 1.29 [14.8 kB] Get:33 http://deb.debian.org/debian stretch/main amd64 netbase all 5.4 [19.1 kB] Get:34 http://deb.debian.org/debian stretch/main amd64 bzip2 amd64 1.0.6-8.1 [47.5 kB] Get:35 http://deb.debian.org/debian stretch/main amd64 libmagic-mgc amd64 1:5.30-1+deb9u3 [222 kB] Get:36 http://deb.debian.org/debian stretch/main amd64 libmagic1 amd64 1:5.30-1+deb9u3 [111 kB] Get:37 http://deb.debian.org/debian stretch/main amd64 file amd64 1:5.30-1+deb9u3 [64.2 kB] Get:38 http://deb.debian.org/debian stretch/main amd64 krb5-locales all 1.15-1+deb9u1 [93.8 kB] Get:39 http://deb.debian.org/debian stretch/main amd64 libnettle6 amd64 3.3-1+b2 [192 kB] Get:40 http://deb.debian.org/debian stretch/main amd64 libhogweed4 amd64 3.3-1+b2 [136 kB] Get:41 http://deb.debian.org/debian stretch/main amd64 libidn11 amd64 1.33-1+deb9u1 [115 kB] Get:42 http://deb.debian.org/debian stretch/main amd64 libp11-kit0 amd64 0.23.3-2 [111 kB] Get:43 http://deb.debian.org/debian stretch/main amd64 libtasn1-6 amd64 4.10-1.1+deb9u1 [50.6 kB] Get:44 http://deb.debian.org/debian stretch/main amd64 libgnutls30 amd64 3.5.8-5+deb9u5 [896 kB] Get:45 http://deb.debian.org/debian stretch/main amd64 libgpm2 amd64 1.20.4-6.2+b1 [34.2 kB] Get:46 http://deb.debian.org/debian stretch/main amd64 libkeyutils1 amd64 1.5.9-9 [12.4 kB] Get:47 http://deb.debian.org/debian stretch/main amd64 libkrb5support0 amd64 1.15-1+deb9u1 [61.9 kB] Get:48 http://deb.debian.org/debian stretch/main amd64 libk5crypto3 amd64 1.15-1+deb9u1 [119 kB] Get:49 http://deb.debian.org/debian stretch/main amd64 libkrb5-3 amd64 1.15-1+deb9u1 [311 kB] Get:50 http://deb.debian.org/debian stretch/main amd64 libgssapi-krb5-2 amd64 1.15-1+deb9u1 [155 kB] Get:51 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [68.4 kB] Get:52 http://deb.debian.org/debian stretch/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [105 kB] Get:53 http://deb.debian.org/debian stretch/main amd64 libldap-common all 2.4.44+dfsg-5+deb9u4 [85.7 kB] Get:54 http://deb.debian.org/debian stretch/main amd64 libldap-2.4-2 amd64 2.4.44+dfsg-5+deb9u4 [219 kB] Get:55 http://deb.debian.org/debian stretch/main amd64 libicu57 amd64 57.1-6+deb9u4 [7699 kB] Get:56 http://deb.debian.org/debian stretch/main amd64 libxml2 amd64 2.9.4+dfsg1-2.2+deb9u2 [920 kB] Get:57 http://deb.debian.org/debian stretch/main amd64 xz-utils amd64 5.2.2-1.2+b1 [266 kB] Get:58 http://deb.debian.org/debian stretch/main amd64 libbamtools2.4.0 amd64 2.4.1+dfsg-1 [190 kB] Get:59 http://deb.debian.org/debian stretch/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:60 http://deb.debian.org/debian stretch/main amd64 bamtools amd64 2.4.1+dfsg-1 [214 kB] Get:61 http://deb.debian.org/debian stretch/main amd64 bwa amd64 0.7.15-2+deb9u1 [194 kB] Get:62 http://deb.debian.org/debian stretch/main amd64 openssl amd64 1.1.0l-1~deb9u1 [749 kB] Get:63 http://deb.debian.org/debian stretch/main amd64 ca-certificates all 20200601~deb9u1 [160 kB] Get:64 http://deb.debian.org/debian stretch/main amd64 python3-pkg-resources all 33.1.1-1 [137 kB] Get:65 http://deb.debian.org/debian stretch/main amd64 libunistring0 amd64 0.9.6+really0.9.3-0.1 [279 kB] Get:66 http://deb.debian.org/debian stretch/main amd64 libidn2-0 amd64 0.16-1+deb9u1 [60.7 kB] Get:67 http://deb.debian.org/debian stretch/main amd64 libnghttp2-14 amd64 1.18.1-1+deb9u1 [79.2 kB] Get:68 http://deb.debian.org/debian stretch/main amd64 libpsl5 amd64 0.17.0-3 [41.8 kB] Get:69 http://deb.debian.org/debian stretch/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-1+b1 [60.4 kB] Get:70 http://deb.debian.org/debian stretch/main amd64 libssh2-1 amd64 1.7.0-1+deb9u1 [139 kB] Get:71 http://deb.debian.org/debian stretch/main amd64 libcurl3-gnutls amd64 7.52.1-5+deb9u10 [290 kB] Get:72 http://deb.debian.org/debian stretch/main amd64 libhts1 amd64 1.3.2-2 [257 kB] Get:73 http://deb.debian.org/debian stretch/main amd64 libncurses5 amd64 6.0+20161126-1+deb9u2 [93.4 kB] Get:74 http://deb.debian.org/debian stretch/main amd64 samtools amd64 1.3.1-3 [254 kB] Get:75 http://deb.debian.org/debian stretch/main amd64 fastaq all 3.14.0-1 [46.6 kB] Get:76 http://deb.debian.org/debian stretch/main amd64 python3-jdcal all 1.0-1.2~deb9u1 [7566 B] Get:77 http://deb.debian.org/debian stretch/main amd64 libxslt1.1 amd64 1.1.29-2.1+deb9u2 [233 kB] Get:78 http://deb.debian.org/debian stretch/main amd64 python3-lxml amd64 3.7.1-1 [900 kB] Get:79 http://deb.debian.org/debian stretch/main amd64 python3-openpyxl all 2.3.0-3 [198 kB] Get:80 http://deb.debian.org/debian stretch/main amd64 mummer amd64 3.23+dfsg-2 [809 kB] Get:81 http://deb.debian.org/debian stretch/main amd64 python3-pymummer all 0.10.1-1 [8872 B] Get:82 http://deb.debian.org/debian stretch/main amd64 python3-pysam amd64 0.10.0+ds-2 [1299 kB] Get:83 http://deb.debian.org/debian stretch/main amd64 prodigal amd64 1:2.6.3-1+b1 [714 kB] Get:84 http://deb.debian.org/debian stretch/main amd64 libgomp1 amd64 6.3.0-18+deb9u1 [73.3 kB] Get:85 http://deb.debian.org/debian stretch/main amd64 libhat-trie0 amd64 0.0~git25f9e946-2 [10.7 kB] Get:86 http://deb.debian.org/debian stretch/main amd64 libjemalloc1 amd64 3.6.0-9.1 [89.8 kB] Get:87 http://deb.debian.org/debian stretch/main amd64 libnlopt0 amd64 2.4.2+dfsg-2+b2 [162 kB] Get:88 http://deb.debian.org/debian stretch/main amd64 libssw0 amd64 1.1-1+b1 [16.5 kB] Get:89 http://deb.debian.org/debian stretch/main amd64 python-joblib all 0.10.3+git55-g660fe5d-1 [115 kB] Get:90 http://deb.debian.org/debian stretch/main amd64 libyaml-0-2 amd64 0.1.7-2 [47.6 kB] Get:91 http://deb.debian.org/debian stretch/main amd64 python-yaml amd64 3.12-1 [119 kB] Get:92 http://deb.debian.org/debian stretch/main amd64 spades amd64 3.9.1+dfsg-1 [3450 kB] Get:93 http://deb.debian.org/debian stretch/main amd64 circlator all 1.4.1-1 [4325 kB] Get:94 http://deb.debian.org/debian stretch/main amd64 libblas-common amd64 3.7.0-2 [14.2 kB] Get:95 http://deb.debian.org/debian stretch/main amd64 libquadmath0 amd64 6.3.0-18+deb9u1 [131 kB] Get:96 http://deb.debian.org/debian stretch/main amd64 libgfortran3 amd64 6.3.0-18+deb9u1 [265 kB] Get:97 http://deb.debian.org/debian stretch/main amd64 libblas3 amd64 3.7.0-2 [155 kB] Get:98 http://deb.debian.org/debian stretch/main amd64 libpng16-16 amd64 1.6.28-1+deb9u1 [280 kB] Get:99 http://deb.debian.org/debian stretch/main amd64 libfreetype6 amd64 2.6.3-3.2+deb9u1 [438 kB] Get:100 http://deb.debian.org/debian stretch/main amd64 libjpeg62-turbo amd64 1:1.5.1-2 [134 kB] Get:101 http://deb.debian.org/debian stretch/main amd64 liblapack3 amd64 3.7.0-2 [2141 kB] Get:102 http://deb.debian.org/debian stretch/main amd64 liblcms2-2 amd64 2.8-4+deb9u1 [143 kB] Get:103 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [102 kB] Get:104 http://deb.debian.org/debian stretch/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:105 http://deb.debian.org/debian stretch/main amd64 libtiff5 amd64 4.0.8-2+deb9u5 [239 kB] Get:106 http://deb.debian.org/debian stretch/main amd64 libwebp6 amd64 0.5.2-1 [235 kB] Get:107 http://deb.debian.org/debian stretch/main amd64 libwebpdemux2 amd64 0.5.2-1 [73.7 kB] Get:108 http://deb.debian.org/debian stretch/main amd64 libwebpmux2 amd64 0.5.2-1 [83.9 kB] Get:109 http://deb.debian.org/debian stretch/main amd64 python-numpy amd64 1:1.12.1-3 [1936 kB] Get:110 http://deb.debian.org/debian stretch/main amd64 python-pkg-resources all 33.1.1-1 [166 kB] Get:111 http://deb.debian.org/debian stretch/main amd64 python-py all 1.4.32-3 [82.8 kB] Get:112 http://deb.debian.org/debian stretch/main amd64 python-pytest all 3.0.6-1 [184 kB] Get:113 http://deb.debian.org/debian stretch/main amd64 python-simplejson amd64 3.10.0-1 [70.5 kB] Get:114 http://deb.debian.org/debian stretch/main amd64 python3-bs4 all 4.5.3-1 [86.6 kB] Get:115 http://deb.debian.org/debian stretch/main amd64 python3-chardet all 2.3.0-2 [96.0 kB] Get:116 http://deb.debian.org/debian stretch/main amd64 python3-six all 1.10.0-3 [14.4 kB] Get:117 http://deb.debian.org/debian stretch/main amd64 python3-webencodings all 0.5-2 [10.4 kB] Get:118 http://deb.debian.org/debian stretch/main amd64 python3-html5lib all 0.999999999-1 [86.3 kB] Get:119 http://deb.debian.org/debian stretch/main amd64 python3-pil amd64 4.0.0-4+deb9u1 [377 kB] Get:120 http://deb.debian.org/debian stretch/main amd64 python3-py all 1.4.32-3 [82.9 kB] Get:121 http://deb.debian.org/debian stretch/main amd64 python3-pytest all 3.0.6-1 [184 kB] Get:122 http://deb.debian.org/debian stretch/main amd64 rename all 0.20-4 [12.5 kB] Get:123 http://deb.debian.org/debian stretch/main amd64 xml-core all 0.17 [23.2 kB] Get:124 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 55.3 MB in 1s (42.2 MB/s) Selecting previously unselected package perl-modules-5.24. 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Unpacking libwebpmux2:amd64 (0.5.2-1) ... Selecting previously unselected package python-numpy. Preparing to unpack .../78-python-numpy_1%3a1.12.1-3_amd64.deb ... Unpacking python-numpy (1:1.12.1-3) ... Selecting previously unselected package python-pkg-resources. Preparing to unpack .../79-python-pkg-resources_33.1.1-1_all.deb ... Unpacking python-pkg-resources (33.1.1-1) ... Selecting previously unselected package python-py. Preparing to unpack .../80-python-py_1.4.32-3_all.deb ... Unpacking python-py (1.4.32-3) ... Selecting previously unselected package python-pytest. Preparing to unpack .../81-python-pytest_3.0.6-1_all.deb ... Unpacking python-pytest (3.0.6-1) ... Selecting previously unselected package python-simplejson. Preparing to unpack .../82-python-simplejson_3.10.0-1_amd64.deb ... Unpacking python-simplejson (3.10.0-1) ... Selecting previously unselected package python3-bs4. Preparing to unpack .../83-python3-bs4_4.5.3-1_all.deb ... Unpacking python3-bs4 (4.5.3-1) ... Selecting previously unselected package python3-chardet. Preparing to unpack .../84-python3-chardet_2.3.0-2_all.deb ... Unpacking python3-chardet (2.3.0-2) ... Selecting previously unselected package python3-six. Preparing to unpack .../85-python3-six_1.10.0-3_all.deb ... Unpacking python3-six (1.10.0-3) ... Selecting previously unselected package python3-webencodings. Preparing to unpack .../86-python3-webencodings_0.5-2_all.deb ... Unpacking python3-webencodings (0.5-2) ... Selecting previously unselected package python3-html5lib. Preparing to unpack .../87-python3-html5lib_0.999999999-1_all.deb ... Unpacking python3-html5lib (0.999999999-1) ... Selecting previously unselected package python3-pil:amd64. Preparing to unpack .../88-python3-pil_4.0.0-4+deb9u1_amd64.deb ... Unpacking python3-pil:amd64 (4.0.0-4+deb9u1) ... Selecting previously unselected package python3-py. Preparing to unpack .../89-python3-py_1.4.32-3_all.deb ... Unpacking python3-py (1.4.32-3) ... Selecting previously unselected package python3-pytest. Preparing to unpack .../90-python3-pytest_3.0.6-1_all.deb ... Unpacking python3-pytest (3.0.6-1) ... Selecting previously unselected package rename. Preparing to unpack .../91-rename_0.20-4_all.deb ... Unpacking rename (0.20-4) ... Selecting previously unselected package xml-core. Preparing to unpack .../92-xml-core_0.17_all.deb ... Unpacking xml-core (0.17) ... Selecting previously unselected package publicsuffix. Preparing to unpack .../93-publicsuffix_20190415.1030-0+deb9u1_all.deb ... Unpacking publicsuffix (20190415.1030-0+deb9u1) ... Setting up libquadmath0:amd64 (6.3.0-18+deb9u1) ... Setting up libncurses5:amd64 (6.0+20161126-1+deb9u2) ... Setting up libgomp1: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 bwa (0.7.15-2+deb9u1) ... Setting up libjpeg62-turbo:amd64 (1:1.5.1-2) ... Setting up prodigal (1:2.6.3-1+b1) ... Setting up libnghttp2-14:amd64 (1.18.1-1+deb9u1) ... Setting up mime-support (3.60) ... Setting up libjemalloc1 (3.6.0-9.1) ... Setting up libpng16-16:amd64 (1.6.28-1+deb9u1) ... Setting up liblcms2-2:amd64 (2.8-4+deb9u1) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libgpm2:amd64 (1.20.4-6.2+b1) ... Setting up libldap-common (2.4.44+dfsg-5+deb9u4) ... Setting up libbamtools2.4.0 (2.4.1+dfsg-1) ... Setting up libssw0:amd64 (1.1-1+b1) ... Setting up libblas-common (3.7.0-2) ... Setting up libgfortran3:amd64 (6.3.0-18+deb9u1) ... 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 libtiff5:amd64 (4.0.8-2+deb9u5) ... Setting up sgml-base (1.29) ... Setting up gawk (1:4.1.4+dfsg-1) ... Setting up libicu57:amd64 (57.1-6+deb9u4) ... Setting up libxml2:amd64 (2.9.4+dfsg1-2.2+deb9u2) ... Setting up libfreetype6:amd64 (2.6.3-3.2+deb9u1) ... 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 libxslt1.1:amd64 (1.1.29-2.1+deb9u2) ... 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 libyaml-0-2:amd64 (0.1.7-2) ... Setting up libblas3 (3.7.0-2) ... update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode Setting up libssh2-1:amd64 (1.7.0-1+deb9u1) ... 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 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 xml-core (0.17) ... 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 libnlopt0:amd64 (2.4.2+dfsg-2+b2) ... 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 libhat-trie0:amd64 (0.0~git25f9e946-2) ... Setting up netbase (5.4) ... Setting up libwebp6:amd64 (0.5.2-1) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libidn2-0:amd64 (0.16-1+deb9u1) ... 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 liblapack3 (3.7.0-2) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up libpython3.5-stdlib:amd64 (3.5.3-1+deb9u1) ... Setting up python2.7 (2.7.13-2+deb9u3) ... Setting up libwebpmux2:amd64 (0.5.2-1) ... Setting up bamtools (2.4.1+dfsg-1) ... 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 libwebpdemux2:amd64 (0.5.2-1) ... Setting up python (2.7.13-2) ... Setting up python-simplejson (3.10.0-1) ... 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 python-yaml (3.12-1) ... Setting up python-joblib (0.10.3+git55-g660fe5d-1) ... Setting up libgnutls30:amd64 (3.5.8-5+deb9u5) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Setting up python-pkg-resources (33.1.1-1) ... Setting up python-numpy (1:1.12.1-3) ... Setting up libldap-2.4-2:amd64 (2.4.44+dfsg-5+deb9u4) ... Setting up libkrb5-3:amd64 (1.15-1+deb9u1) ... Setting up python-py (1.4.32-3) ... Setting up python-pytest (3.0.6-1) ... 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 spades (3.9.1+dfsg-1) ... Setting up python3 (3.5.3-1) ... Setting up python3-lxml (3.7.1-1) ... Setting up python3-six (1.10.0-3) ... Setting up python3-pkg-resources (33.1.1-1) ... Setting up python3-bs4 (4.5.3-1) ... Setting up fastaq (3.14.0-1) ... Setting up python3-pysam (0.10.0+ds-2) ... Setting up python3-chardet (2.3.0-2) ... Setting up python3-pymummer (0.10.1-1) ... Setting up dh-python (2.20170125) ... Setting up python3-jdcal (1.0-1.2~deb9u1) ... Setting up python3-pil:amd64 (4.0.0-4+deb9u1) ... Setting up python3-webencodings (0.5-2) ... Setting up python3-py (1.4.32-3) ... Setting up python3-pytest (3.0.6-1) ... Setting up python3-html5lib (0.999999999-1) ... Setting up python3-openpyxl (2.3.0-3) ... Setting up circlator (1.4.1-1) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for sgml-base (1.29) ... Processing triggers for ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m26.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-y', 'install', 'circlator'] 0m26.7s INFO: Running scripts post_install 0m26.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_install_exceptions'] 0m26.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_install_exceptions'] 0m26.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 0m27.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 0m27.3s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpgwfwvfkq to buster 0m27.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m27.3s INFO: Running scripts pre_distupgrade 0m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_exceptions'] 0m27.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_exceptions'] 0m27.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m27.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m27.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'update'] 0m30.2s 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 (6695 kB/s) Reading package lists... 0m30.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'update'] 0m30.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-yf', 'dist-upgrade'] 1m28.5s 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 libbamtools2.4.0 libblas-common libgdbm3 libgfortran3 libhts1 libicu57 libidn11 libjemalloc1 libmpfr4 libperl5.24 libpython3.5-minimal libpython3.5-stdlib libunistring0 libwebpmux2 python3.5 python3.5-minimal rename sgml-base xml-core Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: binutils binutils-common binutils-x86-64-linux-gnu cpp cpp-8 cwltool e2fsprogs-l10n fdisk fontconfig-config fonts-dejavu-core fonts-glyphicons-halflings g++ g++-8 gcc gcc-8 gcc-8-base gdal-data javascript-common libaec0 libarmadillo9 libarpack2 libasan5 libatomic1 libbamtools2.5.1 libbinutils libbrotli1 libc-ares2 libc-dev-bin libc6-dev libcc1-0 libcharls2 libcom-err2 libdap25 libdapclient6v5 libdapserver7v5 libdeflate0 libepsilon1 libext2fs2 libfontconfig1 libfreexl1 libfyba0 libgcc-8-dev libgdal20 libgdbm-compat4 libgdbm6 libgeos-3.7.1 libgeos-c1v5 libgeotiff2 libgfortran5 libgif7 libgpg-error-l10n libhdf4-0-alt libhdf5-103 libhts2 libicu63 libimagequant0 libisl19 libitm1 libjs-bootstrap libjs-jquery libjs-sphinxdoc libjs-underscore libjson-c3 libkmlbase1 libkmlconvenience1 libkmldom1 libkmlengine1 libkmlregionator1 libkmlxsd1 liblsan0 libltdl7 libmariadb3 libminizip1 libmpc3 libmpfr6 libmpx2 libncurses6 libncursesw6 libnetcdf13 libnode64 libnspr4 libnss3 libodbc1 libogdi3.2 libopenjp2-7 libperl5.28 libpoppler82 libpopt0 libpq5 libprocps7 libproj13 libpython2-stdlib libpython3.7-minimal libpython3.7-stdlib libqhull7 libseccomp2 libspatialite7 libstdc++-8-dev libsuperlu5 libsz2 libtinfo6 libtsan0 libubsan1 libunistring2 liburiparser1 libuv1 libwebpmux3 libxerces-c3.2 libzstd1 linux-libc-dev lsb-base manpages manpages-dev mariadb-common mysql-common nodejs nodejs-doc odbcinst odbcinst1debian2 perl-modules-5.28 poppler-data procps proj-bin proj-data psmisc python-atomicwrites python-attr python-configparser python-funcsigs python-future python-lz4 python-more-itertools python-pathlib2 python-pluggy python-psutil python-scandir python-six python2 python2-minimal python3-atomicwrites python3-attr python3-cachecontrol python3-certifi python3-dateutil python3-decorator python3-distutils python3-et-xmlfile python3-gdal python3-idna python3-isodate python3-lib2to3 python3-lockfile python3-mistune python3-more-itertools python3-mypy python3-mypy-extensions python3-networkx python3-numpy python3-olefile python3-pluggy python3-prov python3-psutil python3-pyparsing python3-rdflib python3-rdflib-jsonld python3-requests python3-ruamel.yaml python3-schema-salad python3-scipy python3-shellescape python3-soupsieve python3-sparqlwrapper python3-typed-ast python3-typing-extensions python3-urllib3 python3-yaml python3.7 python3.7-minimal tzdata ucf The following packages will be upgraded: adduser apt bamtools base-files base-passwd bash bsdutils bwa bzip2 ca-certificates circlator coreutils dash debconf debian-archive-keyring debianutils dh-python diffutils dpkg e2fslibs e2fsprogs fastaq file findutils gawk gpgv grep gzip hostname init-system-helpers krb5-locales libacl1 libapt-pkg5.0 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libbz2-1.0 libc-bin libc6 libcap-ng0 libcomerr2 libcurl3-gnutls libdb5.3 libdebconfclient0 libexpat1 libfdisk1 libffi6 libfreetype6 libgcc1 libgcrypt20 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgpm2 libgssapi-krb5-2 libhat-trie0 libhogweed4 libidn11 libidn2-0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblz4-1 liblzma5 libmagic-mgc libmagic1 libmount1 libmpdec2 libncurses5 libncursesw5 libnettle6 libnghttp2-14 libnlopt0 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre3 libpng16-16 libpsl5 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libselinux1 libsemanage-common libsemanage1 libsepol1 libsigsegv2 libsmartcols1 libsqlite3-0 libss2 libssh2-1 libssl1.1 libssw0 libstdc++6 libsystemd0 libtasn1-6 libtiff5 libtinfo5 libudev1 libuuid1 libwebp6 libwebpdemux2 libxml2 libxslt1.1 libyaml-0-2 login mime-support mount multiarch-support mummer ncurses-base ncurses-bin netbase openssl passwd perl perl-base prodigal publicsuffix python python-joblib python-minimal python-numpy python-pkg-resources python-py python-pytest python-simplejson python-yaml python2.7 python2.7-minimal python3 python3-bs4 python3-chardet python3-html5lib python3-jdcal python3-lxml python3-minimal python3-openpyxl python3-pil python3-pkg-resources python3-py python3-pymummer python3-pysam python3-pytest python3-six python3-webencodings readline-common rename samtools sed sensible-utils spades sysvinit-utils tar util-linux xml-core xz-utils zlib1g 176 upgraded, 180 newly installed, 0 to remove and 0 not upgraded. Need to get 192 MB of archives. After this operation, 544 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 base-files amd64 10.3+deb10u13 [69.9 kB] Get:2 http://deb.debian.org/debian buster/main amd64 libc6 amd64 2.28-10+deb10u1 [2863 kB] Get:3 http://deb.debian.org/debian buster/main amd64 libc-bin amd64 2.28-10+deb10u1 [795 kB] Get:4 http://deb.debian.org/debian buster/main amd64 gcc-8-base amd64 8.3.0-6 [191 kB] Get:5 http://deb.debian.org/debian buster/main amd64 libgcc1 amd64 1:8.3.0-6 [40.6 kB] Get:6 http://deb.debian.org/debian buster/main amd64 libtinfo6 amd64 6.1+20181013-2+deb10u2 [325 kB] Get:7 http://deb.debian.org/debian buster/main amd64 debianutils amd64 4.8.6.1 [100 kB] Get:8 http://deb.debian.org/debian buster/main amd64 bash amd64 5.0-4 [1378 kB] Get:9 http://deb.debian.org/debian buster/main amd64 bsdutils amd64 1:2.33.1-0.1 [121 kB] Get:10 http://deb.debian.org/debian buster/main amd64 coreutils amd64 8.30-3 [2708 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libzstd1 amd64 1.3.8+dfsg-3+deb10u2 [237 kB] Get:12 http://deb.debian.org/debian buster/main amd64 libnettle6 amd64 3.4.1-1+deb10u1 [215 kB] Get:13 http://deb.debian.org/debian buster/main amd64 libhogweed4 amd64 3.4.1-1+deb10u1 [141 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libgmp10 amd64 2:6.1.2+dfsg-4+deb10u1 [251 kB] Get:15 http://deb.debian.org/debian buster/main amd64 libunistring2 amd64 0.9.10-1 [381 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libidn2-0 amd64 2.0.5-1+deb10u1 [76.7 kB] Get:17 http://deb.debian.org/debian buster/main amd64 libffi6 amd64 3.2.1-9 [20.8 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libp11-kit0 amd64 0.23.15-2+deb10u1 [316 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libtasn1-6 amd64 4.13-3 [51.9 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libgnutls30 amd64 3.6.7-4+deb10u8 [1126 kB] Get:21 http://deb.debian.org/debian buster/main amd64 libseccomp2 amd64 2.3.3-4 [41.4 kB] Get:22 http://deb.debian.org/debian buster/main amd64 debian-archive-keyring all 2019.1+deb10u1 [93.5 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libaudit-common all 1:2.8.4-3 [22.4 kB] Get:24 http://deb.debian.org/debian buster/main amd64 libcap-ng0 amd64 0.7.9-2 [14.3 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libaudit1 amd64 1:2.8.4-3 [57.3 kB] Get:26 http://deb.debian.org/debian buster/main amd64 debconf all 1.5.71+deb10u1 [145 kB] Get:27 http://deb.debian.org/debian buster/main amd64 libpam0g amd64 1.3.1-5 [126 kB] Get:28 http://deb.debian.org/debian buster/main amd64 libpcre3 amd64 2:8.39-12 [341 kB] Get:29 http://deb.debian.org/debian buster/main amd64 libselinux1 amd64 2.8-1+b1 [86.9 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libsepol1 amd64 2.8-1 [263 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libsemanage-common all 2.8-2 [17.7 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libsemanage1 amd64 2.8-2 [96.5 kB] Get:33 http://deb.debian.org/debian buster/main amd64 bzip2 amd64 1.0.6-9.2~deb10u1 [48.4 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libbz2-1.0 amd64 1.0.6-9.2~deb10u1 [45.3 kB] Get:35 http://deb.debian.org/debian buster/main amd64 libpam-modules-bin amd64 1.3.1-5 [107 kB] Get:36 http://deb.debian.org/debian buster/main amd64 libpam-modules amd64 1.3.1-5 [309 kB] Get:37 http://deb.debian.org/debian buster/main amd64 passwd amd64 1:4.5-1.1 [1005 kB] Get:38 http://deb.debian.org/debian buster/main amd64 adduser all 3.118 [240 kB] Get:39 http://deb.debian.org/debian buster/main amd64 libgpg-error0 amd64 1.35-1 [71.1 kB] Get:40 http://deb.debian.org/debian buster/main amd64 libgcrypt20 amd64 1.8.4-5+deb10u1 [556 kB] Get:41 http://deb.debian.org/debian buster/main amd64 zlib1g amd64 1:1.2.11.dfsg-1+deb10u1 [90.8 kB] Get:42 http://deb.debian.org/debian buster/main amd64 gpgv amd64 2.2.12-1+deb10u2 [584 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libstdc++6 amd64 8.3.0-6 [395 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libapt-pkg5.0 amd64 1.8.2.3 [967 kB] Get:45 http://deb.debian.org/debian buster/main amd64 apt amd64 1.8.2.3 [1418 kB] Get:46 http://deb.debian.org/debian buster/main amd64 liblz4-1 amd64 1.8.3-1+deb10u1 [53.3 kB] Get:47 http://deb.debian.org/debian buster/main amd64 liblzma5 amd64 5.2.4-1+deb10u1 [153 kB] Get:48 http://deb.debian.org/debian buster/main amd64 libsystemd0 amd64 241-7~deb10u8 [331 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libudev1 amd64 241-7~deb10u8 [151 kB] Get:50 http://deb.debian.org/debian buster/main amd64 tar amd64 1.30+dfsg-6 [780 kB] Get:51 http://deb.debian.org/debian buster/main amd64 dpkg amd64 1.19.8 [2210 kB] Get:52 http://deb.debian.org/debian buster/main amd64 dash amd64 0.5.10.2-5 [112 kB] Get:53 http://deb.debian.org/debian buster/main amd64 diffutils amd64 1:3.7-3 [371 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libcom-err2 amd64 1.44.5-1+deb10u3 [68.4 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libcomerr2 amd64 1.44.5-1+deb10u3 [64.2 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libext2fs2 amd64 1.44.5-1+deb10u3 [221 kB] Get:57 http://deb.debian.org/debian buster/main amd64 e2fslibs amd64 1.44.5-1+deb10u3 [64.2 kB] Get:58 http://deb.debian.org/debian buster/main amd64 e2fsprogs amd64 1.44.5-1+deb10u3 [576 kB] Get:59 http://deb.debian.org/debian buster/main amd64 findutils amd64 4.6.0+git+20190209-2 [684 kB] Get:60 http://deb.debian.org/debian buster/main amd64 grep amd64 3.3-1 [373 kB] Get:61 http://deb.debian.org/debian buster/main amd64 gzip amd64 1.9-3+deb10u1 [128 kB] Get:62 http://deb.debian.org/debian buster/main amd64 hostname amd64 3.21 [14.8 kB] Get:63 http://deb.debian.org/debian buster/main amd64 libuuid1 amd64 2.33.1-0.1 [78.3 kB] Get:64 http://deb.debian.org/debian buster/main amd64 libblkid1 amd64 2.33.1-0.1 [195 kB] Get:65 http://deb.debian.org/debian buster/main amd64 libsmartcols1 amd64 2.33.1-0.1 [150 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libfdisk1 amd64 2.33.1-0.1 [234 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libncursesw6 amd64 6.1+20181013-2+deb10u2 [132 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libmount1 amd64 2.33.1-0.1 [207 kB] Get:69 http://deb.debian.org/debian buster/main amd64 fdisk amd64 2.33.1-0.1 [179 kB] Get:70 http://deb.debian.org/debian buster/main amd64 login amd64 1:4.5-1.1 [751 kB] Get:71 http://deb.debian.org/debian buster/main amd64 util-linux amd64 2.33.1-0.1 [1062 kB] Get:72 http://deb.debian.org/debian buster/main amd64 mount amd64 2.33.1-0.1 [174 kB] Get:73 http://deb.debian.org/debian buster/main amd64 ncurses-bin amd64 6.1+20181013-2+deb10u2 [406 kB] Get:74 http://deb.debian.org/debian buster/main amd64 perl-modules-5.28 all 5.28.1-6+deb10u1 [2873 kB] Get:75 http://deb.debian.org/debian buster/main amd64 libgdbm6 amd64 1.18.1-4 [64.7 kB] Get:76 http://deb.debian.org/debian buster/main amd64 libgdbm-compat4 amd64 1.18.1-4 [44.1 kB] Get:77 http://deb.debian.org/debian buster/main amd64 libperl5.28 amd64 5.28.1-6+deb10u1 [3894 kB] Get:78 http://deb.debian.org/debian buster/main amd64 perl amd64 5.28.1-6+deb10u1 [204 kB] Get:79 http://deb.debian.org/debian buster/main amd64 perl-base amd64 5.28.1-6+deb10u1 [1514 kB] Get:80 http://deb.debian.org/debian buster/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.5 [683 kB] Get:81 http://deb.debian.org/debian buster/main amd64 sed amd64 4.7-1 [310 kB] Get:82 http://deb.debian.org/debian buster/main amd64 libdebconfclient0 amd64 0.249 [49.1 kB] Get:83 http://deb.debian.org/debian buster/main amd64 base-passwd amd64 3.5.46 [56.7 kB] Get:84 http://deb.debian.org/debian buster/main amd64 init-system-helpers all 1.56+nmu1 [46.8 kB] Get:85 http://deb.debian.org/debian buster/main amd64 libncurses5 amd64 6.1+20181013-2+deb10u2 [96.2 kB] Get:86 http://deb.debian.org/debian buster/main amd64 libtinfo5 amd64 6.1+20181013-2+deb10u2 [321 kB] Get:87 http://deb.debian.org/debian buster/main amd64 libncursesw5 amd64 6.1+20181013-2+deb10u2 [118 kB] Get:88 http://deb.debian.org/debian buster/main amd64 ncurses-base all 6.1+20181013-2+deb10u2 [258 kB] Get:89 http://deb.debian.org/debian buster/main amd64 sysvinit-utils amd64 2.93-8 [78.4 kB] Get:90 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:91 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get:92 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get:93 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:94 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:95 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get:96 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get:97 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get:98 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get:99 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u4 [108 kB] Get:100 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get:101 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:102 http://deb.debian.org/debian buster/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u1 [641 kB] Get:103 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get:104 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get:105 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get:106 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get:107 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get:108 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get:109 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get:110 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get:111 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get:112 http://deb.debian.org/debian buster/main amd64 libmpfr6 amd64 4.0.2-1 [775 kB] Get:113 http://deb.debian.org/debian buster/main amd64 gawk amd64 1:4.2.1+dfsg-1 [660 kB] Get:114 http://deb.debian.org/debian buster/main amd64 poppler-data all 0.4.9-2 [1473 kB] Get:115 http://deb.debian.org/debian buster/main amd64 libpython3.7-minimal amd64 3.7.3-2+deb10u3 [589 kB] Get:116 http://deb.debian.org/debian buster/main amd64 python3.7-minimal amd64 3.7.3-2+deb10u3 [1737 kB] Get:117 http://deb.debian.org/debian buster/main amd64 dh-python all 3.20190308 [99.3 kB] Get:118 http://deb.debian.org/debian buster/main amd64 python3-pysam amd64 0.15.2+ds-2 [1661 kB] Get:119 http://deb.debian.org/debian buster/main amd64 python3-lxml amd64 4.3.2-1+deb10u4 [1163 kB] Get:120 http://deb.debian.org/debian buster/main amd64 python3-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:121 http://deb.debian.org/debian buster/main amd64 python3-minimal amd64 3.7.3-1 [36.6 kB] Get:122 http://deb.debian.org/debian buster/main amd64 python3 amd64 3.7.3-1 [61.5 kB] Get:123 http://deb.debian.org/debian buster/main amd64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get:124 http://deb.debian.org/debian buster/main amd64 python3-distutils all 3.7.3-1 [142 kB] Get:125 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:126 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u4 [158 kB] Get:127 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u4 [369 kB] Get:128 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u4 [122 kB] Get:129 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u4 [65.9 kB] Get:130 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] Get:131 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] Get:132 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u7 [90.1 kB] Get:133 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u7 [224 kB] Get:134 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get:135 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:136 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get:137 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:138 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get:139 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] Get:140 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] Get:141 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 [8293 kB] Get:142 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u4 [689 kB] Get:143 http://deb.debian.org/debian buster/main amd64 libxslt1.1 amd64 1.1.32-2.2~deb10u1 [237 kB] Get:144 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get:145 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u3 [380 kB] Get:146 http://deb.debian.org/debian buster/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get:147 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get:148 http://deb.debian.org/debian buster/main amd64 liblcms2-2 amd64 2.9-3 [145 kB] Get:149 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get:150 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u4 [271 kB] Get:151 http://deb.debian.org/debian buster/main amd64 libwebpdemux2 amd64 0.6.1-2+deb10u1 [87.6 kB] Get:152 http://deb.debian.org/debian buster/main amd64 libwebpmux3 amd64 0.6.1-2+deb10u1 [97.8 kB] Get:153 http://deb.debian.org/debian buster/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB] Get:154 http://deb.debian.org/debian buster/main amd64 libpython3.7-stdlib amd64 3.7.3-2+deb10u3 [1734 kB] Get:155 http://deb.debian.org/debian buster/main amd64 python3.7 amd64 3.7.3-2+deb10u3 [330 kB] Get:156 http://deb.debian.org/debian buster/main amd64 libpython3-stdlib amd64 3.7.3-1 [20.0 kB] Get:157 http://deb.debian.org/debian buster/main amd64 libpam-runtime all 1.3.1-5 [211 kB] Get:158 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:159 http://deb.debian.org/debian buster/main amd64 libattr1 amd64 1:2.4.48-4 [21.3 kB] Get:160 http://deb.debian.org/debian buster/main amd64 libacl1 amd64 2.2.53-4 [30.4 kB] Get:161 http://deb.debian.org/debian buster/main amd64 libss2 amd64 1.44.5-1+deb10u3 [72.9 kB] Get:162 http://deb.debian.org/debian buster/main amd64 tzdata all 2021a-0+deb10u6 [265 kB] Get:163 http://deb.debian.org/debian buster/main amd64 netbase all 5.6 [19.4 kB] Get:164 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get:165 http://deb.debian.org/debian buster/main amd64 libprocps7 amd64 2:3.3.15-2 [61.7 kB] Get:166 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get:167 http://deb.debian.org/debian buster/main amd64 procps amd64 2:3.3.15-2 [259 kB] Get:168 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get:169 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get:170 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get:171 http://deb.debian.org/debian buster/main amd64 krb5-locales all 1.17-3+deb10u4 [95.6 kB] Get:172 http://deb.debian.org/debian buster/main amd64 manpages all 4.16-2 [1295 kB] Get:173 http://deb.debian.org/debian buster/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:174 http://deb.debian.org/debian buster/main amd64 xz-utils amd64 5.2.4-1+deb10u1 [183 kB] Get:175 http://deb.debian.org/debian buster/main amd64 libbamtools2.5.1 amd64 2.5.1+dfsg-3 [154 kB] Get:176 http://deb.debian.org/debian buster/main amd64 bamtools amd64 2.5.1+dfsg-3 [171 kB] Get:177 http://deb.debian.org/debian buster/main amd64 binutils-common amd64 2.31.1-16 [2073 kB] Get:178 http://deb.debian.org/debian buster/main amd64 libbinutils amd64 2.31.1-16 [478 kB] Get:179 http://deb.debian.org/debian buster/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-16 [1823 kB] Get:180 http://deb.debian.org/debian buster/main amd64 binutils amd64 2.31.1-16 [56.8 kB] Get:181 http://deb.debian.org/debian buster/main amd64 bwa amd64 0.7.17-3 [195 kB] Get:182 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1n-0+deb10u3 [855 kB] Get:183 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get:184 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] Get:185 http://deb.debian.org/debian buster/main amd64 samtools amd64 1.9-4 [443 kB] Get:186 http://deb.debian.org/debian buster/main amd64 fastaq all 3.17.0-2 [47.8 kB] Get:187 http://deb.debian.org/debian buster/main amd64 python3-et-xmlfile all 1.0.1-2 [9026 B] Get:188 http://deb.debian.org/debian buster/main amd64 python3-jdcal all 1.0-1.2 [7488 B] Get:189 http://deb.debian.org/debian buster/main amd64 python3-openpyxl all 2.4.9-1 [220 kB] Get:190 http://deb.debian.org/debian buster/main amd64 mummer amd64 3.23+dfsg-4 [809 kB] Get:191 http://deb.debian.org/debian buster/main amd64 python3-pymummer all 0.10.3-2 [9268 B] Get:192 http://deb.debian.org/debian buster/main amd64 prodigal amd64 1:2.6.3-4 [695 kB] Get:193 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:194 http://deb.debian.org/debian buster/main amd64 libhat-trie0 amd64 0.1.2-2 [11.8 kB] Get:195 http://deb.debian.org/debian buster/main amd64 libnlopt0 amd64 2.4.2+dfsg-8+b1 [165 kB] Get:196 http://deb.debian.org/debian buster/main amd64 libssw0 amd64 1.1-2 [16.5 kB] Get:197 http://deb.debian.org/debian buster/main amd64 python-joblib all 0.13.0-2 [190 kB] Get:198 http://deb.debian.org/debian buster/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get:199 http://deb.debian.org/debian buster/main amd64 python-yaml amd64 3.13-2 [127 kB] Get:200 http://deb.debian.org/debian buster/main amd64 spades amd64 3.13.0+dfsg2-2 [4755 kB] Get:201 http://deb.debian.org/debian buster/main amd64 circlator amd64 1.5.5-3 [4326 kB] Get:202 http://deb.debian.org/debian buster/main amd64 libisl19 amd64 0.20-2 [587 kB] Get:203 http://deb.debian.org/debian buster/main amd64 libmpc3 amd64 1.1.0-1 [41.3 kB] Get:204 http://deb.debian.org/debian buster/main amd64 cpp-8 amd64 8.3.0-6 [8914 kB] Get:205 http://deb.debian.org/debian buster/main amd64 cpp amd64 4:8.3.0-1 [19.4 kB] Get:206 http://deb.debian.org/debian buster/main amd64 python3-typed-ast amd64 1.3.1-1 [138 kB] Get:207 http://deb.debian.org/debian buster/main amd64 python3-mypy-extensions all 0.4.1-1 [5234 B] Get:208 http://deb.debian.org/debian buster/main amd64 python3-psutil amd64 5.5.1-1 [166 kB] Get:209 http://deb.debian.org/debian buster/main amd64 python3-mypy all 0.670-2 [781 kB] Get:210 http://deb.debian.org/debian buster/main amd64 python3-six all 1.12.0-1 [15.7 kB] Get:211 http://deb.debian.org/debian buster/main amd64 python3-dateutil all 2.7.3-3 [64.5 kB] Get:212 http://deb.debian.org/debian buster/main amd64 python3-decorator all 4.3.0-1.1 [14.5 kB] Get:213 http://deb.debian.org/debian buster/main amd64 python3-networkx all 2.2-1 [818 kB] Get:214 http://deb.debian.org/debian buster/main amd64 python3-isodate all 0.6.0-1 [24.9 kB] Get:215 http://deb.debian.org/debian buster/main amd64 python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB] Get:216 http://deb.debian.org/debian buster/main amd64 python3-rdflib all 4.2.2-2 [258 kB] Get:217 http://deb.debian.org/debian buster/main amd64 python3-prov all 1.5.2-1 [94.4 kB] Get:218 http://deb.debian.org/debian buster/main amd64 python3-certifi all 2018.8.24-1 [140 kB] Get:219 http://deb.debian.org/debian buster/main amd64 python3-chardet all 3.0.4-3 [80.5 kB] Get:220 http://deb.debian.org/debian buster/main amd64 python3-idna all 2.6-1 [34.3 kB] Get:221 http://deb.debian.org/debian buster/main amd64 python3-urllib3 all 1.24.1-1 [97.1 kB] Get:222 http://deb.debian.org/debian buster/main amd64 python3-requests all 2.21.0-1 [66.9 kB] Get:223 http://deb.debian.org/debian buster/main amd64 python3-ruamel.yaml amd64 0.15.34-1+b1 [248 kB] Get:224 http://deb.debian.org/debian buster/main amd64 python3-cachecontrol all 0.11.7-1 [15.2 kB] Get:225 http://deb.debian.org/debian buster/main amd64 python3-lockfile all 1:0.12.2-2 [17.1 kB] Get:226 http://deb.debian.org/debian buster/main amd64 python3-mistune all 0.8.4-1 [16.1 kB] Get:227 http://deb.debian.org/debian buster/main amd64 python3-rdflib-jsonld all 0.4.0-4 [12.3 kB] Get:228 http://deb.debian.org/debian buster/main amd64 python3-typing-extensions all 3.7.2-1 [23.0 kB] Get:229 http://deb.debian.org/debian buster/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-1 [164 kB] Get:230 http://deb.debian.org/debian buster/main amd64 libjs-bootstrap all 3.4.1+dfsg-1 [173 kB] Get:231 http://deb.debian.org/debian buster/main amd64 python3-schema-salad all 3.0.20181206233650-2 [272 kB] Get:232 http://deb.debian.org/debian buster/main amd64 python3-shellescape all 3.4.1-3 [4800 B] Get:233 http://deb.debian.org/debian buster/main amd64 cwltool all 1.0.20181217162649+dfsg-10 [176 kB] Get:234 http://deb.debian.org/debian buster/main amd64 e2fsprogs-l10n all 1.44.5-1+deb10u3 [504 kB] Get:235 http://deb.debian.org/debian buster/main amd64 fonts-dejavu-core all 2.37-1 [1068 kB] Get:236 http://deb.debian.org/debian buster/main amd64 fontconfig-config all 2.13.1-2 [280 kB] Get:237 http://deb.debian.org/debian buster/main amd64 libcc1-0 amd64 8.3.0-6 [46.6 kB] Get:238 http://deb.debian.org/debian buster/main amd64 libitm1 amd64 8.3.0-6 [27.7 kB] Get:239 http://deb.debian.org/debian buster/main amd64 libatomic1 amd64 8.3.0-6 [9032 B] Get:240 http://deb.debian.org/debian buster/main amd64 libasan5 amd64 8.3.0-6 [362 kB] Get:241 http://deb.debian.org/debian buster/main amd64 liblsan0 amd64 8.3.0-6 [131 kB] Get:242 http://deb.debian.org/debian buster/main amd64 libtsan0 amd64 8.3.0-6 [283 kB] Get:243 http://deb.debian.org/debian buster/main amd64 libubsan1 amd64 8.3.0-6 [120 kB] Get:244 http://deb.debian.org/debian buster/main amd64 libmpx2 amd64 8.3.0-6 [11.4 kB] Get:245 http://deb.debian.org/debian buster/main amd64 libgcc-8-dev amd64 8.3.0-6 [2298 kB] Get:246 http://deb.debian.org/debian buster/main amd64 gcc-8 amd64 8.3.0-6 [9452 kB] Get:247 http://deb.debian.org/debian buster/main amd64 gcc amd64 4:8.3.0-1 [5196 B] Get:248 http://deb.debian.org/debian buster/main amd64 libc-dev-bin amd64 2.28-10+deb10u1 [276 kB] Get:249 http://deb.debian.org/debian buster/main amd64 linux-libc-dev amd64 4.19.249-2 [1530 kB] Get:250 http://deb.debian.org/debian buster/main amd64 libc6-dev amd64 2.28-10+deb10u1 [2692 kB] Get:251 http://deb.debian.org/debian buster/main amd64 libstdc++-8-dev amd64 8.3.0-6 [1532 kB] Get:252 http://deb.debian.org/debian buster/main amd64 g++-8 amd64 8.3.0-6 [9752 kB] Get:253 http://deb.debian.org/debian buster/main amd64 g++ amd64 4:8.3.0-1 [1644 B] Get:254 http://deb.debian.org/debian buster/main amd64 gdal-data all 2.4.0+dfsg-1 [744 kB] Get:255 http://deb.debian.org/debian buster/main amd64 javascript-common all 11 [6120 B] Get:256 http://deb.debian.org/debian buster/main amd64 libaec0 amd64 1.0.2-1 [20.1 kB] Get:257 http://deb.debian.org/debian buster/main amd64 libarpack2 amd64 3.7.0-2 [102 kB] Get:258 http://deb.debian.org/debian buster/main amd64 libsuperlu5 amd64 5.2.1+dfsg1-4 [161 kB] Get:259 http://deb.debian.org/debian buster/main amd64 libarmadillo9 amd64 1:9.200.7+dfsg-1 [88.6 kB] Get:260 http://deb.debian.org/debian buster/main amd64 libbrotli1 amd64 1.0.7-2+deb10u1 [269 kB] Get:261 http://deb.debian.org/debian buster/main amd64 libc-ares2 amd64 1.14.0-1+deb10u1 [86.1 kB] Get:262 http://deb.debian.org/debian buster/main amd64 libcharls2 amd64 2.0.0+dfsg-1 [64.3 kB] Get:263 http://deb.debian.org/debian buster/main amd64 libdap25 amd64 3.20.3-1 [557 kB] Get:264 http://deb.debian.org/debian buster/main amd64 libdapclient6v5 amd64 3.20.3-1 [202 kB] Get:265 http://deb.debian.org/debian buster/main amd64 libdapserver7v5 amd64 3.20.3-1 [131 kB] Get:266 http://deb.debian.org/debian buster/main amd64 libpopt0 amd64 1.16-12 [49.4 kB] Get:267 http://deb.debian.org/debian buster/main amd64 libepsilon1 amd64 0.9.2+dfsg-4 [42.0 kB] Get:268 http://deb.debian.org/debian buster/main amd64 libfontconfig1 amd64 2.13.1-2 [346 kB] Get:269 http://deb.debian.org/debian buster/main amd64 libfreexl1 amd64 1.0.5-3 [34.1 kB] Get:270 http://deb.debian.org/debian buster/main amd64 libfyba0 amd64 4.1.1-6 [114 kB] Get:271 http://deb.debian.org/debian buster/main amd64 libgeos-3.7.1 amd64 3.7.1-1 [735 kB] Get:272 http://deb.debian.org/debian buster/main amd64 libgeos-c1v5 amd64 3.7.1-1 [299 kB] Get:273 http://deb.debian.org/debian buster/main amd64 proj-data all 5.2.0-1 [6986 kB] Get:274 http://deb.debian.org/debian buster/main amd64 libproj13 amd64 5.2.0-1 [225 kB] Get:275 http://deb.debian.org/debian buster/main amd64 libgeotiff2 amd64 1.4.3-1 [72.0 kB] Get:276 http://deb.debian.org/debian buster/main amd64 libgif7 amd64 5.1.4-3 [43.3 kB] Get:277 http://deb.debian.org/debian buster/main amd64 libhdf4-0-alt amd64 4.2.13-4 [277 kB] Get:278 http://deb.debian.org/debian buster/main amd64 libsz2 amd64 1.0.2-1 [6676 B] Get:279 http://deb.debian.org/debian buster/main amd64 libhdf5-103 amd64 1.10.4+repack-10 [1325 kB] Get:280 http://deb.debian.org/debian buster/main amd64 libjson-c3 amd64 0.12.1+ds-2+deb10u1 [27.3 kB] Get:281 http://deb.debian.org/debian buster/main amd64 libminizip1 amd64 1.1-8+b1 [20.4 kB] Get:282 http://deb.debian.org/debian buster/main amd64 liburiparser1 amd64 0.9.1-1+deb10u1 [48.1 kB] Get:283 http://deb.debian.org/debian buster/main amd64 libkmlbase1 amd64 1.3.0-7 [48.9 kB] Get:284 http://deb.debian.org/debian buster/main amd64 libkmldom1 amd64 1.3.0-7 [172 kB] Get:285 http://deb.debian.org/debian buster/main amd64 libkmlengine1 amd64 1.3.0-7 [78.4 kB] Get:286 http://deb.debian.org/debian buster/main amd64 libkmlconvenience1 amd64 1.3.0-7 [50.1 kB] Get:287 http://deb.debian.org/debian buster/main amd64 libkmlregionator1 amd64 1.3.0-7 [25.1 kB] Get:288 http://deb.debian.org/debian buster/main amd64 libkmlxsd1 amd64 1.3.0-7 [34.6 kB] Get:289 http://deb.debian.org/debian buster/main amd64 mysql-common all 5.8+1.0.5 [7324 B] Get:290 http://deb.debian.org/debian buster/main amd64 mariadb-common all 1:10.3.34-0+deb10u1 [33.0 kB] Get:291 http://deb.debian.org/debian buster/main amd64 libmariadb3 amd64 1:10.3.34-0+deb10u1 [173 kB] Get:292 http://deb.debian.org/debian buster/main amd64 libnetcdf13 amd64 1:4.6.2-1 [403 kB] Get:293 http://deb.debian.org/debian buster/main amd64 libltdl7 amd64 2.4.6-9 [390 kB] Get:294 http://deb.debian.org/debian buster/main amd64 libodbc1 amd64 2.3.6-0.1 [223 kB] Get:295 http://deb.debian.org/debian buster/main amd64 libogdi3.2 amd64 3.2.1+ds-4 [241 kB] Get:296 http://deb.debian.org/debian buster/main amd64 libopenjp2-7 amd64 2.3.0-2+deb10u2 [158 kB] Get:297 http://deb.debian.org/debian buster/main amd64 libnspr4 amd64 2:4.20-1 [112 kB] Get:298 http://deb.debian.org/debian buster/main amd64 libnss3 amd64 2:3.42.1-1+deb10u5 [1160 kB] Get:299 http://deb.debian.org/debian buster/main amd64 libpoppler82 amd64 0.71.0-5 [1507 kB] Get:300 http://deb.debian.org/debian buster/main amd64 libpq5 amd64 11.16-0+deb10u1 [172 kB] Get:301 http://deb.debian.org/debian buster/main amd64 libqhull7 amd64 2015.2-4 [196 kB] Get:302 http://deb.debian.org/debian buster/main amd64 libspatialite7 amd64 4.3.0a-5+b2 [1256 kB] Get:303 http://deb.debian.org/debian buster/main amd64 libxerces-c3.2 amd64 3.2.2+debian-1+deb10u1 [886 kB] Get:304 http://deb.debian.org/debian buster/main amd64 odbcinst amd64 2.3.6-0.1 [48.4 kB] Get:305 http://deb.debian.org/debian buster/main amd64 odbcinst1debian2 amd64 2.3.6-0.1 [78.1 kB] Get:306 http://deb.debian.org/debian buster/main amd64 libgdal20 amd64 2.4.0+dfsg-1+b1 [6171 kB] Get:307 http://deb.debian.org/debian buster/main amd64 libgpg-error-l10n all 1.35-1 [97.6 kB] Get:308 http://deb.debian.org/debian buster/main amd64 libgpm2 amd64 1.20.7-5 [35.1 kB] Get:309 http://deb.debian.org/debian buster/main amd64 libidn11 amd64 1.33-2.2 [116 kB] Get:310 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get:311 http://deb.debian.org/debian buster/main amd64 libjs-underscore all 1.9.1~dfsg-1+deb10u1 [100.0 kB] Get:312 http://deb.debian.org/debian buster/main amd64 libjs-sphinxdoc all 1.8.4-1 [95.9 kB] Get:313 http://deb.debian.org/debian buster/main amd64 libuv1 amd64 1.24.1-1+deb10u1 [110 kB] Get:314 http://deb.debian.org/debian buster/main amd64 libnode64 amd64 10.24.0~dfsg-1~deb10u1 [5631 kB] Get:315 http://deb.debian.org/debian buster/main amd64 libsasl2-modules amd64 2.1.27+dfsg-1+deb10u2 [104 kB] Get:316 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:317 http://deb.debian.org/debian buster/main amd64 manpages-dev all 4.16-2 [2232 kB] Get:318 http://deb.debian.org/debian buster/main amd64 multiarch-support amd64 2.28-10+deb10u1 [216 kB] Get:319 http://deb.debian.org/debian buster/main amd64 nodejs amd64 10.24.0~dfsg-1~deb10u1 [87.3 kB] Get:320 http://deb.debian.org/debian buster/main amd64 nodejs-doc all 10.24.0~dfsg-1~deb10u1 [974 kB] Get:321 http://deb.debian.org/debian buster/main amd64 proj-bin amd64 5.2.0-1 [105 kB] Get:322 http://deb.debian.org/debian buster/main amd64 psmisc amd64 23.2-1+deb10u1 [126 kB] Get:323 http://deb.debian.org/debian buster/main amd64 publicsuffix all 20220811.1734-0+deb10u1 [127 kB] Get:324 http://deb.debian.org/debian buster/main amd64 python-atomicwrites all 1.1.5-2 [6808 B] Get:325 http://deb.debian.org/debian buster/main amd64 python-attr all 18.2.0-1 [37.2 kB] Get:326 http://deb.debian.org/debian buster/main amd64 python-configparser all 3.5.0b2-1 [59.2 kB] Get:327 http://deb.debian.org/debian buster/main amd64 python-funcsigs all 1.0.2-4 [13.7 kB] Get:328 http://deb.debian.org/debian buster/main amd64 python-future all 0.16.0-1 [348 kB] Get:329 http://deb.debian.org/debian buster/main amd64 python-lz4 amd64 1.1.0+dfsg-1 [24.9 kB] Get:330 http://deb.debian.org/debian buster/main amd64 python-six all 1.12.0-1 [15.7 kB] Get:331 http://deb.debian.org/debian buster/main amd64 python-more-itertools all 4.2.0-1 [42.3 kB] Get:332 http://deb.debian.org/debian buster/main amd64 python-scandir amd64 1.9.0-2 [18.3 kB] Get:333 http://deb.debian.org/debian buster/main amd64 python-pathlib2 all 2.3.3-1 [18.3 kB] Get:334 http://deb.debian.org/debian buster/main amd64 python-pluggy all 0.8.0-1 [20.5 kB] Get:335 http://deb.debian.org/debian buster/main amd64 python-psutil amd64 5.5.1-1 [166 kB] Get:336 http://deb.debian.org/debian buster/main amd64 python-py all 1.7.0-2 [86.5 kB] Get:337 http://deb.debian.org/debian buster/main amd64 python-pytest all 3.10.1-2 [243 kB] Get:338 http://deb.debian.org/debian buster/main amd64 python-simplejson amd64 3.16.0-1 [72.6 kB] Get:339 http://deb.debian.org/debian buster/main amd64 python3-atomicwrites all 1.1.5-2 [6892 B] Get:340 http://deb.debian.org/debian buster/main amd64 python3-attr all 18.2.0-1 [37.3 kB] Get:341 http://deb.debian.org/debian buster/main amd64 python3-soupsieve all 1.8+dfsg-1 [27.6 kB] Get:342 http://deb.debian.org/debian buster/main amd64 python3-bs4 all 4.7.1-1 [94.1 kB] Get:343 http://deb.debian.org/debian buster/main amd64 python3-numpy amd64 1:1.16.2-1 [2119 kB] Get:344 http://deb.debian.org/debian buster/main amd64 python3-gdal amd64 2.4.0+dfsg-1+b1 [601 kB] Get:345 http://deb.debian.org/debian buster/main amd64 python3-webencodings all 0.5.1-1 [10.9 kB] Get:346 http://deb.debian.org/debian buster/main amd64 python3-html5lib all 1.0.1-1 [89.5 kB] Get:347 http://deb.debian.org/debian buster/main amd64 python3-more-itertools all 4.2.0-1 [42.2 kB] Get:348 http://deb.debian.org/debian buster/main amd64 python3-olefile all 0.46-1 [35.9 kB] Get:349 http://deb.debian.org/debian buster/main amd64 python3-pluggy all 0.8.0-1 [20.6 kB] Get:350 http://deb.debian.org/debian buster/main amd64 python3-py all 1.7.0-2 [86.6 kB] Get:351 http://deb.debian.org/debian buster/main amd64 python3-pytest all 3.10.1-2 [243 kB] Get:352 http://deb.debian.org/debian buster/main amd64 python3-scipy amd64 1.1.0-7 [10.0 MB] Get:353 http://deb.debian.org/debian buster/main amd64 python3-sparqlwrapper all 1.8.2-0.1 [28.4 kB] Get:354 http://deb.debian.org/debian buster/main amd64 python3-yaml amd64 3.13-2 [121 kB] Get:355 http://deb.debian.org/debian buster/main amd64 rename all 1.10-1 [17.2 kB] Get:356 http://deb.debian.org/debian buster/main amd64 xml-core all 0.18+nmu1 [23.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 192 MB in 1s (131 MB/s) (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11279 files and directories currently installed.) Preparing to unpack .../debianutils_4.8.6.1_amd64.deb ... Unpacking debianutils (4.8.6.1) over (4.8.1.1) ... Setting up debianutils (4.8.6.1) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11286 files and directories currently installed.) Preparing to unpack .../libnettle6_3.4.1-1+deb10u1_amd64.deb ... Unpacking libnettle6:amd64 (3.4.1-1+deb10u1) over (3.3-1+b2) ... Setting up libnettle6:amd64 (3.4.1-1+deb10u1) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11318 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.13-3_amd64.deb ... Unpacking libtasn1-6:amd64 (4.13-3) over (4.10-1.1+deb9u1) ... Setting up libtasn1-6:amd64 (4.13-3) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11319 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.3.3-4_amd64.deb ... Unpacking libseccomp2:amd64 (2.3.3-4) ... Setting up libseccomp2:amd64 (2.3.3-4) ... (Reading database ... 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Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-stable.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-stable.gpg ... (Reading database ... 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(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 ... 11334 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-2) over (0.7.7-3+b1) ... Setting up libcap-ng0:amd64 (0.7.9-2) ... (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 ... 11333 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a2.8.4-3_amd64.deb ... Unpacking libaudit1:amd64 (1:2.8.4-3) over (1:2.6.7-2) ... Setting up libaudit1:amd64 (1:2.8.4-3) ... (Reading database ... (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 ... 11333 files and directories currently installed.) Preparing to unpack .../debconf_1.5.71+deb10u1_all.deb ... Unpacking debconf (1.5.71+deb10u1) over (1.5.61) ... Setting up debconf (1.5.71+deb10u1) ... (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 ... 11318 files and directories currently installed.) Preparing to unpack .../libpam0g_1.3.1-5_amd64.deb ... Unpacking libpam0g:amd64 (1.3.1-5) over (1.1.8-3.6) ... Setting up libpam0g:amd64 (1.3.1-5) ... Checking for services that may need to be restarted...Checking init scripts... Nothing to restart. (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 ... 11318 files and directories currently installed.) Preparing to unpack .../libpcre3_2%3a8.39-12_amd64.deb ... Unpacking libpcre3:amd64 (2:8.39-12) over (2:8.39-3) ... Setting up libpcre3:amd64 (2:8.39-12) ... (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 ... 11318 files and directories currently installed.) Preparing to unpack .../libselinux1_2.8-1+b1_amd64.deb ... Unpacking libselinux1:amd64 (2.8-1+b1) over (2.6-3+b3) ... Setting up libselinux1:amd64 (2.8-1+b1) ... (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 ... 11317 files and directories currently installed.) Preparing to unpack .../libsepol1_2.8-1_amd64.deb ... Unpacking libsepol1:amd64 (2.8-1) over (2.6-2) ... Setting up libsepol1:amd64 (2.8-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11316 files and directories currently installed.) Preparing to unpack .../libsemanage-common_2.8-2_all.deb ... Unpacking libsemanage-common (2.8-2) over (2.6-2) ... Setting up libsemanage-common (2.8-2) ... (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 ... 11315 files and directories currently installed.) Preparing to unpack .../libsemanage1_2.8-2_amd64.deb ... Unpacking libsemanage1:amd64 (2.8-2) over (2.6-2) ... Setting up libsemanage1:amd64 (2.8-2) ... (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 ... 11314 files and directories currently installed.) Preparing to unpack .../bzip2_1.0.6-9.2~deb10u1_amd64.deb ... Unpacking bzip2 (1.0.6-9.2~deb10u1) over (1.0.6-8.1) ... Preparing to unpack .../libbz2-1.0_1.0.6-9.2~deb10u1_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.6-9.2~deb10u1) over (1.0.6-8.1) ... Setting up libbz2-1.0:amd64 (1.0.6-9.2~deb10u1) ... (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 ... 11314 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.3.1-5_amd64.deb ... Unpacking libpam-modules-bin (1.3.1-5) over (1.1.8-3.6) ... Setting up libpam-modules-bin (1.3.1-5) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11296 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.12-1+deb10u2_amd64.deb ... Unpacking gpgv (2.2.12-1+deb10u2) over (2.1.18-8~deb9u4) ... Setting up gpgv (2.2.12-1+deb10u2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11296 files and directories currently installed.) Preparing to unpack .../libstdc++6_8.3.0-6_amd64.deb ... Unpacking libstdc++6:amd64 (8.3.0-6) over (6.3.0-18+deb9u1) ... Setting up libstdc++6:amd64 (8.3.0-6) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11325 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.8.3-1+deb10u1_amd64.deb ... Unpacking liblz4-1:amd64 (1.8.3-1+deb10u1) over (0.0~r131-2+b1) ... Setting up liblz4-1:amd64 (1.8.3-1+deb10u1) ... (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 ... 11324 files and directories currently installed.) Preparing to unpack .../liblzma5_5.2.4-1+deb10u1_amd64.deb ... Unpacking liblzma5:amd64 (5.2.4-1+deb10u1) over (5.2.2-1.2+b1) ... Setting up liblzma5:amd64 (5.2.4-1+deb10u1) ... (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 ... 11323 files and directories currently installed.) Preparing to unpack .../libsystemd0_241-7~deb10u8_amd64.deb ... Unpacking libsystemd0:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libsystemd0:amd64 (241-7~deb10u8) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11323 files and directories currently installed.) Preparing to unpack .../libudev1_241-7~deb10u8_amd64.deb ... Unpacking libudev1:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libudev1:amd64 (241-7~deb10u8) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11323 files and directories currently installed.) Preparing to unpack .../tar_1.30+dfsg-6_amd64.deb ... Unpacking tar (1.30+dfsg-6) over (1.29b-1.1) ... Setting up tar (1.30+dfsg-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11321 files and directories currently installed.) Preparing to unpack .../archives/dpkg_1.19.8_amd64.deb ... Unpacking dpkg (1.19.8) over (1.18.25) ... Setting up dpkg (1.19.8) ... Installing new version of config file /etc/alternatives/README ... Installing new version of config file /etc/cron.daily/dpkg ... Installing new version of config file /etc/logrotate.d/dpkg ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11319 files and directories currently installed.) Preparing to unpack .../dash_0.5.10.2-5_amd64.deb ... Unpacking dash (0.5.10.2-5) over (0.5.8-2.4) ... Setting up dash (0.5.10.2-5) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11322 files and directories currently installed.) Preparing to unpack .../libcomerr2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libcomerr2:amd64 (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../libcom-err2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libcom-err2:amd64 (1.44.5-1+deb10u3) ... Setting up libcom-err2:amd64 (1.44.5-1+deb10u3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11325 files and directories currently installed.) Preparing to unpack .../e2fslibs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fslibs:amd64 (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Selecting previously unselected package libext2fs2:amd64. Preparing to unpack .../libext2fs2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.5-1+deb10u3) ... Setting up libext2fs2:amd64 (1.44.5-1+deb10u3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11328 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fsprogs (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Setting up e2fsprogs (1.44.5-1+deb10u3) ... Installing new version of config file /etc/mke2fs.conf ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11311 files and directories currently installed.) Preparing to unpack .../findutils_4.6.0+git+20190209-2_amd64.deb ... Unpacking findutils (4.6.0+git+20190209-2) over (4.6.0+git+20161106-2) ... Setting up findutils (4.6.0+git+20190209-2) ... (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 ... 11313 files and directories currently installed.) Preparing to unpack .../archives/grep_3.3-1_amd64.deb ... Unpacking grep (3.3-1) over (2.27-2) ... Setting up grep (3.3-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11313 files and directories currently installed.) Preparing to unpack .../gzip_1.9-3+deb10u1_amd64.deb ... Unpacking gzip (1.9-3+deb10u1) over (1.6-5+b1) ... Setting up gzip (1.9-3+deb10u1) ... (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 ... 11312 files and directories currently installed.) Preparing to unpack .../hostname_3.21_amd64.deb ... Unpacking hostname (3.21) over (3.18+b1) ... Setting up hostname (3.21) ... (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 ... 11311 files and directories currently installed.) Preparing to unpack .../libuuid1_2.33.1-0.1_amd64.deb ... Unpacking libuuid1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libuuid1:amd64 (2.33.1-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11311 files and directories currently installed.) Preparing to unpack .../libblkid1_2.33.1-0.1_amd64.deb ... Unpacking libblkid1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libblkid1:amd64 (2.33.1-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11311 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.33.1-0.1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libsmartcols1:amd64 (2.33.1-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11311 files and directories currently installed.) Preparing to unpack .../libfdisk1_2.33.1-0.1_amd64.deb ... Unpacking libfdisk1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libfdisk1:amd64 (2.33.1-0.1) ... Selecting previously unselected package libncursesw6:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11311 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.1+20181013-2+deb10u2_amd64.deb ... Unpacking libncursesw6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libncursesw6:amd64 (6.1+20181013-2+deb10u2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11320 files and directories currently installed.) Preparing to unpack .../libmount1_2.33.1-0.1_amd64.deb ... Unpacking libmount1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libmount1:amd64 (2.33.1-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 11320 files and directories currently installed.) Preparing to unpack .../mount_2.33.1-0.1_amd64.deb ... Unpacking mount (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Preparing to unpack .../util-linux_2.33.1-0.1_amd64.deb ... Unpacking util-linux (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Replacing files in old package login (1:4.4-4.1) ... Selecting previously unselected package fdisk. Preparing to unpack .../fdisk_2.33.1-0.1_amd64.deb ... 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Setting up mysql-common (5.8+1.0.5) ... update-alternatives: using /etc/mysql/my.cnf.fallback to provide /etc/mysql/my.cnf (my.cnf) in auto mode Setting up libkeyutils1:amd64 (1.6-6) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up apt (1.8.2.3) ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt-compat ... Setting up libgpm2:amd64 (1.20.7-5) ... Setting up mime-support (3.62) ... Installing new version of config file /etc/mime.types ... Setting up proj-data (5.2.0-1) ... Setting up e2fslibs:amd64 (1.44.5-1+deb10u3) ... Setting up libmagic-mgc (1:5.35-4+deb10u2) ... Setting up e2fsprogs-l10n (1.44.5-1+deb10u3) ... Setting up libcharls2:amd64 (2.0.0+dfsg-1) ... Setting up libminizip1:amd64 (1.1-8+b1) ... Setting up psmisc (23.2-1+deb10u1) ... Setting up prodigal (1:2.6.3-4) ... Setting up libyaml-0-2:amd64 (0.2.1-1) ... Setting up manpages (4.16-2) ... Setting up bwa (0.7.17-3) ... Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-1) ... Setting up libprocps7:amd64 (2:3.3.15-2) ... Setting up libbrotli1:amd64 (1.0.7-2+deb10u1) ... Setting up libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Setting up libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up libproj13:amd64 (5.2.0-1) ... Setting up binutils-common:amd64 (2.31.1-16) ... Setting up libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... Setting up libdeflate0:amd64 (1.2-1) ... Setting up linux-libc-dev:amd64 (4.19.249-2) ... Setting up proj-bin (5.2.0-1) ... Setting up libnlopt0:amd64 (2.4.2+dfsg-8+b1) ... Setting up libqhull7:amd64 (2015.2-4) ... Setting up krb5-locales (1.17-3+deb10u4) ... Setting up libc-ares2:amd64 (1.14.0-1+deb10u1) ... Setting up file (1:5.35-4+deb10u2) ... Setting up libgomp1:amd64 (8.3.0-6) ... Setting up bzip2 (1.0.6-9.2~deb10u1) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u7) ... Setting up libncurses5:amd64 (6.1+20181013-2+deb10u2) ... Setting up libgeos-3.7.1:amd64 (3.7.1-1) ... Setting up libaec0:amd64 (1.0.2-1) ... Setting up libicu63:amd64 (63.1-6+deb10u3) ... Setting up gdal-data (2.4.0+dfsg-1) ... Setting up poppler-data (0.4.9-2) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u4) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up tzdata (2021a-0+deb10u6) ... Current default time zone: 'Etc/UTC' Local time is now: Sat Dec 17 22:54:29 UTC 2022. Universal Time is now: Sat Dec 17 22:54:29 UTC 2022. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up mariadb-common (1:10.3.34-0+deb10u1) ... update-alternatives: using /etc/mysql/mariadb.cnf to provide /etc/mysql/my.cnf (my.cnf) in auto mode Setting up libasan5:amd64 (8.3.0-6) ... Setting up libuv1:amd64 (1.24.1-1+deb10u1) ... Setting up libhat-trie0:amd64 (0.1.2-2) ... Setting up libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Setting up multiarch-support (2.28-10+deb10u1) ... Setting up libnspr4:amd64 (2:4.20-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libidn11:amd64 (1.33-2.2) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up xz-utils (5.2.4-1+deb10u1) ... Setting up libquadmath0:amd64 (8.3.0-6) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libbamtools2.5.1:amd64 (2.5.1+dfsg-3) ... 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 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 ucf (3.0038+nmu1) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u4) ... Setting up libltdl7:amd64 (2.4.6-9) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up 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 bamtools (2.5.1+dfsg-3) ... Setting up xml-core (0.18+nmu1) ... Setting up libfyba0:amd64 (4.1.1-6) ... Setting up procps (2:3.3.15-2) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libkmlbase1:amd64 (1.3.0-7) ... Setting up libopenjp2-7:amd64 (2.3.0-2+deb10u2) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up netbase (5.6) ... Installing new version of config file /etc/services ... Setting up libkrb5-3:amd64 (1.17-3+deb10u4) ... Setting up libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Setting up libmpdec2:amd64 (2.4.2-2) ... 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 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 libgpg-error-l10n (1.35-1) ... Setting up libssw0:amd64 (1.1-2) ... Setting up publicsuffix (20220811.1734-0+deb10u1) ... 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 libjs-underscore (1.9.1~dfsg-1+deb10u1) ... 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 libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Setting up libogdi3.2 (3.2.1+ds-4) ... 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 gawk (1:4.2.1+dfsg-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... 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 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 libjs-sphinxdoc (1.8.4-1) ... 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 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 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 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-simplejson (3.16.0-1) ... Setting up python-attr (18.2.0-1) ... 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-atomicwrites (1.1.5-2) ... Setting up python3-atomicwrites (1.1.5-2) ... Setting up python-six (1.12.0-1) ... 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 python-more-itertools (4.2.0-1) ... 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 python-configparser (3.5.0b2-1) ... Setting up python3-pyparsing (2.2.0+dfsg1-2) ... Setting up python3-certifi (2018.8.24-1) ... Setting up python-pluggy (0.8.0-1) ... Setting up python3-idna (2.6-1) ... Setting up python3-typing-extensions (3.7.2-1) ... Setting up python-joblib (0.13.0-2) ... Setting up python3-html5lib (1.0.1-1) ... Setting up python3-urllib3 (1.24.1-1) ... Setting up python3-pluggy (0.8.0-1) ... Setting up python3-ruamel.yaml (0.15.34-1+b1) ... Setting up python-psutil (5.5.1-1) ... Setting up python-funcsigs (1.0.2-4) ... Setting up g++-8 (8.3.0-6) ... Setting up python-scandir (1.9.0-2) ... 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 mummer (3.23+dfsg-4) ... Setting up python3-et-xmlfile (1.0.1-2) ... Setting up python3-dateutil (2.7.3-3) ... Setting up python-yaml (3.13-2) ... Setting up python3-shellescape (3.4.1-3) ... Setting up libarmadillo9 (1:9.200.7+dfsg-1) ... Setting up python-future (0.16.0-1) ... update-alternatives: using /usr/bin/python2-futurize to provide /usr/bin/futurize (futurize) in auto mode update-alternatives: using /usr/bin/python2-pasteurize to provide /usr/bin/pasteurize (pasteurize) in auto mode Setting up python3-lib2to3 (3.7.3-1) ... Setting up python3-mistune (0.8.4-1) ... Setting up python3-soupsieve (1.8+dfsg-1) ... Setting up python-py (1.7.0-2) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up python3-distutils (3.7.3-1) ... Setting up dh-python (3.20190308) ... Setting up python3-more-itertools (4.2.0-1) ... Setting up python3-attr (18.2.0-1) ... Setting up python3-lockfile (1:0.12.2-2) ... Setting up python3-rdflib-jsonld (0.4.0-4) ... 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 python3-py (1.7.0-2) ... Setting up python3-jdcal (1.0-1.2) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python3-typed-ast (1.3.1-1) ... Setting up python3-pytest (3.10.1-2) ... Setting up python3-mypy-extensions (0.4.1-1) ... Setting up python3-olefile (0.46-1) ... Setting up python-pathlib2 (2.3.3-1) ... 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 python3-chardet (3.0.4-3) ... Setting up python3-openpyxl (2.4.9-1) ... Setting up python-pytest (3.10.1-2) ... Setting up python3-requests (2.21.0-1) ... Setting up python3-mypy (0.670-2) ... Setting up python-lz4 (1.1.0+dfsg-1) ... Setting up python3-numpy (1:1.16.2-1) ... 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 spades (3.13.0+dfsg2-2) ... Setting up python3-cachecontrol (0.11.7-1) ... Setting up python3-pysam (0.15.2+ds-2) ... Setting up python3-scipy (1.1.0-7) ... Setting up fastaq (3.17.0-2) ... Setting up python3-schema-salad (3.0.20181206233650-2) ... Setting up cwltool (1.0.20181217162649+dfsg-10) ... Setting up python3-pymummer (0.10.3-2) ... Setting up circlator (1.5.5-3) ... Setting up odbcinst (2.3.6-0.1) ... Setting up odbcinst1debian2:amd64 (2.3.6-0.1) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... Processing triggers for sgml-base (1.29) ... Setting up libfontconfig1:amd64 (2.13.1-2) ... Setting up libpoppler82:amd64 (0.71.0-5) ... Setting up libgdal20 (2.4.0+dfsg-1+b1) ... Setting up python3-gdal (2.4.0+dfsg-1+b1) ... 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. Processing triggers for libc-bin (2.28-10+deb10u1) ... 1m28.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-yf', 'dist-upgrade'] 1m28.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m29.3s DUMP: f6fc0f2636004ef589309651dfd778f4 - 1m29.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m29.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'show', '--no-all-versions', 'circlator'] 1m29.5s DUMP: Package: circlator Version: 1.5.5-3 Installed-Size: 10301 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.1), python3-openpyxl, python3-pymummer, python3-pysam, python3:any, prodigal, bwa (>= 0.7.12), mummer, samtools, spades Suggests: canu Description-en: circularize genome assemblies Circlator is a tool to automate assembly circularization for bacterial and small eukaryotic genomes and produce accurate linear representations of circular sequences. Description-md5: cf235cf3121c5ca347cea31d93662299 Homepage: http://sanger-pathogens.github.io/circlator/ Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, role::program, science::calculation, works-with::biological-sequence, works-with::file Section: science Priority: optional Filename: pool/main/c/circlator/circlator_1.5.5-3_amd64.deb Size: 4325732 MD5sum: 48715c036e9a0f5940dfbc9ffe82ffad SHA256: cf494b1310d5175edef88c3a7dbfe54640eca73a072c6440d1220ad189db652f 1m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'show', '--no-all-versions', 'circlator'] 1m29.5s INFO: apt-cache knows about the following packages: circlator 1m29.5s INFO: Running scripts pre_install 1m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_database-server'] 1m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_database-server'] 1m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_exceptions'] 1m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_exceptions'] 1m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_extras'] 1m29.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_extras'] 1m29.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture'] 1m29.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture'] 1m29.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m29.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m29.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy'] 1m29.6s 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: 1m29.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy'] 1m29.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy', 'circlator'] 1m29.7s DUMP: circlator: Installed: 1.5.5-3 Candidate: 1.5.5-3 Version table: *** 1.5.5-3 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m29.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy', 'circlator'] 1m29.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-y', 'install', 'circlator'] 1m29.9s DUMP: Reading package lists... Building dependency tree... Reading state information... circlator is already the newest version (1.5.5-3). The following packages were automatically installed and are no longer required: dh-python libbamtools2.4.0 libblas-common libgdbm3 libgfortran3 libhts1 libicu57 libidn11 libjemalloc1 libmpfr4 libncurses5 libperl5.24 libpython3.5-minimal libpython3.5-stdlib libunistring0 libwebpmux2 python3.5 python3.5-minimal rename sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m29.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-y', 'install', 'circlator'] 1m29.9s INFO: Running scripts post_install 1m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_install_exceptions'] 1m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_install_exceptions'] 1m30.0s INFO: Running scripts post_distupgrade 1m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_exceptions'] 1m30.0s DUMP: Normalized /etc/ca-certificates.conf 1m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_exceptions'] 1m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m30.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_zz_backports'] 1m30.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_distupgrade_zz_backports'] 1m30.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m31.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m31.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m32.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m32.8s INFO: Running scripts pre_install 1m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_database-server'] 1m32.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_database-server'] 1m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_exceptions'] 1m32.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_exceptions'] 1m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_extras'] 1m32.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_extras'] 1m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture'] 1m32.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture'] 1m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m32.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m32.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy'] 1m32.9s 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: 1m32.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy'] 1m32.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy', 'circlator'] 1m32.9s DUMP: circlator: Installed: 1.5.5-3 Candidate: 1.5.5-3 Version table: *** 1.5.5-3 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 1m32.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-cache', 'policy', 'circlator'] 1m32.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-y', 'install', 'circlator=1.5.5-3'] 1m33.2s DUMP: Reading package lists... Building dependency tree... Reading state information... circlator is already the newest version (1.5.5-3). The following packages were automatically installed and are no longer required: dh-python libbamtools2.4.0 libblas-common libgdbm3 libgfortran3 libhts1 libicu57 libidn11 libjemalloc1 libmpfr4 libncurses5 libperl5.24 libpython3.5-minimal libpython3.5-stdlib libunistring0 libwebpmux2 python3.5 python3.5-minimal rename sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', '-y', 'install', 'circlator=1.5.5-3'] 1m33.2s INFO: Running scripts post_install 1m33.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_install_exceptions'] 1m33.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_install_exceptions'] 1m33.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m34.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m37.1s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', '-ac', '--ignore-obsolete'] 1m40.0s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', '-ac', '--ignore-obsolete'] 1m40.0s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m40.0s DUMP: 0.15.6 1m40.0s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m40.0s INFO: Running adequate version 0.15.6 now. 1m40.0s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'circlator'] 1m40.1s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'circlator'] 1m40.1s INFO: Running scripts pre_remove 1m40.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m40.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m40.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m40.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m40.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m48.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m48.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m48.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m48.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m48.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m48.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_exceptions'] 1m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/pre_remove_exceptions'] 1m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m48.4s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed bamtools bamtools 2.5.1+dfsg-3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed binutils binutils 2.31.1-16 install ok installed binutils-common:amd64 binutils-common 2.31.1-16 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.31.1-16 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed bwa bwa 0.7.17-3 install ok installed bzip2 bzip2 1.0.6-9.2~deb10u1 install ok installed ca-certificates ca-certificates 20200601~deb10u2 install ok installed circlator circlator 1.5.5-3 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 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 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 libbamtools2.4.0 libbamtools2.4.0 2.4.1+dfsg-1 install ok installed libbamtools2.5.1:amd64 libbamtools2.5.1 2.5.1+dfsg-3 install ok installed libbinutils:amd64 libbinutils 2.31.1-16 install ok installed libblas-common libblas-common 3.7.0-2 install ok installed libblas3:amd64 libblas3 3.8.0-2 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbrotli1:amd64 libbrotli1 1.0.7-2+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 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 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 libgfortran3:amd64 libgfortran3 6.3.0-18+deb9u1 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 libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.17-3+deb10u4 install ok installed libhat-trie0:amd64 libhat-trie0 0.1.2-2 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 libicu57:amd64 libicu57 57.1-6+deb9u4 install ok installed libicu63:amd64 libicu63 63.1-6+deb10u3 install ok installed libidn11:amd64 libidn11 1.33-2.2 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed libimagequant0:amd64 libimagequant0 2.12.2-1.1 install ok installed 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 libjemalloc1 libjemalloc1 3.6.0-9.1 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-sphinxdoc libjs-sphinxdoc 1.8.4-1 install ok installed libjs-underscore libjs-underscore 1.9.1~dfsg-1+deb10u1 install ok installed libjson-c3:amd64 libjson-c3 0.12.1+ds-2+deb10u1 install ok installed libjsoncpp1:amd64 libjsoncpp1 1.7.4-3 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 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 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 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 libnlopt0:amd64 libnlopt0 2.4.2+dfsg-8+b1 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 libprocps7:amd64 libprocps7 2:3.3.15-2 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 libssw0:amd64 libssw0 1.1-2 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 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 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 libwebpmux2:amd64 libwebpmux2 0.5.2-1 install ok installed libwebpmux3:amd64 libwebpmux3 0.6.1-2+deb10u1 install ok installed libxerces-c3.2:amd64 libxerces-c3.2 3.2.2+debian-1+deb10u1 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-7+deb10u4 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.32-2.2~deb10u1 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 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 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 procps procps 2:3.3.15-2 install ok installed prodigal prodigal 1:2.6.3-4 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 psmisc psmisc 23.2-1+deb10u1 install ok installed publicsuffix publicsuffix 20220811.1734-0+deb10u1 install ok installed python python 2.7.16-1 install ok installed python-atomicwrites python-atomicwrites 1.1.5-2 install ok installed python-attr python-attr 18.2.0-1 install ok installed python-configparser python-configparser 3.5.0b2-1 install ok installed python-funcsigs python-funcsigs 1.0.2-4 install ok installed python-future python-future 0.16.0-1 install ok installed python-joblib python-joblib 0.13.0-2 install ok installed python-lz4 python-lz4 1.1.0+dfsg-1 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-more-itertools python-more-itertools 4.2.0-1 install ok installed python-numpy python-numpy 1:1.16.2-1 install ok installed python-pathlib2 python-pathlib2 2.3.3-1 install ok installed python-pkg-resources python-pkg-resources 40.8.0-1 install ok installed python-pluggy python-pluggy 0.8.0-1 install ok installed python-psutil python-psutil 5.5.1-1 install ok installed python-py python-py 1.7.0-2 install ok installed python-pytest python-pytest 3.10.1-2 install ok installed python-scandir python-scandir 1.9.0-2 install ok installed python-simplejson python-simplejson 3.16.0-1 install ok installed python-six python-six 1.12.0-1 install ok installed python-yaml python-yaml 3.13-2 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-atomicwrites python3-atomicwrites 1.1.5-2 install ok installed python3-attr python3-attr 18.2.0-1 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-dateutil python3-dateutil 2.7.3-3 install ok installed python3-decorator python3-decorator 4.3.0-1.1 install ok installed python3-distutils python3-distutils 3.7.3-1 install ok installed python3-et-xmlfile python3-et-xmlfile 1.0.1-2 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-jdcal python3-jdcal 1.0-1.2 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-minimal python3-minimal 3.7.3-1 install ok installed python3-mistune python3-mistune 0.8.4-1 install ok installed python3-more-itertools python3-more-itertools 4.2.0-1 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-openpyxl python3-openpyxl 2.4.9-1 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-pluggy python3-pluggy 0.8.0-1 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-py python3-py 1.7.0-2 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-pytest python3-pytest 3.10.1-2 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-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-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 sgml-base sgml-base 1.29 install ok installed spades spades 3.13.0+dfsg2-2 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed ucf ucf 3.0038+nmu1 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed xml-core xml-core 0.18+nmu1 install ok installed xz-utils xz-utils 5.2.4-1+deb10u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 1m48.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m48.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'remove', 'bamtools', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bwa', 'bzip2', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'g++-', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbamtools2.4.0', 'libbamtools2.5.1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbrotli1:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', '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', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhat-trie0:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjemalloc1', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libjson-c3:amd64', 'libjsoncpp1: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', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnlopt0: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', 'libprocps7: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', 'libssw0:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libxerces-c3.2:amd64', 'libxml2:amd64', 'libxslt1.1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mime-support', 'mummer', 'mysql-common', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'procps', 'prodigal', 'proj-bin', 'proj-data', 'psmisc', 'publicsuffix', 'python', 'python-atomicwrites', 'python-attr', 'python-configparser', 'python-funcsigs', 'python-future', 'python-joblib', 'python-lz4', 'python-minimal', 'python-more-itertools', 'python-numpy', 'python-pathlib2', 'python-pkg-resources', 'python-pluggy', 'python-psutil', 'python-py', 'python-pytest', 'python-scandir', 'python-simplejson', 'python-six', 'python-yaml', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-atomicwrites', 'python3-attr', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-distutils', 'python3-et-xmlfile', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-jdcal', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-minimal', 'python3-mistune', 'python3-more-itertools', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-openpyxl', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pluggy', 'python3-prov', 'python3-psutil', 'python3-py', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-pytest', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', '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', 'sgml-base', 'spades', 'tzdata', 'ucf', 'xml-core', 'xz-utils', 'circlator'] 1m58.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bamtools binutils binutils-common binutils-x86-64-linux-gnu bwa bzip2 circlator cpp cpp-8 cwltool dh-python fastaq file fontconfig-config fonts-dejavu-core fonts-glyphicons-halflings g++ g++-8 gawk gcc gcc-8 gdal-data javascript-common krb5-locales libaec0 libarmadillo9 libarpack2 libasan5 libatomic1 libbamtools2.4.0 libbamtools2.5.1 libbinutils libblas-common libblas3 libbrotli1 libc-ares2 libc-dev-bin libc6-dev libcc1-0 libcharls2 libcurl3-gnutls libdap25 libdapclient6v5 libdapserver7v5 libdeflate0 libepsilon1 libexpat1 libfontconfig1 libfreetype6 libfreexl1 libfyba0 libgcc-8-dev libgdal20 libgdbm-compat4 libgdbm3 libgdbm6 libgeos-3.7.1 libgeos-c1v5 libgeotiff2 libgfortran3 libgfortran5 libgif7 libgomp1 libgssapi-krb5-2 libhat-trie0 libhdf4-0-alt libhdf5-103 libhts1 libhts2 libicu57 libicu63 libidn11 libimagequant0 libisl19 libitm1 libjbig0 libjemalloc1 libjpeg62-turbo libjs-bootstrap libjs-jquery libjs-sphinxdoc libjs-underscore libjson-c3 libjsoncpp1 libk5crypto3 libkeyutils1 libkmlbase1 libkmlconvenience1 libkmldom1 libkmlengine1 libkmlregionator1 libkmlxsd1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblsan0 libltdl7 libmagic-mgc libmagic1 libmariadb3 libminizip1 libmpc3 libmpdec2 libmpfr4 libmpfr6 libmpx2 libncurses5 libncurses6 libnetcdf13 libnghttp2-14 libnlopt0 libnode64 libnspr4 libnss3 libodbc1 libogdi3.2 libopenjp2-7 libperl5.24 libperl5.28 libpng16-16 libpoppler82 libpopt0 libpq5 libprocps7 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 libssw0 libstdc++-8-dev libsuperlu5 libsz2 libtiff5 libtsan0 libubsan1 libunistring0 liburiparser1 libuv1 libwebp6 libwebpdemux2 libwebpmux2 libwebpmux3 libxerces-c3.2 libxml2 libxslt1.1 libyaml-0-2 linux-libc-dev lsb-base manpages manpages-dev mariadb-common mime-support mummer mysql-common netbase nodejs nodejs-doc odbcinst odbcinst1debian2 perl perl-modules-5.24 perl-modules-5.28 poppler-data procps prodigal proj-bin proj-data psmisc publicsuffix python python-atomicwrites python-attr python-configparser python-funcsigs python-future python-joblib python-lz4 python-minimal python-more-itertools python-numpy python-pathlib2 python-pkg-resources python-pluggy python-psutil python-py python-pytest python-scandir python-simplejson python-six python-yaml python2 python2-minimal python2.7 python2.7-minimal python3 python3-atomicwrites python3-attr python3-bs4 python3-cachecontrol python3-certifi python3-chardet python3-dateutil python3-decorator python3-distutils python3-et-xmlfile python3-gdal python3-html5lib python3-idna python3-isodate python3-jdcal python3-lib2to3 python3-lockfile python3-lxml python3-minimal python3-mistune python3-more-itertools python3-mypy python3-mypy-extensions python3-networkx python3-numpy python3-olefile python3-openpyxl python3-pil python3-pkg-resources python3-pluggy python3-prov python3-psutil python3-py python3-pymummer python3-pyparsing python3-pysam python3-pytest python3-rdflib python3-rdflib-jsonld python3-requests python3-ruamel.yaml python3-schema-salad python3-scipy python3-shellescape python3-six python3-soupsieve python3-sparqlwrapper 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 sgml-base spades tzdata ucf xml-core xz-utils 0 upgraded, 0 newly installed, 281 to remove and 0 not upgraded. After this operation, 749 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 ... 29258 files and directories currently installed.) Removing circlator (1.5.5-3) ... Removing spades (3.13.0+dfsg2-2) ... Removing bamtools (2.5.1+dfsg-3) ... Removing g++ (4:8.3.0-1) ... Removing gcc (4:8.3.0-1) ... Removing bwa (0.7.17-3) ... Removing bzip2 (1.0.6-9.2~deb10u1) ... 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 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 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 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 nodejs (10.24.0~dfsg-1~deb10u1) ... Removing libnode64:amd64 (10.24.0~dfsg-1~deb10u1) ... Removing libbamtools2.4.0 (2.4.1+dfsg-1) ... Removing libbamtools2.5.1:amd64 (2.5.1+dfsg-3) ... Removing libblas-common (3.7.0-2) ... Removing libsuperlu5:amd64 (5.2.1+dfsg1-4) ... Removing python3-scipy (1.1.0-7) ... Removing python3-numpy (1:1.16.2-1) ... Removing python-numpy (1:1.16.2-1) ... Removing libbrotli1:amd64 (1.0.7-2+deb10u1) ... 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 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 python3-pil:amd64 (5.4.1-2+deb10u3) ... Removing libfreetype6:amd64 (2.9.1-3+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 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 libgfortran3:amd64 (6.3.0-18+deb9u1) ... Removing liblapack3:amd64 (3.8.0-2) ... Removing libgif7:amd64 (5.1.4-3) ... Removing libpq5:amd64 (11.16-0+deb10u1) ... Removing libhat-trie0:amd64 (0.1.2-2) ... Removing libhdf4-0-alt (4.2.13-4) ... Removing libicu57:amd64 (57.1-6+deb9u4) ... Removing python3-prov (1.5.2-1) ... Removing libidn11:amd64 (1.33-2.2) ... 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 libjemalloc1 (3.6.0-9.1) ... Removing libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Removing python-lz4 (1.1.0+dfsg-1) ... Removing python-future (0.16.0-1) ... Removing python-configparser (3.5.0b2-1) ... Removing libjs-sphinxdoc (1.8.4-1) ... Removing libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Removing libjs-underscore (1.9.1~dfsg-1+deb10u1) ... Removing libjson-c3:amd64 (0.12.1+ds-2+deb10u1) ... Removing libjsoncpp1:amd64 (1.7.4-3) ... 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 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 libpython3.5-stdlib:amd64 (3.5.3-1+deb9u1) ... Removing libmpfr4:amd64 (3.1.5-1) ... Removing libncurses5:amd64 (6.1+20181013-2+deb10u2) ... Removing python-joblib (0.13.0-2) ... Removing procps (2:3.3.15-2) ... Removing libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Removing libnlopt0:amd64 (2.4.2+dfsg-8+b1) ... 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 libpng16-16:amd64 (1.6.36-6) ... Removing libpopt0:amd64 (1.16-12) ... Removing libprocps7:amd64 (2:3.3.15-2) ... Removing proj-bin (5.2.0-1) ... Removing libproj13:amd64 (5.2.0-1) ... Removing python-simplejson (3.16.0-1) ... Removing python-pytest (3.10.1-2) ... Removing python-pathlib2 (2.3.3-1) ... Removing python-more-itertools (4.2.0-1) ... Removing python-six (1.12.0-1) ... Removing python-yaml (3.13-2) ... Removing python-py (1.7.0-2) ... Removing python-pkg-resources (40.8.0-1) ... 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 libssw0:amd64 (1.1-2) ... Removing libunistring0:amd64 (0.9.6+really0.9.3-0.1) ... Removing libuv1:amd64 (1.24.1-1+deb10u1) ... Removing libwebpmux2:amd64 (0.5.2-1) ... Removing libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Removing libwebpdemux2:amd64 (0.6.1-2+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 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 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 prodigal (1:2.6.3-4) ... Removing proj-data (5.2.0-1) ... Removing psmisc (23.2-1+deb10u1) ... Removing publicsuffix (20220811.1734-0+deb10u1) ... Removing python-atomicwrites (1.1.5-2) ... Removing python-attr (18.2.0-1) ... Removing python-funcsigs (1.0.2-4) ... Removing python-pluggy (0.8.0-1) ... Removing python-psutil (5.5.1-1) ... Removing python-scandir (1.9.0-2) ... Removing python3-pytest (3.10.1-2) ... Removing python3-atomicwrites (1.1.5-2) ... Removing python3-attr (18.2.0-1) ... 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-dateutil (2.7.3-3) ... Removing python3-networkx (2.2-1) ... Removing python3-decorator (4.3.0-1.1) ... Removing python3-openpyxl (2.4.9-1) ... Removing python3-et-xmlfile (1.0.1-2) ... 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-jdcal (1.0-1.2) ... Removing python3-lib2to3 (3.7.3-1) ... Removing python3-lockfile (1:0.12.2-2) ... Removing python3-mistune (0.8.4-1) ... Removing python3-more-itertools (4.2.0-1) ... Removing python3-mypy-extensions (0.4.1-1) ... Removing python3-olefile (0.46-1) ... Removing python3-py (1.7.0-2) ... Removing python3-pkg-resources (40.8.0-1) ... Removing python3-pluggy (0.8.0-1) ... Removing python3-psutil (5.5.1-1) ... Removing python3-pyparsing (2.2.0+dfsg1-2) ... 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 xml-core (0.18+nmu1) ... Removing sgml-base (1.29) ... 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 libcc1-0:amd64 (8.3.0-6) ... Removing libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Removing python3-lxml:amd64 (4.3.2-1+deb10u4) ... 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 libmpfr6:amd64 (4.0.2-1) ... Removing libmpx2:amd64 (8.3.0-6) ... Removing libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Removing libpsl5:amd64 (0.20.2-2) ... 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 libquadmath0:amd64 (8.3.0-6) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Removing libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libssh2-1:amd64 (1.8.0-2.1) ... Removing libtsan0:amd64 (8.3.0-6) ... Removing libubsan1:amd64 (8.3.0-6) ... Removing liburiparser1:amd64 (0.9.1-1+deb10u1) ... Removing libwebp6:amd64 (0.6.1-2+deb10u1) ... Removing libxslt1.1:amd64 (1.1.32-2.2~deb10u1) ... Removing python2-minimal (2.7.16-1) ... Removing python3 (3.7.3-1) ... Removing python3.7 (3.7.3-2+deb10u3) ... Removing libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Removing libicu63:amd64 (63.1-6+deb10u3) ... 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 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 libreadline7:amd64 (7.0-5) ... Removing libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... 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) ... 1m58.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'remove', 'bamtools', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bwa', 'bzip2', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'g++-', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbamtools2.4.0', 'libbamtools2.5.1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbrotli1:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', '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', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhat-trie0:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjemalloc1', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libjson-c3:amd64', 'libjsoncpp1: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', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnlopt0: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', 'libprocps7: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', 'libssw0:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libxerces-c3.2:amd64', 'libxml2:amd64', 'libxslt1.1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mime-support', 'mummer', 'mysql-common', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'procps', 'prodigal', 'proj-bin', 'proj-data', 'psmisc', 'publicsuffix', 'python', 'python-atomicwrites', 'python-attr', 'python-configparser', 'python-funcsigs', 'python-future', 'python-joblib', 'python-lz4', 'python-minimal', 'python-more-itertools', 'python-numpy', 'python-pathlib2', 'python-pkg-resources', 'python-pluggy', 'python-psutil', 'python-py', 'python-pytest', 'python-scandir', 'python-simplejson', 'python-six', 'python-yaml', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-atomicwrites', 'python3-attr', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-distutils', 'python3-et-xmlfile', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-jdcal', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-minimal', 'python3-mistune', 'python3-more-itertools', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-openpyxl', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pluggy', 'python3-prov', 'python3-psutil', 'python3-py', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-pytest', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', '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', 'sgml-base', 'spades', 'tzdata', 'ucf', 'xml-core', 'xz-utils', 'circlator'] 1m58.5s INFO: Running scripts post_remove 1m58.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_remove_exceptions'] 1m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_remove_exceptions'] 1m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--purge', 'bamtools', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bwa', 'bzip2', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'g++', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbamtools2.4.0', 'libbamtools2.5.1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbrotli1:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', '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', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhat-trie0:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjemalloc1', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libjson-c3:amd64', 'libjsoncpp1: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', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnlopt0: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', 'libprocps7: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', 'libssw0:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libxerces-c3.2:amd64', 'libxml2:amd64', 'libxslt1.1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mime-support', 'mummer', 'mysql-common', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'procps', 'prodigal', 'proj-bin', 'proj-data', 'psmisc', 'publicsuffix', 'python', 'python-atomicwrites', 'python-attr', 'python-configparser', 'python-funcsigs', 'python-future', 'python-joblib', 'python-lz4', 'python-minimal', 'python-more-itertools', 'python-numpy', 'python-pathlib2', 'python-pkg-resources', 'python-pluggy', 'python-psutil', 'python-py', 'python-pytest', 'python-scandir', 'python-simplejson', 'python-six', 'python-yaml', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-atomicwrites', 'python3-attr', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-distutils', 'python3-et-xmlfile', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-jdcal', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-minimal', 'python3-mistune', 'python3-more-itertools', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-openpyxl', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pluggy', 'python3-prov', 'python3-psutil', 'python3-py', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-pytest', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', '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', 'sgml-base', 'spades', 'tzdata', 'ucf', 'xml-core', 'xz-utils'] 1m59.4s DUMP: dpkg: warning: ignoring request to remove bamtools which isn't installed 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 bwa which isn't installed dpkg: warning: ignoring request to remove bzip2 which isn't installed dpkg: warning: ignoring request to remove cpp which isn't installed dpkg: warning: ignoring request to remove cpp-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 ... 5078 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 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 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 libbamtools2.4.0 which isn't installed dpkg: warning: ignoring request to remove libbamtools2.5.1 which isn't installed dpkg: warning: ignoring request to remove libbinutils which isn't installed dpkg: warning: ignoring request to remove libblas-common which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 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 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 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 libgfortran3 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 Purging configuration files for libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... dpkg: warning: ignoring request to remove libhat-trie0 which isn't installed 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 libicu57 which isn't installed dpkg: warning: ignoring request to remove libicu63 which isn't installed dpkg: warning: ignoring request to remove libidn11 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove 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 libjemalloc1 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 dpkg: warning: ignoring request to remove libjs-sphinxdoc which isn't installed dpkg: warning: ignoring request to remove libjs-underscore which isn't installed dpkg: warning: ignoring request to remove libjson-c3 which isn't installed dpkg: warning: ignoring request to remove libjsoncpp1 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 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 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 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 libnlopt0 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 libprocps7 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 libssw0 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 libtiff5 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 libwebpmux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libxerces-c3.2 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxslt1.1 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) ... 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) ... 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) ... Purging configuration files for procps (2:3.3.15-2) ... dpkg: warning: ignoring request to remove prodigal which isn't installed dpkg: warning: ignoring request to remove proj-bin which isn't installed dpkg: warning: ignoring request to remove proj-data which isn't installed Purging configuration files for psmisc (23.2-1+deb10u1) ... 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-atomicwrites which isn't installed dpkg: warning: ignoring request to remove python-attr which isn't installed dpkg: warning: ignoring request to remove python-configparser which isn't installed dpkg: warning: ignoring request to remove python-funcsigs which isn't installed dpkg: warning: ignoring request to remove python-future which isn't installed dpkg: warning: ignoring request to remove python-joblib which isn't installed dpkg: warning: ignoring request to remove python-lz4 which isn't installed dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-more-itertools which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-pathlib2 which isn't installed dpkg: warning: ignoring request to remove python-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python-pluggy which isn't installed dpkg: warning: ignoring request to remove python-psutil which isn't installed dpkg: warning: ignoring request to remove python-py which isn't installed dpkg: warning: ignoring request to remove python-pytest which isn't installed dpkg: warning: ignoring request to remove python-scandir which isn't installed dpkg: warning: ignoring request to remove python-simplejson which isn't installed dpkg: warning: ignoring request to remove python-six which isn't installed dpkg: warning: ignoring request to remove python-yaml 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-atomicwrites which isn't installed dpkg: warning: ignoring request to remove python3-attr 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-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-distutils which isn't installed dpkg: warning: ignoring request to remove python3-et-xmlfile 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-jdcal 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-minimal which isn't installed dpkg: warning: ignoring request to remove python3-mistune which isn't installed dpkg: warning: ignoring request to remove python3-more-itertools 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-openpyxl 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-pluggy 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-py 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-pytest 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-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-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 Purging configuration files for sgml-base (1.29) ... dpkg: warning: ignoring request to remove spades which isn't installed Purging configuration files for tzdata (2021a-0+deb10u6) ... Purging configuration files for ucf (3.0038+nmu1) ... Purging configuration files for xml-core (0.18+nmu1) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed 1m59.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--purge', 'bamtools', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'bwa', 'bzip2', 'cpp', 'cpp-8', 'cwltool', 'dh-python', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'g++', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbamtools2.4.0', 'libbamtools2.5.1:amd64', 'libbinutils:amd64', 'libblas-common', 'libblas3:amd64', 'libbrotli1:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', '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', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhat-trie0:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts1:amd64', 'libhts2:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjemalloc1', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-sphinxdoc', 'libjs-underscore', 'libjson-c3:amd64', 'libjsoncpp1: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', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnlopt0: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', 'libprocps7: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', 'libssw0:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtiff5:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'libunistring0:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwebpmux3:amd64', 'libxerces-c3.2:amd64', 'libxml2:amd64', 'libxslt1.1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mime-support', 'mummer', 'mysql-common', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'poppler-data', 'procps', 'prodigal', 'proj-bin', 'proj-data', 'psmisc', 'publicsuffix', 'python', 'python-atomicwrites', 'python-attr', 'python-configparser', 'python-funcsigs', 'python-future', 'python-joblib', 'python-lz4', 'python-minimal', 'python-more-itertools', 'python-numpy', 'python-pathlib2', 'python-pkg-resources', 'python-pluggy', 'python-psutil', 'python-py', 'python-pytest', 'python-scandir', 'python-simplejson', 'python-six', 'python-yaml', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-atomicwrites', 'python3-attr', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-dateutil', 'python3-decorator', 'python3-distutils', 'python3-et-xmlfile', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-jdcal', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-minimal', 'python3-mistune', 'python3-more-itertools', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-openpyxl', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pluggy', 'python3-prov', 'python3-psutil', 'python3-py', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-pytest', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', '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', 'sgml-base', 'spades', 'tzdata', 'ucf', 'xml-core', 'xz-utils'] 1m59.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--purge', 'circlator'] 1m59.5s DUMP: dpkg: warning: ignoring request to remove circlator which isn't installed 1m59.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--purge', 'circlator'] 1m59.5s INFO: Running scripts post_purge 1m59.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_purge_exceptions'] 1m59.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_purge_exceptions'] 1m59.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--purge', '--pending'] 1m59.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--purge', '--pending'] 1m59.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--remove', '--pending'] 1m59.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg', '--remove', '--pending'] 1m59.5s INFO: Running scripts post_test 1m59.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_test_exceptions'] 1m59.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'tmp/scripts/post_test_exceptions'] 1m59.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m60.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 1m60.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg-divert', '--list'] 1m60.0s 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 1m60.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'dpkg-divert', '--list'] 1m60.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'clean'] 2m0.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq', 'apt-get', 'clean'] 2m0.1s DEBUG: Recording chroot state 2m0.5s INFO: Warning: Package purging left files on system: /etc/ca-certificates.conf.dpkg-old not owned 2m0.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/shm'] 2m0.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/shm'] 2m0.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/console'] 2m0.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/console'] 2m0.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/ptmx'] 2m0.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/ptmx'] 2m0.9s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/pts'] 2m0.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/dev/pts'] 2m0.9s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/proc'] 2m0.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq/proc'] 2m0.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 2m1.0s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpgwfwvfkq'] 2m1.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpgwfwvfkq 2m1.0s INFO: PASS: Upgrading between Debian distributions. 2m1.0s INFO: PASS: All tests. 2m1.0s INFO: piuparts run ends. ret=0 End: 2022-12-17 22:55:28 GMT