Start: 2024-01-29 17:30:14 GMT Package: python3-biopython Source: python-biopython Version: 1.73+dfsg-1 Installed-Size: 8928 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: python3-numpy (>= 1:1.16.0~rc1), python3-numpy-abi9, python3 (<< 3.8), python3 (>= 3.7~), python3:any, libc6 (>= 2.14), python3-reportlab Recommends: python-biopython-doc (= 1.73+dfsg-1), ncbi-blast+ Suggests: python3-tk, bwa, clustalo, clustalw, dialign, dssp, emboss, fasttree, mafft, muscle, phylip, phyml, prank, probcons, python3-mysqldb, python3-matplotlib, python3-pil, python3-rdflib, python3-renderpm, python3-psycopg2, python3-scipy, raxml, samtools, t-coffee, wise (>= 2.4.1-16), w3-dtd-mathml Description: Python library for bioinformatics (implemented in Python 3) Homepage: http://biopython.org Description-md5: 47e7a48daf3e838fe28613e3af745403 Section: python Priority: optional Filename: pool/main/p/python-biopython/python3-biopython_1.73+dfsg-1_amd64.deb Size: 1287300 MD5sum: 84b7b391ad743717f6ea4e7b5a9bf4fe SHA256: f07239150c2354c13f555e296ae65202f374707223b1fb7ebc5a9dece4c03d97 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 --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz -d buster --no-upgrade-test --apt python3-biopython=1.73+dfsg-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.2 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 --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz -d buster --no-upgrade-test --apt python3-biopython=1.73+dfsg-1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-27-amd64 #1 SMP Debian 5.10.205-2 (2023-12-31) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpldgooo15 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpldgooo15 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpldgooo15', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m1.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpldgooo15', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m1.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpldgooo15/proc'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpldgooo15/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/tmpldgooo15/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/tmpldgooo15/dev/pts'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/ptmx'] 0m1.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/ptmx'] 0m1.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/5', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/console'] 0m1.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/5', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/console'] 0m1.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/shm'] 0m1.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/shm'] 0m1.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m1.5s DEBUG: Created policy-rc.d and chmodded it. 0m1.5s DEBUG: Created resolv.conf. 0m1.5s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpldgooo15/tmp/scripts/ 0m1.5s INFO: Running scripts post_chroot_unpack 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'update'] 0m2.5s DUMP: Hit:1 http://deb.debian.org/debian buster InRelease Reading package lists... 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'update'] 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', '-yf', 'dist-upgrade'] 0m2.8s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', '-yf', 'dist-upgrade'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.1s DUMP: f6fc0f2636004ef589309651dfd778f4 - 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.1s INFO: Running scripts post_setup 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_dummy_users'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_dummy_users'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'clean'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'clean'] 0m4.2s DEBUG: Recording chroot state 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.6s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed coreutils coreutils 8.30-3 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.33.1-0.1 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-divert', '--list'] 0m4.6s 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 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-divert', '--list'] 0m4.6s INFO: Running scripts is_testable 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/is_testable_uninstallable'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/is_testable_uninstallable'] 0m4.6s INFO: apt-cache does not know about any of the requested packages 0m4.6s INFO: Running scripts pre_test 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_test_exceptions'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_test_exceptions'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_test_root_password'] 0m4.6s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_test_root_password'] 0m4.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m5.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m5.4s DEBUG: No broken symlinks as far as we can find. 0m5.4s INFO: Running scripts pre_install 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_database-server'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_database-server'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_exceptions'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_exceptions'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_extras'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_extras'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m5.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m6.3s DEBUG: No broken symlinks as far as we can find. 0m6.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-cache', 'policy'] 0m6.9s 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=oldoldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m6.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-cache', 'policy'] 0m6.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-cache', 'policy', 'python3-biopython'] 0m7.0s DUMP: python3-biopython: Installed: (none) Candidate: 1.73+dfsg-1 Version table: 1.73+dfsg-1 500 500 http://deb.debian.org/debian buster/main amd64 Packages 0m7.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-cache', 'policy', 'python3-biopython'] 0m7.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', '-y', 'install', 'python3-biopython=1.73+dfsg-1'] 0m23.1s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: bzip2 file gsfonts libblas3 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblmdb0 libmagic-mgc libmagic1 libmbedcrypto3 libmbedtls12 libmbedx509-0 libmpdec2 libperl5.28 libpng16-16 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libquadmath0 libreadline7 libsqlite3-0 libssl1.1 libtiff5 libwebp6 libwebpdemux2 libwebpmux3 mime-support ncbi-blast+ ncbi-data netbase perl perl-modules-5.28 python python-biopython python-biopython-doc python-minimal python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python2.7 python2.7-minimal python3 python3-minimal python3-numpy python3-olefile python3-pil python3-pkg-resources python3-renderpm python3-reportlab python3-reportlab-accel python3.7 python3.7-minimal readline-common xz-utils Suggested packages: bzip2-doc gdbm-l10n liblcms2-utils sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libb-debug-perl liblocale-codes-perl python-doc python-tk bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python-mysqldb python-matplotlib python-rdflib python-psycopg2 python-scipy raxml samtools t-coffee wise w3-dtd-mathml gcc gfortran python-dev python-pytest python-numpy-dbg python-numpy-doc python-pil-doc python-pil-dbg python-setuptools python-renderpm-dbg pdf-viewer python-egenix-mxtexttools python-reportlab-doc python2-doc python2.7-doc binutils binfmt-support python3-doc python3-tk python3-venv python3-mysqldb python3-matplotlib python3-rdflib python3-psycopg2 python3-scipy python3-dev python3-pytest python3-numpy-dbg python3-pil-dbg python3-setuptools python3-renderpm-dbg python3-egenix-mxtexttools python3.7-venv python3.7-doc readline-doc The following NEW packages will be installed: bzip2 file gsfonts libblas3 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblmdb0 libmagic-mgc libmagic1 libmbedcrypto3 libmbedtls12 libmbedx509-0 libmpdec2 libperl5.28 libpng16-16 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libquadmath0 libreadline7 libsqlite3-0 libssl1.1 libtiff5 libwebp6 libwebpdemux2 libwebpmux3 mime-support ncbi-blast+ ncbi-data netbase perl perl-modules-5.28 python python-biopython python-biopython-doc python-minimal python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python2.7 python2.7-minimal python3 python3-biopython python3-minimal python3-numpy python3-olefile python3-pil python3-pkg-resources python3-renderpm python3-reportlab python3-reportlab-accel python3.7 python3.7-minimal readline-common xz-utils 0 upgraded, 74 newly installed, 0 to remove and 0 not upgraded. Need to get 65.4 MB of archives. After this operation, 263 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 perl-modules-5.28 all 5.28.1-6+deb10u1 [2873 kB] Get:2 http://deb.debian.org/debian buster/main amd64 libgdbm6 amd64 1.18.1-4 [64.7 kB] Get:3 http://deb.debian.org/debian buster/main amd64 libgdbm-compat4 amd64 1.18.1-4 [44.1 kB] Get:4 http://deb.debian.org/debian buster/main amd64 libperl5.28 amd64 5.28.1-6+deb10u1 [3894 kB] Get:5 http://deb.debian.org/debian buster/main amd64 perl amd64 5.28.1-6+deb10u1 [204 kB] Get:6 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get:7 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get:8 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get:9 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get:10 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:11 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get:12 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u4 [108 kB] Get:13 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:15 http://deb.debian.org/debian buster/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u1 [641 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get:17 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get:20 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get:21 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get:22 http://deb.debian.org/debian buster/main amd64 libpython3.7-minimal amd64 3.7.3-2+deb10u3 [589 kB] Get:23 http://deb.debian.org/debian buster/main amd64 python3.7-minimal amd64 3.7.3-2+deb10u3 [1737 kB] Get:24 http://deb.debian.org/debian buster/main amd64 python3-minimal amd64 3.7.3-1 [36.6 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB] Get:26 http://deb.debian.org/debian buster/main amd64 libpython3.7-stdlib amd64 3.7.3-2+deb10u3 [1734 kB] Get:27 http://deb.debian.org/debian buster/main amd64 python3.7 amd64 3.7.3-2+deb10u3 [330 kB] Get:28 http://deb.debian.org/debian buster/main amd64 libpython3-stdlib amd64 3.7.3-1 [20.0 kB] Get:29 http://deb.debian.org/debian buster/main amd64 python3 amd64 3.7.3-1 [61.5 kB] Get:30 http://deb.debian.org/debian buster/main amd64 netbase all 5.6 [19.4 kB] Get:31 http://deb.debian.org/debian buster/main amd64 bzip2 amd64 1.0.6-9.2~deb10u1 [48.4 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get:33 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get:34 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get:35 http://deb.debian.org/debian buster/main amd64 xz-utils amd64 5.2.4-1+deb10u1 [183 kB] Get:36 http://deb.debian.org/debian buster/main amd64 gsfonts all 1:8.11+urwcyr1.0.7~pre44-4.4 [3125 kB] Get:37 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:38 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:39 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get:40 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get:41 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u3 [380 kB] Get:42 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:45 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get:46 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get:47 http://deb.debian.org/debian buster/main amd64 liblcms2-2 amd64 2.9-3 [145 kB] Get:48 http://deb.debian.org/debian buster/main amd64 liblmdb0 amd64 0.9.22-1 [45.0 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libmbedcrypto3 amd64 2.16.0-1 [209 kB] Get:50 http://deb.debian.org/debian buster/main amd64 libmbedx509-0 amd64 2.16.0-1 [91.4 kB] Get:51 http://deb.debian.org/debian buster/main amd64 libmbedtls12 amd64 2.16.0-1 [130 kB] Get:52 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get:53 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u4 [271 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libwebpdemux2 amd64 0.6.1-2+deb10u1 [87.6 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libwebpmux3 amd64 0.6.1-2+deb10u1 [97.8 kB] Get:56 http://deb.debian.org/debian buster/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb10u2 [3552 kB] Get:57 http://deb.debian.org/debian buster/main amd64 ncbi-blast+ amd64 2.8.1-1+deb10u1 [10.9 MB] Get:58 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get:59 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get:60 http://deb.debian.org/debian buster/main amd64 python-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:61 http://deb.debian.org/debian buster/main amd64 python-reportlab-accel amd64 3.5.13-1+deb10u1 [39.8 kB] Get:62 http://deb.debian.org/debian buster/main amd64 python-reportlab all 3.5.13-1+deb10u1 [545 kB] Get:63 http://deb.debian.org/debian buster/main amd64 python-biopython amd64 1.73+dfsg-1 [1334 kB] Get:64 http://deb.debian.org/debian buster/main amd64 python-biopython-doc all 1.73+dfsg-1 [14.1 MB] Get:65 http://deb.debian.org/debian buster/main amd64 python-olefile all 0.46-1 [35.9 kB] Get:66 http://deb.debian.org/debian buster/main amd64 python-renderpm amd64 3.5.13-1+deb10u1 [76.6 kB] Get:67 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] Get:68 http://deb.debian.org/debian buster/main amd64 python3-numpy amd64 1:1.16.2-1 [2119 kB] Get:69 http://deb.debian.org/debian buster/main amd64 python3-reportlab-accel amd64 3.5.13-1+deb10u1 [35.3 kB] Get:70 http://deb.debian.org/debian buster/main amd64 python3-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:71 http://deb.debian.org/debian buster/main amd64 python3-reportlab all 3.5.13-1+deb10u1 [541 kB] Get:72 http://deb.debian.org/debian buster/main amd64 python3-biopython amd64 1.73+dfsg-1 [1287 kB] Get:73 http://deb.debian.org/debian buster/main amd64 python3-olefile all 0.46-1 [35.9 kB] Get:74 http://deb.debian.org/debian buster/main amd64 python3-renderpm amd64 3.5.13-1+deb10u1 [76.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 65.4 MB in 1s (76.0 MB/s) Selecting previously unselected package perl-modules-5.28. (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 ... 6462 files and directories currently installed.) Preparing to unpack .../00-perl-modules-5.28_5.28.1-6+deb10u1_all.deb ... Unpacking perl-modules-5.28 (5.28.1-6+deb10u1) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../01-libgdbm6_1.18.1-4_amd64.deb ... Unpacking libgdbm6:amd64 (1.18.1-4) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../09-libgfortran5_8.3.0-6_amd64.deb ... Unpacking libgfortran5:amd64 (8.3.0-6) ... Selecting previously unselected package libblas3:amd64. Preparing to unpack .../10-libblas3_3.8.0-2_amd64.deb ... Unpacking libblas3:amd64 (3.8.0-2) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../11-libpng16-16_1.6.36-6_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.36-6) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../12-libfreetype6_2.9.1-3+deb10u3_amd64.deb ... Unpacking libfreetype6:amd64 (2.9.1-3+deb10u3) ... Selecting previously unselected package libgomp1:amd64. Preparing to unpack .../13-libgomp1_8.3.0-6_amd64.deb ... Unpacking libgomp1:amd64 (8.3.0-6) ... Selecting previously unselected package libimagequant0:amd64. Preparing to unpack .../14-libimagequant0_2.12.2-1.1_amd64.deb ... Unpacking libimagequant0:amd64 (2.12.2-1.1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../15-libjbig0_2.1-3.1+b2_amd64.deb ... Unpacking libjbig0:amd64 (2.1-3.1+b2) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../16-libjpeg62-turbo_1%3a1.5.2-2+deb10u1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Selecting previously unselected package liblapack3:amd64. Preparing to unpack .../17-liblapack3_3.8.0-2_amd64.deb ... Unpacking liblapack3:amd64 (3.8.0-2) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../18-liblcms2-2_2.9-3_amd64.deb ... Unpacking liblcms2-2:amd64 (2.9-3) ... Selecting previously unselected package liblmdb0:amd64. Preparing to unpack .../19-liblmdb0_0.9.22-1_amd64.deb ... Unpacking liblmdb0:amd64 (0.9.22-1) ... Selecting previously unselected package libmbedcrypto3:amd64. Preparing to unpack .../20-libmbedcrypto3_2.16.0-1_amd64.deb ... Unpacking libmbedcrypto3:amd64 (2.16.0-1) ... Selecting previously unselected package libmbedx509-0:amd64. Preparing to unpack .../21-libmbedx509-0_2.16.0-1_amd64.deb ... Unpacking libmbedx509-0:amd64 (2.16.0-1) ... Selecting previously unselected package libmbedtls12:amd64. Preparing to unpack .../22-libmbedtls12_2.16.0-1_amd64.deb ... Unpacking libmbedtls12:amd64 (2.16.0-1) ... Selecting previously unselected package libwebp6:amd64. Preparing to unpack .../23-libwebp6_0.6.1-2+deb10u1_amd64.deb ... Unpacking libwebp6:amd64 (0.6.1-2+deb10u1) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../24-libtiff5_4.1.0+git191117-2~deb10u4_amd64.deb ... Unpacking libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Selecting previously unselected package libwebpdemux2:amd64. Preparing to unpack .../25-libwebpdemux2_0.6.1-2+deb10u1_amd64.deb ... Unpacking libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Selecting previously unselected package libwebpmux3:amd64. Preparing to unpack .../26-libwebpmux3_0.6.1-2+deb10u1_amd64.deb ... Unpacking libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Selecting previously unselected package ncbi-data. Preparing to unpack .../27-ncbi-data_6.1.20170106+dfsg1-0+deb10u2_all.deb ... Unpacking ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Selecting previously unselected package ncbi-blast+. Preparing to unpack .../28-ncbi-blast+_2.8.1-1+deb10u1_amd64.deb ... Unpacking ncbi-blast+ (2.8.1-1+deb10u1) ... Selecting previously unselected package python-pkg-resources. Preparing to unpack .../29-python-pkg-resources_40.8.0-1_all.deb ... Unpacking python-pkg-resources (40.8.0-1) ... Selecting previously unselected package python-numpy. Preparing to unpack .../30-python-numpy_1%3a1.16.2-1_amd64.deb ... Unpacking python-numpy (1:1.16.2-1) ... Selecting previously unselected package python-pil:amd64. Preparing to unpack .../31-python-pil_5.4.1-2+deb10u3_amd64.deb ... Unpacking python-pil:amd64 (5.4.1-2+deb10u3) ... Selecting previously unselected package python-reportlab-accel:amd64. Preparing to unpack .../32-python-reportlab-accel_3.5.13-1+deb10u1_amd64.deb ... Unpacking python-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Selecting previously unselected package python-reportlab. Preparing to unpack .../33-python-reportlab_3.5.13-1+deb10u1_all.deb ... Unpacking python-reportlab (3.5.13-1+deb10u1) ... Selecting previously unselected package python-biopython. Preparing to unpack .../34-python-biopython_1.73+dfsg-1_amd64.deb ... Unpacking python-biopython (1.73+dfsg-1) ... Selecting previously unselected package python-biopython-doc. Preparing to unpack .../35-python-biopython-doc_1.73+dfsg-1_all.deb ... Unpacking python-biopython-doc (1.73+dfsg-1) ... Selecting previously unselected package python-olefile. Preparing to unpack .../36-python-olefile_0.46-1_all.deb ... Unpacking python-olefile (0.46-1) ... Selecting previously unselected package python-renderpm:amd64. Preparing to unpack .../37-python-renderpm_3.5.13-1+deb10u1_amd64.deb ... Unpacking python-renderpm:amd64 (3.5.13-1+deb10u1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../38-python3-pkg-resources_40.8.0-1_all.deb ... Unpacking python3-pkg-resources (40.8.0-1) ... Selecting previously unselected package python3-numpy. Preparing to unpack .../39-python3-numpy_1%3a1.16.2-1_amd64.deb ... Unpacking python3-numpy (1:1.16.2-1) ... Selecting previously unselected package python3-reportlab-accel:amd64. Preparing to unpack .../40-python3-reportlab-accel_3.5.13-1+deb10u1_amd64.deb ... Unpacking python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Selecting previously unselected package python3-pil:amd64. Preparing to unpack .../41-python3-pil_5.4.1-2+deb10u3_amd64.deb ... Unpacking python3-pil:amd64 (5.4.1-2+deb10u3) ... Selecting previously unselected package python3-reportlab. Preparing to unpack .../42-python3-reportlab_3.5.13-1+deb10u1_all.deb ... Unpacking python3-reportlab (3.5.13-1+deb10u1) ... Selecting previously unselected package python3-biopython. Preparing to unpack .../43-python3-biopython_1.73+dfsg-1_amd64.deb ... Unpacking python3-biopython (1.73+dfsg-1) ... Selecting previously unselected package python3-olefile. Preparing to unpack .../44-python3-olefile_0.46-1_all.deb ... Unpacking python3-olefile (0.46-1) ... Selecting previously unselected package python3-renderpm:amd64. Preparing to unpack .../45-python3-renderpm_3.5.13-1+deb10u1_amd64.deb ... Unpacking python3-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up perl-modules-5.28 (5.28.1-6+deb10u1) ... Setting up liblmdb0:amd64 (0.9.22-1) ... Setting up liblcms2-2:amd64 (2.9-3) ... Setting up ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Setting up mime-support (3.62) ... Setting up libmagic-mgc (1:5.35-4+deb10u2) ... Setting up libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... 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 libjbig0:amd64 (2.1-3.1+b2) ... Setting up libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Setting up gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Setting up xz-utils (5.2.4-1+deb10u1) ... update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode Setting up libquadmath0:amd64 (8.3.0-6) ... Setting up libimagequant0:amd64 (2.12.2-1.1) ... Setting up libpng16-16:amd64 (1.6.36-6) ... Setting up libwebp6:amd64 (0.6.1-2+deb10u1) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up python-biopython-doc (1.73+dfsg-1) ... Setting up libmbedcrypto3:amd64 (2.16.0-1) ... Setting up netbase (5.6) ... Setting up libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Setting up readline-common (7.0-5) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libgdbm6:amd64 (1.18.1-4) ... Setting up libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Setting up libmbedx509-0:amd64 (2.16.0-1) ... Setting up libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Setting up libmbedtls12:amd64 (2.16.0-1) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... 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 libgdbm-compat4:amd64 (1.18.1-4) ... Setting up libperl5.28:amd64 (5.28.1-6+deb10u1) ... Setting up libpython3-stdlib:amd64 (3.7.3-1) ... 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 python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up python3 (3.7.3-1) ... Setting up python2 (2.7.16-1) ... Setting up python3-pil:amd64 (5.4.1-2+deb10u3) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up perl (5.28.1-6+deb10u1) ... Setting up python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Setting up python3-reportlab (3.5.13-1+deb10u1) ... Setting up python (2.7.16-1) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up python3-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up python3-olefile (0.46-1) ... Setting up python-pil:amd64 (5.4.1-2+deb10u3) ... Setting up python-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up ncbi-blast+ (2.8.1-1+deb10u1) ... Setting up python3-numpy (1:1.16.2-1) ... Setting up python-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Setting up python3-biopython (1.73+dfsg-1) ... Setting up python-olefile (0.46-1) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python-reportlab (3.5.13-1+deb10u1) ... Setting up python-biopython (1.73+dfsg-1) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 0m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', '-y', 'install', 'python3-biopython=1.73+dfsg-1'] 0m23.1s INFO: Running scripts post_install 0m23.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_install_exceptions'] 0m23.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_install_exceptions'] 0m23.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m24.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m25.4s ERROR: WARN: Broken symlinks: /usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd -> ../../../../../../share/xml/schema/w3c/mathml/dtd/mathml2.dtd (python3-biopython) /usr/lib/python2.7/dist-packages/Bio/Entrez/DTDs/mathml2.dtd -> ../../../../../../share/xml/schema/w3c/mathml/dtd/mathml2.dtd (python-biopython) 0m25.4s INFO: /bin converted to /usr/bin by /usr merge 0m25.4s INFO: /lib converted to /usr/lib by /usr merge 0m25.4s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m25.4s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m25.4s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m25.4s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m25.4s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m25.4s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m25.4s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m25.4s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m25.4s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m25.4s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m25.4s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m25.4s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m25.4s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m25.4s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m25.4s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m25.4s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m25.4s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m25.4s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m25.4s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m25.4s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m25.4s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m25.4s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m25.4s INFO: /sbin converted to /usr/sbin by /usr merge 0m26.2s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpldgooo15', '-ac', '--ignore-obsolete'] 0m27.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpldgooo15', '-ac', '--ignore-obsolete'] 0m27.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m27.6s DUMP: 0.15.6 0m27.6s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m27.6s INFO: Running adequate version 0.15.6 now. 0m27.6s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'python3-biopython'] 0m27.7s DUMP: python3-biopython: broken-symlink /usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd -> ../../../../../../share/xml/schema/w3c/mathml/dtd/mathml2.dtd 0m27.7s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'python3-biopython'] 0m27.7s ERROR: WARN: Inadequate results from running adequate! python3-biopython: broken-symlink /usr/lib/python3/dist-packages/Bio/Entrez/DTDs/mathml2.dtd -> ../../../../../../share/xml/schema/w3c/mathml/dtd/mathml2.dtd 0m27.7s ERROR: WARN: Running adequate resulted in less interesting tags found: broken-symlink 0m27.7s INFO: Running scripts pre_remove 0m27.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m27.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m27.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m27.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m27.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m30.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m30.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m30.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m30.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m30.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_exceptions'] 0m30.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/pre_remove_exceptions'] 0m30.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m30.5s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed bzip2 bzip2 1.0.6-9.2~deb10u1 install ok installed coreutils coreutils 8.30-3 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed file file 1:5.35-4+deb10u2 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gsfonts gsfonts 1:8.11+urwcyr1.0.7~pre44-4.4 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libblas3:amd64 libblas3 3.8.0-2 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed 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 libfreetype6:amd64 libfreetype6 2.9.1-3+deb10u3 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.18.1-4 install ok installed libgdbm6:amd64 libgdbm6 1.18.1-4 install ok installed libgfortran5:amd64 libgfortran5 8.3.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgomp1:amd64 libgomp1 8.3.0-6 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 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 libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:1.5.2-2+deb10u1 install ok installed liblapack3:amd64 liblapack3 3.8.0-2 install ok installed liblcms2-2:amd64 liblcms2-2 2.9-3 install ok installed liblmdb0:amd64 liblmdb0 0.9.22-1 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmagic-mgc libmagic-mgc 1:5.35-4+deb10u2 install ok installed libmagic1:amd64 libmagic1 1:5.35-4+deb10u2 install ok installed libmbedcrypto3:amd64 libmbedcrypto3 2.16.0-1 install ok installed libmbedtls12:amd64 libmbedtls12 2.16.0-1 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.16.0-1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libmpdec2:amd64 libmpdec2 2.4.2-2 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed 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 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 libpython3.7-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 libquadmath0:amd64 libquadmath0 8.3.0-6 install ok installed libreadline7:amd64 libreadline7 7.0-5 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.27.2-3+deb10u1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libssl1.1:amd64 libssl1.1 1.1.1n-0+deb10u3 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtiff5:amd64 libtiff5 4.1.0+git191117-2~deb10u4 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libwebp6:amd64 libwebp6 0.6.1-2+deb10u1 install ok installed libwebpdemux2:amd64 libwebpdemux2 0.6.1-2+deb10u1 install ok installed libwebpmux3:amd64 libwebpmux3 0.6.1-2+deb10u1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mime-support mime-support 3.62 install ok installed mount mount 2.33.1-0.1 install ok installed ncbi-blast+ ncbi-blast+ 2.8.1-1+deb10u1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-0+deb10u2 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed netbase netbase 5.6 install ok installed 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-5.28 perl-modules-5.28 5.28.1-6+deb10u1 install ok installed python python 2.7.16-1 install ok installed python-biopython python-biopython 1.73+dfsg-1 install ok installed python-biopython-doc python-biopython-doc 1.73+dfsg-1 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-numpy python-numpy 1:1.16.2-1 install ok installed python-olefile python-olefile 0.46-1 install ok installed python-pil:amd64 python-pil 5.4.1-2+deb10u3 install ok installed python-pkg-resources python-pkg-resources 40.8.0-1 install ok installed python-renderpm:amd64 python-renderpm 3.5.13-1+deb10u1 install ok installed python-reportlab python-reportlab 3.5.13-1+deb10u1 install ok installed python-reportlab-accel:amd64 python-reportlab-accel 3.5.13-1+deb10u1 install ok installed python2 python2 2.7.16-1 install ok installed python2-minimal python2-minimal 2.7.16-1 install ok installed python2.7 python2.7 2.7.16-2+deb10u1 install ok installed python2.7-minimal python2.7-minimal 2.7.16-2+deb10u1 install ok installed python3 python3 3.7.3-1 install ok installed python3-biopython python3-biopython 1.73+dfsg-1 install ok installed python3-minimal python3-minimal 3.7.3-1 install ok installed python3-numpy python3-numpy 1:1.16.2-1 install ok installed python3-olefile python3-olefile 0.46-1 install ok installed python3-pil:amd64 python3-pil 5.4.1-2+deb10u3 install ok installed python3-pkg-resources python3-pkg-resources 40.8.0-1 install ok installed python3-renderpm:amd64 python3-renderpm 3.5.13-1+deb10u1 install ok installed python3-reportlab python3-reportlab 3.5.13-1+deb10u1 install ok installed python3-reportlab-accel:amd64 python3-reportlab-accel 3.5.13-1+deb10u1 install ok installed python3.7 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 sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed xz-utils xz-utils 5.2.4-1+deb10u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 0m30.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m30.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'remove', 'bzip2', 'file', 'gsfonts', 'libblas3:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblmdb0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpdec2:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'mime-support', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.28', 'python', 'python-biopython', 'python-biopython-doc', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-minimal', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.7', 'python3.7-minimal', 'readline-common', 'xz-utils', 'python3-biopython'] 0m32.8s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bzip2 file gsfonts libblas3 libexpat1 libfreetype6 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libimagequant0 libjbig0 libjpeg62-turbo liblapack3 liblcms2-2 liblmdb0 libmagic-mgc libmagic1 libmbedcrypto3 libmbedtls12 libmbedx509-0 libmpdec2 libperl5.28 libpng16-16 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libquadmath0 libreadline7 libsqlite3-0 libssl1.1 libtiff5 libwebp6 libwebpdemux2 libwebpmux3 mime-support ncbi-blast+ ncbi-data netbase perl perl-modules-5.28 python python-biopython python-biopython-doc python-minimal python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python2.7 python2.7-minimal python3 python3-biopython python3-minimal python3-numpy python3-olefile python3-pil python3-pkg-resources python3-renderpm python3-reportlab python3-reportlab-accel python3.7 python3.7-minimal readline-common xz-utils 0 upgraded, 0 newly installed, 74 to remove and 0 not upgraded. After this operation, 263 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 ... 14982 files and directories currently installed.) Removing bzip2 (1.0.6-9.2~deb10u1) ... Removing file (1:5.35-4+deb10u2) ... Removing python3-renderpm:amd64 (3.5.13-1+deb10u1) ... Removing python-renderpm:amd64 (3.5.13-1+deb10u1) ... Removing gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Removing python3-biopython (1.73+dfsg-1) ... Removing python3-numpy (1:1.16.2-1) ... Removing python-biopython (1.73+dfsg-1) ... Removing python-numpy (1:1.16.2-1) ... Removing liblapack3:amd64 (3.8.0-2) ... Removing libblas3:amd64 (3.8.0-2) ... Removing python3-reportlab (3.5.13-1+deb10u1) ... Removing python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Removing python3-pkg-resources (40.8.0-1) ... Removing python3-pil:amd64 (5.4.1-2+deb10u3) ... Removing python3-olefile (0.46-1) ... Removing python3 (3.7.3-1) ... Removing python3.7 (3.7.3-2+deb10u3) ... Removing python3-minimal (3.7.3-1) ... Removing python3.7-minimal (3.7.3-2+deb10u3) ... Removing python-reportlab (3.5.13-1+deb10u1) ... Removing python-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Removing python-pkg-resources (40.8.0-1) ... Removing python-pil:amd64 (5.4.1-2+deb10u3) ... Removing libfreetype6:amd64 (2.9.1-3+deb10u3) ... Removing ncbi-blast+ (2.8.1-1+deb10u1) ... Removing perl (5.28.1-6+deb10u1) ... Removing libperl5.28:amd64 (5.28.1-6+deb10u1) ... Removing libgdbm-compat4:amd64 (1.18.1-4) ... Removing libgdbm6:amd64 (1.18.1-4) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libimagequant0:amd64 (2.12.2-1.1) ... Removing libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Removing libjbig0:amd64 (2.1-3.1+b2) ... Removing libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Removing liblcms2-2:amd64 (2.9-3) ... Removing liblmdb0:amd64 (0.9.22-1) ... Removing libmagic1:amd64 (1:5.35-4+deb10u2) ... Removing libmagic-mgc (1:5.35-4+deb10u2) ... Removing libmbedtls12:amd64 (2.16.0-1) ... Removing libmbedx509-0:amd64 (2.16.0-1) ... Removing libmbedcrypto3:amd64 (2.16.0-1) ... Removing 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 libpng16-16:amd64 (1.6.36-6) ... Removing libpython3.7-minimal:amd64 (3.7.3-2+deb10u3) ... find: '/usr/lib/python3': No such file or directory Removing libquadmath0:amd64 (8.3.0-6) ... Removing libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Removing libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Removing libwebp6:amd64 (0.6.1-2+deb10u1) ... Removing ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Removing netbase (5.6) ... Removing perl-modules-5.28 (5.28.1-6+deb10u1) ... Removing python-biopython-doc (1.73+dfsg-1) ... Removing python-olefile (0.46-1) ... Removing xz-utils (5.2.4-1+deb10u1) ... 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 python-minimal (2.7.16-1) ... Removing python2-minimal (2.7.16-1) ... Removing python2.7 (2.7.16-2+deb10u1) ... Removing libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Removing libexpat1:amd64 (2.2.6-2+deb10u4) ... 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 libssl1.1:amd64 (1.1.1n-0+deb10u3) ... Removing mime-support (3.62) ... Removing readline-common (7.0-5) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 0m32.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'remove', 'bzip2', 'file', 'gsfonts', 'libblas3:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblmdb0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpdec2:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'mime-support', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.28', 'python', 'python-biopython', 'python-biopython-doc', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-minimal', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.7', 'python3.7-minimal', 'readline-common', 'xz-utils', 'python3-biopython'] 0m32.8s INFO: Running scripts post_remove 0m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_remove_exceptions'] 0m32.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_remove_exceptions'] 0m32.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--purge', 'bzip2', 'file', 'gsfonts', 'libblas3:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblmdb0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpdec2:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'mime-support', 'ncbi-blast+', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.28', 'python', 'python-biopython', 'python-biopython-doc', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-minimal', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.7', 'python3.7-minimal', 'readline-common', 'xz-utils'] 0m32.9s DUMP: dpkg: warning: ignoring request to remove bzip2 which isn't installed dpkg: warning: ignoring request to remove file which isn't installed (Reading database ... 6482 files and directories currently installed.) Purging configuration files for gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.35-4+deb10u2) ... dpkg: warning: ignoring request to remove libmbedcrypto3 which isn't installed dpkg: warning: ignoring request to remove libmbedtls12 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-0 which isn't installed dpkg: warning: ignoring request to remove libmpdec2 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 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 libpython3.7-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 libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline7 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed Purging configuration files for libssl1.1:amd64 (1.1.1n-0+deb10u3) ... dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed Purging configuration files for mime-support (3.62) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Purging configuration files for netbase (5.6) ... Purging configuration files for perl (5.28.1-6+deb10u1) ... dpkg: warning: ignoring request to remove perl-modules-5.28 which isn't installed Purging configuration files for python (2.7.16-1) ... dpkg: warning: ignoring request to remove python-biopython which isn't installed dpkg: warning: ignoring request to remove python-biopython-doc which isn't installed dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-olefile which isn't installed dpkg: warning: ignoring request to remove python-pil which isn't installed dpkg: warning: ignoring request to remove python-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python-renderpm which isn't installed dpkg: warning: ignoring request to remove python-reportlab which isn't installed dpkg: warning: ignoring request to remove python-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python2 which isn't installed dpkg: warning: ignoring request to remove python2-minimal which isn't installed dpkg: warning: ignoring request to remove python2.7 which isn't installed Purging configuration files for python2.7-minimal (2.7.16-2+deb10u1) ... Purging configuration files for python3 (3.7.3-1) ... dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-olefile which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-renderpm which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python3.7 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 xz-utils which isn't installed 0m32.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--purge', 'bzip2', 'file', 'gsfonts', 'libblas3:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'liblmdb0:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpdec2:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-minimal:amd64', 'libpython3.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'libsqlite3-0:amd64', 'libssl1.1:amd64', 'libtiff5:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'mime-support', 'ncbi-blast+', 'ncbi-data', 'netbase', 'perl', 'perl-modules-5.28', 'python', 'python-biopython', 'python-biopython-doc', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-minimal', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.7', 'python3.7-minimal', 'readline-common', 'xz-utils'] 0m32.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--purge', 'python3-biopython'] 0m33.0s DUMP: dpkg: warning: ignoring request to remove python3-biopython which isn't installed 0m33.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--purge', 'python3-biopython'] 0m33.0s INFO: Running scripts post_purge 0m33.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_purge_exceptions'] 0m33.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_purge_exceptions'] 0m33.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--purge', '--pending'] 0m33.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--purge', '--pending'] 0m33.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--remove', '--pending'] 0m33.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg', '--remove', '--pending'] 0m33.0s INFO: Running scripts post_test 0m33.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_test_exceptions'] 0m33.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'tmp/scripts/post_test_exceptions'] 0m33.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m33.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m33.8s DEBUG: No broken symlinks as far as we can find. 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-divert', '--list'] 0m33.8s 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 0m33.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'dpkg-divert', '--list'] 0m33.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'clean'] 0m33.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpldgooo15', 'apt-get', 'clean'] 0m33.9s DEBUG: Recording chroot state 0m34.3s INFO: PASS: Installation and purging test. 0m34.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/shm'] 0m34.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/shm'] 0m34.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/console'] 0m34.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/console'] 0m34.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/ptmx'] 0m34.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/ptmx'] 0m34.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/pts'] 0m34.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/dev/pts'] 0m34.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/proc'] 0m34.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpldgooo15/proc'] 0m34.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m34.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpldgooo15'] 0m34.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpldgooo15 0m34.9s INFO: PASS: All tests. 0m34.9s INFO: piuparts run ends. ret=0 End: 2024-01-29 17:30:49 GMT