Start: 2024-01-18 06:31:33 GMT Package: ariba Version: 2.13.3+ds-1 Installed-Size: 17444 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: fastaq (>= 3.12.0), python3 (<< 3.8), python3 (>= 3.7~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.14), libfml0 (>= 0.1-4~), libgcc1 (>= 1:3.0), libminimap0, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Description: Antibiotic Resistance Identification By Assembly Homepage: https://github.com/sanger-pathogens/ariba Description-md5: 4d8147ab9fb44c5b4617a970175bc18d Tag: biology::nucleic-acids, field::biology, field::biology:bioinformatics, implemented-in::python, interface::commandline, role::program, scope::application, use::analysing Section: science Priority: optional Filename: pool/main/a/ariba/ariba_2.13.3+ds-1_amd64.deb Size: 1678912 MD5sum: 77517ce195de03a32365f34e5629bb30 SHA256: a971e793eca324e1333e4cf1c89abd795839a5b7869c10d31a2dca27675f074e Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --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 ariba=2.13.3+ds-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.2 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 ariba=2.13.3+ds-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/tmp_8sldvqt 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp_8sldvqt 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m1.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster-merged-usr_amd64.tar.gz'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/proc'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/proc'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/pts'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/pts'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/ptmx'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/ptmx'] 0m1.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/console'] 0m1.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/6', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/console'] 0m1.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/shm'] 0m1.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/shm'] 0m1.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m1.3s DEBUG: Created policy-rc.d and chmodded it. 0m1.3s DEBUG: Created resolv.conf. 0m1.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp_8sldvqt/tmp/scripts/ 0m1.3s INFO: Running scripts post_chroot_unpack 0m1.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'update'] 0m2.1s DUMP: Hit:1 http://deb.debian.org/debian buster InRelease Reading package lists... 0m2.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'update'] 0m2.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', '-yf', 'dist-upgrade'] 0m2.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.8s DUMP: f6fc0f2636004ef589309651dfd778f4 - 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.8s INFO: Running scripts post_setup 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_dummy_users'] 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_dummy_users'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_forbid_home'] 0m3.7s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_forbid_home'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', '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' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_minimize'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_minimize'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_zz_backports'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_setup_zz_backports'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'clean'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'clean'] 0m3.8s DEBUG: Recording chroot state 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.2s 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 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-divert', '--list'] 0m4.2s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-divert', '--list'] 0m4.2s INFO: Running scripts is_testable 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/is_testable_uninstallable'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/is_testable_uninstallable'] 0m4.2s INFO: apt-cache does not know about any of the requested packages 0m4.2s INFO: Running scripts pre_test 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_test_exceptions'] 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_test_exceptions'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_test_root_password'] 0m4.2s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_test_root_password'] 0m4.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 0m4.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 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/tmp_8sldvqt', 'tmp/scripts/pre_install_database-server'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_database-server'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_exceptions'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_exceptions'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_extras'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_extras'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 0m5.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 0m6.6s DEBUG: No broken symlinks as far as we can find. 0m6.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-cache', 'policy'] 0m7.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldoldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-cache', 'policy'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-cache', 'policy', 'ariba'] 0m7.3s DUMP: ariba: Installed: (none) Candidate: 2.13.3+ds-1 Version table: 2.13.3+ds-1 500 500 http://deb.debian.org/debian buster/main amd64 Packages 0m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-cache', 'policy', 'ariba'] 0m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', '-y', 'install', 'ariba=2.13.3+ds-1'] 1m9.0s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: binutils binutils-common binutils-x86-64-linux-gnu blt bowtie2 bzip2 ca-certificates cd-hit cpp cpp-8 cwltool fastaq file fontconfig-config fonts-dejavu-core fonts-glyphicons-halflings fonts-lyx g++ g++-8 gawk gcc gcc-8 gdal-data gsfonts javascript-common krb5-locales libaec0 libarmadillo9 libarpack2 libasan5 libatomic1 libbinutils libblas3 libbrotli1 libbsd0 libc-ares2 libc-dev-bin libc6-dev libcapnp-0.7.0 libcc1-0 libcharls2 libcurl3-gnutls libdap25 libdapclient6v5 libdapserver7v5 libdeflate0 libepsilon1 libexpat1 libfml0 libfontconfig1 libfreetype6 libfreexl1 libfyba0 libgcc-8-dev libgdal20 libgdbm-compat4 libgdbm6 libgeos-3.7.1 libgeos-c1v5 libgeotiff2 libgfortran5 libgif7 libgomp1 libgpm2 libgsl23 libgslcblas0 libgssapi-krb5-2 libhdf4-0-alt libhdf5-103 libhts2 libicu63 libimagequant0 libisl19 libitm1 libjbig0 libjpeg62-turbo libjs-bootstrap libjs-jquery libjs-jquery-ui libjson-c3 libk5crypto3 libkeyutils1 libkmlbase1 libkmlconvenience1 libkmldom1 libkmlengine1 libkmlregionator1 libkmlxsd1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblmdb0 liblsan0 libltdl7 libmagic-mgc libmagic1 libmariadb3 libmbedcrypto3 libmbedtls12 libmbedx509-0 libminimap0 libminizip1 libmpc3 libmpdec2 libmpfr6 libmpx2 libmurmurhash1 libncurses6 libnetcdf13 libnghttp2-14 libnode64 libnspr4 libnss3 libodbc1 libogdi3.2 libopenjp2-7 libperl5.28 libpng16-16 libpoppler82 libpopt0 libpq5 libproj13 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libqhull7 libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libspatialite7 libsqlite3-0 libssh2-1 libssl1.1 libstdc++-8-dev libsuperlu5 libsz2 libtbb2 libtcl8.6 libtiff5 libtk8.6 libtsan0 libubsan1 liburiparser1 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces-c3.2 libxext6 libxft2 libxml2 libxrender1 libxslt1.1 libxss1 libyaml-0-2 linux-libc-dev lsb-base manpages manpages-dev mariadb-common mash mime-support mummer mysql-common ncbi-blast+ ncbi-data netbase nodejs nodejs-doc odbcinst odbcinst1debian2 openssl perl perl-modules-5.28 poppler-data proj-bin proj-data publicsuffix python python-biopython python-biopython-doc python-matplotlib-data python-minimal python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python2.7 python2.7-minimal python3 python3-biopython python3-bs4 python3-cachecontrol python3-certifi python3-chardet python3-cycler python3-dateutil python3-decorator python3-dendropy python3-distutils python3-gdal python3-html5lib python3-idna python3-isodate python3-kiwisolver python3-lib2to3 python3-lockfile python3-lxml python3-matplotlib python3-minimal python3-mistune python3-mypy python3-mypy-extensions python3-networkx python3-numpy python3-olefile python3-pil python3-pkg-resources python3-prov python3-psutil python3-pymummer python3-pyparsing python3-pysam python3-rdflib python3-rdflib-jsonld python3-renderpm python3-reportlab python3-reportlab-accel python3-requests python3-ruamel.yaml python3-schema-salad python3-scipy python3-shellescape python3-six python3-soupsieve python3-sparqlwrapper python3-tk python3-typed-ast python3-typing-extensions python3-urllib3 python3-webencodings python3-yaml python3.7 python3.7-minimal readline-common samtools sensible-utils tk8.6-blt2.5 ttf-bitstream-vera ucf x11-common xz-utils Suggested packages: binutils-doc blt-demo bowtie2-examples bzip2-doc cpp-doc gcc-8-locales docker.io | singularity-container g++-multilib g++-8-multilib gcc-8-doc libstdc++6-8-dbg gawk-doc gcc-multilib make autoconf automake libtool flex bison gdb gcc-doc gcc-8-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan5-dbg liblsan0-dbg libtsan0-dbg libubsan1-dbg libmpx2-dbg libquadmath0-dbg apache2 | lighttpd | httpd glibc-doc gdbm-l10n geotiff-bin gdal-bin libgeotiff-epsg gpm gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-doc krb5-user libhdf4-doc libhdf4-alt-dev hdf4-tools libjs-jquery-ui-docs liblcms2-utils libmyodbc odbc-postgresql tdsodbc unixodbc-bin ogdi-bin libsasl2-modules-gssapi-mit | libsasl2-modules-gssapi-heimdal libsasl2-modules-ldap libsasl2-modules-otp libsasl2-modules-sql libstdc++-8-doc tcl8.6 tk8.6 man-browser npm perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl libb-debug-perl liblocale-codes-perl poppler-utils ghostscript fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum 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 t-coffee wise w3-dtd-mathml 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 binfmt-support python3-doc python3-venv python3-mysqldb python3-psycopg2 python-cycler-doc python3-genshi python-lockfile-doc python3-lxml-dbg python-lxml-doc dvipng ffmpeg gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-nose python3-pyqt4 python3-sip python3-tornado texlive-extra-utils texlive-latex-extra ttf-staypuft python-networkx-doc python3-dev python3-pytest python3-numpy-dbg python3-pil-dbg python3-setuptools python-prov-doc python3-pydot python-psutil-doc python-pyparsing-doc python-rdflib-doc python3-renderpm-dbg python3-egenix-mxtexttools python3-cryptography python3-openssl python3-socks python-scipy-doc tix python3-tk-dbg python3.7-venv python3.7-doc readline-doc The following NEW packages will be installed: ariba binutils binutils-common binutils-x86-64-linux-gnu blt bowtie2 bzip2 ca-certificates cd-hit cpp cpp-8 cwltool fastaq file fontconfig-config fonts-dejavu-core fonts-glyphicons-halflings fonts-lyx g++ g++-8 gawk gcc gcc-8 gdal-data gsfonts javascript-common krb5-locales libaec0 libarmadillo9 libarpack2 libasan5 libatomic1 libbinutils libblas3 libbrotli1 libbsd0 libc-ares2 libc-dev-bin libc6-dev libcapnp-0.7.0 libcc1-0 libcharls2 libcurl3-gnutls libdap25 libdapclient6v5 libdapserver7v5 libdeflate0 libepsilon1 libexpat1 libfml0 libfontconfig1 libfreetype6 libfreexl1 libfyba0 libgcc-8-dev libgdal20 libgdbm-compat4 libgdbm6 libgeos-3.7.1 libgeos-c1v5 libgeotiff2 libgfortran5 libgif7 libgomp1 libgpm2 libgsl23 libgslcblas0 libgssapi-krb5-2 libhdf4-0-alt libhdf5-103 libhts2 libicu63 libimagequant0 libisl19 libitm1 libjbig0 libjpeg62-turbo libjs-bootstrap libjs-jquery libjs-jquery-ui libjson-c3 libk5crypto3 libkeyutils1 libkmlbase1 libkmlconvenience1 libkmldom1 libkmlengine1 libkmlregionator1 libkmlxsd1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblmdb0 liblsan0 libltdl7 libmagic-mgc libmagic1 libmariadb3 libmbedcrypto3 libmbedtls12 libmbedx509-0 libminimap0 libminizip1 libmpc3 libmpdec2 libmpfr6 libmpx2 libmurmurhash1 libncurses6 libnetcdf13 libnghttp2-14 libnode64 libnspr4 libnss3 libodbc1 libogdi3.2 libopenjp2-7 libperl5.28 libpng16-16 libpoppler82 libpopt0 libpq5 libproj13 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libqhull7 libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libspatialite7 libsqlite3-0 libssh2-1 libssl1.1 libstdc++-8-dev libsuperlu5 libsz2 libtbb2 libtcl8.6 libtiff5 libtk8.6 libtsan0 libubsan1 liburiparser1 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces-c3.2 libxext6 libxft2 libxml2 libxrender1 libxslt1.1 libxss1 libyaml-0-2 linux-libc-dev lsb-base manpages manpages-dev mariadb-common mash mime-support mummer mysql-common ncbi-blast+ ncbi-data netbase nodejs nodejs-doc odbcinst odbcinst1debian2 openssl perl perl-modules-5.28 poppler-data proj-bin proj-data publicsuffix python python-biopython python-biopython-doc python-matplotlib-data python-minimal python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python2.7 python2.7-minimal python3 python3-biopython python3-bs4 python3-cachecontrol python3-certifi python3-chardet python3-cycler python3-dateutil python3-decorator python3-dendropy python3-distutils python3-gdal python3-html5lib python3-idna python3-isodate python3-kiwisolver python3-lib2to3 python3-lockfile python3-lxml python3-matplotlib python3-minimal python3-mistune python3-mypy python3-mypy-extensions python3-networkx python3-numpy python3-olefile python3-pil python3-pkg-resources python3-prov python3-psutil python3-pymummer python3-pyparsing python3-pysam python3-rdflib python3-rdflib-jsonld python3-renderpm python3-reportlab python3-reportlab-accel python3-requests python3-ruamel.yaml python3-schema-salad python3-scipy python3-shellescape python3-six python3-soupsieve python3-sparqlwrapper python3-tk python3-typed-ast python3-typing-extensions python3-urllib3 python3-webencodings python3-yaml python3.7 python3.7-minimal readline-common samtools sensible-utils tk8.6-blt2.5 ttf-bitstream-vera ucf x11-common xz-utils 0 upgraded, 275 newly installed, 0 to remove and 0 not upgraded. Need to get 203 MB of archives. After this operation, 791 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 libmpfr6 amd64 4.0.2-1 [775 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:24 http://deb.debian.org/debian buster/main amd64 gawk amd64 1:4.2.1+dfsg-1 [660 kB] Get:25 http://deb.debian.org/debian buster/main amd64 poppler-data all 0.4.9-2 [1473 kB] Get:26 http://deb.debian.org/debian buster/main amd64 libpython3.7-minimal amd64 3.7.3-2+deb10u3 [589 kB] Get:27 http://deb.debian.org/debian buster/main amd64 python3.7-minimal amd64 3.7.3-2+deb10u3 [1737 kB] Get:28 http://deb.debian.org/debian buster/main amd64 python3-minimal amd64 3.7.3-1 [36.6 kB] Get:29 http://deb.debian.org/debian buster/main amd64 libmpdec2 amd64 2.4.2-2 [87.2 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libpython3.7-stdlib amd64 3.7.3-2+deb10u3 [1734 kB] Get:31 http://deb.debian.org/debian buster/main amd64 python3.7 amd64 3.7.3-2+deb10u3 [330 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libpython3-stdlib amd64 3.7.3-1 [20.0 kB] Get:33 http://deb.debian.org/debian buster/main amd64 python3 amd64 3.7.3-1 [61.5 kB] Get:34 http://deb.debian.org/debian buster/main amd64 netbase all 5.6 [19.4 kB] Get:35 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:36 http://deb.debian.org/debian buster/main amd64 bzip2 amd64 1.0.6-9.2~deb10u1 [48.4 kB] Get:37 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get:38 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get:39 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get:40 http://deb.debian.org/debian buster/main amd64 krb5-locales all 1.17-3+deb10u4 [95.6 kB] Get:41 http://deb.debian.org/debian buster/main amd64 manpages all 4.16-2 [1295 kB] Get:42 http://deb.debian.org/debian buster/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:43 http://deb.debian.org/debian buster/main amd64 xz-utils amd64 5.2.4-1+deb10u1 [183 kB] Get:44 http://deb.debian.org/debian buster/main amd64 python3-pkg-resources all 40.8.0-1 [153 kB] Get:45 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:46 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u4 [65.9 kB] Get:47 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u4 [122 kB] Get:48 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u4 [369 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u4 [158 kB] Get:50 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] Get:51 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] Get:52 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u7 [90.1 kB] Get:53 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u7 [224 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:56 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get:57 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:58 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get:59 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] Get:61 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get:62 http://deb.debian.org/debian buster/main amd64 samtools amd64 1.9-4 [443 kB] Get:63 http://deb.debian.org/debian buster/main amd64 fastaq all 3.17.0-2 [47.8 kB] Get:64 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:65 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get:67 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 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 libpng16-16 amd64 1.6.36-6 [292 kB] Get:71 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u3 [380 kB] Get:72 http://deb.debian.org/debian buster/main amd64 libimagequant0 amd64 2.12.2-1.1 [32.5 kB] Get:73 http://deb.debian.org/debian buster/main amd64 libjpeg62-turbo amd64 1:1.5.2-2+deb10u1 [133 kB] Get:74 http://deb.debian.org/debian buster/main amd64 liblcms2-2 amd64 2.9-3 [145 kB] Get:75 http://deb.debian.org/debian buster/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:76 http://deb.debian.org/debian buster/main amd64 libwebp6 amd64 0.6.1-2+deb10u1 [261 kB] Get:77 http://deb.debian.org/debian buster/main amd64 libtiff5 amd64 4.1.0+git191117-2~deb10u4 [271 kB] Get:78 http://deb.debian.org/debian buster/main amd64 libwebpdemux2 amd64 0.6.1-2+deb10u1 [87.6 kB] Get:79 http://deb.debian.org/debian buster/main amd64 libwebpmux3 amd64 0.6.1-2+deb10u1 [97.8 kB] Get:80 http://deb.debian.org/debian buster/main amd64 python3-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:81 http://deb.debian.org/debian buster/main amd64 python3-reportlab all 3.5.13-1+deb10u1 [541 kB] Get:82 http://deb.debian.org/debian buster/main amd64 python3-biopython amd64 1.73+dfsg-1 [1287 kB] Get:83 http://deb.debian.org/debian buster/main amd64 python3-soupsieve all 1.8+dfsg-1 [27.6 kB] Get:84 http://deb.debian.org/debian buster/main amd64 python3-bs4 all 4.7.1-1 [94.1 kB] Get:85 http://deb.debian.org/debian buster/main amd64 python3-dendropy all 4.4.0-1 [265 kB] Get:86 http://deb.debian.org/debian buster/main amd64 python3-six all 1.12.0-1 [15.7 kB] Get:87 http://deb.debian.org/debian buster/main amd64 python3-dateutil all 2.7.3-3 [64.5 kB] Get:88 http://deb.debian.org/debian buster/main amd64 fonts-lyx all 2.3.2-1 [199 kB] Get:89 http://deb.debian.org/debian buster/main amd64 ttf-bitstream-vera all 1.10-8 [352 kB] Get:90 http://deb.debian.org/debian buster/main amd64 python-matplotlib-data all 3.0.2-2 [4138 kB] Get:91 http://deb.debian.org/debian buster/main amd64 python3-pyparsing all 2.2.0+dfsg1-2 [89.6 kB] Get:92 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get:93 http://deb.debian.org/debian buster/main amd64 libjs-jquery-ui all 1.12.1+dfsg-5 [232 kB] Get:94 http://deb.debian.org/debian buster/main amd64 python3-cycler all 0.10.0-1 [7556 B] Get:95 http://deb.debian.org/debian buster/main amd64 python3-kiwisolver amd64 1.0.1-2+b1 [65.4 kB] Get:96 http://deb.debian.org/debian buster/main amd64 python3-matplotlib amd64 3.0.2-2 [5353 kB] Get:97 http://deb.debian.org/debian buster/main amd64 mummer amd64 3.23+dfsg-4 [809 kB] Get:98 http://deb.debian.org/debian buster/main amd64 python3-pymummer all 0.10.3-2 [9268 B] Get:99 http://deb.debian.org/debian buster/main amd64 python3-pysam amd64 0.15.2+ds-2 [1661 kB] Get:100 http://deb.debian.org/debian buster/main amd64 libfml0 amd64 0.1-5 [69.3 kB] Get:101 http://deb.debian.org/debian buster/main amd64 libminimap0 amd64 0.2-4 [23.0 kB] Get:102 http://deb.debian.org/debian buster/main amd64 libatomic1 amd64 8.3.0-6 [9032 B] Get:103 http://deb.debian.org/debian buster/main amd64 libtbb2 amd64 2018~U6-4 [147 kB] Get:104 http://deb.debian.org/debian buster/main amd64 bowtie2 amd64 2.3.4.3-1 [1188 kB] Get:105 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:106 http://deb.debian.org/debian buster/main amd64 cd-hit amd64 4.6.8-2 [521 kB] Get:107 http://deb.debian.org/debian buster/main amd64 libcapnp-0.7.0 amd64 0.7.0-3 [1025 kB] Get:108 http://deb.debian.org/debian buster/main amd64 libgslcblas0 amd64 2.5+dfsg-6 [101 kB] Get:109 http://deb.debian.org/debian buster/main amd64 libgsl23 amd64 2.5+dfsg-6 [880 kB] Get:110 http://deb.debian.org/debian buster/main amd64 libmurmurhash1 amd64 1.3-2 [5556 B] Get:111 http://deb.debian.org/debian buster/main amd64 mash amd64 2.1+dfsg-2 [149 kB] Get:112 http://deb.debian.org/debian buster/main amd64 libtcl8.6 amd64 8.6.9+dfsg-2 [1005 kB] Get:113 http://deb.debian.org/debian buster/main amd64 fonts-dejavu-core all 2.37-1 [1068 kB] Get:114 http://deb.debian.org/debian buster/main amd64 fontconfig-config all 2.13.1-2 [280 kB] Get:115 http://deb.debian.org/debian buster/main amd64 libfontconfig1 amd64 2.13.1-2 [346 kB] Get:116 http://deb.debian.org/debian buster/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get:117 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get:118 http://deb.debian.org/debian buster/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:119 http://deb.debian.org/debian buster/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get:120 http://deb.debian.org/debian buster/main amd64 libx11-data all 2:1.6.7-1+deb10u2 [299 kB] Get:121 http://deb.debian.org/debian buster/main amd64 libx11-6 amd64 2:1.6.7-1+deb10u2 [757 kB] Get:122 http://deb.debian.org/debian buster/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get:123 http://deb.debian.org/debian buster/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:124 http://deb.debian.org/debian buster/main amd64 libxft2 amd64 2.3.2-2 [57.2 kB] Get:125 http://deb.debian.org/debian buster/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get:126 http://deb.debian.org/debian buster/main amd64 x11-common all 1:7.7+19 [251 kB] Get:127 http://deb.debian.org/debian buster/main amd64 libxss1 amd64 1:1.2.3-1 [17.8 kB] Get:128 http://deb.debian.org/debian buster/main amd64 libtk8.6 amd64 8.6.9-2 [768 kB] Get:129 http://deb.debian.org/debian buster/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-4 [587 kB] Get:130 http://deb.debian.org/debian buster/main amd64 blt amd64 2.5.3+dfsg-4 [14.8 kB] Get:131 http://deb.debian.org/debian buster/main amd64 python3-tk amd64 3.7.3-1 [97.4 kB] Get:132 http://deb.debian.org/debian buster/main amd64 ariba amd64 2.13.3+ds-1 [1679 kB] Get:133 http://deb.debian.org/debian buster/main amd64 binutils-common amd64 2.31.1-16 [2073 kB] Get:134 http://deb.debian.org/debian buster/main amd64 libbinutils amd64 2.31.1-16 [478 kB] Get:135 http://deb.debian.org/debian buster/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-16 [1823 kB] Get:136 http://deb.debian.org/debian buster/main amd64 binutils amd64 2.31.1-16 [56.8 kB] Get:137 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1n-0+deb10u3 [855 kB] Get:138 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get:139 http://deb.debian.org/debian buster/main amd64 libisl19 amd64 0.20-2 [587 kB] Get:140 http://deb.debian.org/debian buster/main amd64 libmpc3 amd64 1.1.0-1 [41.3 kB] Get:141 http://deb.debian.org/debian buster/main amd64 cpp-8 amd64 8.3.0-6 [8914 kB] Get:142 http://deb.debian.org/debian buster/main amd64 cpp amd64 4:8.3.0-1 [19.4 kB] Get:143 http://deb.debian.org/debian buster/main amd64 python3-typed-ast amd64 1.3.1-1 [138 kB] Get:144 http://deb.debian.org/debian buster/main amd64 python3-mypy-extensions all 0.4.1-1 [5234 B] Get:145 http://deb.debian.org/debian buster/main amd64 python3-psutil amd64 5.5.1-1 [166 kB] Get:146 http://deb.debian.org/debian buster/main amd64 python3-lib2to3 all 3.7.3-1 [76.7 kB] Get:147 http://deb.debian.org/debian buster/main amd64 python3-distutils all 3.7.3-1 [142 kB] Get:148 http://deb.debian.org/debian buster/main amd64 python3-mypy all 0.670-2 [781 kB] Get:149 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 [8293 kB] Get:150 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u4 [689 kB] Get:151 http://deb.debian.org/debian buster/main amd64 libxslt1.1 amd64 1.1.32-2.2~deb10u1 [237 kB] Get:152 http://deb.debian.org/debian buster/main amd64 python3-lxml amd64 4.3.2-1+deb10u4 [1163 kB] Get:153 http://deb.debian.org/debian buster/main amd64 python3-decorator all 4.3.0-1.1 [14.5 kB] Get:154 http://deb.debian.org/debian buster/main amd64 python3-networkx all 2.2-1 [818 kB] Get:155 http://deb.debian.org/debian buster/main amd64 python3-isodate all 0.6.0-1 [24.9 kB] Get:156 http://deb.debian.org/debian buster/main amd64 python3-rdflib all 4.2.2-2 [258 kB] Get:157 http://deb.debian.org/debian buster/main amd64 python3-prov all 1.5.2-1 [94.4 kB] Get:158 http://deb.debian.org/debian buster/main amd64 python3-certifi all 2018.8.24-1 [140 kB] Get:159 http://deb.debian.org/debian buster/main amd64 python3-chardet all 3.0.4-3 [80.5 kB] Get:160 http://deb.debian.org/debian buster/main amd64 python3-idna all 2.6-1 [34.3 kB] Get:161 http://deb.debian.org/debian buster/main amd64 python3-urllib3 all 1.24.1-1 [97.1 kB] Get:162 http://deb.debian.org/debian buster/main amd64 python3-requests all 2.21.0-1 [66.9 kB] Get:163 http://deb.debian.org/debian buster/main amd64 python3-ruamel.yaml amd64 0.15.34-1+b1 [248 kB] Get:164 http://deb.debian.org/debian buster/main amd64 python3-cachecontrol all 0.11.7-1 [15.2 kB] Get:165 http://deb.debian.org/debian buster/main amd64 python3-lockfile all 1:0.12.2-2 [17.1 kB] Get:166 http://deb.debian.org/debian buster/main amd64 python3-mistune all 0.8.4-1 [16.1 kB] Get:167 http://deb.debian.org/debian buster/main amd64 python3-rdflib-jsonld all 0.4.0-4 [12.3 kB] Get:168 http://deb.debian.org/debian buster/main amd64 python3-typing-extensions all 3.7.2-1 [23.0 kB] Get:169 http://deb.debian.org/debian buster/main amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-1 [164 kB] Get:170 http://deb.debian.org/debian buster/main amd64 libjs-bootstrap all 3.4.1+dfsg-1 [173 kB] Get:171 http://deb.debian.org/debian buster/main amd64 python3-schema-salad all 3.0.20181206233650-2 [272 kB] Get:172 http://deb.debian.org/debian buster/main amd64 python3-shellescape all 3.4.1-3 [4800 B] Get:173 http://deb.debian.org/debian buster/main amd64 cwltool all 1.0.20181217162649+dfsg-10 [176 kB] Get:174 http://deb.debian.org/debian buster/main amd64 libcc1-0 amd64 8.3.0-6 [46.6 kB] Get:175 http://deb.debian.org/debian buster/main amd64 libitm1 amd64 8.3.0-6 [27.7 kB] Get:176 http://deb.debian.org/debian buster/main amd64 libasan5 amd64 8.3.0-6 [362 kB] Get:177 http://deb.debian.org/debian buster/main amd64 liblsan0 amd64 8.3.0-6 [131 kB] Get:178 http://deb.debian.org/debian buster/main amd64 libtsan0 amd64 8.3.0-6 [283 kB] Get:179 http://deb.debian.org/debian buster/main amd64 libubsan1 amd64 8.3.0-6 [120 kB] Get:180 http://deb.debian.org/debian buster/main amd64 libmpx2 amd64 8.3.0-6 [11.4 kB] Get:181 http://deb.debian.org/debian buster/main amd64 libgcc-8-dev amd64 8.3.0-6 [2298 kB] Get:182 http://deb.debian.org/debian buster/main amd64 gcc-8 amd64 8.3.0-6 [9452 kB] Get:183 http://deb.debian.org/debian buster/main amd64 gcc amd64 4:8.3.0-1 [5196 B] Get:184 http://deb.debian.org/debian buster/main amd64 libc-dev-bin amd64 2.28-10+deb10u1 [276 kB] Get:185 http://deb.debian.org/debian buster/main amd64 linux-libc-dev amd64 4.19.249-2 [1530 kB] Get:186 http://deb.debian.org/debian buster/main amd64 libc6-dev amd64 2.28-10+deb10u1 [2692 kB] Get:187 http://deb.debian.org/debian buster/main amd64 libstdc++-8-dev amd64 8.3.0-6 [1532 kB] Get:188 http://deb.debian.org/debian buster/main amd64 g++-8 amd64 8.3.0-6 [9752 kB] Get:189 http://deb.debian.org/debian buster/main amd64 g++ amd64 4:8.3.0-1 [1644 B] Get:190 http://deb.debian.org/debian buster/main amd64 gdal-data all 2.4.0+dfsg-1 [744 kB] Get:191 http://deb.debian.org/debian buster/main amd64 gsfonts all 1:8.11+urwcyr1.0.7~pre44-4.4 [3125 kB] Get:192 http://deb.debian.org/debian buster/main amd64 javascript-common all 11 [6120 B] Get:193 http://deb.debian.org/debian buster/main amd64 libaec0 amd64 1.0.2-1 [20.1 kB] Get:194 http://deb.debian.org/debian buster/main amd64 libarpack2 amd64 3.7.0-2 [102 kB] Get:195 http://deb.debian.org/debian buster/main amd64 libsuperlu5 amd64 5.2.1+dfsg1-4 [161 kB] Get:196 http://deb.debian.org/debian buster/main amd64 libarmadillo9 amd64 1:9.200.7+dfsg-1 [88.6 kB] Get:197 http://deb.debian.org/debian buster/main amd64 libbrotli1 amd64 1.0.7-2+deb10u1 [269 kB] Get:198 http://deb.debian.org/debian buster/main amd64 libc-ares2 amd64 1.14.0-1+deb10u1 [86.1 kB] Get:199 http://deb.debian.org/debian buster/main amd64 libcharls2 amd64 2.0.0+dfsg-1 [64.3 kB] Get:200 http://deb.debian.org/debian buster/main amd64 libdap25 amd64 3.20.3-1 [557 kB] Get:201 http://deb.debian.org/debian buster/main amd64 libdapclient6v5 amd64 3.20.3-1 [202 kB] Get:202 http://deb.debian.org/debian buster/main amd64 libdapserver7v5 amd64 3.20.3-1 [131 kB] Get:203 http://deb.debian.org/debian buster/main amd64 libpopt0 amd64 1.16-12 [49.4 kB] Get:204 http://deb.debian.org/debian buster/main amd64 libepsilon1 amd64 0.9.2+dfsg-4 [42.0 kB] Get:205 http://deb.debian.org/debian buster/main amd64 libfreexl1 amd64 1.0.5-3 [34.1 kB] Get:206 http://deb.debian.org/debian buster/main amd64 libfyba0 amd64 4.1.1-6 [114 kB] Get:207 http://deb.debian.org/debian buster/main amd64 libgeos-3.7.1 amd64 3.7.1-1 [735 kB] Get:208 http://deb.debian.org/debian buster/main amd64 libgeos-c1v5 amd64 3.7.1-1 [299 kB] Get:209 http://deb.debian.org/debian buster/main amd64 proj-data all 5.2.0-1 [6986 kB] Get:210 http://deb.debian.org/debian buster/main amd64 libproj13 amd64 5.2.0-1 [225 kB] Get:211 http://deb.debian.org/debian buster/main amd64 libgeotiff2 amd64 1.4.3-1 [72.0 kB] Get:212 http://deb.debian.org/debian buster/main amd64 libgif7 amd64 5.1.4-3 [43.3 kB] Get:213 http://deb.debian.org/debian buster/main amd64 libhdf4-0-alt amd64 4.2.13-4 [277 kB] Get:214 http://deb.debian.org/debian buster/main amd64 libsz2 amd64 1.0.2-1 [6676 B] Get:215 http://deb.debian.org/debian buster/main amd64 libhdf5-103 amd64 1.10.4+repack-10 [1325 kB] Get:216 http://deb.debian.org/debian buster/main amd64 libjson-c3 amd64 0.12.1+ds-2+deb10u1 [27.3 kB] Get:217 http://deb.debian.org/debian buster/main amd64 libminizip1 amd64 1.1-8+b1 [20.4 kB] Get:218 http://deb.debian.org/debian buster/main amd64 liburiparser1 amd64 0.9.1-1+deb10u1 [48.1 kB] Get:219 http://deb.debian.org/debian buster/main amd64 libkmlbase1 amd64 1.3.0-7 [48.9 kB] Get:220 http://deb.debian.org/debian buster/main amd64 libkmldom1 amd64 1.3.0-7 [172 kB] Get:221 http://deb.debian.org/debian buster/main amd64 libkmlengine1 amd64 1.3.0-7 [78.4 kB] Get:222 http://deb.debian.org/debian buster/main amd64 libkmlconvenience1 amd64 1.3.0-7 [50.1 kB] Get:223 http://deb.debian.org/debian buster/main amd64 libkmlregionator1 amd64 1.3.0-7 [25.1 kB] Get:224 http://deb.debian.org/debian buster/main amd64 libkmlxsd1 amd64 1.3.0-7 [34.6 kB] Get:225 http://deb.debian.org/debian buster/main amd64 mysql-common all 5.8+1.0.5 [7324 B] Get:226 http://deb.debian.org/debian buster/main amd64 mariadb-common all 1:10.3.34-0+deb10u1 [33.0 kB] Get:227 http://deb.debian.org/debian buster/main amd64 libmariadb3 amd64 1:10.3.34-0+deb10u1 [173 kB] Get:228 http://deb.debian.org/debian buster/main amd64 libnetcdf13 amd64 1:4.6.2-1 [403 kB] Get:229 http://deb.debian.org/debian buster/main amd64 libltdl7 amd64 2.4.6-9 [390 kB] Get:230 http://deb.debian.org/debian buster/main amd64 libodbc1 amd64 2.3.6-0.1 [223 kB] Get:231 http://deb.debian.org/debian buster/main amd64 libogdi3.2 amd64 3.2.1+ds-4 [241 kB] Get:232 http://deb.debian.org/debian buster/main amd64 libopenjp2-7 amd64 2.3.0-2+deb10u2 [158 kB] Get:233 http://deb.debian.org/debian buster/main amd64 libnspr4 amd64 2:4.20-1 [112 kB] Get:234 http://deb.debian.org/debian buster/main amd64 libnss3 amd64 2:3.42.1-1+deb10u5 [1160 kB] Get:235 http://deb.debian.org/debian buster/main amd64 libpoppler82 amd64 0.71.0-5 [1507 kB] Get:236 http://deb.debian.org/debian buster/main amd64 libpq5 amd64 11.16-0+deb10u1 [172 kB] Get:237 http://deb.debian.org/debian buster/main amd64 libqhull7 amd64 2015.2-4 [196 kB] Get:238 http://deb.debian.org/debian buster/main amd64 libspatialite7 amd64 4.3.0a-5+b2 [1256 kB] Get:239 http://deb.debian.org/debian buster/main amd64 libxerces-c3.2 amd64 3.2.2+debian-1+deb10u1 [886 kB] Get:240 http://deb.debian.org/debian buster/main amd64 odbcinst amd64 2.3.6-0.1 [48.4 kB] Get:241 http://deb.debian.org/debian buster/main amd64 odbcinst1debian2 amd64 2.3.6-0.1 [78.1 kB] Get:242 http://deb.debian.org/debian buster/main amd64 libgdal20 amd64 2.4.0+dfsg-1+b1 [6171 kB] Get:243 http://deb.debian.org/debian buster/main amd64 libgpm2 amd64 1.20.7-5 [35.1 kB] Get:244 http://deb.debian.org/debian buster/main amd64 liblmdb0 amd64 0.9.22-1 [45.0 kB] Get:245 http://deb.debian.org/debian buster/main amd64 libmbedcrypto3 amd64 2.16.0-1 [209 kB] Get:246 http://deb.debian.org/debian buster/main amd64 libmbedx509-0 amd64 2.16.0-1 [91.4 kB] Get:247 http://deb.debian.org/debian buster/main amd64 libmbedtls12 amd64 2.16.0-1 [130 kB] Get:248 http://deb.debian.org/debian buster/main amd64 libuv1 amd64 1.24.1-1+deb10u1 [110 kB] Get:249 http://deb.debian.org/debian buster/main amd64 libnode64 amd64 10.24.0~dfsg-1~deb10u1 [5631 kB] Get:250 http://deb.debian.org/debian buster/main amd64 libsasl2-modules amd64 2.1.27+dfsg-1+deb10u2 [104 kB] Get:251 http://deb.debian.org/debian buster/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get:252 http://deb.debian.org/debian buster/main amd64 manpages-dev all 4.16-2 [2232 kB] Get:253 http://deb.debian.org/debian buster/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb10u2 [3552 kB] Get:254 http://deb.debian.org/debian buster/main amd64 ncbi-blast+ amd64 2.8.1-1+deb10u1 [10.9 MB] Get:255 http://deb.debian.org/debian buster/main amd64 nodejs amd64 10.24.0~dfsg-1~deb10u1 [87.3 kB] Get:256 http://deb.debian.org/debian buster/main amd64 nodejs-doc all 10.24.0~dfsg-1~deb10u1 [974 kB] Get:257 http://deb.debian.org/debian buster/main amd64 proj-bin amd64 5.2.0-1 [105 kB] Get:258 http://deb.debian.org/debian buster/main amd64 publicsuffix all 20220811.1734-0+deb10u1 [127 kB] Get:259 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get:260 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get:261 http://deb.debian.org/debian buster/main amd64 python-pil amd64 5.4.1-2+deb10u3 [395 kB] Get:262 http://deb.debian.org/debian buster/main amd64 python-reportlab-accel amd64 3.5.13-1+deb10u1 [39.8 kB] Get:263 http://deb.debian.org/debian buster/main amd64 python-reportlab all 3.5.13-1+deb10u1 [545 kB] Get:264 http://deb.debian.org/debian buster/main amd64 python-biopython amd64 1.73+dfsg-1 [1334 kB] Get:265 http://deb.debian.org/debian buster/main amd64 python-biopython-doc all 1.73+dfsg-1 [14.1 MB] Get:266 http://deb.debian.org/debian buster/main amd64 python-olefile all 0.46-1 [35.9 kB] Get:267 http://deb.debian.org/debian buster/main amd64 python-renderpm amd64 3.5.13-1+deb10u1 [76.6 kB] Get:268 http://deb.debian.org/debian buster/main amd64 python3-gdal amd64 2.4.0+dfsg-1+b1 [601 kB] Get:269 http://deb.debian.org/debian buster/main amd64 python3-webencodings all 0.5.1-1 [10.9 kB] Get:270 http://deb.debian.org/debian buster/main amd64 python3-html5lib all 1.0.1-1 [89.5 kB] Get:271 http://deb.debian.org/debian buster/main amd64 python3-olefile all 0.46-1 [35.9 kB] Get:272 http://deb.debian.org/debian buster/main amd64 python3-renderpm amd64 3.5.13-1+deb10u1 [76.8 kB] Get:273 http://deb.debian.org/debian buster/main amd64 python3-scipy amd64 1.1.0-7 [10.0 MB] Get:274 http://deb.debian.org/debian buster/main amd64 python3-sparqlwrapper all 1.8.2-0.1 [28.4 kB] Get:275 http://deb.debian.org/debian buster/main amd64 python3-yaml amd64 3.13-2 [121 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 203 MB in 4s (45.7 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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Setting up libitm1:amd64 (8.3.0-6) ... Setting up libkmlxsd1:amd64 (1.3.0-7) ... Setting up libgdbm6:amd64 (1.18.1-4) ... Setting up libpopt0:amd64 (1.16-12) ... Setting up binutils-x86-64-linux-gnu (2.31.1-16) ... Setting up libtsan0:amd64 (8.3.0-6) ... Setting up libkmldom1:amd64 (1.3.0-7) ... Setting up libspatialite7:amd64 (4.3.0a-5+b2) ... Setting up manpages-dev (4.16-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... Setting up libogdi3.2 (3.2.1+ds-4) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libkmlengine1:amd64 (1.3.0-7) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libkmlconvenience1:amd64 (1.3.0-7) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libmbedx509-0:amd64 (2.16.0-1) ... Setting up libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Setting up libtbb2:amd64 (2018~U6-4) ... Setting up libmbedtls12:amd64 (2.16.0-1) ... 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... 137 added, 0 removed; done. Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up libgeotiff2:amd64 (1.4.3-1) ... Setting up libblas3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjs-jquery-ui (1.12.1+dfsg-5) ... Setting up libfreetype6:amd64 (2.9.1-3+deb10u3) ... Setting up libkmlregionator1:amd64 (1.3.0-7) ... Setting up libhdf5-103:amd64 (1.10.4+repack-10) ... Setting up libnode64:amd64 (10.24.0~dfsg-1~deb10u1) ... Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Setting up libgdbm-compat4:amd64 (1.18.1-4) ... Setting up libodbc1:amd64 (2.3.6-0.1) ... Setting up ucf (3.0038+nmu1) ... Setting up libgcc-8-dev:amd64 (8.3.0-6) ... Setting up libperl5.28:amd64 (5.28.1-6+deb10u1) ... Setting up cpp (4:8.3.0-1) ... Setting up libxslt1.1:amd64 (1.1.32-2.2~deb10u1) ... Setting up libc6-dev:amd64 (2.28-10+deb10u1) ... Setting up libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Setting up python (2.7.16-1) ... Setting up libpython3-stdlib:amd64 (3.7.3-1) ... Setting up libstdc++-8-dev:amd64 (8.3.0-6) ... Setting up python3.7 (3.7.3-2+deb10u3) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up gcc-8 (8.3.0-6) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up libarpack2:amd64 (3.7.0-2) ... Setting up libpq5:amd64 (11.16-0+deb10u1) ... Setting up libsuperlu5:amd64 (5.2.1+dfsg1-4) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Setting up libnetcdf13:amd64 (1:4.6.2-1) ... Setting up python3 (3.7.3-1) ... Setting up python-pil:amd64 (5.4.1-2+deb10u3) ... Setting up nodejs (10.24.0~dfsg-1~deb10u1) ... update-alternatives: using /usr/bin/nodejs to provide /usr/bin/js (js) in auto mode Setting up python3-webencodings (0.5.1-1) ... Setting up python3-psutil (5.5.1-1) ... Setting up gcc (4:8.3.0-1) ... Setting up bowtie2 (2.3.4.3-1) ... Setting up python-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up python3-six (1.12.0-1) ... Setting up python3-isodate (0.6.0-1) ... Setting up python3-pil:amd64 (5.4.1-2+deb10u3) ... Setting up python3-decorator (4.3.0-1.1) ... Setting up perl (5.28.1-6+deb10u1) ... Setting up python3-pyparsing (2.2.0+dfsg1-2) ... Setting up python3-certifi (2018.8.24-1) ... Setting up python3-cycler (0.10.0-1) ... Setting up python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Setting up python3-idna (2.6-1) ... Setting up python3-typing-extensions (3.7.2-1) ... Setting up python3-html5lib (1.0.1-1) ... Setting up python3-urllib3 (1.24.1-1) ... Setting up python3-reportlab (3.5.13-1+deb10u1) ... Setting up python3-ruamel.yaml (0.15.34-1+b1) ... Setting up g++-8 (8.3.0-6) ... Setting up python3-lxml:amd64 (4.3.2-1+deb10u4) ... Setting up python3-rdflib (4.2.2-2) ... Setting up libdapclient6v5:amd64 (3.20.3-1) ... Setting up mummer (3.23+dfsg-4) ... Setting up python3-dateutil (2.7.3-3) ... Setting up python-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libfontconfig1:amd64 (2.13.1-2) ... Setting up python3-shellescape (3.4.1-3) ... Setting up libarmadillo9 (1:9.200.7+dfsg-1) ... Setting up python3-lib2to3 (3.7.3-1) ... Setting up python-olefile (0.46-1) ... Setting up python3-mistune (0.8.4-1) ... Setting up python3-soupsieve (1.8+dfsg-1) ... Setting up cd-hit (4.6.8-2) ... Setting up python3-pkg-resources (40.8.0-1) ... Setting up python3-distutils (3.7.3-1) ... Setting up python3-lockfile (1:0.12.2-2) ... Setting up python3-rdflib-jsonld (0.4.0-4) ... Setting up libxft2:amd64 (2.3.2-2) ... Setting up python3-renderpm:amd64 (3.5.13-1+deb10u1) ... Setting up libxerces-c3.2:amd64 (3.2.2+debian-1+deb10u1) ... Setting up python3-sparqlwrapper (1.8.2-0.1) ... Setting up libhts2:amd64 (1.9-12~deb10u1) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python3-typed-ast (1.3.1-1) ... Setting up python3-mypy-extensions (0.4.1-1) ... Setting up python3-olefile (0.46-1) ... Setting up libtk8.6:amd64 (8.6.9-2) ... Setting up libpoppler82:amd64 (0.71.0-5) ... Setting up python3-yaml (3.13-2) ... Setting up python3-networkx (2.2-1) ... Setting up python3-bs4 (4.7.1-1) ... Setting up python3-prov (1.5.2-1) ... Setting up samtools (1.9-4) ... Setting up ncbi-blast+ (2.8.1-1+deb10u1) ... Setting up python3-chardet (3.0.4-3) ... Setting up python3-requests (2.21.0-1) ... Setting up python3-kiwisolver (1.0.1-2+b1) ... Setting up python3-mypy (0.670-2) ... Setting up python3-numpy (1:1.16.2-1) ... Setting up python-reportlab (3.5.13-1+deb10u1) ... Setting up g++ (4:8.3.0-1) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up python3-cachecontrol (0.11.7-1) ... Setting up python3-biopython (1.73+dfsg-1) ... Setting up python3-dendropy (4.4.0-1) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4) ... Setting up python3-matplotlib (3.0.2-2) ... Setting up python3-pysam (0.15.2+ds-2) ... Setting up python3-scipy (1.1.0-7) ... Setting up blt (2.5.3+dfsg-4) ... Setting up fastaq (3.17.0-2) ... Setting up python3-schema-salad (3.0.20181206233650-2) ... Setting up python3-tk:amd64 (3.7.3-1) ... Setting up cwltool (1.0.20181217162649+dfsg-10) ... Setting up python3-pymummer (0.10.3-2) ... Setting up python-biopython (1.73+dfsg-1) ... Setting up ariba (2.13.3+ds-1) ... Setting up odbcinst (2.3.6-0.1) ... Setting up odbcinst1debian2:amd64 (2.3.6-0.1) ... Setting up libgdal20 (2.4.0+dfsg-1+b1) ... Setting up python3-gdal (2.4.0+dfsg-1+b1) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... Processing triggers for ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 1m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', '-y', 'install', 'ariba=2.13.3+ds-1'] 1m9.0s INFO: Running scripts post_install 1m9.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_install_exceptions'] 1m9.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_install_exceptions'] 1m9.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 1m10.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 1m13.4s 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) 1m13.5s INFO: /bin converted to /usr/bin by /usr merge 1m13.5s INFO: /lib converted to /usr/lib by /usr merge 1m13.5s INFO: /lib/init converted to /usr/lib/init by /usr merge 1m13.5s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 1m13.5s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 1m13.5s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 1m13.5s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 1m13.5s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 1m13.5s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 1m13.5s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 1m13.5s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 1m13.5s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 1m13.5s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 1m13.5s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 1m13.5s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 1m13.5s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 1m13.5s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 1m13.5s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 1m13.5s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 1m13.5s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 1m13.5s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 1m13.5s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 1m13.5s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 1m13.5s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 1m13.5s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 1m13.5s INFO: /lib64 converted to /usr/lib64 by /usr merge 1m13.5s INFO: /sbin converted to /usr/sbin by /usr merge 1m15.1s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', '-ac', '--ignore-obsolete'] 1m18.2s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', '-ac', '--ignore-obsolete'] 1m18.2s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m18.3s DUMP: 0.15.6 1m18.3s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m18.3s INFO: Running adequate version 0.15.6 now. 1m18.3s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'ariba'] 1m18.3s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'ariba'] 1m18.3s INFO: Running scripts pre_remove 1m18.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m18.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m18.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m25.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m25.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m25.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m25.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m25.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m25.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_exceptions'] 1m25.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/pre_remove_exceptions'] 1m25.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m25.5s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed ariba ariba 2.13.3+ds-1 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed binutils binutils 2.31.1-16 install ok installed binutils-common:amd64 binutils-common 2.31.1-16 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.31.1-16 install ok installed blt blt 2.5.3+dfsg-4 install ok installed bowtie2 bowtie2 2.3.4.3-1 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed bzip2 bzip2 1.0.6-9.2~deb10u1 install ok installed ca-certificates ca-certificates 20200601~deb10u2 install ok installed cd-hit cd-hit 4.6.8-2 install ok installed coreutils coreutils 8.30-3 install ok installed cpp cpp 4:8.3.0-1 install ok installed cpp-8 cpp-8 8.3.0-6 install ok installed cwltool cwltool 1.0.20181217162649+dfsg-10 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed 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 fastaq fastaq 3.17.0-2 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed file file 1:5.35-4+deb10u2 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed fontconfig-config fontconfig-config 2.13.1-2 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-1 install ok installed fonts-glyphicons-halflings fonts-glyphicons-halflings 1.009~3.4.1+dfsg-1 install ok installed fonts-lyx fonts-lyx 2.3.2-1 install ok installed g++ g++ 4:8.3.0-1 install ok installed g++-8 g++-8 8.3.0-6 install ok installed gawk gawk 1:4.2.1+dfsg-1 install ok installed gcc gcc 4:8.3.0-1 install ok installed gcc-8 gcc-8 8.3.0-6 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gdal-data gdal-data 2.4.0+dfsg-1 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gsfonts gsfonts 1:8.11+urwcyr1.0.7~pre44-4.4 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed javascript-common javascript-common 11 install ok installed krb5-locales krb5-locales 1.17-3+deb10u4 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libaec0:amd64 libaec0 1.0.2-1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libarmadillo9 libarmadillo9 1:9.200.7+dfsg-1 install ok installed libarpack2:amd64 libarpack2 3.7.0-2 install ok installed libasan5:amd64 libasan5 8.3.0-6 install ok installed libatomic1:amd64 libatomic1 8.3.0-6 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libbinutils:amd64 libbinutils 2.31.1-16 install ok installed libblas3:amd64 libblas3 3.8.0-2 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbrotli1:amd64 libbrotli1 1.0.7-2+deb10u1 install ok installed libbsd0:amd64 libbsd0 0.9.1-2+deb10u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-ares2:amd64 libc-ares2 1.14.0-1+deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc-dev-bin libc-dev-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libc6-dev:amd64 libc6-dev 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcapnp-0.7.0:amd64 libcapnp-0.7.0 0.7.0-3 install ok installed libcc1-0:amd64 libcc1-0 8.3.0-6 install ok installed libcharls2:amd64 libcharls2 2.0.0+dfsg-1 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.64.0-4+deb10u2 install ok installed libdap25:amd64 libdap25 3.20.3-1 install ok installed libdapclient6v5:amd64 libdapclient6v5 3.20.3-1 install ok installed libdapserver7v5:amd64 libdapserver7v5 3.20.3-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libdeflate0:amd64 libdeflate0 1.2-1 install ok installed libepsilon1:amd64 libepsilon1 0.9.2+dfsg-4 install ok installed libexpat1:amd64 libexpat1 2.2.6-2+deb10u4 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libfml0 libfml0 0.1-5 install ok installed libfontconfig1:amd64 libfontconfig1 2.13.1-2 install ok installed libfreetype6:amd64 libfreetype6 2.9.1-3+deb10u3 install ok installed libfreexl1:amd64 libfreexl1 1.0.5-3 install ok installed libfyba0:amd64 libfyba0 4.1.1-6 install ok installed libgcc-8-dev:amd64 libgcc-8-dev 8.3.0-6 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgdal20 libgdal20 2.4.0+dfsg-1+b1 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.18.1-4 install ok installed libgdbm6:amd64 libgdbm6 1.18.1-4 install ok installed libgeos-3.7.1:amd64 libgeos-3.7.1 3.7.1-1 install ok installed libgeos-c1v5:amd64 libgeos-c1v5 3.7.1-1 install ok installed libgeotiff2:amd64 libgeotiff2 1.4.3-1 install ok installed libgfortran5:amd64 libgfortran5 8.3.0-6 install ok installed libgif7:amd64 libgif7 5.1.4-3 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgomp1:amd64 libgomp1 8.3.0-6 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libgpm2:amd64 libgpm2 1.20.7-5 install ok installed libgsl23:amd64 libgsl23 2.5+dfsg-6 install ok installed libgslcblas0:amd64 libgslcblas0 2.5+dfsg-6 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.17-3+deb10u4 install ok installed libhdf4-0-alt libhdf4-0-alt 4.2.13-4 install ok installed libhdf5-103:amd64 libhdf5-103 1.10.4+repack-10 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libhts2:amd64 libhts2 1.9-12~deb10u1 install ok installed libicu63:amd64 libicu63 63.1-6+deb10u3 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed libimagequant0:amd64 libimagequant0 2.12.2-1.1 install ok installed libisl19:amd64 libisl19 0.20-2 install ok installed libitm1:amd64 libitm1 8.3.0-6 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:1.5.2-2+deb10u1 install ok installed libjs-bootstrap libjs-bootstrap 3.4.1+dfsg-1 install ok installed libjs-jquery libjs-jquery 3.3.1~dfsg-3+deb10u1 install ok installed libjs-jquery-ui libjs-jquery-ui 1.12.1+dfsg-5 install ok installed libjson-c3:amd64 libjson-c3 0.12.1+ds-2+deb10u1 install ok installed libk5crypto3:amd64 libk5crypto3 1.17-3+deb10u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6-6 install ok installed libkmlbase1:amd64 libkmlbase1 1.3.0-7 install ok installed libkmlconvenience1:amd64 libkmlconvenience1 1.3.0-7 install ok installed libkmldom1:amd64 libkmldom1 1.3.0-7 install ok installed libkmlengine1:amd64 libkmlengine1 1.3.0-7 install ok installed libkmlregionator1:amd64 libkmlregionator1 1.3.0-7 install ok installed libkmlxsd1:amd64 libkmlxsd1 1.3.0-7 install ok installed libkrb5-3:amd64 libkrb5-3 1.17-3+deb10u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.17-3+deb10u4 install ok installed liblapack3:amd64 liblapack3 3.8.0-2 install ok installed liblcms2-2:amd64 liblcms2-2 2.9-3 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.47+dfsg-3+deb10u7 install ok installed libldap-common libldap-common 2.4.47+dfsg-3+deb10u7 install ok installed liblmdb0:amd64 liblmdb0 0.9.22-1 install ok installed liblsan0:amd64 liblsan0 8.3.0-6 install ok installed libltdl7:amd64 libltdl7 2.4.6-9 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmagic-mgc libmagic-mgc 1:5.35-4+deb10u2 install ok installed libmagic1:amd64 libmagic1 1:5.35-4+deb10u2 install ok installed libmariadb3:amd64 libmariadb3 1:10.3.34-0+deb10u1 install ok installed libmbedcrypto3:amd64 libmbedcrypto3 2.16.0-1 install ok installed libmbedtls12:amd64 libmbedtls12 2.16.0-1 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.16.0-1 install ok installed libminimap0 libminimap0 0.2-4 install ok installed libminizip1:amd64 libminizip1 1.1-8+b1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libmpc3:amd64 libmpc3 1.1.0-1 install ok installed libmpdec2:amd64 libmpdec2 2.4.2-2 install ok installed libmpfr6:amd64 libmpfr6 4.0.2-1 install ok installed libmpx2:amd64 libmpx2 8.3.0-6 install ok installed libmurmurhash1 libmurmurhash1 1.3-2 install ok installed libncurses6:amd64 libncurses6 6.1+20181013-2+deb10u2 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnetcdf13:amd64 libnetcdf13 1:4.6.2-1 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.36.0-2+deb10u1 install ok installed libnode64:amd64 libnode64 10.24.0~dfsg-1~deb10u1 install ok installed libnspr4:amd64 libnspr4 2:4.20-1 install ok installed libnss3:amd64 libnss3 2:3.42.1-1+deb10u5 install ok installed libodbc1:amd64 libodbc1 2.3.6-0.1 install ok installed libogdi3.2 libogdi3.2 3.2.1+ds-4 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.3.0-2+deb10u2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libperl5.28:amd64 libperl5.28 5.28.1-6+deb10u1 install ok installed libpng16-16:amd64 libpng16-16 1.6.36-6 install ok installed libpoppler82:amd64 libpoppler82 0.71.0-5 install ok installed libpopt0:amd64 libpopt0 1.16-12 install ok installed libpq5:amd64 libpq5 11.16-0+deb10u1 install ok installed libproj13:amd64 libproj13 5.2.0-1 install ok installed libpsl5:amd64 libpsl5 0.20.2-2 install ok installed libpython-stdlib:amd64 libpython-stdlib 2.7.16-1 install ok installed libpython2-stdlib:amd64 libpython2-stdlib 2.7.16-1 install ok installed libpython2.7-minimal:amd64 libpython2.7-minimal 2.7.16-2+deb10u1 install ok installed libpython2.7-stdlib:amd64 libpython2.7-stdlib 2.7.16-2+deb10u1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.7.3-1 install ok installed libpython3.7-minimal:amd64 libpython3.7-minimal 3.7.3-2+deb10u3 install ok installed libpython3.7-stdlib:amd64 libpython3.7-stdlib 3.7.3-2+deb10u3 install ok installed libqhull7:amd64 libqhull7 2015.2-4 install ok installed libquadmath0:amd64 libquadmath0 8.3.0-6 install ok installed libreadline7:amd64 libreadline7 7.0-5 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27+dfsg-1+deb10u2 install ok installed libsasl2-modules:amd64 libsasl2-modules 2.1.27+dfsg-1+deb10u2 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27+dfsg-1+deb10u2 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsigsegv2:amd64 libsigsegv2 2.12-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libspatialite7:amd64 libspatialite7 4.3.0a-5+b2 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.27.2-3+deb10u1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libssh2-1:amd64 libssh2-1 1.8.0-2.1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1n-0+deb10u3 install ok installed libstdc++-8-dev:amd64 libstdc++-8-dev 8.3.0-6 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsuperlu5:amd64 libsuperlu5 5.2.1+dfsg1-4 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libsz2:amd64 libsz2 1.0.2-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtbb2:amd64 libtbb2 2018~U6-4 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.9+dfsg-2 install ok installed libtiff5:amd64 libtiff5 4.1.0+git191117-2~deb10u4 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libtk8.6:amd64 libtk8.6 8.6.9-2 install ok installed libtsan0:amd64 libtsan0 8.3.0-6 install ok installed libubsan1:amd64 libubsan1 8.3.0-6 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed liburiparser1:amd64 liburiparser1 0.9.1-1+deb10u1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libuv1:amd64 libuv1 1.24.1-1+deb10u1 install ok installed libwebp6:amd64 libwebp6 0.6.1-2+deb10u1 install ok installed libwebpdemux2:amd64 libwebpdemux2 0.6.1-2+deb10u1 install ok installed libwebpmux3:amd64 libwebpmux3 0.6.1-2+deb10u1 install ok installed libx11-6:amd64 libx11-6 2:1.6.7-1+deb10u2 install ok installed libx11-data libx11-data 2:1.6.7-1+deb10u2 install ok installed libxau6:amd64 libxau6 1:1.0.8-1+b2 install ok installed libxcb1:amd64 libxcb1 1.13.1-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxerces-c3.2:amd64 libxerces-c3.2 3.2.2+debian-1+deb10u1 install ok installed libxext6:amd64 libxext6 2:1.3.3-1+b2 install ok installed libxft2:amd64 libxft2 2.3.2-2 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-7+deb10u4 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.32-2.2~deb10u1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.1-1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed linux-libc-dev:amd64 linux-libc-dev 4.19.249-2 install ok installed login login 1:4.5-1.1 install ok installed lsb-base lsb-base 10.2019051400 install ok installed manpages manpages 4.16-2 install ok installed manpages-dev manpages-dev 4.16-2 install ok installed mariadb-common mariadb-common 1:10.3.34-0+deb10u1 install ok installed mash mash 2.1+dfsg-2 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mime-support mime-support 3.62 install ok installed mount mount 2.33.1-0.1 install ok installed mummer mummer 3.23+dfsg-4 install ok installed mysql-common mysql-common 5.8+1.0.5 install ok installed ncbi-blast+ ncbi-blast+ 2.8.1-1+deb10u1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-0+deb10u2 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed netbase netbase 5.6 install ok installed nodejs nodejs 10.24.0~dfsg-1~deb10u1 install ok installed nodejs-doc nodejs-doc 10.24.0~dfsg-1~deb10u1 install ok installed odbcinst odbcinst 2.3.6-0.1 install ok installed odbcinst1debian2:amd64 odbcinst1debian2 2.3.6-0.1 install ok installed openssl openssl 1.1.1n-0+deb10u3 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl perl 5.28.1-6+deb10u1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed perl-modules-5.28 perl-modules-5.28 5.28.1-6+deb10u1 install ok installed poppler-data poppler-data 0.4.9-2 install ok installed proj-bin proj-bin 5.2.0-1 install ok installed proj-data proj-data 5.2.0-1 install ok installed publicsuffix publicsuffix 20220811.1734-0+deb10u1 install ok installed python python 2.7.16-1 install ok installed python-biopython python-biopython 1.73+dfsg-1 install ok installed python-biopython-doc python-biopython-doc 1.73+dfsg-1 install ok installed python-matplotlib-data python-matplotlib-data 3.0.2-2 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-numpy python-numpy 1:1.16.2-1 install ok installed python-olefile python-olefile 0.46-1 install ok installed python-pil:amd64 python-pil 5.4.1-2+deb10u3 install ok installed python-pkg-resources python-pkg-resources 40.8.0-1 install ok installed python-renderpm:amd64 python-renderpm 3.5.13-1+deb10u1 install ok installed python-reportlab python-reportlab 3.5.13-1+deb10u1 install ok installed python-reportlab-accel:amd64 python-reportlab-accel 3.5.13-1+deb10u1 install ok installed python2 python2 2.7.16-1 install ok installed python2-minimal python2-minimal 2.7.16-1 install ok installed python2.7 python2.7 2.7.16-2+deb10u1 install ok installed python2.7-minimal python2.7-minimal 2.7.16-2+deb10u1 install ok installed python3 python3 3.7.3-1 install ok installed python3-biopython python3-biopython 1.73+dfsg-1 install ok installed python3-bs4 python3-bs4 4.7.1-1 install ok installed python3-cachecontrol python3-cachecontrol 0.11.7-1 install ok installed python3-certifi python3-certifi 2018.8.24-1 install ok installed python3-chardet python3-chardet 3.0.4-3 install ok installed python3-cycler python3-cycler 0.10.0-1 install ok installed python3-dateutil python3-dateutil 2.7.3-3 install ok installed python3-decorator python3-decorator 4.3.0-1.1 install ok installed python3-dendropy python3-dendropy 4.4.0-1 install ok installed python3-distutils python3-distutils 3.7.3-1 install ok installed python3-gdal python3-gdal 2.4.0+dfsg-1+b1 install ok installed python3-html5lib python3-html5lib 1.0.1-1 install ok installed python3-idna python3-idna 2.6-1 install ok installed python3-isodate python3-isodate 0.6.0-1 install ok installed python3-kiwisolver python3-kiwisolver 1.0.1-2+b1 install ok installed python3-lib2to3 python3-lib2to3 3.7.3-1 install ok installed python3-lockfile python3-lockfile 1:0.12.2-2 install ok installed python3-lxml:amd64 python3-lxml 4.3.2-1+deb10u4 install ok installed python3-matplotlib python3-matplotlib 3.0.2-2 install ok installed python3-minimal python3-minimal 3.7.3-1 install ok installed python3-mistune python3-mistune 0.8.4-1 install ok installed python3-mypy python3-mypy 0.670-2 install ok installed python3-mypy-extensions python3-mypy-extensions 0.4.1-1 install ok installed python3-networkx python3-networkx 2.2-1 install ok installed python3-numpy python3-numpy 1:1.16.2-1 install ok installed python3-olefile python3-olefile 0.46-1 install ok installed python3-pil:amd64 python3-pil 5.4.1-2+deb10u3 install ok installed python3-pkg-resources python3-pkg-resources 40.8.0-1 install ok installed python3-prov python3-prov 1.5.2-1 install ok installed python3-psutil python3-psutil 5.5.1-1 install ok installed python3-pymummer python3-pymummer 0.10.3-2 install ok installed python3-pyparsing python3-pyparsing 2.2.0+dfsg1-2 install ok installed python3-pysam python3-pysam 0.15.2+ds-2 install ok installed python3-rdflib python3-rdflib 4.2.2-2 install ok installed python3-rdflib-jsonld python3-rdflib-jsonld 0.4.0-4 install ok installed python3-renderpm:amd64 python3-renderpm 3.5.13-1+deb10u1 install ok installed python3-reportlab python3-reportlab 3.5.13-1+deb10u1 install ok installed python3-reportlab-accel:amd64 python3-reportlab-accel 3.5.13-1+deb10u1 install ok installed python3-requests python3-requests 2.21.0-1 install ok installed python3-ruamel.yaml python3-ruamel.yaml 0.15.34-1+b1 install ok installed python3-schema-salad python3-schema-salad 3.0.20181206233650-2 install ok installed python3-scipy python3-scipy 1.1.0-7 install ok installed python3-shellescape python3-shellescape 3.4.1-3 install ok installed python3-six python3-six 1.12.0-1 install ok installed python3-soupsieve python3-soupsieve 1.8+dfsg-1 install ok installed python3-sparqlwrapper python3-sparqlwrapper 1.8.2-0.1 install ok installed python3-tk:amd64 python3-tk 3.7.3-1 install ok installed python3-typed-ast python3-typed-ast 1.3.1-1 install ok installed python3-typing-extensions python3-typing-extensions 3.7.2-1 install ok installed python3-urllib3 python3-urllib3 1.24.1-1 install ok installed python3-webencodings python3-webencodings 0.5.1-1 install ok installed python3-yaml python3-yaml 3.13-2 install ok installed python3.7 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 samtools samtools 1.9-4 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.12 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-4 install ok installed ttf-bitstream-vera ttf-bitstream-vera 1.10-8 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed ucf ucf 3.0038+nmu1 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed x11-common x11-common 1:7.7+19 install ok installed xz-utils xz-utils 5.2.4-1+deb10u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 1m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'ca-certificates', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++-', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgpm2:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-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', 'libssl1.1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'openssl', 'perl', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.7', 'python3.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common', 'xz-utils', 'ariba'] 1m34.5s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: ariba binutils binutils-common binutils-x86-64-linux-gnu blt bowtie2 bzip2 ca-certificates cd-hit cpp cpp-8 cwltool fastaq file fontconfig-config fonts-dejavu-core fonts-glyphicons-halflings fonts-lyx g++ g++-8 gawk gcc gcc-8 gdal-data gsfonts javascript-common krb5-locales libaec0 libarmadillo9 libarpack2 libasan5 libatomic1 libbinutils libblas3 libbrotli1 libbsd0 libc-ares2 libc-dev-bin libc6-dev libcapnp-0.7.0 libcc1-0 libcharls2 libcurl3-gnutls libdap25 libdapclient6v5 libdapserver7v5 libdeflate0 libepsilon1 libexpat1 libfml0 libfontconfig1 libfreetype6 libfreexl1 libfyba0 libgcc-8-dev libgdal20 libgdbm-compat4 libgdbm6 libgeos-3.7.1 libgeos-c1v5 libgeotiff2 libgfortran5 libgif7 libgomp1 libgpm2 libgsl23 libgslcblas0 libgssapi-krb5-2 libhdf4-0-alt libhdf5-103 libhts2 libicu63 libimagequant0 libisl19 libitm1 libjbig0 libjpeg62-turbo libjs-bootstrap libjs-jquery libjs-jquery-ui libjson-c3 libk5crypto3 libkeyutils1 libkmlbase1 libkmlconvenience1 libkmldom1 libkmlengine1 libkmlregionator1 libkmlxsd1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblmdb0 liblsan0 libltdl7 libmagic-mgc libmagic1 libmariadb3 libmbedcrypto3 libmbedtls12 libmbedx509-0 libminimap0 libminizip1 libmpc3 libmpdec2 libmpfr6 libmpx2 libmurmurhash1 libncurses6 libnetcdf13 libnghttp2-14 libnode64 libnspr4 libnss3 libodbc1 libogdi3.2 libopenjp2-7 libperl5.28 libpng16-16 libpoppler82 libpopt0 libpq5 libproj13 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libqhull7 libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db libsigsegv2 libspatialite7 libsqlite3-0 libssh2-1 libssl1.1 libstdc++-8-dev libsuperlu5 libsz2 libtbb2 libtcl8.6 libtiff5 libtk8.6 libtsan0 libubsan1 liburiparser1 libuv1 libwebp6 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxerces-c3.2 libxext6 libxft2 libxml2 libxrender1 libxslt1.1 libxss1 libyaml-0-2 linux-libc-dev lsb-base manpages manpages-dev mariadb-common mash mime-support mummer mysql-common ncbi-blast+ ncbi-data netbase nodejs nodejs-doc odbcinst odbcinst1debian2 openssl perl perl-modules-5.28 poppler-data proj-bin proj-data publicsuffix python python-biopython python-biopython-doc python-matplotlib-data python-minimal python-numpy python-olefile python-pil python-pkg-resources python-renderpm python-reportlab python-reportlab-accel python2 python2-minimal python2.7 python2.7-minimal python3 python3-biopython python3-bs4 python3-cachecontrol python3-certifi python3-chardet python3-cycler python3-dateutil python3-decorator python3-dendropy python3-distutils python3-gdal python3-html5lib python3-idna python3-isodate python3-kiwisolver python3-lib2to3 python3-lockfile python3-lxml python3-matplotlib python3-minimal python3-mistune python3-mypy python3-mypy-extensions python3-networkx python3-numpy python3-olefile python3-pil python3-pkg-resources python3-prov python3-psutil python3-pymummer python3-pyparsing python3-pysam python3-rdflib python3-rdflib-jsonld python3-renderpm python3-reportlab python3-reportlab-accel python3-requests python3-ruamel.yaml python3-schema-salad python3-scipy python3-shellescape python3-six python3-soupsieve python3-sparqlwrapper python3-tk python3-typed-ast python3-typing-extensions python3-urllib3 python3-webencodings python3-yaml python3.7 python3.7-minimal readline-common samtools sensible-utils tk8.6-blt2.5 ttf-bitstream-vera ucf x11-common xz-utils 0 upgraded, 0 newly installed, 275 to remove and 0 not upgraded. After this operation, 791 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 ... 30433 files and directories currently installed.) Removing ariba (2.13.3+ds-1) ... Removing g++ (4:8.3.0-1) ... Removing gcc (4:8.3.0-1) ... Removing python3-tk:amd64 (3.7.3-1) ... Removing blt (2.5.3+dfsg-4) ... Removing bowtie2 (2.3.4.3-1) ... Removing bzip2 (1.0.6-9.2~deb10u1) ... Removing cwltool (1.0.20181217162649+dfsg-10) ... Removing python3-schema-salad (3.0.20181206233650-2) ... Removing python3-cachecontrol (0.11.7-1) ... Removing python3-requests (2.21.0-1) ... Removing python3-certifi (2018.8.24-1) ... Removing ca-certificates (20200601~deb10u2) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing cd-hit (4.6.8-2) ... Removing cpp (4:8.3.0-1) ... Removing python3-pymummer (0.10.3-2) ... Removing fastaq (3.17.0-2) ... Removing file (1:5.35-4+deb10u2) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-4) ... Removing libtk8.6:amd64 (8.6.9-2) ... Removing libxft2:amd64 (2.3.2-2) ... Removing python3-gdal (2.4.0+dfsg-1+b1) ... Removing libgdal20 (2.4.0+dfsg-1+b1) ... Removing libpoppler82:amd64 (0.71.0-5) ... Removing libfontconfig1:amd64 (2.13.1-2) ... Removing fontconfig-config (2.13.1-2) ... Removing fonts-dejavu-core (2.37-1) ... Removing libjs-bootstrap (3.4.1+dfsg-1) ... Removing fonts-glyphicons-halflings (1.009~3.4.1+dfsg-1) ... Removing python3-matplotlib (3.0.2-2) ... Removing python-matplotlib-data (3.0.2-2) ... Removing fonts-lyx (2.3.2-1) ... Removing g++-8 (8.3.0-6) ... Removing mummer (3.23+dfsg-4) ... Removing gawk (1:4.2.1+dfsg-1) ... update-alternatives: using /usr/bin/mawk to provide /usr/bin/awk (awk) in auto mode Removing gdal-data (2.4.0+dfsg-1) ... Removing python3-renderpm:amd64 (3.5.13-1+deb10u1) ... Removing python-renderpm:amd64 (3.5.13-1+deb10u1) ... Removing gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Removing javascript-common (11) ... Removing krb5-locales (1.17-3+deb10u4) ... Removing libnetcdf13:amd64 (1:4.6.2-1) ... Removing libhdf5-103:amd64 (1.10.4+repack-10) ... Removing libsz2:amd64 (1.0.2-1) ... Removing libaec0:amd64 (1.0.2-1) ... Removing libarmadillo9 (1:9.200.7+dfsg-1) ... Removing libarpack2:amd64 (3.7.0-2) ... Removing libstdc++-8-dev:amd64 (8.3.0-6) ... Removing libtbb2:amd64 (2018~U6-4) ... Removing nodejs (10.24.0~dfsg-1~deb10u1) ... Removing libsuperlu5:amd64 (5.2.1+dfsg1-4) ... Removing python3-scipy (1.1.0-7) ... Removing python3-biopython (1.73+dfsg-1) ... Removing python3-numpy (1:1.16.2-1) ... Removing python-biopython (1.73+dfsg-1) ... Removing python-numpy (1:1.16.2-1) ... Removing libnode64:amd64 (10.24.0~dfsg-1~deb10u1) ... Removing libbrotli1:amd64 (1.0.7-2+deb10u1) ... Removing libxss1:amd64 (1:1.2.3-1) ... Removing libxrender1:amd64 (1:0.9.10-1) ... Removing libc-ares2:amd64 (1.14.0-1+deb10u1) ... Removing libc6-dev:amd64 (2.28-10+deb10u1) ... Removing libc-dev-bin (2.28-10+deb10u1) ... Removing mash (2.1+dfsg-2) ... Removing libcapnp-0.7.0:amd64 (0.7.0-3) ... Removing libcharls2:amd64 (2.0.0+dfsg-1) ... Removing libxerces-c3.2:amd64 (3.2.2+debian-1+deb10u1) ... Removing libdapclient6v5:amd64 (3.20.3-1) ... Removing libdapserver7v5: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-mypy (0.670-2) ... Removing python3-distutils (3.7.3-1) ... Removing python3-sparqlwrapper (1.8.2-0.1) ... Removing python3-ruamel.yaml (0.15.34-1+b1) ... Removing python3-bs4 (4.7.1-1) ... Removing python3-soupsieve (1.8+dfsg-1) ... 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 libfml0 (0.1-5) ... Removing python3-reportlab (3.5.13-1+deb10u1) ... Removing python3-pil:amd64 (5.4.1-2+deb10u3) ... Removing libspatialite7:amd64 (4.3.0a-5+b2) ... Removing libfreexl1:amd64 (1.0.5-3) ... Removing libfyba0:amd64 (4.1.1-6) ... Removing 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 libgeos-c1v5:amd64 (3.7.1-1) ... Removing libgeos-3.7.1:amd64 (3.7.1-1) ... Removing libgeotiff2:amd64 (1.4.3-1) ... Removing liblapack3:amd64 (3.8.0-2) ... Removing libgif7:amd64 (5.1.4-3) ... Removing libgpm2:amd64 (1.20.7-5) ... Removing libgsl23:amd64 (2.5+dfsg-6) ... Removing libgslcblas0:amd64 (2.5+dfsg-6) ... Removing libpq5:amd64 (11.16-0+deb10u1) ... Removing libhdf4-0-alt (4.2.13-4) ... Removing python3-prov (1.5.2-1) ... Removing python3-lxml:amd64 (4.3.2-1+deb10u4) ... Removing libxslt1.1:amd64 (1.1.32-2.2~deb10u1) ... Removing libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Removing libicu63:amd64 (63.1-6+deb10u3) ... Removing python-pil:amd64 (5.4.1-2+deb10u3) ... Removing libimagequant0:amd64 (2.12.2-1.1) ... Removing libtiff5:amd64 (4.1.0+git191117-2~deb10u4) ... Removing libjbig0:amd64 (2.1-3.1+b2) ... Removing libjpeg62-turbo:amd64 (1:1.5.2-2+deb10u1) ... Removing libjs-jquery-ui (1.12.1+dfsg-5) ... Removing libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Removing libjson-c3:amd64 (0.12.1+ds-2+deb10u1) ... Removing libkmlxsd1:amd64 (1.3.0-7) ... Removing libkmlregionator1:amd64 (1.3.0-7) ... Removing libkmlconvenience1:amd64 (1.3.0-7) ... Removing libkmlengine1:amd64 (1.3.0-7) ... Removing libkmldom1:amd64 (1.3.0-7) ... Removing liblcms2-2:amd64 (2.9-3) ... Removing liblmdb0:amd64 (0.9.22-1) ... Removing libodbc1:amd64 (2.3.6-0.1) ... Removing libmagic1:amd64 (1:5.35-4+deb10u2) ... Removing libmagic-mgc (1:5.35-4+deb10u2) ... Removing libmariadb3:amd64 (1:10.3.34-0+deb10u1) ... Removing libmbedtls12:amd64 (2.16.0-1) ... Removing libmbedx509-0:amd64 (2.16.0-1) ... Removing libmbedcrypto3:amd64 (2.16.0-1) ... Removing libminimap0 (0.2-4) ... Removing libmurmurhash1 (1.3-2) ... Removing libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Removing libnss3:amd64 (2:3.42.1-1+deb10u5) ... Removing libnspr4:amd64 (2:4.20-1) ... Removing libogdi3.2 (3.2.1+ds-4) ... Removing libopenjp2-7:amd64 (2.3.0-2+deb10u2) ... Removing libpopt0:amd64 (1.16-12) ... Removing proj-bin (5.2.0-1) ... Removing libproj13:amd64 (5.2.0-1) ... Removing libqhull7:amd64 (2015.2-4) ... Removing libsasl2-modules:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libsigsegv2:amd64 (2.12-2) ... Removing openssl (1.1.1n-0+deb10u3) ... Removing libtcl8.6:amd64 (8.6.9+dfsg-2) ... Removing libuv1:amd64 (1.24.1-1+deb10u1) ... Removing libwebpmux3:amd64 (0.6.1-2+deb10u1) ... Removing libwebpdemux2:amd64 (0.6.1-2+deb10u1) ... Removing libwebp6:amd64 (0.6.1-2+deb10u1) ... Removing libxext6:amd64 (2:1.3.3-1+b2) ... Removing python3-yaml (3.13-2) ... Removing libyaml-0-2:amd64 (0.2.1-1) ... Removing linux-libc-dev:amd64 (4.19.249-2) ... Removing x11-common (1:7.7+19) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing lsb-base (10.2019051400) ... Removing manpages-dev (4.16-2) ... Removing manpages (4.16-2) ... Removing mariadb-common (1:10.3.34-0+deb10u1) ... update-alternatives: using /etc/mysql/my.cnf.fallback to provide /etc/mysql/my.cnf (my.cnf) in auto mode Removing mysql-common (5.8+1.0.5) ... Removing ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Removing netbase (5.6) ... Removing nodejs-doc (10.24.0~dfsg-1~deb10u1) ... Removing perl-modules-5.28 (5.28.1-6+deb10u1) ... Removing poppler-data (0.4.9-2) ... Removing proj-data (5.2.0-1) ... Removing publicsuffix (20220811.1734-0+deb10u1) ... Removing python-biopython-doc (1.73+dfsg-1) ... Removing python-olefile (0.46-1) ... Removing python3-chardet (3.0.4-3) ... Removing python3-cycler (0.10.0-1) ... Removing python3-dateutil (2.7.3-3) ... Removing python3-networkx (2.2-1) ... Removing python3-decorator (4.3.0-1.1) ... Removing python3-dendropy (4.4.0-1) ... Removing python3-html5lib (1.0.1-1) ... Removing python3-idna (2.6-1) ... Removing python3-rdflib-jsonld (0.4.0-4) ... Removing python3-rdflib (4.2.2-2) ... Removing python3-isodate (0.6.0-1) ... Removing python3-kiwisolver (1.0.1-2+b1) ... Removing python3-lib2to3 (3.7.3-1) ... Removing python3-lockfile (1:0.12.2-2) ... Removing python3-mistune (0.8.4-1) ... Removing python3-mypy-extensions (0.4.1-1) ... Removing python3-olefile (0.46-1) ... Removing python3-pkg-resources (40.8.0-1) ... Removing python3-psutil (5.5.1-1) ... Removing python3-pyparsing (2.2.0+dfsg1-2) ... Removing python3-reportlab-accel:amd64 (3.5.13-1+deb10u1) ... Removing python3-shellescape (3.4.1-3) ... Removing python3-urllib3 (1.24.1-1) ... Removing python3-six (1.12.0-1) ... Removing python3-typed-ast (1.3.1-1) ... Removing python3-typing-extensions (3.7.2-1) ... Removing python3-webencodings (0.5.1-1) ... Removing ucf (3.0038+nmu1) ... Removing sensible-utils (0.0.12) ... Removing ttf-bitstream-vera (1.10-8) ... Removing xz-utils (5.2.4-1+deb10u1) ... Removing gcc-8 (8.3.0-6) ... Removing binutils (2.31.1-16) ... Removing binutils-x86-64-linux-gnu (2.31.1-16) ... Removing libbinutils:amd64 (2.31.1-16) ... Removing binutils-common:amd64 (2.31.1-16) ... Removing cpp-8 (8.3.0-6) ... Removing libgcc-8-dev:amd64 (8.3.0-6) ... Removing libasan5:amd64 (8.3.0-6) ... Removing libatomic1:amd64 (8.3.0-6) ... Removing libblas3:amd64 (3.8.0-2) ... Removing libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Removing libxcb1:amd64 (1.13.1-2) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.9.1-2+deb10u1) ... Removing libcc1-0:amd64 (8.3.0-6) ... Removing libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Removing python3 (3.7.3-1) ... Removing python3.7 (3.7.3-2+deb10u3) ... Removing python3-minimal (3.7.3-1) ... Removing python3.7-minimal (3.7.3-2+deb10u3) ... Removing python (2.7.16-1) ... Removing libfreetype6:amd64 (2.9.1-3+deb10u3) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Removing libisl19:amd64 (0.20-2) ... Removing libitm1:amd64 (8.3.0-6) ... Removing libkrb5-3:amd64 (1.17-3+deb10u4) ... Removing libk5crypto3:amd64 (1.17-3+deb10u4) ... Removing libkrb5support0:amd64 (1.17-3+deb10u4) ... Removing libkeyutils1:amd64 (1.6-6) ... Removing libkmlbase1:amd64 (1.3.0-7) ... Removing libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Removing libldap-common (2.4.47+dfsg-3+deb10u7) ... Removing liblsan0:amd64 (8.3.0-6) ... Removing libminizip1:amd64 (1.1-8+b1) ... Removing libmpc3:amd64 (1.1.0-1) ... Removing libpython3-stdlib:amd64 (3.7.3-1) ... Removing libpython3.7-stdlib:amd64 (3.7.3-2+deb10u3) ... find: '/usr/lib/python3': No such file or directory Removing libmpdec2:amd64 (2.4.2-2) ... Removing libmpfr6:amd64 (4.0.2-1) ... Removing libmpx2:amd64 (8.3.0-6) ... Removing libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Removing libpng16-16:amd64 (1.6.36-6) ... Removing libpsl5:amd64 (0.20.2-2) ... Removing 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 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 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 libx11-data (2:1.6.7-1+deb10u2) ... Removing libxau6:amd64 (1:1.0.8-1+b2) ... 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) ... 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) ... 1m34.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'remove', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'ca-certificates', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++-', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgpm2:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-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', 'libssl1.1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+-', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'openssl', 'perl', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.7', 'python3.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common', 'xz-utils', 'ariba'] 1m34.5s INFO: Running scripts post_remove 1m34.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_remove_exceptions'] 1m34.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_remove_exceptions'] 1m34.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'ca-certificates', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgpm2:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-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', 'libssl1.1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'openssl', 'perl', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.7', 'python3.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common', 'xz-utils'] 1m35.3s DUMP: dpkg: warning: ignoring request to remove binutils which isn't installed dpkg: warning: ignoring request to remove binutils-common which isn't installed dpkg: warning: ignoring request to remove binutils-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove blt which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed dpkg: warning: ignoring request to remove bzip2 which isn't installed (Reading database ... 6549 files and directories currently installed.) Purging configuration files for ca-certificates (20200601~deb10u2) ... Removing dangling symlinks from /etc/ssl/certs... done. dpkg: warning: ignoring request to remove cd-hit which isn't installed dpkg: warning: ignoring request to remove cpp which isn't installed dpkg: warning: ignoring request to remove cpp-8 which isn't installed dpkg: warning: ignoring request to remove cwltool which isn't installed dpkg: warning: ignoring request to remove fastaq which isn't installed dpkg: warning: ignoring request to remove file which isn't installed Purging configuration files for fontconfig-config (2.13.1-2) ... Purging configuration files for fonts-dejavu-core (2.37-1) ... dpkg: warning: ignoring request to remove fonts-glyphicons-halflings which isn't installed dpkg: warning: ignoring request to remove fonts-lyx which isn't installed dpkg: warning: ignoring request to remove g++ which isn't installed dpkg: warning: ignoring request to remove g++-8 which isn't installed Purging configuration files for gawk (1:4.2.1+dfsg-1) ... dpkg: warning: ignoring request to remove gcc which isn't installed dpkg: warning: ignoring request to remove gcc-8 which isn't installed dpkg: warning: ignoring request to remove gdal-data which isn't installed Purging configuration files for gsfonts (1:8.11+urwcyr1.0.7~pre44-4.4) ... Purging configuration files for javascript-common (11) ... dpkg: warning: ignoring request to remove krb5-locales which isn't installed dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libarmadillo9 which isn't installed dpkg: warning: ignoring request to remove libarpack2 which isn't installed dpkg: warning: ignoring request to remove libasan5 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libbinutils which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-ares2 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcapnp-0.7.0 which isn't installed dpkg: warning: ignoring request to remove libcc1-0 which isn't installed dpkg: warning: ignoring request to remove libcharls2 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdap25 which isn't installed dpkg: warning: ignoring request to remove libdapclient6v5 which isn't installed dpkg: warning: ignoring request to remove libdapserver7v5 which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libepsilon1 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfml0 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfreexl1 which isn't installed dpkg: warning: ignoring request to remove libfyba0 which isn't installed dpkg: warning: ignoring request to remove libgcc-8-dev which isn't installed dpkg: warning: ignoring request to remove libgdal20 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgeos-3.7.1 which isn't installed dpkg: warning: ignoring request to remove libgeos-c1v5 which isn't installed dpkg: warning: ignoring request to remove libgeotiff2 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgif7 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgpm2 which isn't installed dpkg: warning: ignoring request to remove libgsl23 which isn't installed dpkg: warning: ignoring request to remove libgslcblas0 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... dpkg: warning: ignoring request to remove libhdf4-0-alt which isn't installed dpkg: warning: ignoring request to remove libhdf5-103 which isn't installed dpkg: warning: ignoring request to remove libhts2 which isn't installed dpkg: warning: ignoring request to remove libicu63 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libisl19 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libjs-bootstrap which isn't installed dpkg: warning: ignoring request to remove libjs-jquery which isn't installed Purging configuration files for libjs-jquery-ui (1.12.1+dfsg-5) ... dpkg: warning: ignoring request to remove libjson-c3 which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkmlbase1 which isn't installed dpkg: warning: ignoring request to remove libkmlconvenience1 which isn't installed dpkg: warning: ignoring request to remove libkmldom1 which isn't installed dpkg: warning: ignoring request to remove libkmlengine1 which isn't installed dpkg: warning: ignoring request to remove libkmlregionator1 which isn't installed dpkg: warning: ignoring request to remove libkmlxsd1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed Purging configuration files for libldap-common (2.4.47+dfsg-3+deb10u7) ... dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove libltdl7 which isn't installed dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.35-4+deb10u2) ... dpkg: warning: ignoring request to remove libmariadb3 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto3 which isn't installed dpkg: warning: ignoring request to remove libmbedtls12 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-0 which isn't installed dpkg: warning: ignoring request to remove libminimap0 which isn't installed dpkg: warning: ignoring request to remove libminizip1 which isn't installed dpkg: warning: ignoring request to remove libmpc3 which isn't installed dpkg: warning: ignoring request to remove libmpdec2 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libmpx2 which isn't installed dpkg: warning: ignoring request to remove libmurmurhash1 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libnetcdf13 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnode64 which isn't installed dpkg: warning: ignoring request to remove libnspr4 which isn't installed dpkg: warning: ignoring request to remove libnss3 which isn't installed dpkg: warning: ignoring request to remove libodbc1 which isn't installed dpkg: warning: ignoring request to remove libogdi3.2 which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libperl5.28 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpoppler82 which isn't installed dpkg: warning: ignoring request to remove libpopt0 which isn't installed dpkg: warning: ignoring request to remove libpq5 which isn't installed dpkg: warning: ignoring request to remove libproj13 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython2-stdlib which isn't installed Purging configuration files for libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... dpkg: warning: ignoring request to remove libpython2.7-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.7-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 Purging configuration files for libssl1.1:amd64 (1.1.1n-0+deb10u3) ... dpkg: warning: ignoring request to remove libstdc++-8-dev which isn't installed dpkg: warning: ignoring request to remove libsuperlu5 which isn't installed dpkg: warning: ignoring request to remove libsz2 which isn't installed dpkg: warning: ignoring request to remove libtbb2 which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove liburiparser1 which isn't installed dpkg: warning: ignoring request to remove libuv1 which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxerces-c3.2 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxft2 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxslt1.1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove lsb-base which isn't installed dpkg: warning: ignoring request to remove manpages which isn't installed dpkg: warning: ignoring request to remove manpages-dev which isn't installed Purging configuration files for mariadb-common (1:10.3.34-0+deb10u1) ... dpkg: warning: ignoring request to remove mash which isn't installed Purging configuration files for mime-support (3.62) ... dpkg: warning: ignoring request to remove mummer which isn't installed Purging configuration files for mysql-common (5.8+1.0.5) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Purging configuration files for netbase (5.6) ... dpkg: warning: ignoring request to remove nodejs which isn't installed dpkg: warning: ignoring request to remove nodejs-doc which isn't installed Purging configuration files for odbcinst (2.3.6-0.1) ... dpkg: warning: ignoring request to remove odbcinst1debian2 which isn't installed Purging configuration files for openssl (1.1.1n-0+deb10u3) ... 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 poppler-data (0.4.9-2) ... dpkg: warning: ignoring request to remove proj-bin which isn't installed dpkg: warning: ignoring request to remove proj-data which isn't installed dpkg: warning: ignoring request to remove publicsuffix which isn't installed Purging configuration files for python (2.7.16-1) ... dpkg: warning: ignoring request to remove python-biopython which isn't installed dpkg: warning: ignoring request to remove python-biopython-doc which isn't installed Purging configuration files for python-matplotlib-data (3.0.2-2) ... dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-olefile which isn't installed dpkg: warning: ignoring request to remove python-pil which isn't installed dpkg: warning: ignoring request to remove python-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python-renderpm which isn't installed dpkg: warning: ignoring request to remove python-reportlab which isn't installed dpkg: warning: ignoring request to remove python-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python2 which isn't installed dpkg: warning: ignoring request to remove python2-minimal which isn't installed dpkg: warning: ignoring request to remove python2.7 which isn't installed Purging configuration files for python2.7-minimal (2.7.16-2+deb10u1) ... Purging configuration files for python3 (3.7.3-1) ... dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-bs4 which isn't installed dpkg: warning: ignoring request to remove python3-cachecontrol which isn't installed dpkg: warning: ignoring request to remove python3-certifi which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-cycler which isn't installed dpkg: warning: ignoring request to remove python3-dateutil which isn't installed dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-dendropy which isn't installed dpkg: warning: ignoring request to remove python3-distutils which isn't installed dpkg: warning: ignoring request to remove python3-gdal which isn't installed dpkg: warning: ignoring request to remove python3-html5lib which isn't installed dpkg: warning: ignoring request to remove python3-idna which isn't installed dpkg: warning: ignoring request to remove python3-isodate which isn't installed dpkg: warning: ignoring request to remove python3-kiwisolver which isn't installed dpkg: warning: ignoring request to remove python3-lib2to3 which isn't installed dpkg: warning: ignoring request to remove python3-lockfile which isn't installed dpkg: warning: ignoring request to remove python3-lxml which isn't installed dpkg: warning: ignoring request to remove python3-matplotlib which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-mistune which isn't installed dpkg: warning: ignoring request to remove python3-mypy which isn't installed dpkg: warning: ignoring request to remove python3-mypy-extensions which isn't installed dpkg: warning: ignoring request to remove python3-networkx which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-olefile which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-prov which isn't installed dpkg: warning: ignoring request to remove python3-psutil which isn't installed dpkg: warning: ignoring request to remove python3-pymummer which isn't installed dpkg: warning: ignoring request to remove python3-pyparsing which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-rdflib which isn't installed dpkg: warning: ignoring request to remove python3-rdflib-jsonld which isn't installed dpkg: warning: ignoring request to remove python3-renderpm which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-reportlab-accel which isn't installed dpkg: warning: ignoring request to remove python3-requests which isn't installed dpkg: warning: ignoring request to remove python3-ruamel.yaml which isn't installed dpkg: warning: ignoring request to remove python3-schema-salad which isn't installed dpkg: warning: ignoring request to remove python3-scipy which isn't installed dpkg: warning: ignoring request to remove python3-shellescape which isn't installed dpkg: warning: ignoring request to remove python3-six which isn't installed dpkg: warning: ignoring request to remove python3-soupsieve which isn't installed dpkg: warning: ignoring request to remove python3-sparqlwrapper which isn't installed dpkg: warning: ignoring request to remove python3-tk which isn't installed dpkg: warning: ignoring request to remove python3-typed-ast which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-urllib3 which isn't installed dpkg: warning: ignoring request to remove python3-webencodings which isn't installed dpkg: warning: ignoring request to remove python3-yaml which isn't installed dpkg: warning: ignoring request to remove python3.7 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 samtools which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove ttf-bitstream-vera which isn't installed Purging configuration files for ucf (3.0038+nmu1) ... Purging configuration files for x11-common (1:7.7+19) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed 1m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--purge', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blt', 'bowtie2', 'bzip2', 'ca-certificates', 'cd-hit', 'cpp', 'cpp-8', 'cwltool', 'fastaq', 'file', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-glyphicons-halflings', 'fonts-lyx', 'g++', 'g++-8', 'gawk', 'gcc', 'gcc-8', 'gdal-data', 'gsfonts', 'javascript-common', 'krb5-locales', 'libaec0:amd64', 'libarmadillo9', 'libarpack2:amd64', 'libasan5:amd64', 'libatomic1:amd64', 'libbinutils:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libbsd0:amd64', 'libc-ares2:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcapnp-0.7.0:amd64', 'libcc1-0:amd64', 'libcharls2:amd64', 'libcurl3-gnutls:amd64', 'libdap25:amd64', 'libdapclient6v5:amd64', 'libdapserver7v5:amd64', 'libdeflate0:amd64', 'libepsilon1:amd64', 'libexpat1:amd64', 'libfml0', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfreexl1:amd64', 'libfyba0:amd64', 'libgcc-8-dev:amd64', 'libgdal20', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgeos-3.7.1:amd64', 'libgeos-c1v5:amd64', 'libgeotiff2:amd64', 'libgfortran5:amd64', 'libgif7:amd64', 'libgomp1:amd64', 'libgpm2:amd64', 'libgsl23:amd64', 'libgslcblas0:amd64', 'libgssapi-krb5-2:amd64', 'libhdf4-0-alt', 'libhdf5-103:amd64', 'libhts2:amd64', 'libicu63:amd64', 'libimagequant0:amd64', 'libisl19:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libjs-bootstrap', 'libjs-jquery', 'libjs-jquery-ui', 'libjson-c3:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkmlbase1:amd64', 'libkmlconvenience1:amd64', 'libkmldom1:amd64', 'libkmlengine1:amd64', 'libkmlregionator1:amd64', 'libkmlxsd1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmariadb3:amd64', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libminimap0', 'libminizip1:amd64', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libmurmurhash1', 'libncurses6:amd64', 'libnetcdf13:amd64', 'libnghttp2-14:amd64', 'libnode64:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libodbc1:amd64', 'libogdi3.2', 'libopenjp2-7:amd64', 'libperl5.28:amd64', 'libpng16-16:amd64', 'libpoppler82:amd64', 'libpopt0:amd64', 'libpq5:amd64', 'libproj13:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.7-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', 'libssl1.1:amd64', 'libstdc++-8-dev:amd64', 'libsuperlu5:amd64', 'libsz2:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libtiff5:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libubsan1:amd64', 'liburiparser1:amd64', 'libuv1:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxerces-c3.2:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxml2:amd64', 'libxrender1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lsb-base', 'manpages', 'manpages-dev', 'mariadb-common', 'mash', 'mime-support', 'mummer', 'mysql-common', 'ncbi-blast+', 'ncbi-data', 'netbase', 'nodejs', 'nodejs-doc', 'odbcinst', 'odbcinst1debian2:amd64', 'openssl', 'perl', 'perl-modules-5.28', 'poppler-data', 'proj-bin', 'proj-data', 'publicsuffix', 'python', 'python-biopython', 'python-biopython-doc', 'python-matplotlib-data', 'python-minimal', 'python-numpy', 'python-olefile', 'python-pil:amd64', 'python-pkg-resources', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-bs4', 'python3-cachecontrol', 'python3-certifi', 'python3-chardet', 'python3-cycler', 'python3-dateutil', 'python3-decorator', 'python3-dendropy', 'python3-distutils', 'python3-gdal', 'python3-html5lib', 'python3-idna', 'python3-isodate', 'python3-kiwisolver', 'python3-lib2to3', 'python3-lockfile', 'python3-lxml:amd64', 'python3-matplotlib', 'python3-minimal', 'python3-mistune', 'python3-mypy', 'python3-mypy-extensions', 'python3-networkx', 'python3-numpy', 'python3-olefile', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-prov', 'python3-psutil', 'python3-pymummer', 'python3-pyparsing', 'python3-pysam', 'python3-rdflib', 'python3-rdflib-jsonld', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3-requests', 'python3-ruamel.yaml', 'python3-schema-salad', 'python3-scipy', 'python3-shellescape', 'python3-six', 'python3-soupsieve', 'python3-sparqlwrapper', 'python3-tk:amd64', 'python3-typed-ast', 'python3-typing-extensions', 'python3-urllib3', 'python3-webencodings', 'python3-yaml', 'python3.7', 'python3.7-minimal', 'readline-common', 'samtools', 'sensible-utils', 'tk8.6-blt2.5', 'ttf-bitstream-vera', 'ucf', 'x11-common', 'xz-utils'] 1m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--purge', 'ariba'] 1m35.3s DUMP: dpkg: warning: ignoring request to remove ariba which isn't installed 1m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--purge', 'ariba'] 1m35.3s INFO: Running scripts post_purge 1m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_purge_exceptions'] 1m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_purge_exceptions'] 1m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--purge', '--pending'] 1m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--purge', '--pending'] 1m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--remove', '--pending'] 1m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg', '--remove', '--pending'] 1m35.3s INFO: Running scripts post_test 1m35.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_test_exceptions'] 1m35.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'tmp/scripts/post_test_exceptions'] 1m35.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 1m35.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 1m36.6s DEBUG: No broken symlinks as far as we can find. 1m36.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-divert', '--list'] 1m36.6s 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 1m36.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'dpkg-divert', '--list'] 1m36.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'clean'] 1m36.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt', 'apt-get', 'clean'] 1m36.7s DEBUG: Recording chroot state 1m37.2s INFO: PASS: Installation and purging test. 1m37.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/shm'] 1m37.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/shm'] 1m37.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/console'] 1m37.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/console'] 1m37.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/ptmx'] 1m37.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/ptmx'] 1m37.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/pts'] 1m37.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/dev/pts'] 1m37.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/proc'] 1m37.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt/proc'] 1m37.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 1m38.0s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp_8sldvqt'] 1m38.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp_8sldvqt 1m38.0s INFO: PASS: All tests. 1m38.0s INFO: piuparts run ends. ret=0 End: 2024-01-18 06:33:12 GMT