Start: 2023-04-20 11:06:00 GMT Package: med-cloud Source: debian-med Version: 3.0.1 Installed-Size: 35 Maintainer: Debian Med Packaging Team Architecture: all Depends: med-tasks (= 3.0.1), med-config (= 3.0.1) Recommends: abyss, acedb-other, aevol, alien-hunter, altree, amap-align, ampliconnoise, anfo, aragorn, arden, autodock, autodock-vina, autogrid, bamtools, bedtools, biomaj, bioperl, bioperl-run, biosquid, blast2, bowtie, bowtie2, boxshade, bwa, cain, cassiopee, cd-hit, cdbfasta, circos, clearcut, clonalframe, clustalo, clustalw, concavity, conservation-code, datamash, dialign, dialign-tx, discosnp, disulfinder, dnaclust, dssp, embassy-domainatrix, embassy-domalign, embassy-domsearch, emboss, exonerate, fastdnaml, fastlink, fastqc, fasttree, fastx-toolkit, filo, fitgcp, flexbar, freecontact, gasic, genometools, gff2aplot, gff2ps, giira, glam2, grinder, gromacs, hhsuite, hmmer, idba, infernal, jellyfish, kalign, kissplice, last-align, loki, macs, mafft, mapsembler2, maq, melting, minia, mipe, mira-assembler, mlv-smile, mothur, mrbayes, mummer, muscle, mustang, ncbi-epcr, ncbi-tools-bin, ncoils, neobio, paraclu, parsinsert, pdb2pqr, perm, phyml, phyutility, picard-tools, plink, poa, prank, prime-phylo, primer3, probabel, probcons, proda, prodigal, pynast, python-biopython, python-cogent, python3-biopython, r-bioc-edger, r-bioc-hilbertvis, r-cran-pvclust, r-cran-qtl, r-cran-vegan, r-other-mott-happy.hbrem, raster3d, readseq, rnahybrid, rtax, samtools, seqan-apps, sibsim4, sigma-align, sim4, smalt, snap, soapdenovo, soapdenovo2, squizz, sra-toolkit, ssake, staden-io-lib-utils, t-coffee, tabix, theseus, tigr-glimmer, tophat, tree-puzzle | tree-ppuzzle, vcftools, velvet, wise, zalign Suggests: bagpipe, cufflinks, embassy-phylip, gmap, qiime, r-other-valdar-bagphenotype.library Description: Debian Med bioinformatics applications usable in cloud computing Description-md5: 8580600ffc7b786c93529ecf82882c1a Tag: field::biology:molecular, role::metapackage Section: misc Priority: extra Filename: pool/main/d/debian-med/med-cloud_3.0.1_all.deb Size: 15550 MD5sum: c030c33cd6cd52d6080fc4bf9eb979f1 SHA256: d6cd199748d3199304097d080797ccbab08fec6b411431003ce6ca55cd7f6cd8 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 --skip-logrotatefiles-test --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/stretch_amd64.tar.gz -d stretch --no-upgrade-test --apt med-cloud=3.0.1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --skip-logrotatefiles-test --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/stretch_amd64.tar.gz -d stretch --no-upgrade-test --apt med-cloud=3.0.1 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-21-amd64 #1 SMP Debian 5.10.162-1 (2023-01-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp1fn2z1k7 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp1fn2z1k7 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.7s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m1.7s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/proc'] 0m1.7s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/proc'] 0m1.7s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/pts'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/pts'] 0m1.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/ptmx'] 0m1.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/ptmx'] 0m1.8s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/console'] 0m1.8s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/console'] 0m1.8s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/shm'] 0m1.8s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/shm'] 0m1.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m1.8s DEBUG: Created policy-rc.d and chmodded it. 0m1.8s DEBUG: Created resolv.conf. 0m1.8s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp1fn2z1k7/tmp/scripts/ 0m1.8s INFO: Running scripts post_chroot_unpack 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'update'] 0m3.1s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'update'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', '-yf', 'dist-upgrade'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.8s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.8s INFO: Running scripts post_setup 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_dummy_users'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_dummy_users'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_forbid_home'] 0m4.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_forbid_home'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.8s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_minimize'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_minimize'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_zz_backports'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_setup_zz_backports'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'clean'] 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'clean'] 0m4.8s DEBUG: Recording chroot state 0m5.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.2s DUMP: install ok installed adduser adduser 3.115 install ok installed apt apt 1.4.10 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed coreutils coreutils 8.26-3 install ok installed dash dash 0.5.8-2.4 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed diffutils diffutils 1:3.5-3 install ok installed dpkg dpkg 1.18.25 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed grep grep 2.27-2 install ok installed gzip gzip 1.6-5+b1 install ok installed hostname hostname 3.18+b1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcomerr2:amd64 libcomerr2 1.43.4-2+deb9u1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed login login 1:4.4-4.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed passwd passwd 1:4.4-4.1 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed tar tar 1.29b-1.1 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-divert', '--list'] 0m5.2s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-divert', '--list'] 0m5.2s INFO: Running scripts is_testable 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/is_testable_uninstallable'] 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/is_testable_uninstallable'] 0m5.2s INFO: apt-cache does not know about any of the requested packages 0m5.2s INFO: Running scripts pre_test 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_test_exceptions'] 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_test_exceptions'] 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_test_root_password'] 0m5.2s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_test_root_password'] 0m5.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 0m5.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 0m5.8s DEBUG: No broken symlinks as far as we can find. 0m5.8s INFO: Running scripts pre_install 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_database-server'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_database-server'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_exceptions'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_exceptions'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_extras'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_extras'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_foreign_architecture'] 0m5.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m5.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 0m6.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 0m6.5s DEBUG: No broken symlinks as far as we can find. 0m6.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-cache', 'policy'] 0m7.5s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-cache', 'policy'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-cache', 'policy', 'med-cloud'] 0m7.5s DUMP: med-cloud: Installed: (none) Candidate: 3.0.1 Version table: 3.0.1 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-cache', 'policy', 'med-cloud'] 0m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', '-y', 'install', 'med-cloud=3.0.1'] 6m51.1s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: abyss acedb-other adwaita-icon-theme aevol alien-hunter altree amap-align ampliconnoise anfo ant ant-contrib ant-optional apache2-bin aragorn arden at-spi2-core autodock autodock-vina autogrid autotools-dev bamtools bc bedtools beignet-opencl-icd binutils biomaj bioperl bioperl-run biosquid blast2 blends-common blt bowtie bowtie2 boxshade build-essential bwa bzip2 bzip2-doc ca-certificates ca-certificates-java cain cain-examples cain-solvers cassiopee cd-hit cdbfasta cdbs circos circos-tools clearcut clonalframe clustalo clustalw concavity conservation-code cpp cpp-6 cron cython datamash dbus dconf-gsettings-backend dconf-service default-jre default-jre-headless default-mysql-client dh-python dialign dialign-tx dialign-tx-data dirmngr discosnp disulfinder disulfinder-data dmidecode dnaclust dpkg-dev dssp dvipng embassy-domainatrix embassy-domalign embassy-domsearch emboss emboss-data emboss-lib exim4 exim4-base exim4-config exim4-daemon-light exonerate fakeroot fastdnaml fastlink fastqc fasttree fastx-toolkit ffindex file filo fitgcp flexbar fontconfig fontconfig-config fonts-cabin fonts-circos-symbols fonts-cmu fonts-comfortaa fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu-core fonts-dejavu-extra fonts-droid-fallback fonts-ebgaramond fonts-ebgaramond-extra fonts-font-awesome fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-junicode fonts-lato fonts-liberation fonts-linuxlibertine fonts-lmodern fonts-lobster fonts-lobstertwo fonts-lyx fonts-noto-hinted fonts-noto-mono fonts-oflb-asana-math fonts-roboto-hinted fonts-sil-gentium fonts-sil-gentium-basic fonts-sil-gentiumplus fonts-sil-gentiumplus-compact fonts-stix fonts-texgyre freecontact fsa g++ g++-6 gasic gawk gcc gcc-6 genometools genometools-common gff2aplot gff2ps gfortran gfortran-6 ghostscript giira glam2 glib-networking glib-networking-common glib-networking-services glpk-utils gnome-icon-theme gnupg gnupg-agent gnupg-l10n graphviz grinder gromacs gromacs-data gsettings-desktop-schemas gsfonts gtk-update-icon-cache guile-2.0-libs hhsuite hhsuite-data hicolor-icon-theme hmmer hyphy-common hyphy-mpi icu-devtools idba imagemagick imagemagick-6-common imagemagick-6.q16 infernal ipython isympy isympy-common java-common java-wrappers javascript-common jellyfish junit4 kalign kissplice krb5-locales laptop-detect last-align libace-perl libaec0 libaio1 libalgorithm-diff-perl libalgorithm-diff-xs-perl libalgorithm-merge-perl libalgorithm-munkres-perl libamd2 libanfo0 libann0 libapache-dbi-perl libapache-pom-java libapache2-mod-perl2 libapache2-reload-perl libapparmor1 libapr1 libaprutil1 libaprutil1-dbd-sqlite3 libaprutil1-ldap libargtable2-0 libarray-compare-perl libart-2.0-2 libasan3 libasound2 libasound2-data libassuan0 libasyncns0 libatinject-jsr330-api-java libatk-bridge2.0-0 libatk-wrapper-java libatk-wrapper-java-jni libatk1.0-0 libatk1.0-data libatlas3-base libatomic1 libatspi2.0-0 libaudio2 libauthen-sasl-perl libavahi-client3 libavahi-common-data libavahi-common3 libaxis-java libbambamc0 libbamtools2.4.0 libbcprov-java libbio-asn1-entrezgene-perl libbio-perl-perl libbio-perl-run-perl libbiojava-java libbiojava1.7-java libbit-vector-perl libblas-common libblas-dev libblas3 libboost-filesystem1.62.0 libboost-iostreams1.62.0 libboost-mpi1.62.0 libboost-program-options1.62.0 libboost-regex1.62.0 libboost-serialization1.62.0 libboost-system1.62.0 libboost-thread1.62.0 libbsd-resource-perl libbsd0 libbytecode-java libbz2-dev libc-dev-bin libc6-dev libcache-cache-perl libcairo-gobject2 libcairo2 libcap2 libcarp-always-perl libcarp-clan-perl libcassie1v5 libcc1-0 libcdt5 libcgi-fast-perl libcgi-pm-perl libcgraph6 libcilkrts5 libclass-inspector-perl libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcolamd2 libcolord2 libcommons-cli-java libcommons-codec-java libcommons-collections3-java libcommons-compress-java libcommons-dbcp-java libcommons-discovery-java libcommons-httpclient-java libcommons-jexl2-java libcommons-logging-java libcommons-math3-java libcommons-net-java libcommons-parent-java libcommons-pool-java libconfig-general-perl libconfig-inifiles-perl libconvert-binary-c-perl libconvert-binhex-perl libcroco3 libcrypt-rc4-perl libcups2 libcupsfilters1 libcupsimage2 libcurl3 libcurl3-gnutls libdata-dumper-simple-perl libdata-stag-perl libdate-calc-perl libdate-calc-xs-perl libdate-manip-perl libdatrie1 libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl libdbus-1-3 libdconf1 libdevel-caller-perl libdevel-globaldestruction-perl libdevel-lexalias-perl libdevel-symdump-perl libdigest-perl-md5-perl libdivsufsort3 libdjvulibre-text libdjvulibre21 libdom4j-java libdpkg-perl libdrm-amdgpu1 libdrm-intel1 libdrm-nouveau2 libdrm-radeon1 libdrm2 libedit2 libegl1-mesa libeigen3-dev libelf1 libelk0 libencode-locale-perl libepoxy0 liberror-perl libexpat1 libexpat1-dev libexporter-tiny-perl libfabric1 libfakeroot libfcgi-perl libffi6 libffindex0 libfftw3-double3 libfftw3-single3 libfile-basedir-perl libfile-desktopentry-perl libfile-fcntllock-perl libfile-homedir-perl libfile-listing-perl libfile-mimeinfo-perl libfile-slurp-tiny-perl libfile-which-perl libflac8 libfont-afm-perl libfont-ttf-perl libfontconfig1 libfontenc1 libfreecontact0v5 libfreetype6 libfreezethaw-perl libfribidi0 libfuse2 libg20 libgail-common libgail18 libgbm1 libgc1c2 libgcc-6-dev libgd-graph-perl libgd-perl libgd-text-perl libgd3 libgdbm3 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgetopt-euclid-perl libgetopt-simple-perl libgflags2v5 libgfortran-6-dev libgfortran3 libgif7 libgl1-mesa-dri libgl1-mesa-glx libglade2-0 libglapi-mesa libglib2.0-0 libglib2.0-data libglpk-java libglpk40 libglu1-mesa libgmp10 libgnutls30 libgomp1 libgoogle-glog0v5 libgpm2 libgraph-perl libgraphics-colornames-perl libgraphics-colorobject-perl libgraphite2-3 libgraphviz-perl libgromacs2 libgs9 libgs9-common libgsasl7 libgsl2 libgssapi-krb5-2 libgtextutils0v5 libgtk-3-0 libgtk-3-bin libgtk-3-common libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libgts-0.7-5 libgts-bin libguava-java libgvc6 libgvpr2 libhamcrest-java libharfbuzz-icu0 libharfbuzz0b libhdf5-100 libhmsbeagle1v5 libhogweed4 libhpdf-2.2.1 libhsqldb-java libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tableextract-perl libhtml-tagset-perl libhtml-tree-perl libhts1 libhtsjdk-java libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhwloc-plugins libhwloc5 libibverbs1 libice6 libicu-dev libicu57 libidn11 libidn2-0 libijs-0.35 libilmbase12 libimport-into-perl libio-all-perl libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libipc-sharelite-perl libipc-system-simple-perl libisl15 libisorelax-java libitm1 libjava-xmlbuilder-java libjaxen-java libjbig0 libjbig2dec0 libjbzip2-java libjcode-pm-perl libjcommon-java libjdom1-java libjellyfish-2.0-2 libjemalloc1 libjets3t-java libjgoodies-common-java libjgoodies-forms-java libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery libjs-jquery-ui libjs-underscore libjsch-java libjson-glib-1.0-0 libjson-glib-1.0-common libjsoncpp1 libjsr305-java libjxr-tools libjxr0 libjzlib-java libk5crypto3 libkdf5-2 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 libksba8 libkyotocabinet16v5 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblist-allutils-perl liblist-moreutils-perl liblist-someutils-perl liblist-utilsby-perl libllvm3.9 liblocale-gettext-perl liblog4j1.2-java liblqr-1-0 liblsan0 libltdl7 liblua5.1-0 liblua5.2-0 liblwp-mediatypes-perl liblwp-protocol-https-perl liblzma-dev liblzo2-2 libmagic-mgc libmagic1 libmagickcore-6.q16-3 libmagickcore-6.q16-3-extra libmagickwand-6.q16-3 libmail-java libmailtools-perl libmailutils5 libmariadbclient18 libmath-bezier-perl libmath-derivative-perl libmath-random-mt-perl libmath-round-perl libmath-spline-perl libmath-tamuanova-perl libmath-vec-perl libmath-vecstat-perl libmbedcrypto0 libmbedtls-dev libmbedtls10 libmbedx509-0 libmime-tools-perl libmldbm-perl libmng1 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmpc3 libmpdec2 libmpfr4 libmpx2 libmsv-java libmysql-java libncbi-vdb2 libncbi-wvdb2 libncbi6 libncurses5 libncurses5-dev libnet-dbus-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnetpbm10 libnettle6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk1 libnl-3-200 libnl-route-3-200 libnotify4 libnpth0 libnspr4 libnss3 libntlm0 libnuma1 libnumber-format-perl libogg0 libole-storage-lite-perl libopenexr22 libopenjp2-7 libopenmpi2 liboro-java libossp-uuid-perl libossp-uuid16 libp11-kit0 libpadwalker-perl libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libparams-classify-perl libparams-validate-perl libparse-recdescent-perl libpathplan4 libpciaccess0 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpcsclite1 libperl4-corelibs-perl libperl5.24 libperlio-gzip-perl libpicard-java libpixman-1-0 libpng-dev libpng-tools libpng16-16 libpod-coverage-perl libpoppler64 libpopt0 libpostscript-perl libpotrace0 libpq5 libprocps6 libprotobuf10 libproxy1v5 libpsl5 libpsm-infinipath1 libptexenc1 libpth20 libpulse0 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.5-minimal libpython3.5-stdlib libqt4-dbus libqt4-xml libqtcore4 libqtdbus4 libqtgui4 libquadmath0 librdmacm1 libreadline-dev libreadline5 libreadline7 libreadonly-perl libregexp-common-perl libregexp-java librelaxng-datatype-java librest-0.7-0 librole-tiny-perl librsvg2-2 librsvg2-common librtmp1 libruby2.3 libsasl2-2 libsasl2-modules libsasl2-modules-db libsaxonhe-java libscalar-list-utils-perl libsensors4 libservlet3.1-java libset-intspan-perl libset-scalar-perl libsigsegv2 libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsndfile1 libsoap-lite-perl libsort-naturally-perl libsoup-gnome2.4-1 libsoup2.4-1 libspiffy-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsprng2 libsqlite3-0 libsquizz libssh2-1 libssl1.0.2 libssl1.1 libstaden-read11 libstatistics-basic-perl libstatistics-descriptive-perl libstdc++-6-dev libstrictures-perl libsub-exporter-progressive-perl libsub-name-perl libsuitesparseconfig4 libsvg-graph-perl libsvg-perl libsynctex1 libsz2 libtamuanova-0.2 libtask-weaken-perl libtasn1-6 libtbb2 libtcl8.6 libterm-readkey-perl libtest-pod-perl libtexlua52 libtexluajit2 libtext-format-perl libtext-iconv-perl libthai-data libthai0 libtie-ixhash-perl libtiff5 libtimedate-perl libtinfo-dev libtk8.6 libtre5 libtree-dagnode-perl libtry-tiny-perl libtsan0 libtxc-dxtn-s2tc libtype-tiny-perl libtype-tiny-xs-perl libubsan0 libunicode-map-perl libunistring0 libunwind8 liburi-perl libutempter0 libvorbis0a libvorbisenc2 libwayland-client0 libwayland-cursor0 libwayland-egl1-mesa libwayland-server0 libwebp6 libwebpdemux2 libwebpmux2 libwmf0.2-7 libwrap0 libwsdl4j-java libwww-perl libwww-robotrules-perl libwxbase3.0-0v5 libwxgtk3.0-0v5 libx11-6 libx11-data libx11-protocol-perl libx11-xcb1 libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxdot4 libxerces-c3.1 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml-commons-external-java libxml-commons-resolver1.1-java libxml-dom-perl libxml-dom-xpath-perl libxml-filter-buffertext-perl libxml-libxml-perl libxml-libxslt-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpath-perl libxml-xpathengine-perl libxml2 libxmlrpc-lite-perl libxmu6 libxmuu1 libxom-java libxpm4 libxpp2-java libxpp3-java libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxt6 libxtst6 libxv1 libxxf86dga1 libxxf86vm1 libxz-java libyaml-0-2 libyaml-libyaml-perl libyaml-perl libyaml-tiny-perl libzzip-0-13 linux-libc-dev lmodern loki lsb-base lua-filesystem lua-lpeg lua-md5 lynx lynx-common macs mafft mailutils mailutils-common make manpages manpages-dev mapsembler2 maq mariadb-client-10.1 mariadb-client-core-10.1 mariadb-common med-config med-tasks melting menu mime-support minia mipe mira-assembler mira-rfam-12s-rrna mlv-smile mothur mpi-default-bin mrbayes mummer muscle mustang mysql-common ncbi-blast+ ncbi-blast+-legacy ncbi-data ncbi-epcr ncbi-tools-bin ncoils neobio netbase netpbm notification-daemon ocl-icd-libopencl1 openjdk-8-jre openjdk-8-jre-headless openmpi-bin openmpi-common openssl paraclu parallel parsinsert patch pdb2pqr perl perl-doc perl-modules-5.24 perl-openssl-defaults perl-tk perm phylip phyml phyutility picard-tools pinentry-curses pkg-config plink poa poppler-data prank preview-latex-style prime-phylo primer3 probabel probalign probcons procps proda prodigal prosper ps2eps psmisc publicsuffix pynast python python-backports-shutil-get-terminal-size python-biopython python-biopython-doc python-cairo python-chardet python-cogent python-cycler python-dateutil python-decorator python-dev python-enum34 python-functools32 python-glade2 python-gmpy python-gobject-2 python-gtk2 python-htseq python-imaging python-ipython python-ipython-genutils python-matplotlib python-matplotlib-data python-minimal python-mpi4py python-mpmath python-networkx python-numpy python-pathlib2 python-pexpect python-pickleshare python-pil python-pkg-resources python-prompt-toolkit python-ptyprocess python-pyglet python-pygments python-pygraphviz python-pyparsing python-pysam python-renderpm python-reportlab python-reportlab-accel python-scipy python-simplegeneric python-six python-subprocess32 python-sympy python-sympy-doc python-tk python-traitlets python-tz python-wcwidth python-wxgtk3.0 python-wxversion python-yaml python2.7 python2.7-dev python2.7-minimal python3 python3-biopython python3-minimal python3-numpy python3-pil python3-renderpm python3-reportlab python3-reportlab-accel python3.5 python3.5-minimal qdbus qt-at-spi qtchooser qtcore4-l10n r-base-core r-base-dev r-bioc-edger r-bioc-hilbertvis r-bioc-limma r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-g.data r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-multicore r-cran-nlme r-cran-nnet r-cran-permute r-cran-pvclust r-cran-qtl r-cran-rpart r-cran-spatial r-cran-survival r-cran-vegan r-doc-html r-other-mott-happy.hbrem r-recommended rake raster3d raxml readline-common readseq rename rnahybrid rtax ruby ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert ruby-test-unit ruby2.3 rubygems-integration samtools seqan-apps sgml-base shared-mime-info sibsim4 sigma-align sim4 smalt snap soapdenovo soapdenovo2 squizz sra-toolkit ssake staden-io-lib-utils sysstat t-coffee t1utils tabix tasksel tasksel-data tcl tcl8.6 tcpd tex-common tex-gyre texlive-base texlive-binaries texlive-extra-utils texlive-font-utils texlive-fonts-extra texlive-fonts-extra-doc texlive-fonts-recommended texlive-fonts-recommended-doc texlive-generic-extra texlive-generic-recommended texlive-latex-base texlive-latex-base-doc texlive-latex-extra texlive-latex-extra-doc texlive-latex-recommended texlive-latex-recommended-doc texlive-pictures texlive-pictures-doc texlive-pstricks texlive-pstricks-doc theseus tigr-glimmer tipa tk tk8.6 tk8.6-blt2.5 tm-align tophat tree-puzzle tree-puzzle-doc ttf-adf-accanthis ttf-adf-gillius ttf-adf-universalis ttf-bitstream-vera tzdata ucf unzip vcftools velvet wise wise-data x11-common x11-utils x11-xserver-utils xauth xbitmaps xdg-user-dirs xdg-utils xkb-data xml-core xterm xz-utils zalign zip zlib1g-dev Suggested packages: altree-examples ant-doc ant-gcj default-jdk | java-compiler | java-sdk libbcel-java ivy ant-optional-gcj antlr javacc junit jython libbsf-java libjaxp1.3-java libjdepend-java libxalan2-java apache2-doc apache2-suexec-pristine | apache2-suexec-custom autodocktools binutils-doc default-mysql-server | virtual-mysql-server groff-base gmap paml blends-doc blt-demo bowtie-examples bowtie2-examples seaview xfig devscripts clustalx pymol cpp-doc gcc-6-locales anacron logrotate checksecurity cython-doc default-dbus-session-bus | dbus-session-bus dbus-user-session libpam-systemd pinentry-gnome3 tor debian-keyring embassy emboss-doc emboss-test eximon4 exim4-doc-html | exim4-doc-info spf-tools-perl swaks fastlink-doc fonts-noto fontforge bash-completion g++-multilib g++-6-multilib gcc-6-doc libstdc++6-6-dbg gawk-doc gcc-multilib autoconf automake libtool flex bison gdb gcc-doc gcc-6-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan3-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx2-dbg libquadmath0-dbg gfortran-multilib gfortran-doc gfortran-6-multilib gfortran-6-doc libgfortran3-dbg libcoarrays-dev ghostscript-x parcimonie xloadimage scdaemon graphviz-doc tcsh | c-shell hmmer-doc imagemagick-doc autotrace cups-bsd | lpr | lprng curl enscript ffmpeg gimp gnuplot grads hp2xx html2ps libwmf-bin mplayer povray radiance sane-utils transfig ufraw-batch apache2 | lighttpd | httpd libasound2-plugins alsa-utils libatinject-jsr330-api-java-doc nas libdigest-hmac-perl libgssapi-perl libaxis-java-doc libbcprov-java-doc libxml-sax-expatxs-perl java-virtual-machine libjgrapht-java libbiojava-java-doc liblapack-doc-man liblapack-doc glibc-doc colord libcommons-collections3-java-doc libcommons-dbcp-java-doc libgeronimo-jta-1.1-spec-java libcommons-discovery-java-doc libcommons-httpclient-java-doc libcommons-jexl2-java-doc libavalon-framework-java libcommons-logging-java-doc libexcalibur-logkit-java libcommons-net-java-doc cups-common libnet-daemon-perl libsql-statement-perl libdom4j-java-doc libeigen3-doc libmrpt-dev libfftw3-bin libfftw3-dev fuse fonts-dustin libgd-tools libiodbc2-dev default-libmysqlclient-dev gnutls-bin gpm gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html krb5-doc krb5-user gvfs libhsqldb-java-doc libdata-dump-perl libhtml-element-extended-perl libhwloc-contrib-plugins icu-doc libdb-file-lock-perl libfile-readbackwards-perl libjava-xmlbuilder-java-doc libjcommon-java-doc libjdom1-java-doc libjgoodies-common-java-doc libjgoodies-forms-java-doc libjs-jquery-ui-docs libjsr305-java-doc liblcms2-utils liblog4j1.2-java-doc libcrypt-ssleay-perl liblzma-doc inkscape libmail-java-doc libmbedtls-doc libslf4j-java ncurses-doc uuid libscalar-number-perl pciutils pcscd pulseaudio qt4-qtconfig readline-doc librsvg2-bin libsasl2-modules-gssapi-mit | libsasl2-modules-gssapi-heimdal libsasl2-modules-ldap libsasl2-modules-otp libsasl2-modules-sql lm-sensors libmime-lite-perl libnet-jabber-perl libstdc++-6-doc libbareword-filehandles-perl libindirect-perl libmultidimensional-perl tre-agrep libdevel-stacktrace-perl libauthen-ntlm-perl libxerces2-java-doc libxerces2-java-gcj libxml-commons-resolver1.1-java-doc libunicode-map8-perl libunicode-string-perl xml-twig-tools libxom-java-doc libyaml-shell-perl loki-doc mailutils-mh mailutils-doc make-doc man-browser bagpipe cufflinks embassy-phylip qiime r-other-valdar-bagphenotype.library melting-gui menu-l10n gksu | kde-runtime | ktsuss mira-doc mrbayes-doc mustang-testdata libvibrant6b ncbi-tools-x11 strap icedtea-8-plugin libnss-mdns fonts-ipafont-gothic fonts-ipafont-mincho fonts-wqy-microhei fonts-wqy-zenhei fonts-indic ed diffutils-doc apbs libterm-readline-gnu-perl | libterm-readline-perl-perl phylip-doc pinentry-doc poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum njplot treeviewx probcons-extra pdf-viewer uclust python-doc python-mysqldb python-rdflib python-psycopg2 python-cogent-doc rdp-classifier python-cycler-doc python-enum34-doc python-gtk2-doc python-gmpy-doc python-gobject-2-dbg gir1.2-gtk-3.0 python-cairocffi python-configobj python-excelerator python-gobject python-matplotlib-doc python-nose python-qt4 python-sip python-tornado python-traits ttf-staypuft python-gmpy2 python-mpmath-doc python-networkx-doc python-numpy-dbg python-numpy-doc python-pexpect-doc python-pil-doc python-pil-dbg python-setuptools python-pygraphviz-doc python-pyparsing-doc python-renderpm-dbg python-egenix-mxtexttools python-reportlab-doc python-scipy-doc tix python-tk-dbg wx3.0-doc python2.7-doc binfmt-support python3-doc python3-tk python3-venv python3-matplotlib python3-rdflib python3-psycopg2 python3-scipy python3-dev python3-nose python3-numpy-dbg python3-pil-dbg python3-renderpm-dbg python3-egenix-mxtexttools python3.5-venv python3.5-doc ess r-doc-info | r-doc-pdf r-mathlib r-base-html debhelper texinfo r-bioc-iranges r-bioc-affy r-bioc-annotationdbi r-cran-biasedurn r-bioc-biobase r-cran-ellipse r-bioc-go.db r-cran-gplots r-cran-statmod r-cran-testthat r-cran-knitr raster3d-doc ri ruby-dev bundler sgml-base-doc ssake-examples staden-io-lib-examples isag t-coffee-examples tcl-tclreadline xpdf-reader | pdf-viewer chktex dvidvi fragmaster lacheck latexdiff latexmk purifyeps xindy psutils cm-super dot2tex prerex ruby-tcltk | libtcltk-ruby theseus-examples rasmol treetool velvet-example wise-doc mesa-utils nickle cairo-5c xorg-docs-core gvfs-bin xfonts-cyrillic The following NEW packages will be installed: abyss acedb-other adwaita-icon-theme aevol alien-hunter altree amap-align ampliconnoise anfo ant ant-contrib ant-optional apache2-bin aragorn arden at-spi2-core autodock autodock-vina autogrid autotools-dev bamtools bc bedtools beignet-opencl-icd binutils biomaj bioperl bioperl-run biosquid blast2 blends-common blt bowtie bowtie2 boxshade build-essential bwa bzip2 bzip2-doc ca-certificates ca-certificates-java cain cain-examples cain-solvers cassiopee cd-hit cdbfasta cdbs circos circos-tools clearcut clonalframe clustalo clustalw concavity conservation-code cpp cpp-6 cron cython datamash dbus dconf-gsettings-backend dconf-service default-jre default-jre-headless default-mysql-client dh-python dialign dialign-tx dialign-tx-data dirmngr discosnp disulfinder disulfinder-data dmidecode dnaclust dpkg-dev dssp dvipng embassy-domainatrix embassy-domalign embassy-domsearch emboss emboss-data emboss-lib exim4 exim4-base exim4-config exim4-daemon-light exonerate fakeroot fastdnaml fastlink fastqc fasttree fastx-toolkit ffindex file filo fitgcp flexbar fontconfig fontconfig-config fonts-cabin fonts-circos-symbols fonts-cmu fonts-comfortaa fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu-core fonts-dejavu-extra fonts-droid-fallback fonts-ebgaramond fonts-ebgaramond-extra 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libfont-ttf-perl libfontconfig1 libfontenc1 libfreecontact0v5 libfreetype6 libfreezethaw-perl libfribidi0 libfuse2 libg20 libgail-common libgail18 libgbm1 libgc1c2 libgcc-6-dev libgd-graph-perl libgd-perl libgd-text-perl libgd3 libgdbm3 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgetopt-euclid-perl libgetopt-simple-perl libgflags2v5 libgfortran-6-dev libgfortran3 libgif7 libgl1-mesa-dri libgl1-mesa-glx libglade2-0 libglapi-mesa libglib2.0-0 libglib2.0-data libglpk-java libglpk40 libglu1-mesa libgmp10 libgnutls30 libgomp1 libgoogle-glog0v5 libgpm2 libgraph-perl libgraphics-colornames-perl libgraphics-colorobject-perl libgraphite2-3 libgraphviz-perl libgromacs2 libgs9 libgs9-common libgsasl7 libgsl2 libgssapi-krb5-2 libgtextutils0v5 libgtk-3-0 libgtk-3-bin libgtk-3-common libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libgts-0.7-5 libgts-bin libguava-java libgvc6 libgvpr2 libhamcrest-java libharfbuzz-icu0 libharfbuzz0b libhdf5-100 libhmsbeagle1v5 libhogweed4 libhpdf-2.2.1 libhsqldb-java libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tableextract-perl libhtml-tagset-perl libhtml-tree-perl libhts1 libhtsjdk-java libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhwloc-plugins libhwloc5 libibverbs1 libice6 libicu-dev libicu57 libidn11 libidn2-0 libijs-0.35 libilmbase12 libimport-into-perl libio-all-perl libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libipc-sharelite-perl libipc-system-simple-perl libisl15 libisorelax-java libitm1 libjava-xmlbuilder-java libjaxen-java libjbig0 libjbig2dec0 libjbzip2-java libjcode-pm-perl libjcommon-java libjdom1-java libjellyfish-2.0-2 libjemalloc1 libjets3t-java libjgoodies-common-java libjgoodies-forms-java libjpeg-dev libjpeg62-turbo libjpeg62-turbo-dev libjs-jquery libjs-jquery-ui libjs-underscore libjsch-java libjson-glib-1.0-0 libjson-glib-1.0-common libjsoncpp1 libjsr305-java libjxr-tools libjxr0 libjzlib-java libk5crypto3 libkdf5-2 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 libksba8 libkyotocabinet16v5 liblapack-dev liblapack3 liblcms2-2 libldap-2.4-2 libldap-common liblist-allutils-perl liblist-moreutils-perl liblist-someutils-perl liblist-utilsby-perl libllvm3.9 liblocale-gettext-perl liblog4j1.2-java liblqr-1-0 liblsan0 libltdl7 liblua5.1-0 liblua5.2-0 liblwp-mediatypes-perl liblwp-protocol-https-perl liblzma-dev liblzo2-2 libmagic-mgc libmagic1 libmagickcore-6.q16-3 libmagickcore-6.q16-3-extra libmagickwand-6.q16-3 libmail-java libmailtools-perl libmailutils5 libmariadbclient18 libmath-bezier-perl libmath-derivative-perl libmath-random-mt-perl libmath-round-perl libmath-spline-perl libmath-tamuanova-perl libmath-vec-perl libmath-vecstat-perl libmbedcrypto0 libmbedtls-dev libmbedtls10 libmbedx509-0 libmime-tools-perl libmldbm-perl libmng1 libmodule-implementation-perl libmodule-runtime-perl libmoo-perl libmpc3 libmpdec2 libmpfr4 libmpx2 libmsv-java libmysql-java libncbi-vdb2 libncbi-wvdb2 libncbi6 libncurses5 libncurses5-dev libnet-dbus-perl libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnetpbm10 libnettle6 libnghttp2-14 libngs-java libngs-sdk-dev libngs-sdk1 libnl-3-200 libnl-route-3-200 libnotify4 libnpth0 libnspr4 libnss3 libntlm0 libnuma1 libnumber-format-perl libogg0 libole-storage-lite-perl libopenexr22 libopenjp2-7 libopenmpi2 liboro-java libossp-uuid-perl libossp-uuid16 libp11-kit0 libpadwalker-perl libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libparams-classify-perl libparams-validate-perl libparse-recdescent-perl libpathplan4 libpciaccess0 libpcre16-3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpcsclite1 libperl4-corelibs-perl libperl5.24 libperlio-gzip-perl libpicard-java libpixman-1-0 libpng-dev libpng-tools libpng16-16 libpod-coverage-perl libpoppler64 libpopt0 libpostscript-perl libpotrace0 libpq5 libprocps6 libprotobuf10 libproxy1v5 libpsl5 libpsm-infinipath1 libptexenc1 libpth20 libpulse0 libpython-dev libpython-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.5-minimal libpython3.5-stdlib libqt4-dbus libqt4-xml libqtcore4 libqtdbus4 libqtgui4 libquadmath0 librdmacm1 libreadline-dev libreadline5 libreadline7 libreadonly-perl libregexp-common-perl libregexp-java librelaxng-datatype-java librest-0.7-0 librole-tiny-perl librsvg2-2 librsvg2-common librtmp1 libruby2.3 libsasl2-2 libsasl2-modules libsasl2-modules-db libsaxonhe-java libscalar-list-utils-perl libsensors4 libservlet3.1-java libset-intspan-perl libset-scalar-perl libsigsegv2 libsm6 libsnappy-java libsnappy-jni libsnappy1v5 libsndfile1 libsoap-lite-perl libsort-naturally-perl libsoup-gnome2.4-1 libsoup2.4-1 libspiffy-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsprng2 libsqlite3-0 libsquizz libssh2-1 libssl1.0.2 libssl1.1 libstaden-read11 libstatistics-basic-perl libstatistics-descriptive-perl libstdc++-6-dev libstrictures-perl libsub-exporter-progressive-perl libsub-name-perl libsuitesparseconfig4 libsvg-graph-perl libsvg-perl libsynctex1 libsz2 libtamuanova-0.2 libtask-weaken-perl libtasn1-6 libtbb2 libtcl8.6 libterm-readkey-perl libtest-pod-perl libtexlua52 libtexluajit2 libtext-format-perl libtext-iconv-perl libthai-data libthai0 libtie-ixhash-perl libtiff5 libtimedate-perl libtinfo-dev libtk8.6 libtre5 libtree-dagnode-perl libtry-tiny-perl libtsan0 libtxc-dxtn-s2tc libtype-tiny-perl libtype-tiny-xs-perl libubsan0 libunicode-map-perl libunistring0 libunwind8 liburi-perl libutempter0 libvorbis0a libvorbisenc2 libwayland-client0 libwayland-cursor0 libwayland-egl1-mesa libwayland-server0 libwebp6 libwebpdemux2 libwebpmux2 libwmf0.2-7 libwrap0 libwsdl4j-java libwww-perl libwww-robotrules-perl libwxbase3.0-0v5 libwxgtk3.0-0v5 libx11-6 libx11-data libx11-protocol-perl libx11-xcb1 libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxdot4 libxerces-c3.1 libxerces2-java libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxkbcommon0 libxml-commons-external-java libxml-commons-resolver1.1-java libxml-dom-perl libxml-dom-xpath-perl libxml-filter-buffertext-perl libxml-libxml-perl libxml-libxslt-perl libxml-namespacesupport-perl libxml-parser-perl libxml-perl libxml-regexp-perl libxml-sax-base-perl libxml-sax-expat-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-xpath-perl libxml-xpathengine-perl libxml2 libxmlrpc-lite-perl libxmu6 libxmuu1 libxom-java libxpm4 libxpp2-java libxpp3-java libxrandr2 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxt6 libxtst6 libxv1 libxxf86dga1 libxxf86vm1 libxz-java libyaml-0-2 libyaml-libyaml-perl libyaml-perl libyaml-tiny-perl libzzip-0-13 linux-libc-dev lmodern loki lsb-base lua-filesystem lua-lpeg lua-md5 lynx lynx-common macs mafft mailutils mailutils-common make manpages manpages-dev mapsembler2 maq mariadb-client-10.1 mariadb-client-core-10.1 mariadb-common med-cloud med-config med-tasks melting menu mime-support minia mipe mira-assembler mira-rfam-12s-rrna mlv-smile mothur mpi-default-bin mrbayes mummer muscle mustang mysql-common ncbi-blast+ ncbi-blast+-legacy ncbi-data ncbi-epcr ncbi-tools-bin ncoils neobio netbase netpbm notification-daemon ocl-icd-libopencl1 openjdk-8-jre openjdk-8-jre-headless openmpi-bin openmpi-common openssl paraclu parallel parsinsert patch pdb2pqr perl perl-doc perl-modules-5.24 perl-openssl-defaults perl-tk perm phylip phyml phyutility picard-tools pinentry-curses pkg-config plink poa poppler-data prank preview-latex-style prime-phylo primer3 probabel probalign probcons procps proda prodigal prosper ps2eps psmisc publicsuffix pynast python python-backports-shutil-get-terminal-size python-biopython python-biopython-doc python-cairo python-chardet python-cogent python-cycler python-dateutil python-decorator python-dev python-enum34 python-functools32 python-glade2 python-gmpy python-gobject-2 python-gtk2 python-htseq python-imaging python-ipython python-ipython-genutils python-matplotlib python-matplotlib-data python-minimal python-mpi4py python-mpmath python-networkx python-numpy python-pathlib2 python-pexpect python-pickleshare python-pil python-pkg-resources python-prompt-toolkit python-ptyprocess python-pyglet python-pygments python-pygraphviz python-pyparsing python-pysam python-renderpm python-reportlab python-reportlab-accel python-scipy python-simplegeneric python-six python-subprocess32 python-sympy python-sympy-doc python-tk python-traitlets python-tz python-wcwidth python-wxgtk3.0 python-wxversion python-yaml python2.7 python2.7-dev python2.7-minimal python3 python3-biopython python3-minimal python3-numpy python3-pil python3-renderpm python3-reportlab python3-reportlab-accel python3.5 python3.5-minimal qdbus qt-at-spi qtchooser qtcore4-l10n r-base-core r-base-dev r-bioc-edger r-bioc-hilbertvis r-bioc-limma r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-g.data r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-multicore r-cran-nlme r-cran-nnet r-cran-permute r-cran-pvclust r-cran-qtl r-cran-rpart r-cran-spatial r-cran-survival r-cran-vegan r-doc-html r-other-mott-happy.hbrem r-recommended rake raster3d raxml readline-common readseq rename rnahybrid rtax ruby ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert ruby-test-unit ruby2.3 rubygems-integration samtools seqan-apps sgml-base shared-mime-info sibsim4 sigma-align sim4 smalt snap soapdenovo soapdenovo2 squizz sra-toolkit ssake staden-io-lib-utils sysstat t-coffee t1utils tabix tasksel tasksel-data tcl tcl8.6 tcpd tex-common tex-gyre texlive-base texlive-binaries texlive-extra-utils texlive-font-utils texlive-fonts-extra texlive-fonts-extra-doc texlive-fonts-recommended texlive-fonts-recommended-doc texlive-generic-extra texlive-generic-recommended texlive-latex-base texlive-latex-base-doc texlive-latex-extra texlive-latex-extra-doc texlive-latex-recommended texlive-latex-recommended-doc texlive-pictures texlive-pictures-doc texlive-pstricks texlive-pstricks-doc theseus tigr-glimmer tipa tk tk8.6 tk8.6-blt2.5 tm-align tophat tree-puzzle tree-puzzle-doc ttf-adf-accanthis ttf-adf-gillius ttf-adf-universalis ttf-bitstream-vera tzdata ucf unzip vcftools velvet wise wise-data x11-common x11-utils x11-xserver-utils xauth xbitmaps xdg-user-dirs xdg-utils xkb-data xml-core xterm xz-utils zalign zip zlib1g-dev 0 upgraded, 1114 newly installed, 0 to remove and 0 not upgraded. Need to get 2126 MB of archives. After this operation, 5409 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian stretch/main amd64 lsb-base all 9.20161125 [27.9 kB] Get:2 http://deb.debian.org/debian stretch/main amd64 cron amd64 3.0pl1-128+deb9u1 [95.4 kB] Get:3 http://deb.debian.org/debian stretch/main amd64 liblocale-gettext-perl amd64 1.07-3+b1 [18.7 kB] Get:4 http://deb.debian.org/debian stretch/main amd64 tasksel-data all 3.39 [18.1 kB] Get:5 http://deb.debian.org/debian stretch/main amd64 tasksel all 3.39 [94.6 kB] Get:6 http://deb.debian.org/debian stretch/main amd64 perl-modules-5.24 all 5.24.1-3+deb9u7 [2723 kB] Get:7 http://deb.debian.org/debian stretch/main amd64 libgdbm3 amd64 1.8.3-14 [30.0 kB] Get:8 http://deb.debian.org/debian stretch/main amd64 libperl5.24 amd64 5.24.1-3+deb9u7 [3527 kB] Get:9 http://deb.debian.org/debian stretch/main amd64 perl amd64 5.24.1-3+deb9u7 [218 kB] Get:10 http://deb.debian.org/debian stretch/main amd64 libpython2.7-minimal amd64 2.7.13-2+deb9u3 [389 kB] Get:11 http://deb.debian.org/debian stretch/main amd64 python2.7-minimal amd64 2.7.13-2+deb9u3 [1382 kB] Get:12 http://deb.debian.org/debian stretch/main amd64 python-minimal amd64 2.7.13-2 [40.5 kB] Get:13 http://deb.debian.org/debian stretch/main amd64 mime-support all 3.60 [36.7 kB] Get:14 http://deb.debian.org/debian stretch/main amd64 libexpat1 amd64 2.2.0-2+deb9u3 [83.7 kB] Get:15 http://deb.debian.org/debian stretch/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:16 http://deb.debian.org/debian stretch/main amd64 readline-common all 7.0-3 [70.4 kB] Get:17 http://deb.debian.org/debian stretch/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:18 http://deb.debian.org/debian stretch/main amd64 libsqlite3-0 amd64 3.16.2-5+deb9u1 [572 kB] Get:19 http://deb.debian.org/debian stretch/main amd64 libssl1.1 amd64 1.1.0l-1~deb9u1 [1358 kB] Get:20 http://deb.debian.org/debian stretch/main amd64 libpython2.7-stdlib amd64 2.7.13-2+deb9u3 [1897 kB] Get:21 http://deb.debian.org/debian stretch/main amd64 python2.7 amd64 2.7.13-2+deb9u3 [285 kB] Get:22 http://deb.debian.org/debian stretch/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:23 http://deb.debian.org/debian stretch/main amd64 python amd64 2.7.13-2 [154 kB] Get:24 http://deb.debian.org/debian stretch/main amd64 libpng16-16 amd64 1.6.28-1+deb9u1 [280 kB] Get:25 http://deb.debian.org/debian stretch/main amd64 libfreetype6 amd64 2.6.3-3.2+deb9u1 [438 kB] Get:26 http://deb.debian.org/debian stretch/main amd64 ucf all 3.0036 [70.2 kB] Get:27 http://deb.debian.org/debian stretch/main amd64 fonts-dejavu-core all 2.37-1 [1068 kB] Get:28 http://deb.debian.org/debian stretch/main amd64 ttf-bitstream-vera all 1.10-8 [352 kB] Get:29 http://deb.debian.org/debian stretch/main amd64 fonts-liberation all 1:1.07.4-2 [827 kB] Get:30 http://deb.debian.org/debian stretch/main amd64 fontconfig-config all 2.11.0-6.7 [271 kB] Get:31 http://deb.debian.org/debian stretch/main amd64 libfontconfig1 amd64 2.11.0-6.7+b1 [331 kB] Get:32 http://deb.debian.org/debian stretch/main amd64 fontconfig amd64 2.11.0-6.7+b1 [404 kB] Get:33 http://deb.debian.org/debian stretch/main amd64 fonts-droid-fallback all 1:6.0.1r16-1.1 [1807 kB] Get:34 http://deb.debian.org/debian stretch/main amd64 fonts-lato all 2.0-1 [2684 kB] Get:35 http://deb.debian.org/debian stretch/main amd64 libgmp10 amd64 2:6.1.2+dfsg-1 [253 kB] Get:36 http://deb.debian.org/debian stretch/main amd64 libmpfr4 amd64 3.1.5-1 [556 kB] Get:37 http://deb.debian.org/debian stretch/main amd64 libsigsegv2 amd64 2.10-5 [28.9 kB] Get:38 http://deb.debian.org/debian stretch/main amd64 gawk amd64 1:4.1.4+dfsg-1 [571 kB] Get:39 http://deb.debian.org/debian stretch/main amd64 libart-2.0-2 amd64 2.3.21-2 [72.7 kB] Get:40 http://deb.debian.org/debian stretch/main amd64 libxau6 amd64 1:1.0.8-1 [20.7 kB] Get:41 http://deb.debian.org/debian stretch/main amd64 libbsd0 amd64 0.8.3-1 [83.0 kB] Get:42 http://deb.debian.org/debian stretch/main amd64 x11-common all 1:7.7+19 [251 kB] Get:43 http://deb.debian.org/debian stretch/main amd64 libice6 amd64 2:1.0.9-2 [58.7 kB] Get:44 http://deb.debian.org/debian stretch/main amd64 libsm6 amd64 2:1.2.2-1+b3 [33.3 kB] Get:45 http://deb.debian.org/debian stretch/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:46 http://deb.debian.org/debian stretch/main amd64 libxcb1 amd64 1.12-1 [133 kB] Get:47 http://deb.debian.org/debian stretch/main amd64 libx11-data all 2:1.6.4-3+deb9u1 [287 kB] Get:48 http://deb.debian.org/debian stretch/main amd64 libx11-6 amd64 2:1.6.4-3+deb9u1 [748 kB] Get:49 http://deb.debian.org/debian stretch/main amd64 libxt6 amd64 1:1.1.5-1 [188 kB] Get:50 http://deb.debian.org/debian stretch/main amd64 libaudio2 amd64 1.9.4-5+b1 [79.9 kB] Get:51 http://deb.debian.org/debian stretch/main amd64 libglib2.0-0 amd64 2.50.3-2+deb9u2 [2692 kB] Get:52 http://deb.debian.org/debian stretch/main amd64 libatk1.0-data all 2.22.0-1 [172 kB] Get:53 http://deb.debian.org/debian stretch/main amd64 libatk1.0-0 amd64 2.22.0-1 [78.4 kB] Get:54 http://deb.debian.org/debian stretch/main amd64 libpixman-1-0 amd64 0.34.0-1 [530 kB] Get:55 http://deb.debian.org/debian stretch/main amd64 libxcb-render0 amd64 1.12-1 [105 kB] Get:56 http://deb.debian.org/debian stretch/main amd64 libxcb-shm0 amd64 1.12-1 [95.9 kB] Get:57 http://deb.debian.org/debian stretch/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get:58 http://deb.debian.org/debian stretch/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB] Get:59 http://deb.debian.org/debian stretch/main amd64 libcairo2 amd64 1.14.8-1 [771 kB] Get:60 http://deb.debian.org/debian stretch/main amd64 libjpeg62-turbo amd64 1:1.5.1-2 [134 kB] Get:61 http://deb.debian.org/debian stretch/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB] Get:62 http://deb.debian.org/debian stretch/main amd64 libtiff5 amd64 4.0.8-2+deb9u5 [239 kB] Get:63 http://deb.debian.org/debian stretch/main amd64 libicu57 amd64 57.1-6+deb9u4 [7699 kB] Get:64 http://deb.debian.org/debian stretch/main amd64 libxml2 amd64 2.9.4+dfsg1-2.2+deb9u2 [920 kB] Get:65 http://deb.debian.org/debian stretch/main amd64 shared-mime-info amd64 1.8-1+deb9u1 [731 kB] Get:66 http://deb.debian.org/debian stretch/main amd64 libgdk-pixbuf2.0-common all 2.36.5-2+deb9u2 [311 kB] Get:67 http://deb.debian.org/debian stretch/main amd64 libgdk-pixbuf2.0-0 amd64 2.36.5-2+deb9u2 [170 kB] Get:68 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-common all 2.24.31-2 [2693 kB] Get:69 http://deb.debian.org/debian stretch/main amd64 libavahi-common-data amd64 0.6.32-2 [118 kB] Get:70 http://deb.debian.org/debian stretch/main amd64 libavahi-common3 amd64 0.6.32-2 [52.0 kB] Get:71 http://deb.debian.org/debian stretch/main amd64 libdbus-1-3 amd64 1.10.32-0+deb9u1 [196 kB] Get:72 http://deb.debian.org/debian stretch/main amd64 libavahi-client3 amd64 0.6.32-2 [55.3 kB] Get:73 http://deb.debian.org/debian stretch/main amd64 libnettle6 amd64 3.3-1+b2 [192 kB] Get:74 http://deb.debian.org/debian stretch/main amd64 libhogweed4 amd64 3.3-1+b2 [136 kB] Get:75 http://deb.debian.org/debian stretch/main amd64 libidn11 amd64 1.33-1+deb9u1 [115 kB] Get:76 http://deb.debian.org/debian stretch/main amd64 libp11-kit0 amd64 0.23.3-2 [111 kB] Get:77 http://deb.debian.org/debian stretch/main amd64 libtasn1-6 amd64 4.10-1.1+deb9u1 [50.6 kB] Get:78 http://deb.debian.org/debian stretch/main amd64 libgnutls30 amd64 3.5.8-5+deb9u5 [896 kB] Get:79 http://deb.debian.org/debian stretch/main amd64 libkeyutils1 amd64 1.5.9-9 [12.4 kB] Get:80 http://deb.debian.org/debian stretch/main amd64 libkrb5support0 amd64 1.15-1+deb9u1 [61.9 kB] Get:81 http://deb.debian.org/debian stretch/main amd64 libk5crypto3 amd64 1.15-1+deb9u1 [119 kB] Get:82 http://deb.debian.org/debian stretch/main amd64 libkrb5-3 amd64 1.15-1+deb9u1 [311 kB] Get:83 http://deb.debian.org/debian stretch/main amd64 libgssapi-krb5-2 amd64 1.15-1+deb9u1 [155 kB] Get:84 http://deb.debian.org/debian stretch/main amd64 libcups2 amd64 2.2.1-8+deb9u6 [307 kB] Get:85 http://deb.debian.org/debian stretch/main amd64 libthai-data all 0.1.26-1 [166 kB] Get:86 http://deb.debian.org/debian stretch/main amd64 libdatrie1 amd64 0.2.10-4+b1 [36.4 kB] Get:87 http://deb.debian.org/debian stretch/main amd64 libthai0 amd64 0.1.26-1 [52.1 kB] Get:88 http://deb.debian.org/debian stretch/main amd64 libpango-1.0-0 amd64 1.40.5-1 [320 kB] Get:89 http://deb.debian.org/debian stretch/main amd64 libgraphite2-3 amd64 1.3.10-1 [84.2 kB] Get:90 http://deb.debian.org/debian stretch/main amd64 libharfbuzz0b amd64 1.4.2-1 [671 kB] Get:91 http://deb.debian.org/debian stretch/main amd64 libpangoft2-1.0-0 amd64 1.40.5-1 [205 kB] Get:92 http://deb.debian.org/debian stretch/main amd64 libpangocairo-1.0-0 amd64 1.40.5-1 [193 kB] Get:93 http://deb.debian.org/debian stretch/main amd64 libxcomposite1 amd64 1:0.4.4-2 [16.5 kB] Get:94 http://deb.debian.org/debian stretch/main amd64 libxfixes3 amd64 1:5.0.3-1 [21.9 kB] Get:95 http://deb.debian.org/debian stretch/main amd64 libxcursor1 amd64 1:1.1.14-1+deb9u2 [34.9 kB] Get:96 http://deb.debian.org/debian stretch/main amd64 libxdamage1 amd64 1:1.1.4-2+b3 [14.5 kB] Get:97 http://deb.debian.org/debian stretch/main amd64 libxi6 amd64 2:1.7.9-1 [82.6 kB] Get:98 http://deb.debian.org/debian stretch/main amd64 libxinerama1 amd64 2:1.1.3-1+b3 [16.7 kB] Get:99 http://deb.debian.org/debian stretch/main amd64 libxrandr2 amd64 2:1.5.1-1 [37.5 kB] Get:100 http://deb.debian.org/debian stretch/main amd64 hicolor-icon-theme all 0.15-1 [9550 B] Get:101 http://deb.debian.org/debian stretch/main amd64 gtk-update-icon-cache amd64 3.22.11-1 [76.6 kB] Get:102 http://deb.debian.org/debian stretch/main amd64 libcroco3 amd64 0.6.11-3 [143 kB] Get:103 http://deb.debian.org/debian stretch/main amd64 librsvg2-2 amd64 2.40.16-1+b1 [281 kB] Get:104 http://deb.debian.org/debian stretch/main amd64 librsvg2-common amd64 2.40.16-1+b1 [194 kB] Get:105 http://deb.debian.org/debian stretch/main amd64 gnome-icon-theme all 3.12.0-2 [9890 kB] Get:106 http://deb.debian.org/debian stretch/main amd64 adwaita-icon-theme all 3.22.0-1+deb9u1 [11.5 MB] Get:107 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-0 amd64 2.24.31-2 [1800 kB] Get:108 http://deb.debian.org/debian stretch/main amd64 libglade2-0 amd64 1:2.6.4-2 [81.8 kB] Get:109 http://deb.debian.org/debian stretch/main amd64 liblqr-1-0 amd64 0.4.2-2+b2 [24.8 kB] Get:110 http://deb.debian.org/debian stretch/main amd64 libgomp1 amd64 6.3.0-18+deb9u1 [73.3 kB] Get:111 http://deb.debian.org/debian stretch/main amd64 libfftw3-double3 amd64 3.3.5-3 [731 kB] Get:112 http://deb.debian.org/debian stretch/main amd64 liblcms2-2 amd64 2.8-4+deb9u1 [143 kB] Get:113 http://deb.debian.org/debian stretch/main amd64 libltdl7 amd64 2.4.6-2 [389 kB] Get:114 http://deb.debian.org/debian stretch/main amd64 libopenjp2-7 amd64 2.1.2-1.1+deb9u4 [122 kB] Get:115 http://deb.debian.org/debian stretch/main amd64 imagemagick-6-common all 8:6.9.7.4+dfsg-11+deb9u8 [185 kB] Get:116 http://deb.debian.org/debian stretch/main amd64 libmagickcore-6.q16-3 amd64 8:6.9.7.4+dfsg-11+deb9u8 [1743 kB] Get:117 http://deb.debian.org/debian stretch/main amd64 libmagickwand-6.q16-3 amd64 8:6.9.7.4+dfsg-11+deb9u8 [423 kB] Get:118 http://deb.debian.org/debian stretch/main amd64 libogg0 amd64 1.3.2-1 [19.9 kB] Get:119 http://deb.debian.org/debian stretch/main amd64 libpcrecpp0v5 amd64 2:8.39-3 [151 kB] Get:120 http://deb.debian.org/debian stretch/main amd64 libxss1 amd64 1:1.2.2-1 [17.5 kB] Get:121 http://deb.debian.org/debian stretch/main amd64 lua-md5 amd64 1.2+git+1+8d87fee-1 [13.1 kB] Get:122 http://deb.debian.org/debian stretch/main amd64 libboost-system1.62.0 amd64 1.62.0+dfsg-4 [32.4 kB] Get:123 http://deb.debian.org/debian stretch/main amd64 libboost-filesystem1.62.0 amd64 1.62.0+dfsg-4 [63.2 kB] Get:124 http://deb.debian.org/debian stretch/main amd64 libboost-iostreams1.62.0 amd64 1.62.0+dfsg-4 [50.8 kB] Get:125 http://deb.debian.org/debian stretch/main amd64 libboost-regex1.62.0 amd64 1.62.0+dfsg-4 [288 kB] Get:126 http://deb.debian.org/debian stretch/main amd64 libboost-thread1.62.0 amd64 1.62.0+dfsg-4 [71.5 kB] Get:127 http://deb.debian.org/debian stretch/main amd64 mira-assembler amd64 4.9.6-2 [2282 kB] Get:128 http://deb.debian.org/debian stretch/main amd64 mira-rfam-12s-rrna all 4.9.6-2 [10.4 MB] Get:129 http://deb.debian.org/debian stretch/main amd64 poppler-data all 0.4.7-8 [1451 kB] Get:130 http://deb.debian.org/debian stretch/main amd64 libpython3.5-minimal amd64 3.5.3-1+deb9u1 [573 kB] Get:131 http://deb.debian.org/debian stretch/main amd64 python3.5-minimal amd64 3.5.3-1+deb9u1 [1691 kB] Get:132 http://deb.debian.org/debian stretch/main amd64 python3-minimal amd64 3.5.3-1 [35.3 kB] Get:133 http://deb.debian.org/debian stretch/main amd64 libmpdec2 amd64 2.4.2-1 [85.2 kB] Get:134 http://deb.debian.org/debian stretch/main amd64 libpython3.5-stdlib amd64 3.5.3-1+deb9u1 [2167 kB] Get:135 http://deb.debian.org/debian stretch/main amd64 python3.5 amd64 3.5.3-1+deb9u1 [229 kB] Get:136 http://deb.debian.org/debian stretch/main amd64 libpython3-stdlib amd64 3.5.3-1 [18.6 kB] Get:137 http://deb.debian.org/debian stretch/main amd64 dh-python all 2.20170125 [86.8 kB] Get:138 http://deb.debian.org/debian stretch/main amd64 python3 amd64 3.5.3-1 [21.6 kB] Get:139 http://deb.debian.org/debian stretch/main amd64 sgml-base all 1.29 [14.8 kB] Get:140 http://deb.debian.org/debian stretch/main amd64 tzdata all 2020a-0+deb9u1 [278 kB] Get:141 http://deb.debian.org/debian stretch/main amd64 dmidecode amd64 3.0-4 [68.3 kB] Get:142 http://deb.debian.org/debian stretch/main amd64 libassuan0 amd64 2.4.3-2 [42.5 kB] Get:143 http://deb.debian.org/debian stretch/main amd64 pinentry-curses amd64 1.0.0-2 [50.5 kB] Get:144 http://deb.debian.org/debian stretch/main amd64 libnpth0 amd64 1.3-1 [14.6 kB] Get:145 http://deb.debian.org/debian stretch/main amd64 gnupg-agent amd64 2.1.18-8~deb9u4 [554 kB] Get:146 http://deb.debian.org/debian stretch/main amd64 libksba8 amd64 1.3.5-2 [99.7 kB] Get:147 http://deb.debian.org/debian stretch/main amd64 gnupg amd64 2.1.18-8~deb9u4 [1128 kB] Get:148 http://deb.debian.org/debian stretch/main amd64 libpopt0 amd64 1.16-10+b2 [49.4 kB] Get:149 http://deb.debian.org/debian stretch/main amd64 libprocps6 amd64 2:3.3.12-3+deb9u1 [58.5 kB] Get:150 http://deb.debian.org/debian stretch/main amd64 libssl1.0.2 amd64 1.0.2u-1~deb9u1 [1304 kB] Get:151 http://deb.debian.org/debian stretch/main amd64 netbase all 5.4 [19.1 kB] Get:152 http://deb.debian.org/debian stretch/main amd64 libncurses5 amd64 6.0+20161126-1+deb9u2 [93.4 kB] Get:153 http://deb.debian.org/debian stretch/main amd64 procps amd64 2:3.3.12-3+deb9u1 [250 kB] Get:154 http://deb.debian.org/debian stretch/main amd64 bzip2 amd64 1.0.6-8.1 [47.5 kB] Get:155 http://deb.debian.org/debian stretch/main amd64 libapparmor1 amd64 2.11.0-3+deb9u2 [78.9 kB] Get:156 http://deb.debian.org/debian stretch/main amd64 dbus amd64 1.10.32-0+deb9u1 [213 kB] Get:157 http://deb.debian.org/debian stretch/main amd64 libmagic-mgc amd64 1:5.30-1+deb9u3 [222 kB] Get:158 http://deb.debian.org/debian stretch/main amd64 libmagic1 amd64 1:5.30-1+deb9u3 [111 kB] Get:159 http://deb.debian.org/debian stretch/main amd64 file amd64 1:5.30-1+deb9u3 [64.2 kB] Get:160 http://deb.debian.org/debian stretch/main amd64 krb5-locales all 1.15-1+deb9u1 [93.8 kB] Get:161 http://deb.debian.org/debian stretch/main amd64 libcap2 amd64 1:2.25-1 [16.8 kB] Get:162 http://deb.debian.org/debian stretch/main amd64 libedit2 amd64 3.1-20160903-3 [84.8 kB] Get:163 http://deb.debian.org/debian stretch/main amd64 libgc1c2 amd64 1:7.4.2-8 [208 kB] Get:164 http://deb.debian.org/debian stretch/main amd64 libgpm2 amd64 1.20.4-6.2+b1 [34.2 kB] Get:165 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules-db amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [68.4 kB] Get:166 http://deb.debian.org/debian stretch/main amd64 libsasl2-2 amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [105 kB] Get:167 http://deb.debian.org/debian stretch/main amd64 libldap-common all 2.4.44+dfsg-5+deb9u4 [85.7 kB] Get:168 http://deb.debian.org/debian stretch/main amd64 libldap-2.4-2 amd64 2.4.44+dfsg-5+deb9u4 [219 kB] Get:169 http://deb.debian.org/debian stretch/main amd64 libwrap0 amd64 7.6.q-26 [58.2 kB] Get:170 http://deb.debian.org/debian stretch/main amd64 manpages all 4.10-2 [1222 kB] Get:171 http://deb.debian.org/debian stretch/main amd64 xz-utils amd64 5.2.2-1.2+b1 [266 kB] Get:172 http://deb.debian.org/debian stretch/main amd64 make amd64 4.1-9.1 [302 kB] Get:173 http://deb.debian.org/debian stretch/main amd64 libnl-3-200 amd64 3.2.27-2 [61.5 kB] Get:174 http://deb.debian.org/debian stretch/main amd64 libnl-route-3-200 amd64 3.2.27-2 [136 kB] Get:175 http://deb.debian.org/debian stretch/main amd64 libibverbs1 amd64 1.2.1-2 [39.3 kB] Get:176 http://deb.debian.org/debian stretch/main amd64 libpsm-infinipath1 amd64 3.3+19.g67c0807.open-3 [169 kB] Get:177 http://deb.debian.org/debian stretch/main amd64 librdmacm1 amd64 1.1.0-2 [49.4 kB] Get:178 http://deb.debian.org/debian stretch/main amd64 libfabric1 amd64 1.4.0-1 [259 kB] Get:179 http://deb.debian.org/debian stretch/main amd64 libquadmath0 amd64 6.3.0-18+deb9u1 [131 kB] Get:180 http://deb.debian.org/debian stretch/main amd64 libgfortran3 amd64 6.3.0-18+deb9u1 [265 kB] Get:181 http://deb.debian.org/debian stretch/main amd64 libnuma1 amd64 2.0.11-2.1 [33.3 kB] Get:182 http://deb.debian.org/debian stretch/main amd64 libhwloc5 amd64 1.11.5-1 [105 kB] Get:183 http://deb.debian.org/debian stretch/main amd64 libpciaccess0 amd64 0.13.4-1+b2 [50.0 kB] Get:184 http://deb.debian.org/debian stretch/main amd64 ocl-icd-libopencl1 amd64 2.2.11-1 [36.8 kB] Get:185 http://deb.debian.org/debian stretch/main amd64 libhwloc-plugins amd64 1.11.5-1 [16.1 kB] Get:186 http://deb.debian.org/debian stretch/main amd64 libopenmpi2 amd64 2.0.2-2 [2008 kB] Get:187 http://deb.debian.org/debian stretch/main amd64 abyss amd64 2.0.2-2 [1388 kB] Get:188 http://deb.debian.org/debian stretch/main amd64 aevol amd64 4.4-1+b4 [426 kB] Get:189 http://deb.debian.org/debian stretch/main amd64 openssl amd64 1.1.0l-1~deb9u1 [749 kB] Get:190 http://deb.debian.org/debian stretch/main amd64 ca-certificates all 20200601~deb9u1 [160 kB] Get:191 http://deb.debian.org/debian stretch/main amd64 libnspr4 amd64 2:4.12-6 [117 kB] Get:192 http://deb.debian.org/debian stretch/main amd64 libnss3 amd64 2:3.26.2-1.1+deb9u1 [1161 kB] Get:193 http://deb.debian.org/debian stretch/main amd64 ca-certificates-java all 20170929~deb9u3 [15.1 kB] Get:194 http://deb.debian.org/debian stretch/main amd64 java-common all 0.58+deb9u1 [13.6 kB] Get:195 http://deb.debian.org/debian stretch/main amd64 libpcsclite1 amd64 1.8.20-1 [56.5 kB] Get:196 http://deb.debian.org/debian stretch/main amd64 libxtst6 amd64 2:1.2.3-1 [27.8 kB] Get:197 http://deb.debian.org/debian stretch/main amd64 openjdk-8-jre-headless amd64 8u252-b09-1~deb9u1 [27.4 MB] Get:198 http://deb.debian.org/debian stretch/main amd64 default-jre-headless amd64 2:1.8-58+deb9u1 [10.1 kB] Get:199 http://deb.debian.org/debian stretch/main amd64 libdrm2 amd64 2.4.74-1 [36.2 kB] Get:200 http://deb.debian.org/debian stretch/main amd64 libglapi-mesa amd64 13.0.6-1+b2 [58.9 kB] Get:201 http://deb.debian.org/debian stretch/main amd64 libx11-xcb1 amd64 2:1.6.4-3+deb9u1 [183 kB] Get:202 http://deb.debian.org/debian stretch/main amd64 libxcb-dri2-0 amd64 1.12-1 [97.2 kB] Get:203 http://deb.debian.org/debian stretch/main amd64 libxcb-dri3-0 amd64 1.12-1 [95.6 kB] Get:204 http://deb.debian.org/debian stretch/main amd64 libxcb-glx0 amd64 1.12-1 [113 kB] Get:205 http://deb.debian.org/debian stretch/main amd64 libxcb-present0 amd64 1.12-1 [95.8 kB] Get:206 http://deb.debian.org/debian stretch/main amd64 libxcb-sync1 amd64 1.12-1 [99.2 kB] Get:207 http://deb.debian.org/debian stretch/main amd64 libxshmfence1 amd64 1.2-1+b2 [7922 B] Get:208 http://deb.debian.org/debian stretch/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b2 [20.8 kB] Get:209 http://deb.debian.org/debian stretch/main amd64 libgl1-mesa-glx amd64 13.0.6-1+b2 [167 kB] Get:210 http://deb.debian.org/debian stretch/main amd64 libatspi2.0-0 amd64 2.22.0-6+deb9u1 [60.9 kB] Get:211 http://deb.debian.org/debian stretch/main amd64 libatk-bridge2.0-0 amd64 2.22.0-2 [56.3 kB] Get:212 http://deb.debian.org/debian stretch/main amd64 libcairo-gobject2 amd64 1.14.8-1 [336 kB] Get:213 http://deb.debian.org/debian stretch/main amd64 libdconf1 amd64 0.26.0-2+b1 [37.6 kB] Get:214 http://deb.debian.org/debian stretch/main amd64 dconf-service amd64 0.26.0-2+b1 [34.7 kB] Get:215 http://deb.debian.org/debian stretch/main amd64 dconf-gsettings-backend amd64 0.26.0-2+b1 [26.4 kB] Get:216 http://deb.debian.org/debian stretch/main amd64 libgtk-3-common all 3.22.11-1 [3416 kB] Get:217 http://deb.debian.org/debian stretch/main amd64 libcolord2 amd64 1.3.3-2 [252 kB] Get:218 http://deb.debian.org/debian stretch/main amd64 libepoxy0 amd64 1.3.1-2 [176 kB] Get:219 http://deb.debian.org/debian stretch/main amd64 libjson-glib-1.0-common all 1.2.6-1 [166 kB] Get:220 http://deb.debian.org/debian stretch/main amd64 libjson-glib-1.0-0 amd64 1.2.6-1 [178 kB] Get:221 http://deb.debian.org/debian stretch/main amd64 libproxy1v5 amd64 0.4.14-2 [57.4 kB] Get:222 http://deb.debian.org/debian stretch/main amd64 glib-networking-common all 2.50.0-1+deb9u1 [49.2 kB] Get:223 http://deb.debian.org/debian stretch/main amd64 glib-networking-services amd64 2.50.0-1+deb9u1 [12.2 kB] Get:224 http://deb.debian.org/debian stretch/main amd64 gsettings-desktop-schemas all 3.22.0-1 [473 kB] Get:225 http://deb.debian.org/debian stretch/main amd64 glib-networking amd64 2.50.0-1+deb9u1 [57.0 kB] Get:226 http://deb.debian.org/debian stretch/main amd64 libsoup2.4-1 amd64 2.56.0-2+deb9u2 [296 kB] Get:227 http://deb.debian.org/debian stretch/main amd64 libsoup-gnome2.4-1 amd64 2.56.0-2+deb9u2 [16.4 kB] Get:228 http://deb.debian.org/debian stretch/main amd64 librest-0.7-0 amd64 0.8.0-2 [33.0 kB] Get:229 http://deb.debian.org/debian stretch/main amd64 libwayland-client0 amd64 1.12.0-1+deb9u1 [25.1 kB] Get:230 http://deb.debian.org/debian stretch/main amd64 libwayland-cursor0 amd64 1.12.0-1+deb9u1 [13.5 kB] Get:231 http://deb.debian.org/debian stretch/main amd64 libwayland-server0 amd64 1.12.0-1+deb9u1 [30.6 kB] Get:232 http://deb.debian.org/debian stretch/main amd64 libgbm1 amd64 13.0.6-1+b2 [59.2 kB] Get:233 http://deb.debian.org/debian stretch/main amd64 libxcb-xfixes0 amd64 1.12-1 [99.6 kB] Get:234 http://deb.debian.org/debian stretch/main amd64 libegl1-mesa amd64 13.0.6-1+b2 [112 kB] Get:235 http://deb.debian.org/debian stretch/main amd64 libwayland-egl1-mesa amd64 13.0.6-1+b2 [43.0 kB] Get:236 http://deb.debian.org/debian stretch/main amd64 xkb-data all 2.19-1+deb9u1 [650 kB] Get:237 http://deb.debian.org/debian stretch/main amd64 libxkbcommon0 amd64 0.7.1-2~deb9u1 [122 kB] Get:238 http://deb.debian.org/debian stretch/main amd64 libgtk-3-0 amd64 3.22.11-1 [2529 kB] Get:239 http://deb.debian.org/debian stretch/main amd64 libfontenc1 amd64 1:1.1.3-1+b2 [24.4 kB] Get:240 http://deb.debian.org/debian stretch/main amd64 libxmu6 amd64 2:1.1.2-2 [60.3 kB] Get:241 http://deb.debian.org/debian stretch/main amd64 libxpm4 amd64 1:3.5.12-1 [49.1 kB] Get:242 http://deb.debian.org/debian stretch/main amd64 libxaw7 amd64 2:1.0.13-1+b2 [201 kB] Get:243 http://deb.debian.org/debian stretch/main amd64 libxcb-shape0 amd64 1.12-1 [96.2 kB] Get:244 http://deb.debian.org/debian stretch/main amd64 libxft2 amd64 2.3.2-1+b2 [56.5 kB] Get:245 http://deb.debian.org/debian stretch/main amd64 libxmuu1 amd64 2:1.1.2-2 [23.5 kB] Get:246 http://deb.debian.org/debian stretch/main amd64 libxv1 amd64 2:1.0.11-1 [24.6 kB] Get:247 http://deb.debian.org/debian stretch/main amd64 libxxf86dga1 amd64 2:1.1.4-1+b3 [22.1 kB] Get:248 http://deb.debian.org/debian stretch/main amd64 x11-utils amd64 7.7+3+b1 [202 kB] Get:249 http://deb.debian.org/debian stretch/main amd64 libatk-wrapper-java all 0.33.3-13+deb9u1 [44.1 kB] Get:250 http://deb.debian.org/debian stretch/main amd64 libatk-wrapper-java-jni amd64 0.33.3-13+deb9u1 [37.5 kB] Get:251 http://deb.debian.org/debian stretch/main amd64 libasound2-data all 1.1.3-5 [173 kB] Get:252 http://deb.debian.org/debian stretch/main amd64 libasound2 amd64 1.1.3-5 [497 kB] Get:253 http://deb.debian.org/debian stretch/main amd64 libgif7 amd64 5.1.4-0.4 [43.1 kB] Get:254 http://deb.debian.org/debian stretch/main amd64 libasyncns0 amd64 0.8-6 [12.5 kB] Get:255 http://deb.debian.org/debian stretch/main amd64 libflac8 amd64 1.3.2-1 [221 kB] Get:256 http://deb.debian.org/debian stretch/main amd64 libvorbis0a amd64 1.3.5-4+deb9u2 [91.7 kB] Get:257 http://deb.debian.org/debian stretch/main amd64 libvorbisenc2 amd64 1.3.5-4+deb9u2 [79.4 kB] Get:258 http://deb.debian.org/debian stretch/main amd64 libsndfile1 amd64 1.0.27-3 [248 kB] Get:259 http://deb.debian.org/debian stretch/main amd64 libpulse0 amd64 10.0-1+deb9u1 [283 kB] Get:260 http://deb.debian.org/debian stretch/main amd64 openjdk-8-jre amd64 8u252-b09-1~deb9u1 [69.8 kB] Get:261 http://deb.debian.org/debian stretch/main amd64 default-jre amd64 2:1.8-58+deb9u1 [930 B] Get:262 http://deb.debian.org/debian stretch/main amd64 libbytecode-java all 0.92.svn.20090106-2 [89.1 kB] Get:263 http://deb.debian.org/debian stretch/main amd64 libcommons-pool-java all 1.6-3 [104 kB] Get:264 http://deb.debian.org/debian stretch/main amd64 libcommons-collections3-java all 3.2.2-1 [599 kB] Get:265 http://deb.debian.org/debian stretch/main amd64 libcommons-dbcp-java all 1.4-5 [155 kB] Get:266 http://deb.debian.org/debian stretch/main amd64 libservlet3.1-java all 8.5.54-0+deb9u1 [403 kB] Get:267 http://deb.debian.org/debian stretch/main amd64 libhsqldb-java all 2.3.4-1 [1502 kB] Get:268 http://deb.debian.org/debian stretch/main amd64 libbiojava1.7-java all 1:1.7.1-5 [3160 kB] Get:269 http://deb.debian.org/debian stretch/main amd64 libbiojava-java all 1:1.7.1-5 [48.4 kB] Get:270 http://deb.debian.org/debian stretch/main amd64 libcommons-cli-java all 1.3.1-3 [55.2 kB] Get:271 http://deb.debian.org/debian stretch/main amd64 alien-hunter all 1.7-5 [28.4 kB] Get:272 http://deb.debian.org/debian stretch/main amd64 libblas-common amd64 3.7.0-2 [14.2 kB] Get:273 http://deb.debian.org/debian stretch/main amd64 libatlas3-base amd64 3.10.3-1+b1 [3048 kB] Get:274 http://deb.debian.org/debian stretch/main amd64 libgsl2 amd64 2.3+dfsg-1 [893 kB] Get:275 http://deb.debian.org/debian stretch/main amd64 libblas3 amd64 3.7.0-2 [155 kB] Get:276 http://deb.debian.org/debian stretch/main amd64 libtamuanova-0.2 amd64 0.2-4 [7610 B] Get:277 http://deb.debian.org/debian stretch/main amd64 libmath-tamuanova-perl amd64 1.0.2-2+b4 [13.5 kB] Get:278 http://deb.debian.org/debian stretch/main amd64 altree amd64 1.3.1-4+b2 [338 kB] Get:279 http://deb.debian.org/debian stretch/main amd64 amap-align amd64 2.2-6 [129 kB] Get:280 http://deb.debian.org/debian stretch/main amd64 libelf1 amd64 0.168-1 [157 kB] Get:281 http://deb.debian.org/debian stretch/main amd64 libelk0 amd64 3.99.8-4.1+b1 [166 kB] Get:282 http://deb.debian.org/debian stretch/main amd64 libprotobuf10 amd64 3.0.0-9 [681 kB] Get:283 http://deb.debian.org/debian stretch/main amd64 libanfo0 amd64 0.98-5 [272 kB] Get:284 http://deb.debian.org/debian stretch/main amd64 anfo amd64 0.98-5 [116 kB] Get:285 http://deb.debian.org/debian stretch/main amd64 ant all 1.9.9-1+deb9u1 [1923 kB] Get:286 http://deb.debian.org/debian stretch/main amd64 ant-optional all 1.9.9-1+deb9u1 [350 kB] Get:287 http://deb.debian.org/debian stretch/main amd64 libapr1 amd64 1.5.2-5 [96.6 kB] Get:288 http://deb.debian.org/debian stretch/main amd64 libaprutil1 amd64 1.5.4-3 [85.8 kB] Get:289 http://deb.debian.org/debian stretch/main amd64 libaprutil1-dbd-sqlite3 amd64 1.5.4-3 [19.3 kB] Get:290 http://deb.debian.org/debian stretch/main amd64 libaprutil1-ldap amd64 1.5.4-3 [17.4 kB] Get:291 http://deb.debian.org/debian stretch/main amd64 liblua5.2-0 amd64 5.2.4-1.1+b2 [110 kB] Get:292 http://deb.debian.org/debian stretch/main amd64 libnghttp2-14 amd64 1.18.1-1+deb9u1 [79.2 kB] Get:293 http://deb.debian.org/debian stretch/main amd64 apache2-bin amd64 2.4.25-3+deb9u9 [1185 kB] Get:294 http://deb.debian.org/debian stretch/main amd64 aragorn amd64 1.2.38-1 [86.0 kB] Get:295 http://deb.debian.org/debian stretch/main amd64 python-decorator all 4.0.11-1 [13.3 kB] Get:296 http://deb.debian.org/debian stretch/main amd64 liblapack3 amd64 3.7.0-2 [2141 kB] Get:297 http://deb.debian.org/debian stretch/main amd64 python-numpy amd64 1:1.12.1-3 [1936 kB] Get:298 http://deb.debian.org/debian stretch/main amd64 python-scipy amd64 0.18.1-2 [8933 kB] Get:299 http://deb.debian.org/debian stretch/main amd64 python-htseq amd64 0.6.1p1-4 [188 kB] Get:300 http://deb.debian.org/debian stretch/main amd64 python-six all 1.10.0-3 [14.4 kB] Get:301 http://deb.debian.org/debian stretch/main amd64 python-dateutil all 2.5.3-2 [51.3 kB] Get:302 http://deb.debian.org/debian stretch/main amd64 fonts-lyx all 2.2.2-1 [197 kB] Get:303 http://deb.debian.org/debian stretch/main amd64 python-matplotlib-data all 2.0.0+dfsg1-2 [4414 kB] Get:304 http://deb.debian.org/debian stretch/main amd64 python-pyparsing all 2.1.10+dfsg1-1 [88.5 kB] Get:305 http://deb.debian.org/debian stretch/main amd64 python-tz all 2016.7-0.3 [33.7 kB] Get:306 http://deb.debian.org/debian stretch/main amd64 libjs-jquery all 3.1.1-2+deb9u1 [154 kB] Get:307 http://deb.debian.org/debian stretch/main amd64 libjs-jquery-ui all 1.12.1+dfsg-4 [232 kB] Get:308 http://deb.debian.org/debian stretch/main amd64 python-cycler all 0.10.0-1 [7448 B] Get:309 http://deb.debian.org/debian stretch/main amd64 python-functools32 all 3.2.3.2-3 [11.0 kB] Get:310 http://deb.debian.org/debian stretch/main amd64 python-subprocess32 amd64 3.2.7-2 [28.9 kB] Get:311 http://deb.debian.org/debian stretch/main amd64 python-matplotlib amd64 2.0.0+dfsg1-2 [1598 kB] Get:312 http://deb.debian.org/debian stretch/main amd64 arden all 1.0-3 [88.7 kB] Get:313 http://deb.debian.org/debian stretch/main amd64 at-spi2-core amd64 2.22.0-6+deb9u1 [69.3 kB] Get:314 http://deb.debian.org/debian stretch/main amd64 autodock amd64 4.2.6-3+b1 [160 kB] Get:315 http://deb.debian.org/debian stretch/main amd64 autogrid amd64 4.2.6-3+b1 [48.3 kB] Get:316 http://deb.debian.org/debian stretch/main amd64 autotools-dev all 20161112.1 [73.4 kB] Get:317 http://deb.debian.org/debian stretch/main amd64 libbamtools2.4.0 amd64 2.4.1+dfsg-1 [190 kB] Get:318 http://deb.debian.org/debian stretch/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:319 http://deb.debian.org/debian stretch/main amd64 bamtools amd64 2.4.1+dfsg-1 [214 kB] Get:320 http://deb.debian.org/debian stretch/main amd64 bc amd64 1.06.95-9+b3 [105 kB] Get:321 http://deb.debian.org/debian stretch/main amd64 bedtools amd64 2.26.0+dfsg-3 [584 kB] Get:322 http://deb.debian.org/debian stretch/main amd64 binutils amd64 2.28-5 [3770 kB] Get:323 http://deb.debian.org/debian stretch/main amd64 ant-contrib all 1.0~b3+svn177-9 [255 kB] Get:324 http://deb.debian.org/debian stretch/main amd64 libhamcrest-java all 1.3-6 [378 kB] Get:325 http://deb.debian.org/debian stretch/main amd64 junit4 all 4.12-4 [286 kB] Get:326 http://deb.debian.org/debian stretch/main amd64 libcommons-codec-java all 1.10-1 [234 kB] Get:327 http://deb.debian.org/debian stretch/main amd64 libapache-pom-java all 10-2 [3870 B] Get:328 http://deb.debian.org/debian stretch/main amd64 libcommons-parent-java all 39-3 [9350 B] Get:329 http://deb.debian.org/debian stretch/main amd64 libcommons-logging-java all 1.2-1 [62.1 kB] Get:330 http://deb.debian.org/debian stretch/main amd64 libcommons-httpclient-java all 3.1-12 [298 kB] Get:331 http://deb.debian.org/debian stretch/main amd64 libcommons-net-java all 3.5-1 [281 kB] Get:332 http://deb.debian.org/debian stretch/main amd64 libmail-java all 1.5.6-2 [643 kB] Get:333 http://deb.debian.org/debian stretch/main amd64 libjcommon-java all 1.0.23-1 [466 kB] Get:334 http://deb.debian.org/debian stretch/main amd64 libjaxen-java all 1.1.6-1+deb9u1 [205 kB] Get:335 http://deb.debian.org/debian stretch/main amd64 libjdom1-java all 1.1.3-1 [150 kB] Get:336 http://deb.debian.org/debian stretch/main amd64 libcommons-discovery-java all 0.5-3 [136 kB] Get:337 http://deb.debian.org/debian stretch/main amd64 libwsdl4j-java all 1.6.3-4 [177 kB] Get:338 http://deb.debian.org/debian stretch/main amd64 libaxis-java all 1.4-25 [1503 kB] Get:339 http://deb.debian.org/debian stretch/main amd64 libjava-xmlbuilder-java all 0.4-2 [20.2 kB] Get:340 http://deb.debian.org/debian stretch/main amd64 libjets3t-java all 0.8.1+dfsg-3 [478 kB] Get:341 http://deb.debian.org/debian stretch/main amd64 libjgoodies-common-java all 1.8.1-2 [35.7 kB] Get:342 http://deb.debian.org/debian stretch/main amd64 libjgoodies-forms-java all 1.9.0-3 [133 kB] Get:343 http://deb.debian.org/debian stretch/main amd64 libjzlib-java all 1.1.3-1 [69.9 kB] Get:344 http://deb.debian.org/debian stretch/main amd64 libjsch-java all 0.1.54-1 [284 kB] Get:345 http://deb.debian.org/debian stretch/main amd64 liblog4j1.2-java all 1.2.17-7+deb9u1 [431 kB] Get:346 http://deb.debian.org/debian stretch/main amd64 libmysql-java all 5.1.49-0+deb9u1 [1051 kB] Get:347 http://deb.debian.org/debian stretch/main amd64 liboro-java all 2.0.8a-12 [69.2 kB] Get:348 http://deb.debian.org/debian stretch/main amd64 libregexp-java all 1.5-3 [35.5 kB] Get:349 http://deb.debian.org/debian stretch/main amd64 libisorelax-java all 20041111-9 [62.4 kB] Get:350 http://deb.debian.org/debian stretch/main amd64 librelaxng-datatype-java all 1.0+ds1-3 [11.7 kB] Get:351 http://deb.debian.org/debian stretch/main amd64 libxml-commons-resolver1.1-java all 1.2-7 [91.9 kB] Get:352 http://deb.debian.org/debian stretch/main amd64 libxml-commons-external-java all 1.4.01-2 [245 kB] Get:353 http://deb.debian.org/debian stretch/main amd64 libxerces2-java all 2.11.0-7 [1365 kB] Get:354 http://deb.debian.org/debian stretch/main amd64 libmsv-java all 2009.1+dfsg1-5 [771 kB] Get:355 http://deb.debian.org/debian stretch/main amd64 libxpp2-java all 2.1.10-7 [147 kB] Get:356 http://deb.debian.org/debian stretch/main amd64 libxpp3-java all 1.1.4c-2 [349 kB] Get:357 http://deb.debian.org/debian stretch/main amd64 libdom4j-java all 1.6.1+dfsg.3-2+deb9u1 [348 kB] Get:358 http://deb.debian.org/debian stretch/main amd64 libxom-java all 1.2.10-1 [170 kB] Get:359 http://deb.debian.org/debian stretch/main amd64 libsaxonhe-java all 9.5.1.1+dfsg-2 [2908 kB] Get:360 http://deb.debian.org/debian stretch/main amd64 mysql-common all 5.8+1.0.2 [5608 B] Get:361 http://deb.debian.org/debian stretch/main amd64 mariadb-common all 10.1.45-0+deb9u1 [28.6 kB] Get:362 http://deb.debian.org/debian stretch/main amd64 libaio1 amd64 0.3.110-3 [9412 B] Get:363 http://deb.debian.org/debian stretch/main amd64 libreadline5 amd64 5.2+dfsg-3+b1 [119 kB] Get:364 http://deb.debian.org/debian stretch/main amd64 mariadb-client-core-10.1 amd64 10.1.45-0+deb9u1 [5127 kB] Get:365 http://deb.debian.org/debian stretch/main amd64 libscalar-list-utils-perl amd64 1:1.47-1 [54.4 kB] Get:366 http://deb.debian.org/debian stretch/main amd64 libconfig-inifiles-perl all 2.94-1 [53.4 kB] Get:367 http://deb.debian.org/debian stretch/main amd64 libjemalloc1 amd64 3.6.0-9.1 [89.8 kB] Get:368 http://deb.debian.org/debian stretch/main amd64 mariadb-client-10.1 amd64 10.1.45-0+deb9u1 [5923 kB] Get:369 http://deb.debian.org/debian stretch/main amd64 default-mysql-client all 1.0.2 [3050 B] Get:370 http://deb.debian.org/debian stretch/main amd64 biomaj all 1.2.3-11 [4279 kB] Get:371 http://deb.debian.org/debian stretch/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:372 http://deb.debian.org/debian stretch/main amd64 libdata-stag-perl all 0.14-2 [448 kB] Get:373 http://deb.debian.org/debian stretch/main amd64 libbio-perl-perl all 1.7.1-2 [4605 kB] Get:374 http://deb.debian.org/debian stretch/main amd64 bioperl all 1.7.1-2 [422 kB] Get:375 http://deb.debian.org/debian stretch/main amd64 libbio-perl-run-perl all 1.7.1-3 [816 kB] Get:376 http://deb.debian.org/debian stretch/main amd64 bioperl-run all 1.7.1-3 [44.2 kB] Get:377 http://deb.debian.org/debian stretch/main amd64 biosquid amd64 1.9g+cvs20050121-7 [188 kB] Get:378 http://deb.debian.org/debian stretch/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb9u1 [3555 kB] Get:379 http://deb.debian.org/debian stretch/main amd64 ncbi-blast+ amd64 2.6.0-1 [9591 kB] Get:380 http://deb.debian.org/debian stretch/main amd64 ncbi-blast+-legacy all 2.6.0-1 [9604 B] Get:381 http://deb.debian.org/debian stretch/main amd64 blast2 all 1:2.6.0-1 [9084 B] Get:382 http://deb.debian.org/debian stretch/main amd64 menu amd64 2.1.47+b1 [380 kB] Get:383 http://deb.debian.org/debian stretch/main amd64 blends-common all 0.6.96 [23.3 kB] Get:384 http://deb.debian.org/debian stretch/main amd64 libtcl8.6 amd64 8.6.6+dfsg-1+b1 [985 kB] Get:385 http://deb.debian.org/debian stretch/main amd64 libtk8.6 amd64 8.6.6-1+b1 [754 kB] Get:386 http://deb.debian.org/debian stretch/main amd64 tk8.6-blt2.5 amd64 2.5.3+dfsg-3 [585 kB] Get:387 http://deb.debian.org/debian stretch/main amd64 blt amd64 2.5.3+dfsg-3 [14.6 kB] Get:388 http://deb.debian.org/debian stretch/main amd64 boxshade amd64 3.3.1-10 [54.4 kB] Get:389 http://deb.debian.org/debian stretch/main amd64 libc-dev-bin amd64 2.24-11+deb9u4 [259 kB] Get:390 http://deb.debian.org/debian stretch/main amd64 linux-libc-dev amd64 4.9.228-1 [1511 kB] Get:391 http://deb.debian.org/debian stretch/main amd64 libc6-dev amd64 2.24-11+deb9u4 [2364 kB] Get:392 http://deb.debian.org/debian stretch/main amd64 libisl15 amd64 0.18-1 [564 kB] Get:393 http://deb.debian.org/debian stretch/main amd64 libmpc3 amd64 1.0.3-1+b2 [39.9 kB] Get:394 http://deb.debian.org/debian stretch/main amd64 cpp-6 amd64 6.3.0-18+deb9u1 [6584 kB] Get:395 http://deb.debian.org/debian stretch/main amd64 cpp amd64 4:6.3.0-4 [18.7 kB] Get:396 http://deb.debian.org/debian stretch/main amd64 libcc1-0 amd64 6.3.0-18+deb9u1 [30.6 kB] Get:397 http://deb.debian.org/debian stretch/main amd64 libitm1 amd64 6.3.0-18+deb9u1 [27.3 kB] Get:398 http://deb.debian.org/debian stretch/main amd64 libatomic1 amd64 6.3.0-18+deb9u1 [8966 B] Get:399 http://deb.debian.org/debian stretch/main amd64 libasan3 amd64 6.3.0-18+deb9u1 [311 kB] Get:400 http://deb.debian.org/debian stretch/main amd64 liblsan0 amd64 6.3.0-18+deb9u1 [115 kB] Get:401 http://deb.debian.org/debian stretch/main amd64 libtsan0 amd64 6.3.0-18+deb9u1 [257 kB] Get:402 http://deb.debian.org/debian stretch/main amd64 libubsan0 amd64 6.3.0-18+deb9u1 [107 kB] Get:403 http://deb.debian.org/debian stretch/main amd64 libcilkrts5 amd64 6.3.0-18+deb9u1 [40.5 kB] Get:404 http://deb.debian.org/debian stretch/main amd64 libmpx2 amd64 6.3.0-18+deb9u1 [11.2 kB] Get:405 http://deb.debian.org/debian stretch/main amd64 libgcc-6-dev amd64 6.3.0-18+deb9u1 [2296 kB] Get:406 http://deb.debian.org/debian stretch/main amd64 gcc-6 amd64 6.3.0-18+deb9u1 [6900 kB] Get:407 http://deb.debian.org/debian stretch/main amd64 gcc amd64 4:6.3.0-4 [5196 B] Get:408 http://deb.debian.org/debian stretch/main amd64 libstdc++-6-dev amd64 6.3.0-18+deb9u1 [1420 kB] Get:409 http://deb.debian.org/debian stretch/main amd64 g++-6 amd64 6.3.0-18+deb9u1 [7094 kB] Get:410 http://deb.debian.org/debian stretch/main amd64 g++ amd64 4:6.3.0-4 [1546 B] Get:411 http://deb.debian.org/debian stretch/main amd64 libdpkg-perl all 1.18.25 [1287 kB] Get:412 http://deb.debian.org/debian stretch/main amd64 patch amd64 2.7.5-1+deb9u2 [112 kB] Get:413 http://deb.debian.org/debian stretch/main amd64 dpkg-dev all 1.18.25 [1595 kB] Get:414 http://deb.debian.org/debian stretch/main amd64 build-essential amd64 12.3 [7346 B] Get:415 http://deb.debian.org/debian stretch/main amd64 bwa amd64 0.7.15-2+deb9u1 [194 kB] Get:416 http://deb.debian.org/debian stretch/main amd64 bzip2-doc all 1.0.6-8.1 [307 kB] Get:417 http://deb.debian.org/debian stretch/main amd64 libboost-serialization1.62.0 amd64 1.62.0+dfsg-4 [125 kB] Get:418 http://deb.debian.org/debian stretch/main amd64 libgflags2v5 amd64 2.1.2-4 [69.1 kB] Get:419 http://deb.debian.org/debian stretch/main amd64 libunwind8 amd64 1.1-4.1 [48.7 kB] Get:420 http://deb.debian.org/debian stretch/main amd64 libgoogle-glog0v5 amd64 0.3.4-2 [51.5 kB] Get:421 http://deb.debian.org/debian stretch/main amd64 libcassie1v5 amd64 1.0.5-1+b1 [38.2 kB] Get:422 http://deb.debian.org/debian stretch/main amd64 cassiopee amd64 1.0.5-1+b1 [13.7 kB] Get:423 http://deb.debian.org/debian stretch/main amd64 cd-hit amd64 4.6.6-2 [852 kB] Get:424 http://deb.debian.org/debian stretch/main amd64 cdbfasta amd64 0.99-20100722-3 [55.5 kB] Get:425 http://deb.debian.org/debian stretch/main amd64 cdbs all 0.4.150 [82.6 kB] Get:426 http://deb.debian.org/debian stretch/main amd64 fonts-circos-symbols all 0.69.4+dfsg-1 [45.8 kB] Get:427 http://deb.debian.org/debian stretch/main amd64 fonts-cmu all 0.7.0-3 [4874 kB] Get:428 http://deb.debian.org/debian stretch/main amd64 libregexp-common-perl all 2016060801-1 [178 kB] Get:429 http://deb.debian.org/debian stretch/main amd64 libcarp-always-perl all 0.12-1 [9142 B] Get:430 http://deb.debian.org/debian stretch/main amd64 libconfig-general-perl all 2.63-1 [70.5 kB] Get:431 http://deb.debian.org/debian stretch/main amd64 libdata-dumper-simple-perl all 0.11-5 [12.9 kB] Get:432 http://deb.debian.org/debian stretch/main amd64 libwebp6 amd64 0.5.2-1 [235 kB] Get:433 http://deb.debian.org/debian stretch/main amd64 libgd3 amd64 2.2.4-2+deb9u5 [132 kB] Get:434 http://deb.debian.org/debian stretch/main amd64 libgd-perl amd64 2.53-3 [177 kB] Get:435 http://deb.debian.org/debian stretch/main amd64 libgetopt-simple-perl all 1.52-5 [14.4 kB] Get:436 http://deb.debian.org/debian stretch/main amd64 libmath-bezier-perl all 0.01-2 [6910 B] Get:437 http://deb.debian.org/debian stretch/main amd64 libmath-round-perl all 0.07-1 [10.6 kB] Get:438 http://deb.debian.org/debian stretch/main amd64 libparams-classify-perl amd64 0.013-6+b1 [24.4 kB] Get:439 http://deb.debian.org/debian stretch/main amd64 libmodule-runtime-perl all 0.014-2 [18.0 kB] Get:440 http://deb.debian.org/debian stretch/main amd64 libtry-tiny-perl all 0.28-1 [22.7 kB] Get:441 http://deb.debian.org/debian stretch/main amd64 libmodule-implementation-perl all 0.09-1 [12.9 kB] Get:442 http://deb.debian.org/debian stretch/main amd64 libparams-validate-perl amd64 1.26-1 [66.0 kB] Get:443 http://deb.debian.org/debian stretch/main amd64 libreadonly-perl all 2.050-1 [22.7 kB] Get:444 http://deb.debian.org/debian stretch/main amd64 libset-intspan-perl all 1.19-1 [26.7 kB] Get:445 http://deb.debian.org/debian stretch/main amd64 liblist-someutils-perl all 0.53-1 [42.0 kB] Get:446 http://deb.debian.org/debian stretch/main amd64 liblist-utilsby-perl all 0.10-1 [14.3 kB] Get:447 http://deb.debian.org/debian stretch/main amd64 liblist-allutils-perl all 0.12-1 [31.9 kB] Get:448 http://deb.debian.org/debian stretch/main amd64 libipc-system-simple-perl all 1.25-3 [26.9 kB] Get:449 http://deb.debian.org/debian stretch/main amd64 libfile-basedir-perl all 0.07-1 [17.5 kB] Get:450 http://deb.debian.org/debian stretch/main amd64 libmath-vec-perl all 1.01-3 [17.8 kB] Get:451 http://deb.debian.org/debian stretch/main amd64 libspiffy-perl all 0.41-1 [26.1 kB] Get:452 http://deb.debian.org/debian stretch/main amd64 libio-all-perl all 0.86-2 [73.4 kB] Get:453 http://deb.debian.org/debian stretch/main amd64 libmath-vecstat-perl all 0.08-1 [9148 B] Get:454 http://deb.debian.org/debian stretch/main amd64 libgraphics-colornames-perl all 2.11-7.1 [37.9 kB] Get:455 http://deb.debian.org/debian stretch/main amd64 libgraphics-colorobject-perl all 0.5.0-7.1 [28.2 kB] Get:456 http://deb.debian.org/debian stretch/main amd64 libtext-format-perl all 0.60-1 [20.0 kB] Get:457 http://deb.debian.org/debian stretch/main amd64 libfont-ttf-perl all 1.06-1 [317 kB] Get:458 http://deb.debian.org/debian stretch/main amd64 libclone-perl amd64 0.38-2+b1 [13.6 kB] Get:459 http://deb.debian.org/debian stretch/main amd64 libnumber-format-perl all 1.75-1 [30.0 kB] Get:460 http://deb.debian.org/debian stretch/main amd64 libstatistics-basic-perl all 1.6611-1 [70.4 kB] Get:461 http://deb.debian.org/debian stretch/main amd64 circos all 0.69.4+dfsg-1 [19.8 MB] Get:462 http://deb.debian.org/debian stretch/main amd64 circos-tools all 0.22-1 [18.7 MB] Get:463 http://deb.debian.org/debian stretch/main amd64 clearcut amd64 1.0.9-1+b1 [283 kB] Get:464 http://deb.debian.org/debian stretch/main amd64 qtcore4-l10n all 4:4.8.7+dfsg-11 [662 kB] Get:465 http://deb.debian.org/debian stretch/main amd64 libqtcore4 amd64 4:4.8.7+dfsg-11 [1598 kB] Get:466 http://deb.debian.org/debian stretch/main amd64 libmng1 amd64 1.0.10+dfsg-3.1+b5 [211 kB] Get:467 http://deb.debian.org/debian stretch/main amd64 libqtgui4 amd64 4:4.8.7+dfsg-11 [4150 kB] Get:468 http://deb.debian.org/debian stretch/main amd64 clonalframe amd64 1.2-5 [49.2 kB] Get:469 http://deb.debian.org/debian stretch/main amd64 libargtable2-0 amd64 13-1 [17.4 kB] Get:470 http://deb.debian.org/debian stretch/main amd64 clustalo amd64 1.2.4-1 [263 kB] Get:471 http://deb.debian.org/debian stretch/main amd64 clustalw amd64 2.1+lgpl-5 [286 kB] Get:472 http://deb.debian.org/debian stretch/main amd64 cython amd64 0.25.2-1 [1863 kB] Get:473 http://deb.debian.org/debian stretch/main amd64 dialign amd64 2.2.1-8 [138 kB] Get:474 http://deb.debian.org/debian stretch/main amd64 dialign-tx-data all 1.0.2-9 [869 kB] Get:475 http://deb.debian.org/debian stretch/main amd64 dialign-tx amd64 1.0.2-9 [85.7 kB] Get:476 http://deb.debian.org/debian stretch/main amd64 dirmngr amd64 2.1.18-8~deb9u4 [597 kB] Get:477 http://deb.debian.org/debian stretch/main amd64 discosnp amd64 1.2.6-1+b2 [143 kB] Get:478 http://deb.debian.org/debian stretch/main amd64 libboost-program-options1.62.0 amd64 1.62.0+dfsg-4 [159 kB] Get:479 http://deb.debian.org/debian stretch/main amd64 dnaclust amd64 3-4+b2 [85.9 kB] Get:480 http://deb.debian.org/debian stretch/main amd64 dssp amd64 2.2.1-3+b2 [265 kB] Get:481 http://deb.debian.org/debian stretch/main amd64 libkpathsea6 amd64 2016.20160513.41080.dfsg-2+deb9u1 [160 kB] Get:482 http://deb.debian.org/debian stretch/main amd64 libptexenc1 amd64 2016.20160513.41080.dfsg-2+deb9u1 [58.0 kB] Get:483 http://deb.debian.org/debian stretch/main amd64 libsynctex1 amd64 2016.20160513.41080.dfsg-2+deb9u1 [64.9 kB] Get:484 http://deb.debian.org/debian stretch/main amd64 libtexlua52 amd64 2016.20160513.41080.dfsg-2+deb9u1 [111 kB] Get:485 http://deb.debian.org/debian stretch/main amd64 libtexluajit2 amd64 2016.20160513.41080.dfsg-2+deb9u1 [250 kB] Get:486 http://deb.debian.org/debian stretch/main amd64 t1utils amd64 1.39-2 [59.0 kB] Get:487 http://deb.debian.org/debian stretch/main amd64 libcupsimage2 amd64 2.2.1-8+deb9u6 [122 kB] Get:488 http://deb.debian.org/debian stretch/main amd64 libijs-0.35 amd64 0.35-12 [18.4 kB] Get:489 http://deb.debian.org/debian stretch/main amd64 libjbig2dec0 amd64 0.13-4.1 [60.1 kB] Get:490 http://deb.debian.org/debian stretch/main amd64 libpaper1 amd64 1.1.24+nmu5 [21.6 kB] Get:491 http://deb.debian.org/debian stretch/main amd64 libgs9-common all 9.26a~dfsg-0+deb9u6 [5143 kB] Get:492 http://deb.debian.org/debian stretch/main amd64 libgs9 amd64 9.26a~dfsg-0+deb9u6 [2213 kB] Get:493 http://deb.debian.org/debian stretch/main amd64 libharfbuzz-icu0 amd64 1.4.2-1 [466 kB] Get:494 http://deb.debian.org/debian stretch/main amd64 libpoppler64 amd64 0.48.0-2+deb9u2 [1287 kB] Get:495 http://deb.debian.org/debian stretch/main amd64 libpotrace0 amd64 1.13-3 [24.9 kB] Get:496 http://deb.debian.org/debian stretch/main amd64 libzzip-0-13 amd64 0.13.62-3.2~deb9u1 [56.1 kB] Get:497 http://deb.debian.org/debian stretch/main amd64 tex-common all 6.06 [566 kB] Get:498 http://deb.debian.org/debian stretch/main amd64 texlive-binaries amd64 2016.20160513.41080.dfsg-2+deb9u1 [7404 kB] Get:499 http://deb.debian.org/debian stretch/main amd64 ghostscript amd64 9.26a~dfsg-0+deb9u6 [99.2 kB] Get:500 http://deb.debian.org/debian stretch/main amd64 dvipng amd64 1.14-2+b3 [86.5 kB] Get:501 http://deb.debian.org/debian stretch/main amd64 libhpdf-2.2.1 amd64 2.2.1-1.1+b1 [319 kB] Get:502 http://deb.debian.org/debian stretch/main amd64 libmariadbclient18 amd64 10.1.45-0+deb9u1 [785 kB] Get:503 http://deb.debian.org/debian stretch/main amd64 libpq5 amd64 9.6.17-0+deb9u1 [137 kB] Get:504 http://deb.debian.org/debian stretch/main amd64 emboss-lib amd64 6.6.0+dfsg-6 [2773 kB] Get:505 http://deb.debian.org/debian stretch/main amd64 embassy-domainatrix amd64 0.1.660-1 [61.7 kB] Get:506 http://deb.debian.org/debian stretch/main amd64 embassy-domalign amd64 0.1.660-1 [66.7 kB] Get:507 http://deb.debian.org/debian stretch/main amd64 embassy-domsearch amd64 1:0.1.660-1 [60.6 kB] Get:508 http://deb.debian.org/debian stretch/main amd64 emboss-data all 6.6.0+dfsg-6 [61.1 MB] Get:509 http://deb.debian.org/debian stretch/main amd64 emboss amd64 6.6.0+dfsg-6 [1058 kB] Get:510 http://deb.debian.org/debian stretch/main amd64 exim4-config all 4.89-2+deb9u7 [377 kB] Get:511 http://deb.debian.org/debian stretch/main amd64 exim4-base amd64 4.89-2+deb9u7 [1094 kB] Get:512 http://deb.debian.org/debian stretch/main amd64 exim4-daemon-light amd64 4.89-2+deb9u7 [542 kB] Get:513 http://deb.debian.org/debian stretch/main amd64 exim4 all 4.89-2+deb9u7 [7860 B] Get:514 http://deb.debian.org/debian stretch/main amd64 exonerate amd64 2.4.0-2 [1476 kB] Get:515 http://deb.debian.org/debian stretch/main amd64 libfakeroot amd64 1.21-3.1 [45.7 kB] Get:516 http://deb.debian.org/debian stretch/main amd64 fakeroot amd64 1.21-3.1 [85.6 kB] Get:517 http://deb.debian.org/debian stretch/main amd64 fastdnaml amd64 1.2.2-11+b1 [60.5 kB] Get:518 http://deb.debian.org/debian stretch/main amd64 fastlink amd64 4.1P-fix100+dfsg-1+b1 [250 kB] Get:519 http://deb.debian.org/debian stretch/main amd64 libcommons-math3-java all 3.6.1-2 [1941 kB] Get:520 http://deb.debian.org/debian stretch/main amd64 libjbzip2-java all 0.9.1-3 [39.9 kB] Get:521 http://deb.debian.org/debian stretch/main amd64 libcommons-compress-java all 1.13-1 [430 kB] Get:522 http://deb.debian.org/debian stretch/main amd64 libcommons-jexl2-java all 2.1.1-3 [246 kB] Get:523 http://deb.debian.org/debian stretch/main amd64 libngs-sdk1 amd64 1.3.0-2 [51.2 kB] Get:524 http://deb.debian.org/debian stretch/main amd64 libngs-sdk-dev amd64 1.3.0-2 [92.4 kB] Get:525 http://deb.debian.org/debian stretch/main amd64 libngs-java amd64 1.3.0-2 [71.1 kB] Get:526 http://deb.debian.org/debian stretch/main amd64 libsnappy1v5 amd64 1.1.3-3 [51.0 kB] Get:527 http://deb.debian.org/debian stretch/main amd64 libsnappy-jni amd64 1.1.2.6-1 [6808 B] Get:528 http://deb.debian.org/debian stretch/main amd64 libsnappy-java all 1.1.2.6-1 [65.9 kB] Get:529 http://deb.debian.org/debian stretch/main amd64 libxz-java all 1.6-1 [128 kB] Get:530 http://deb.debian.org/debian stretch/main amd64 libhtsjdk-java all 2.8.1+dfsg-1 [1438 kB] Get:531 http://deb.debian.org/debian stretch/main amd64 fastqc all 0.11.5+dfsg-6 [375 kB] Get:532 http://deb.debian.org/debian stretch/main amd64 libgtextutils0v5 amd64 0.7-4 [19.0 kB] Get:533 http://deb.debian.org/debian stretch/main amd64 libgd-text-perl all 0.86-9 [41.4 kB] Get:534 http://deb.debian.org/debian stretch/main amd64 libgd-graph-perl all 1.48-2 [389 kB] Get:535 http://deb.debian.org/debian stretch/main amd64 libperlio-gzip-perl amd64 0.19-1+b2 [17.3 kB] Get:536 http://deb.debian.org/debian stretch/main amd64 fastx-toolkit amd64 0.0.14-3 [90.2 kB] Get:537 http://deb.debian.org/debian stretch/main amd64 filo amd64 1.1.0-3+b1 [46.3 kB] Get:538 http://deb.debian.org/debian stretch/main amd64 libunistring0 amd64 0.9.6+really0.9.3-0.1 [279 kB] Get:539 http://deb.debian.org/debian stretch/main amd64 libidn2-0 amd64 0.16-1+deb9u1 [60.7 kB] Get:540 http://deb.debian.org/debian stretch/main amd64 libpsl5 amd64 0.17.0-3 [41.8 kB] Get:541 http://deb.debian.org/debian stretch/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-1+b1 [60.4 kB] Get:542 http://deb.debian.org/debian stretch/main amd64 libssh2-1 amd64 1.7.0-1+deb9u1 [139 kB] Get:543 http://deb.debian.org/debian stretch/main amd64 libcurl3-gnutls amd64 7.52.1-5+deb9u10 [290 kB] Get:544 http://deb.debian.org/debian stretch/main amd64 libhts1 amd64 1.3.2-2 [257 kB] Get:545 http://deb.debian.org/debian stretch/main amd64 python-pysam amd64 0.10.0+ds-2 [1301 kB] Get:546 http://deb.debian.org/debian stretch/main amd64 fitgcp amd64 0.0.20150429-1 [12.3 kB] Get:547 http://deb.debian.org/debian stretch/main amd64 libtbb2 amd64 4.3~20150611-2 [136 kB] Get:548 http://deb.debian.org/debian stretch/main amd64 flexbar amd64 2.50-2+b1 [257 kB] Get:549 http://deb.debian.org/debian stretch/main amd64 fonts-cabin all 1.5-2 [139 kB] Get:550 http://deb.debian.org/debian stretch/main amd64 fonts-comfortaa all 2.003-1 [133 kB] Get:551 http://deb.debian.org/debian stretch/main amd64 fonts-croscore all 20161116-1 [2138 kB] Get:552 http://deb.debian.org/debian stretch/main amd64 fonts-crosextra-caladea all 20130214-1 [82.1 kB] Get:553 http://deb.debian.org/debian stretch/main amd64 fonts-crosextra-carlito all 20130920-1 [745 kB] Get:554 http://deb.debian.org/debian stretch/main amd64 fonts-dejavu-extra all 2.37-1 [1982 kB] Get:555 http://deb.debian.org/debian stretch/main amd64 fonts-ebgaramond all 0.016-1 [475 kB] Get:556 http://deb.debian.org/debian stretch/main amd64 fonts-ebgaramond-extra all 0.016-1 [2157 kB] Get:557 http://deb.debian.org/debian stretch/main amd64 fonts-font-awesome all 4.7.0~dfsg-1 [514 kB] Get:558 http://deb.debian.org/debian stretch/main amd64 fonts-freefont-otf all 20120503-6 [3168 kB] Get:559 http://deb.debian.org/debian stretch/main amd64 fonts-freefont-ttf all 20120503-6 [4316 kB] Get:560 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-artemisia all 1.1-5 [259 kB] Get:561 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-complutum all 1.1-6 [41.6 kB] Get:562 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-didot all 1.1-6 [278 kB] Get:563 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-neohellenic all 1.1-6 [215 kB] Get:564 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-olga all 1.1-5 [33.2 kB] Get:565 http://deb.debian.org/debian stretch/main amd64 fonts-gfs-solomos all 1.1-5 [40.6 kB] Get:566 http://deb.debian.org/debian stretch/main amd64 fonts-junicode all 0.7.8-2 [643 kB] Get:567 http://deb.debian.org/debian stretch/main amd64 fonts-linuxlibertine all 5.3.0-2 [1713 kB] Get:568 http://deb.debian.org/debian stretch/main amd64 fonts-lmodern all 2.004.5-3 [4540 kB] Get:569 http://deb.debian.org/debian stretch/main amd64 fonts-lobster all 2.0-2 [39.5 kB] Get:570 http://deb.debian.org/debian stretch/main amd64 fonts-lobstertwo all 2.0-2 [94.0 kB] Get:571 http://deb.debian.org/debian stretch/main amd64 fonts-noto-hinted all 20161116-1 [5075 kB] Get:572 http://deb.debian.org/debian stretch/main amd64 fonts-noto-mono all 20161116-1 [79.2 kB] Get:573 http://deb.debian.org/debian stretch/main amd64 fonts-oflb-asana-math all 000.907-6 [245 kB] Get:574 http://deb.debian.org/debian stretch/main amd64 fonts-roboto-hinted all 2:0~20160106-2 [2922 kB] Get:575 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentium all 20081126:1.03-1 [251 kB] Get:576 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentium-basic all 1.1-7 [382 kB] Get:577 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentiumplus all 5.000-1 [2811 kB] Get:578 http://deb.debian.org/debian stretch/main amd64 fonts-sil-gentiumplus-compact all 5.000-2 [1522 kB] Get:579 http://deb.debian.org/debian stretch/main amd64 fonts-texgyre all 20160520-1 [8761 kB] Get:580 http://deb.debian.org/debian stretch/main amd64 mummer amd64 3.23+dfsg-2 [809 kB] Get:581 http://deb.debian.org/debian stretch/main amd64 fsa amd64 1.15.9+dfsg-3 [753 kB] Get:582 http://deb.debian.org/debian stretch/main amd64 python-reportlab-accel amd64 3.3.0-2+deb9u1 [36.8 kB] Get:583 http://deb.debian.org/debian stretch/main amd64 python-reportlab all 3.3.0-2+deb9u1 [478 kB] Get:584 http://deb.debian.org/debian stretch/main amd64 python-biopython amd64 1.68+dfsg-3 [1201 kB] Get:585 http://deb.debian.org/debian stretch/main amd64 bowtie amd64 1.1.2-6 [1618 kB] Get:586 http://deb.debian.org/debian stretch/main amd64 bowtie2 amd64 2.3.0-2 [1166 kB] Get:587 http://deb.debian.org/debian stretch/main amd64 seqan-apps amd64 2.3.1+dfsg-4 [11.5 MB] Get:588 http://deb.debian.org/debian stretch/main amd64 gasic amd64 0.0.r19-1 [19.9 kB] Get:589 http://deb.debian.org/debian stretch/main amd64 liblua5.1-0 amd64 5.1.5-8.1+b2 [111 kB] Get:590 http://deb.debian.org/debian stretch/main amd64 libtre5 amd64 0.8.0-6 [58.5 kB] Get:591 http://deb.debian.org/debian stretch/main amd64 lua-filesystem amd64 1.6.3-1 [10.3 kB] Get:592 http://deb.debian.org/debian stretch/main amd64 lua-lpeg amd64 1.0.0-1 [30.4 kB] Get:593 http://deb.debian.org/debian stretch/main amd64 libpth20 amd64 2.0.7-20+b2 [78.5 kB] Get:594 http://deb.debian.org/debian stretch/main amd64 genometools-common all 1.5.9+ds-4 [171 kB] Get:595 http://deb.debian.org/debian stretch/main amd64 genometools amd64 1.5.9+ds-4 [1903 kB] Get:596 http://deb.debian.org/debian stretch/main amd64 gff2aplot amd64 2.0-8+b1 [311 kB] Get:597 http://deb.debian.org/debian stretch/main amd64 gff2ps all 0.98d-5 [44.6 kB] Get:598 http://deb.debian.org/debian stretch/main amd64 libgfortran-6-dev amd64 6.3.0-18+deb9u1 [299 kB] Get:599 http://deb.debian.org/debian stretch/main amd64 gfortran-6 amd64 6.3.0-18+deb9u1 [6916 kB] Get:600 http://deb.debian.org/debian stretch/main amd64 gfortran amd64 4:6.3.0-4 [1356 B] Get:601 http://deb.debian.org/debian stretch/main amd64 libsuitesparseconfig4 amd64 1:4.5.4-1 [18.8 kB] Get:602 http://deb.debian.org/debian stretch/main amd64 libamd2 amd64 1:4.5.4-1 [36.3 kB] Get:603 http://deb.debian.org/debian stretch/main amd64 libcolamd2 amd64 1:4.5.4-1 [28.5 kB] Get:604 http://deb.debian.org/debian stretch/main amd64 libglpk40 amd64 4.61-1 [396 kB] Get:605 http://deb.debian.org/debian stretch/main amd64 libglpk-java amd64 1.7.0-1 [776 kB] Get:606 http://deb.debian.org/debian stretch/main amd64 glpk-utils amd64 4.61-1 [151 kB] Get:607 http://deb.debian.org/debian stretch/main amd64 tophat amd64 2.1.1+dfsg-2+b2 [755 kB] Get:608 http://deb.debian.org/debian stretch/main amd64 giira amd64 0.0.20140625-1 [144 kB] Get:609 http://deb.debian.org/debian stretch/main amd64 glam2 amd64 1064-3+b1 [240 kB] Get:610 http://deb.debian.org/debian stretch/main amd64 libann0 amd64 1.1.2+doc-6 [24.9 kB] Get:611 http://deb.debian.org/debian stretch/main amd64 libcdt5 amd64 2.38.0-17 [59.6 kB] Get:612 http://deb.debian.org/debian stretch/main amd64 libcgraph6 amd64 2.38.0-17 [82.2 kB] Get:613 http://deb.debian.org/debian stretch/main amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4 [158 kB] Get:614 http://deb.debian.org/debian stretch/main amd64 libpathplan4 amd64 2.38.0-17 [62.8 kB] Get:615 http://deb.debian.org/debian stretch/main amd64 libxdot4 amd64 2.38.0-17 [55.6 kB] Get:616 http://deb.debian.org/debian stretch/main amd64 libgvc6 amd64 2.38.0-17 [639 kB] Get:617 http://deb.debian.org/debian stretch/main amd64 libgvpr2 amd64 2.38.0-17 [211 kB] Get:618 http://deb.debian.org/debian stretch/main amd64 graphviz amd64 2.38.0-17 [802 kB] Get:619 http://deb.debian.org/debian stretch/main amd64 libgetopt-euclid-perl all 0.4.5-2 [47.4 kB] Get:620 http://deb.debian.org/debian stretch/main amd64 libmath-random-mt-perl amd64 1.17-1+b2 [15.2 kB] Get:621 http://deb.debian.org/debian stretch/main amd64 grinder all 0.5.4-1 [79.5 kB] Get:622 http://deb.debian.org/debian stretch/main amd64 gsfonts all 1:8.11+urwcyr1.0.7~pre44-4.3 [3126 kB] Get:623 http://deb.debian.org/debian stretch/main amd64 guile-2.0-libs amd64 2.0.13+1-4 [2232 kB] Get:624 http://deb.debian.org/debian stretch/main amd64 libdivsufsort3 amd64 2.0.1-2 [46.3 kB] Get:625 http://deb.debian.org/debian stretch/main amd64 hmmer amd64 3.1b2+dfsg-5 [1122 kB] Get:626 http://deb.debian.org/debian stretch/main amd64 hyphy-common all 2.2.7+dfsg-1 [619 kB] Get:627 http://deb.debian.org/debian stretch/main amd64 hyphy-mpi amd64 2.2.7+dfsg-1+b2 [920 kB] Get:628 http://deb.debian.org/debian stretch/main amd64 icu-devtools amd64 57.1-6+deb9u4 [178 kB] Get:629 http://deb.debian.org/debian stretch/main amd64 idba amd64 1.1.3-1 [231 kB] Get:630 http://deb.debian.org/debian stretch/main amd64 imagemagick-6.q16 amd64 8:6.9.7.4+dfsg-11+deb9u8 [563 kB] Get:631 http://deb.debian.org/debian stretch/main amd64 imagemagick amd64 8:6.9.7.4+dfsg-11+deb9u8 [141 kB] Get:632 http://deb.debian.org/debian stretch/main amd64 infernal amd64 1.1.2-1 [22.0 MB] Get:633 http://deb.debian.org/debian stretch/main amd64 python-ptyprocess all 0.5.1-1 [12.5 kB] Get:634 http://deb.debian.org/debian stretch/main amd64 python-pexpect all 4.2.1-1 [47.9 kB] Get:635 http://deb.debian.org/debian stretch/main amd64 python-pathlib2 all 2.2.0+really2.1.0-1 [16.5 kB] Get:636 http://deb.debian.org/debian stretch/main amd64 python-pickleshare all 0.7.4-1 [6736 B] Get:637 http://deb.debian.org/debian stretch/main amd64 python-pkg-resources all 33.1.1-1 [166 kB] Get:638 http://deb.debian.org/debian stretch/main amd64 python-wcwidth all 0.1.7+dfsg1-1 [14.6 kB] Get:639 http://deb.debian.org/debian stretch/main amd64 python-prompt-toolkit all 1.0.9-1 [174 kB] Get:640 http://deb.debian.org/debian stretch/main amd64 python-pygments all 2.2.0+dfsg-1 [590 kB] Get:641 http://deb.debian.org/debian stretch/main amd64 python-simplegeneric all 0.8.1-1 [11.9 kB] Get:642 http://deb.debian.org/debian stretch/main amd64 python-ipython-genutils all 0.1.0-2 [20.7 kB] Get:643 http://deb.debian.org/debian stretch/main amd64 python-enum34 all 1.1.6-1 [35.0 kB] Get:644 http://deb.debian.org/debian stretch/main amd64 python-traitlets all 4.3.1-1 [60.6 kB] Get:645 http://deb.debian.org/debian stretch/main amd64 python-backports-shutil-get-terminal-size all 1.0.0-3 [4656 B] Get:646 http://deb.debian.org/debian stretch/main amd64 python-ipython all 5.1.0-3 [375 kB] Get:647 http://deb.debian.org/debian stretch/main amd64 ipython all 5.1.0-3 [5496 B] Get:648 http://deb.debian.org/debian stretch/main amd64 isympy-common all 1.0-3 [189 kB] Get:649 http://deb.debian.org/debian stretch/main amd64 python-mpmath all 0.19-3 [402 kB] Get:650 http://deb.debian.org/debian stretch/main amd64 python-sympy all 1.0-3 [2367 kB] Get:651 http://deb.debian.org/debian stretch/main amd64 isympy all 1.0-3 [6828 B] Get:652 http://deb.debian.org/debian stretch/main amd64 unzip amd64 6.0-21+deb9u2 [172 kB] Get:653 http://deb.debian.org/debian stretch/main amd64 java-wrappers all 0.1.28 [10.7 kB] Get:654 http://deb.debian.org/debian stretch/main amd64 javascript-common all 11 [6120 B] Get:655 http://deb.debian.org/debian stretch/main amd64 libjellyfish-2.0-2 amd64 2.2.6-1+b1 [62.2 kB] Get:656 http://deb.debian.org/debian stretch/main amd64 jellyfish amd64 2.2.6-1+b1 [349 kB] Get:657 http://deb.debian.org/debian stretch/main amd64 kalign amd64 1:2.03+20110620-3 [99.7 kB] Get:658 http://deb.debian.org/debian stretch/main amd64 kissplice amd64 2.4.0-p1-1 [781 kB] Get:659 http://deb.debian.org/debian stretch/main amd64 laptop-detect amd64 0.13.8 [6162 B] Get:660 http://deb.debian.org/debian stretch/main amd64 libsensors4 amd64 1:3.4.0-4 [53.3 kB] Get:661 http://deb.debian.org/debian stretch/main amd64 sysstat amd64 11.4.3-2 [360 kB] Get:662 http://deb.debian.org/debian stretch/main amd64 parallel all 20161222-1 [307 kB] Get:663 http://deb.debian.org/debian stretch/main amd64 last-align amd64 830-1 [725 kB] Get:664 http://deb.debian.org/debian stretch/main amd64 liberror-perl all 0.17024-1 [26.9 kB] Get:665 http://deb.debian.org/debian stretch/main amd64 libipc-sharelite-perl amd64 0.17-4 [24.0 kB] Get:666 http://deb.debian.org/debian stretch/main amd64 libcache-cache-perl all 1.08-2 [76.6 kB] Get:667 http://deb.debian.org/debian stretch/main amd64 libace-perl amd64 1.92-4+b1 [286 kB] Get:668 http://deb.debian.org/debian stretch/main amd64 libaec0 amd64 0.3.2-1 [18.5 kB] Get:669 http://deb.debian.org/debian stretch/main amd64 libalgorithm-diff-perl all 1.19.03-1 [48.7 kB] Get:670 http://deb.debian.org/debian stretch/main amd64 libalgorithm-diff-xs-perl amd64 0.04-4+b2 [11.6 kB] Get:671 http://deb.debian.org/debian stretch/main amd64 libalgorithm-merge-perl all 0.08-3 [12.7 kB] Get:672 http://deb.debian.org/debian stretch/main amd64 libalgorithm-munkres-perl all 0.08-3 [12.1 kB] Get:673 http://deb.debian.org/debian stretch/main amd64 libdevel-symdump-perl all 2.17-1 [17.0 kB] Get:674 http://deb.debian.org/debian stretch/main amd64 liburi-perl all 1.71-1 [88.6 kB] Get:675 http://deb.debian.org/debian stretch/main amd64 libencode-locale-perl all 1.05-1 [13.7 kB] Get:676 http://deb.debian.org/debian stretch/main amd64 libtimedate-perl all 2.3000-2+deb9u1 [37.9 kB] Get:677 http://deb.debian.org/debian stretch/main amd64 libhttp-date-perl all 6.02-1 [10.7 kB] Get:678 http://deb.debian.org/debian stretch/main amd64 libfile-listing-perl all 6.04-1 [10.3 kB] Get:679 http://deb.debian.org/debian stretch/main amd64 libhtml-tagset-perl all 3.20-3 [12.7 kB] Get:680 http://deb.debian.org/debian stretch/main amd64 libhtml-parser-perl amd64 3.72-3 [104 kB] Get:681 http://deb.debian.org/debian stretch/main amd64 libhtml-tree-perl all 5.03-2 [210 kB] Get:682 http://deb.debian.org/debian stretch/main amd64 libio-html-perl all 1.001-1 [17.6 kB] Get:683 http://deb.debian.org/debian stretch/main amd64 liblwp-mediatypes-perl all 6.02-1 [22.1 kB] Get:684 http://deb.debian.org/debian stretch/main amd64 libhttp-message-perl all 6.11-1 [75.9 kB] Get:685 http://deb.debian.org/debian stretch/main amd64 libhttp-cookies-perl all 6.01-1 [17.4 kB] Get:686 http://deb.debian.org/debian stretch/main amd64 libhttp-negotiate-perl all 6.00-2 [13.6 kB] Get:687 http://deb.debian.org/debian stretch/main amd64 perl-openssl-defaults amd64 3 [6782 B] Get:688 http://deb.debian.org/debian stretch/main amd64 libnet-ssleay-perl amd64 1.80-1 [285 kB] Get:689 http://deb.debian.org/debian stretch/main amd64 libio-socket-ssl-perl all 2.044-1 [195 kB] Get:690 http://deb.debian.org/debian stretch/main amd64 libnet-http-perl all 6.12-1 [23.8 kB] Get:691 http://deb.debian.org/debian stretch/main amd64 liblwp-protocol-https-perl all 6.06-2 [9582 B] Get:692 http://deb.debian.org/debian stretch/main amd64 libwww-robotrules-perl all 6.01-1 [14.3 kB] Get:693 http://deb.debian.org/debian stretch/main amd64 libwww-perl all 6.15-1 [195 kB] Get:694 http://deb.debian.org/debian stretch/main amd64 libapache2-mod-perl2 amd64 2.0.10-2+deb9u1 [886 kB] Get:695 http://deb.debian.org/debian stretch/main amd64 libdbi-perl amd64 1.636-1+b1 [766 kB] Get:696 http://deb.debian.org/debian stretch/main amd64 libapache-dbi-perl all 1.12-1 [54.6 kB] Get:697 http://deb.debian.org/debian stretch/main amd64 libapache2-reload-perl all 0.13-1 [17.4 kB] Get:698 http://deb.debian.org/debian stretch/main amd64 libclass-method-modifiers-perl all 2.12-1 [18.6 kB] Get:699 http://deb.debian.org/debian stretch/main amd64 libsub-exporter-progressive-perl all 0.001013-1 [7588 B] Get:700 http://deb.debian.org/debian stretch/main amd64 libdevel-globaldestruction-perl all 0.14-1 [8084 B] Get:701 http://deb.debian.org/debian stretch/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB] Get:702 http://deb.debian.org/debian stretch/main amd64 librole-tiny-perl all 2.000005-1 [19.0 kB] Get:703 http://deb.debian.org/debian stretch/main amd64 libstrictures-perl all 2.000003-1 [18.1 kB] Get:704 http://deb.debian.org/debian stretch/main amd64 libmoo-perl all 2.002005-1 [67.0 kB] Get:705 http://deb.debian.org/debian stretch/main amd64 libexporter-tiny-perl all 0.042-1 [32.4 kB] Get:706 http://deb.debian.org/debian stretch/main amd64 libtype-tiny-perl all 1.000005-1 [271 kB] Get:707 http://deb.debian.org/debian stretch/main amd64 libarray-compare-perl all 3.0.0-1 [14.0 kB] Get:708 http://deb.debian.org/debian stretch/main amd64 libatinject-jsr330-api-java all 1.0+ds1-2 [22.7 kB] Get:709 http://deb.debian.org/debian stretch/main amd64 libauthen-sasl-perl all 2.1600-1 [50.8 kB] Get:710 http://deb.debian.org/debian stretch/main amd64 libbambamc0 amd64 0.0.50-1 [35.4 kB] Get:711 http://deb.debian.org/debian stretch/main amd64 libbcprov-java all 1.56-1+deb9u2 [3637 kB] Get:712 http://deb.debian.org/debian stretch/main amd64 libbio-asn1-entrezgene-perl all 1.720-1 [38.5 kB] Get:713 http://deb.debian.org/debian stretch/main amd64 libcarp-clan-perl all 6.06-1 [12.9 kB] Get:714 http://deb.debian.org/debian stretch/main amd64 libbit-vector-perl amd64 7.4-1+b2 [146 kB] Get:715 http://deb.debian.org/debian stretch/main amd64 libblas-dev amd64 3.7.0-2 [162 kB] Get:716 http://deb.debian.org/debian stretch/main amd64 libboost-mpi1.62.0 amd64 1.62.0+dfsg-4 [70.6 kB] Get:717 http://deb.debian.org/debian stretch/main amd64 libbsd-resource-perl amd64 1.2910-1+b1 [33.7 kB] Get:718 http://deb.debian.org/debian stretch/main amd64 libbz2-dev amd64 1.0.6-8.1 [29.4 kB] Get:719 http://deb.debian.org/debian stretch/main amd64 libcgi-pm-perl all 4.35-1 [222 kB] Get:720 http://deb.debian.org/debian stretch/main amd64 libfcgi-perl amd64 0.78-2 [38.2 kB] Get:721 http://deb.debian.org/debian stretch/main amd64 libcgi-fast-perl all 1:2.12-1 [11.2 kB] Get:722 http://deb.debian.org/debian stretch/main amd64 libclass-inspector-perl all 1.31-1 [18.7 kB] Get:723 http://deb.debian.org/debian stretch/main amd64 libclass-xsaccessor-perl amd64 1.19-2+b7 [36.7 kB] Get:724 http://deb.debian.org/debian stretch/main amd64 libconvert-binary-c-perl amd64 0.78-1+b1 [271 kB] Get:725 http://deb.debian.org/debian stretch/main amd64 libconvert-binhex-perl all 1.125-1 [30.5 kB] Get:726 http://deb.debian.org/debian stretch/main amd64 libcrypt-rc4-perl all 2.02-2 [8150 B] Get:727 http://deb.debian.org/debian stretch/main amd64 libcupsfilters1 amd64 1.11.6-3+deb9u1 [129 kB] Get:728 http://deb.debian.org/debian stretch/main amd64 libcurl3 amd64 7.52.1-5+deb9u10 [292 kB] Get:729 http://deb.debian.org/debian stretch/main amd64 libdate-calc-perl all 6.4-1 [194 kB] Get:730 http://deb.debian.org/debian stretch/main amd64 libdate-calc-xs-perl amd64 6.4-1+b2 [54.3 kB] Get:731 http://deb.debian.org/debian stretch/main amd64 libdate-manip-perl all 6.57-1 [911 kB] Get:732 http://deb.debian.org/debian stretch/main amd64 libdbd-mysql-perl amd64 4.041-2 [114 kB] Get:733 http://deb.debian.org/debian stretch/main amd64 libdbd-pg-perl amd64 3.5.3-1+b2 [203 kB] Get:734 http://deb.debian.org/debian stretch/main amd64 libdbd-sqlite3-perl amd64 1.54-1 [164 kB] Get:735 http://deb.debian.org/debian stretch/main amd64 libpadwalker-perl amd64 2.2-2+b1 [19.7 kB] Get:736 http://deb.debian.org/debian stretch/main amd64 libdevel-caller-perl amd64 2.06-1+b4 [11.8 kB] Get:737 http://deb.debian.org/debian stretch/main amd64 libdevel-lexalias-perl amd64 0.05-1+b4 [8752 B] Get:738 http://deb.debian.org/debian stretch/main amd64 libdigest-perl-md5-perl all 1.9-1 [11.7 kB] Get:739 http://deb.debian.org/debian stretch/main amd64 libdjvulibre-text all 3.5.27.1-7 [60.7 kB] Get:740 http://deb.debian.org/debian stretch/main amd64 libdjvulibre21 amd64 3.5.27.1-7 [568 kB] Get:741 http://deb.debian.org/debian stretch/main amd64 libdrm-amdgpu1 amd64 2.4.74-1 [26.4 kB] Get:742 http://deb.debian.org/debian stretch/main amd64 libdrm-intel1 amd64 2.4.74-1 [68.7 kB] Get:743 http://deb.debian.org/debian stretch/main amd64 libdrm-nouveau2 amd64 2.4.74-1 [25.1 kB] Get:744 http://deb.debian.org/debian stretch/main amd64 libdrm-radeon1 amd64 2.4.74-1 [30.2 kB] Get:745 http://deb.debian.org/debian stretch/main amd64 libexpat1-dev amd64 2.2.0-2+deb9u3 [134 kB] Get:746 http://deb.debian.org/debian stretch/main amd64 libfftw3-single3 amd64 3.3.5-3 [776 kB] Get:747 http://deb.debian.org/debian stretch/main amd64 libfile-desktopentry-perl all 0.22-1 [19.2 kB] Get:748 http://deb.debian.org/debian stretch/main amd64 libfile-fcntllock-perl amd64 0.22-3+b2 [35.3 kB] Get:749 http://deb.debian.org/debian stretch/main amd64 libfile-which-perl all 1.21-1 [14.3 kB] Get:750 http://deb.debian.org/debian stretch/main amd64 libfile-homedir-perl all 1.00-1 [48.9 kB] Get:751 http://deb.debian.org/debian stretch/main amd64 libfile-mimeinfo-perl all 0.27-1 [50.2 kB] Get:752 http://deb.debian.org/debian stretch/main amd64 libfile-slurp-tiny-perl all 0.003-1 [6852 B] Get:753 http://deb.debian.org/debian stretch/main amd64 libfont-afm-perl all 1.20-2 [13.6 kB] Get:754 http://deb.debian.org/debian stretch/main amd64 libfreecontact0v5 amd64 1.0.21-5 [70.1 kB] Get:755 http://deb.debian.org/debian stretch/main amd64 libfreezethaw-perl all 0.5001-1 [18.2 kB] Get:756 http://deb.debian.org/debian stretch/main amd64 libfribidi0 amd64 0.19.7-1+deb9u1 [45.6 kB] Get:757 http://deb.debian.org/debian stretch/main amd64 libfuse2 amd64 2.9.7-1+deb9u2 [126 kB] Get:758 http://deb.debian.org/debian stretch/main amd64 libg20 amd64 0.72-6 [42.5 kB] Get:759 http://deb.debian.org/debian stretch/main amd64 libgail18 amd64 2.24.31-2 [54.1 kB] Get:760 http://deb.debian.org/debian stretch/main amd64 libgail-common amd64 2.24.31-2 [153 kB] Get:761 http://deb.debian.org/debian stretch/main amd64 libllvm3.9 amd64 1:3.9.1-9 [11.3 MB] Get:762 http://deb.debian.org/debian stretch/main amd64 libgl1-mesa-dri amd64 13.0.6-1+b2 [4536 kB] Get:763 http://deb.debian.org/debian stretch/main amd64 libglib2.0-data all 2.50.3-2+deb9u2 [2517 kB] Get:764 http://deb.debian.org/debian stretch/main amd64 libglu1-mesa amd64 9.0.0-2.1 [168 kB] Get:765 http://deb.debian.org/debian stretch/main amd64 libgraph-perl all 1:0.96-2 [126 kB] Get:766 http://deb.debian.org/debian stretch/main amd64 libio-pty-perl amd64 1:1.08-1.1+b2 [33.6 kB] Get:767 http://deb.debian.org/debian stretch/main amd64 libipc-run-perl all 0.94-1+deb9u1 [99.1 kB] Get:768 http://deb.debian.org/debian stretch/main amd64 libparse-recdescent-perl all 1.967013+dfsg-1 [159 kB] Get:769 http://deb.debian.org/debian stretch/main amd64 libxml-parser-perl amd64 2.44-2+b1 [212 kB] Get:770 http://deb.debian.org/debian stretch/main amd64 libxml-twig-perl all 1:3.50-1 [179 kB] Get:771 http://deb.debian.org/debian stretch/main amd64 libxml-xpath-perl all 1.40-1 [69.2 kB] Get:772 http://deb.debian.org/debian stretch/main amd64 libgraphviz-perl all 2.22-1 [107 kB] Get:773 http://deb.debian.org/debian stretch/main amd64 libntlm0 amd64 1.4-8 [20.9 kB] Get:774 http://deb.debian.org/debian stretch/main amd64 libgsasl7 amd64 1.8.0-8+b2 [207 kB] Get:775 http://deb.debian.org/debian stretch/main amd64 libgtk-3-bin amd64 3.22.11-1 [110 kB] Get:776 http://deb.debian.org/debian stretch/main amd64 libgtk2.0-bin amd64 2.24.31-2 [47.1 kB] Get:777 http://deb.debian.org/debian stretch/main amd64 libgts-bin amd64 0.7.6+darcs121130-4 [50.8 kB] Get:778 http://deb.debian.org/debian stretch/main amd64 libjsr305-java all 0.1~+svn49-10 [26.5 kB] Get:779 http://deb.debian.org/debian stretch/main amd64 libguava-java all 19.0-1 [2028 kB] Get:780 http://deb.debian.org/debian stretch/main amd64 libsz2 amd64 0.3.2-1 [5730 B] Get:781 http://deb.debian.org/debian stretch/main amd64 libhdf5-100 amd64 1.10.0-patch1+docs-3+deb9u1 [1282 kB] Get:782 http://deb.debian.org/debian stretch/main amd64 beignet-opencl-icd amd64 1.3.0-4 [12.8 MB] Get:783 http://deb.debian.org/debian stretch/main amd64 libhmsbeagle1v5 amd64 2.1.2+20160831-5 [116 kB] Get:784 http://deb.debian.org/debian stretch/main amd64 libhtml-form-perl all 6.03-1 [23.9 kB] Get:785 http://deb.debian.org/debian stretch/main amd64 libhtml-format-perl all 2.12-1 [43.5 kB] Get:786 http://deb.debian.org/debian stretch/main amd64 libhtml-tableextract-perl all 2.13-1 [30.7 kB] Get:787 http://deb.debian.org/debian stretch/main amd64 libhttp-daemon-perl all 6.01-1 [17.3 kB] Get:788 http://deb.debian.org/debian stretch/main amd64 libicu-dev amd64 57.1-6+deb9u4 [16.5 MB] Get:789 http://deb.debian.org/debian stretch/main amd64 libilmbase12 amd64 2.2.0-12 [85.3 kB] Get:790 http://deb.debian.org/debian stretch/main amd64 libio-sessiondata-perl all 1.03-1 [5782 B] Get:791 http://deb.debian.org/debian stretch/main amd64 libio-stringy-perl all 2.111-2 [61.2 kB] Get:792 http://deb.debian.org/debian stretch/main amd64 libjcode-pm-perl amd64 2.06-1 [30.9 kB] Get:793 http://deb.debian.org/debian stretch/main amd64 libjpeg62-turbo-dev amd64 1:1.5.1-2 [210 kB] Get:794 http://deb.debian.org/debian stretch/main amd64 libjpeg-dev all 1:1.5.1-2 [56.1 kB] Get:795 http://deb.debian.org/debian stretch/main amd64 libjs-underscore all 1.8.3~dfsg-1 [63.8 kB] Get:796 http://deb.debian.org/debian stretch/main amd64 libjxr0 amd64 1.1-6+b1 [160 kB] Get:797 http://deb.debian.org/debian stretch/main amd64 libjxr-tools amd64 1.1-6+b1 [17.0 kB] Get:798 http://deb.debian.org/debian stretch/main amd64 libmbedcrypto0 amd64 2.4.2-1+deb9u3 [171 kB] Get:799 http://deb.debian.org/debian stretch/main amd64 libmbedx509-0 amd64 2.4.2-1+deb9u3 [70.7 kB] Get:800 http://deb.debian.org/debian stretch/main amd64 libmbedtls10 amd64 2.4.2-1+deb9u3 [102 kB] Get:801 http://deb.debian.org/debian stretch/main amd64 libmbedtls-dev amd64 2.4.2-1+deb9u3 [161 kB] Get:802 http://deb.debian.org/debian stretch/main amd64 libkdf5-2 amd64 2.8.1+dfsg-2 [13.6 kB] Get:803 http://deb.debian.org/debian stretch/main amd64 liblzo2-2 amd64 2.08-1.2+b2 [55.0 kB] Get:804 http://deb.debian.org/debian stretch/main amd64 libkyotocabinet16v5 amd64 1.2.76-4.2+b1 [298 kB] Get:805 http://deb.debian.org/debian stretch/main amd64 liblapack-dev amd64 3.7.0-2 [2170 kB] Get:806 http://deb.debian.org/debian stretch/main amd64 liblist-moreutils-perl amd64 0.416-1+b1 [63.0 kB] Get:807 http://deb.debian.org/debian stretch/main amd64 liblzma-dev amd64 5.2.2-1.2+b1 [292 kB] Get:808 http://deb.debian.org/debian stretch/main amd64 libopenexr22 amd64 2.2.0-11+b1 [577 kB] Get:809 http://deb.debian.org/debian stretch/main amd64 libwmf0.2-7 amd64 0.2.8.4-10.6 [167 kB] Get:810 http://deb.debian.org/debian stretch/main amd64 libmagickcore-6.q16-3-extra amd64 8:6.9.7.4+dfsg-11+deb9u8 [191 kB] Get:811 http://deb.debian.org/debian stretch/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:812 http://deb.debian.org/debian stretch/main amd64 libmailtools-perl all 2.18-1 [88.5 kB] Get:813 http://deb.debian.org/debian stretch/main amd64 mailutils-common all 1:3.1.1-1 [642 kB] Get:814 http://deb.debian.org/debian stretch/main amd64 libpython2.7 amd64 2.7.13-2+deb9u3 [1071 kB] Get:815 http://deb.debian.org/debian stretch/main amd64 libmailutils5 amd64 1:3.1.1-1 [817 kB] Get:816 http://deb.debian.org/debian stretch/main amd64 libmath-derivative-perl all 0.04-2 [7208 B] Get:817 http://deb.debian.org/debian stretch/main amd64 libmath-spline-perl all 0.02-1 [7992 B] Get:818 http://deb.debian.org/debian stretch/main amd64 libmime-tools-perl all 5.508-1 [212 kB] Get:819 http://deb.debian.org/debian stretch/main amd64 libmldbm-perl all 2.05-2 [18.4 kB] Get:820 http://deb.debian.org/debian stretch/main amd64 libncbi-vdb2 amd64 2.8.1+dfsg-2 [1037 kB] Get:821 http://deb.debian.org/debian stretch/main amd64 libncbi-wvdb2 amd64 2.8.1+dfsg-2 [939 kB] Get:822 http://deb.debian.org/debian stretch/main amd64 libncbi6 amd64 6.1.20170106+dfsg1-0+deb9u1 [4024 kB] Get:823 http://deb.debian.org/debian stretch/main amd64 libtinfo-dev amd64 6.0+20161126-1+deb9u2 [79.2 kB] Get:824 http://deb.debian.org/debian stretch/main amd64 libncurses5-dev amd64 6.0+20161126-1+deb9u2 [175 kB] Get:825 http://deb.debian.org/debian stretch/main amd64 libnet-dbus-perl amd64 1.1.0-4+b1 [179 kB] Get:826 http://deb.debian.org/debian stretch/main amd64 libnetpbm10 amd64 2:10.0-15.3+b2 [86.7 kB] Get:827 http://deb.debian.org/debian stretch/main amd64 libnotify4 amd64 0.7.7-2 [21.9 kB] Get:828 http://deb.debian.org/debian stretch/main amd64 libole-storage-lite-perl all 0.19-1+deb9u1 [23.4 kB] Get:829 http://deb.debian.org/debian stretch/main amd64 libossp-uuid16 amd64 1.6.2-1.5+b4 [38.3 kB] Get:830 http://deb.debian.org/debian stretch/main amd64 libossp-uuid-perl amd64 1.6.2-1.5+b4 [28.7 kB] Get:831 http://deb.debian.org/debian stretch/main amd64 libpaper-utils amd64 1.1.24+nmu5 [17.6 kB] Get:832 http://deb.debian.org/debian stretch/main amd64 libpcre16-3 amd64 2:8.39-3 [258 kB] Get:833 http://deb.debian.org/debian stretch/main amd64 libpcre32-3 amd64 2:8.39-3 [248 kB] Get:834 http://deb.debian.org/debian stretch/main amd64 libpcre3-dev amd64 2:8.39-3 [647 kB] Get:835 http://deb.debian.org/debian stretch/main amd64 libperl4-corelibs-perl all 0.003-2+deb9u1 [38.0 kB] Get:836 http://deb.debian.org/debian stretch/main amd64 libpicard-java all 2.8.1+dfsg-1 [1190 kB] Get:837 http://deb.debian.org/debian stretch/main amd64 zlib1g-dev amd64 1:1.2.8.dfsg-5 [205 kB] Get:838 http://deb.debian.org/debian stretch/main amd64 libpng-dev amd64 1.6.28-1+deb9u1 [250 kB] Get:839 http://deb.debian.org/debian stretch/main amd64 libpng-tools amd64 1.6.28-1+deb9u1 [133 kB] Get:840 http://deb.debian.org/debian stretch/main amd64 libpod-coverage-perl all 0.23-1 [23.9 kB] Get:841 http://deb.debian.org/debian stretch/main amd64 libpostscript-perl all 0.06-2 [31.4 kB] Get:842 http://deb.debian.org/debian stretch/main amd64 libpython2.7-dev amd64 2.7.13-2+deb9u3 [28.2 MB] Get:843 http://deb.debian.org/debian stretch/main amd64 libpython-dev amd64 2.7.13-2 [20.1 kB] Get:844 http://deb.debian.org/debian stretch/main amd64 libqt4-xml amd64 4:4.8.7+dfsg-11 [143 kB] Get:845 http://deb.debian.org/debian stretch/main amd64 libqtdbus4 amd64 4:4.8.7+dfsg-11 [232 kB] Get:846 http://deb.debian.org/debian stretch/main amd64 qtchooser amd64 63-g13a3d08-1 [25.2 kB] Get:847 http://deb.debian.org/debian stretch/main amd64 qdbus amd64 4:4.8.7+dfsg-11 [76.8 kB] Get:848 http://deb.debian.org/debian stretch/main amd64 libqt4-dbus amd64 4:4.8.7+dfsg-11 [52.7 kB] Get:849 http://deb.debian.org/debian stretch/main amd64 libreadline-dev amd64 7.0-3 [132 kB] Get:850 http://deb.debian.org/debian stretch/main amd64 libsasl2-modules amd64 2.1.27~101-g0780600+dfsg-3+deb9u1 [102 kB] Get:851 http://deb.debian.org/debian stretch/main amd64 libtask-weaken-perl all 1.04-1 [7990 B] Get:852 http://deb.debian.org/debian stretch/main amd64 libsoap-lite-perl all 1.20-1 [259 kB] Get:853 http://deb.debian.org/debian stretch/main amd64 libsort-naturally-perl all 1.03-1 [13.9 kB] Get:854 http://deb.debian.org/debian stretch/main amd64 libspreadsheet-writeexcel-perl all 2.40-1 [550 kB] Get:855 http://deb.debian.org/debian stretch/main amd64 libunicode-map-perl amd64 0.112-11+b3 [145 kB] Get:856 http://deb.debian.org/debian stretch/main amd64 libspreadsheet-parseexcel-perl all 0.6500-1 [159 kB] Get:857 http://deb.debian.org/debian stretch/main amd64 libsprng2 amd64 2.0a-10 [75.6 kB] Get:858 http://deb.debian.org/debian stretch/main amd64 libsquizz amd64 0.99c+dfsg-1 [265 kB] Get:859 http://deb.debian.org/debian stretch/main amd64 libstaden-read11 amd64 1.14.8-2 [311 kB] Get:860 http://deb.debian.org/debian stretch/main amd64 libstatistics-descriptive-perl all 3.0612-1 [41.9 kB] Get:861 http://deb.debian.org/debian stretch/main amd64 libsub-name-perl amd64 0.21-1 [13.1 kB] Get:862 http://deb.debian.org/debian stretch/main amd64 libsvg-perl all 2.64-1 [69.8 kB] Get:863 http://deb.debian.org/debian stretch/main amd64 libtree-dagnode-perl all 1.29-1 [60.6 kB] Get:864 http://deb.debian.org/debian stretch/main amd64 libsvg-graph-perl all 0.02-2 [130 kB] Get:865 http://deb.debian.org/debian stretch/main amd64 libterm-readkey-perl amd64 2.37-1 [27.2 kB] Get:866 http://deb.debian.org/debian stretch/main amd64 libtest-pod-perl all 1.51-1 [14.7 kB] Get:867 http://deb.debian.org/debian stretch/main amd64 libtext-iconv-perl amd64 1.7-5+b4 [15.3 kB] Get:868 http://deb.debian.org/debian stretch/main amd64 libtie-ixhash-perl all 1.23-2 [11.7 kB] Get:869 http://deb.debian.org/debian stretch/main amd64 libtype-tiny-xs-perl amd64 0.012-1+b2 [26.8 kB] Get:870 http://deb.debian.org/debian stretch/main amd64 libutempter0 amd64 1.1.6-3 [7812 B] Get:871 http://deb.debian.org/debian stretch/main amd64 libwebpdemux2 amd64 0.5.2-1 [73.7 kB] Get:872 http://deb.debian.org/debian stretch/main amd64 libwebpmux2 amd64 0.5.2-1 [83.9 kB] Get:873 http://deb.debian.org/debian stretch/main amd64 libwxbase3.0-0v5 amd64 3.0.2+dfsg-4 [1073 kB] Get:874 http://deb.debian.org/debian stretch/main amd64 libwxgtk3.0-0v5 amd64 3.0.2+dfsg-4 [4493 kB] Get:875 http://deb.debian.org/debian stretch/main amd64 libx11-protocol-perl all 0.56-7 [150 kB] Get:876 http://deb.debian.org/debian stretch/main amd64 libxerces-c3.1 amd64 3.1.4+debian-2+deb9u1 [842 kB] Get:877 http://deb.debian.org/debian stretch/main amd64 libxml-perl all 0.08-2 [113 kB] Get:878 http://deb.debian.org/debian stretch/main amd64 libxml-regexp-perl all 0.04-1 [8370 B] Get:879 http://deb.debian.org/debian stretch/main amd64 libxml-dom-perl all 1.44-2 [179 kB] Get:880 http://deb.debian.org/debian stretch/main amd64 libxml-xpathengine-perl all 0.13-1 [39.1 kB] Get:881 http://deb.debian.org/debian stretch/main amd64 libxml-dom-xpath-perl all 0.14-2 [9622 B] Get:882 http://deb.debian.org/debian stretch/main amd64 libxml-namespacesupport-perl all 1.11-1 [14.8 kB] Get:883 http://deb.debian.org/debian stretch/main amd64 libxml-sax-base-perl all 1.07-1 [23.1 kB] Get:884 http://deb.debian.org/debian stretch/main amd64 libxml-sax-perl all 0.99+dfsg-2 [68.3 kB] Get:885 http://deb.debian.org/debian stretch/main amd64 libxml-filter-buffertext-perl all 1.01-5 [7354 B] Get:886 http://deb.debian.org/debian stretch/main amd64 libxml-libxml-perl amd64 2.0128+dfsg-1+deb9u1 [338 kB] Get:887 http://deb.debian.org/debian stretch/main amd64 libxslt1.1 amd64 1.1.29-2.1+deb9u2 [233 kB] Get:888 http://deb.debian.org/debian stretch/main amd64 libxml-libxslt-perl amd64 1.95-1+b1 [46.8 kB] Get:889 http://deb.debian.org/debian stretch/main amd64 libxml-sax-expat-perl all 0.40-2 [12.9 kB] Get:890 http://deb.debian.org/debian stretch/main amd64 libxml-sax-writer-perl all 0.56-1 [23.7 kB] Get:891 http://deb.debian.org/debian stretch/main amd64 libxml-simple-perl all 2.22-1 [71.8 kB] Get:892 http://deb.debian.org/debian stretch/main amd64 libxml-writer-perl all 0.625-1 [29.7 kB] Get:893 http://deb.debian.org/debian stretch/main amd64 libxmlrpc-lite-perl all 0.717-1 [26.1 kB] Get:894 http://deb.debian.org/debian stretch/main amd64 libyaml-0-2 amd64 0.1.7-2 [47.6 kB] Get:895 http://deb.debian.org/debian stretch/main amd64 libyaml-libyaml-perl amd64 0.63-2 [68.8 kB] Get:896 http://deb.debian.org/debian stretch/main amd64 libyaml-perl all 1.21-1 [64.8 kB] Get:897 http://deb.debian.org/debian stretch/main amd64 libyaml-tiny-perl all 1.70-1 [32.0 kB] Get:898 http://deb.debian.org/debian stretch/main amd64 lmodern all 2.004.5-3 [9461 kB] Get:899 http://deb.debian.org/debian stretch/main amd64 loki amd64 2.4.7.4-6+b1 [359 kB] Get:900 http://deb.debian.org/debian stretch/main amd64 lynx-common all 2.8.9dev11-1 [1098 kB] Get:901 http://deb.debian.org/debian stretch/main amd64 macs amd64 2.1.1.20160309-1 [1011 kB] Get:902 http://deb.debian.org/debian stretch/main amd64 mafft amd64 7.307-1 [889 kB] Get:903 http://deb.debian.org/debian stretch/main amd64 mailutils amd64 1:3.1.1-1 [573 kB] Get:904 http://deb.debian.org/debian stretch/main amd64 manpages-dev all 4.10-2 [2145 kB] Get:905 http://deb.debian.org/debian stretch/main amd64 mapsembler2 amd64 2.2.3+dfsg-3+b1 [250 kB] Get:906 http://deb.debian.org/debian stretch/main amd64 maq amd64 0.7.1-7 [311 kB] Get:907 http://deb.debian.org/debian stretch/main amd64 melting amd64 4.3.1+dfsg-2+b1 [663 kB] Get:908 http://deb.debian.org/debian stretch/main amd64 minia amd64 1.6906-1+b2 [67.9 kB] Get:909 http://deb.debian.org/debian stretch/main amd64 mipe all 1.1-5 [62.4 kB] Get:910 http://deb.debian.org/debian stretch/main amd64 mlv-smile amd64 1.47-4+b1 [190 kB] Get:911 http://deb.debian.org/debian stretch/main amd64 mothur amd64 1.38.1.1-1 [4740 kB] Get:912 http://deb.debian.org/debian stretch/main amd64 mrbayes amd64 3.2.6+dfsg-1+b4 [588 kB] Get:913 http://deb.debian.org/debian stretch/main amd64 muscle amd64 1:3.8.31+dfsg-2 [151 kB] Get:914 http://deb.debian.org/debian stretch/main amd64 mustang amd64 3.2.3-1 [113 kB] Get:915 http://deb.debian.org/debian stretch/main amd64 ncbi-epcr amd64 2.3.12-1-4 [113 kB] Get:916 http://deb.debian.org/debian stretch/main amd64 ncbi-tools-bin amd64 6.1.20170106+dfsg1-0+deb9u1 [521 kB] Get:917 http://deb.debian.org/debian stretch/main amd64 ncoils amd64 2002-4+b1 [21.4 kB] Get:918 http://deb.debian.org/debian stretch/main amd64 netpbm amd64 2:10.0-15.3+b2 [1029 kB] Get:919 http://deb.debian.org/debian stretch/main amd64 notification-daemon amd64 3.20.0-1+b1 [60.5 kB] Get:920 http://deb.debian.org/debian stretch/main amd64 paraclu amd64 9-1+b2 [10.5 kB] Get:921 http://deb.debian.org/debian stretch/main amd64 parsinsert amd64 1.04-2 [59.8 kB] Get:922 http://deb.debian.org/debian stretch/main amd64 python-networkx all 1.11-2 [822 kB] Get:923 http://deb.debian.org/debian stretch/main amd64 pdb2pqr amd64 2.1.1+dfsg-2 [373 kB] Get:924 http://deb.debian.org/debian stretch/main amd64 perl-doc all 5.24.1-3+deb9u7 [7145 kB] Get:925 http://deb.debian.org/debian stretch/main amd64 perl-tk amd64 1:804.033-1+b3 [1943 kB] Get:926 http://deb.debian.org/debian stretch/main amd64 perm amd64 0.4.0-2 [121 kB] Get:927 http://deb.debian.org/debian stretch/main amd64 phylip amd64 1:3.696+dfsg-5 [942 kB] Get:928 http://deb.debian.org/debian stretch/main amd64 openmpi-common all 2.0.2-2 [149 kB] Get:929 http://deb.debian.org/debian stretch/main amd64 openmpi-bin amd64 2.0.2-2 [186 kB] Get:930 http://deb.debian.org/debian stretch/main amd64 phyml amd64 3:3.2.0+dfsg-7+b1 [1298 kB] Get:931 http://deb.debian.org/debian stretch/main amd64 phyutility amd64 2.7.3-1 [897 kB] Get:932 http://deb.debian.org/debian stretch/main amd64 picard-tools all 2.8.1+dfsg-1 [7788 B] Get:933 http://deb.debian.org/debian stretch/main amd64 pkg-config amd64 0.29-4+b1 [63.3 kB] Get:934 http://deb.debian.org/debian stretch/main amd64 plink amd64 1.07-7 [1186 kB] Get:935 http://deb.debian.org/debian stretch/main amd64 poa amd64 2.0+20060928-4+b1 [45.4 kB] Get:936 http://deb.debian.org/debian stretch/main amd64 prank amd64 0.0.150803-2 [374 kB] Get:937 http://deb.debian.org/debian stretch/main amd64 preview-latex-style all 11.90-1 [200 kB] Get:938 http://deb.debian.org/debian stretch/main amd64 prime-phylo amd64 1.0.11-4+b3 [856 kB] Get:939 http://deb.debian.org/debian stretch/main amd64 primer3 amd64 2.3.7-3 [173 kB] Get:940 http://deb.debian.org/debian stretch/main amd64 probabel amd64 0.4.5-3+b1 [544 kB] Get:941 http://deb.debian.org/debian stretch/main amd64 probalign amd64 1.4-5 [65.4 kB] Get:942 http://deb.debian.org/debian stretch/main amd64 probcons amd64 1.12-11 [107 kB] Get:943 http://deb.debian.org/debian stretch/main amd64 proda amd64 1.0-10 [60.1 kB] Get:944 http://deb.debian.org/debian stretch/main amd64 prodigal amd64 1:2.6.3-1+b1 [714 kB] Get:945 http://deb.debian.org/debian stretch/main amd64 xdg-utils all 1.1.1-1+deb9u2 [71.5 kB] Get:946 http://deb.debian.org/debian stretch/main amd64 texlive-base all 2016.20170123-5 [15.8 MB] Get:947 http://deb.debian.org/debian stretch/main amd64 texlive-latex-base all 2016.20170123-5 [861 kB] Get:948 http://deb.debian.org/debian stretch/main amd64 texlive-generic-recommended all 2016.20170123-5 [2889 kB] Get:949 http://deb.debian.org/debian stretch/main amd64 texlive-latex-recommended all 2016.20170123-5 [13.2 MB] Get:950 http://deb.debian.org/debian stretch/main amd64 texlive-pictures all 2016.20170123-5 [3908 kB] Get:951 http://deb.debian.org/debian stretch/main amd64 texlive-pstricks all 2016.20170123-5 [26.2 MB] Get:952 http://deb.debian.org/debian stretch/main amd64 prosper all 1.00.4+cvs.2007.05.01-4.1 [420 kB] Get:953 http://deb.debian.org/debian stretch/main amd64 ps2eps amd64 1.68+binaryfree-2 [37.9 kB] Get:954 http://deb.debian.org/debian stretch/main amd64 psmisc amd64 22.21-2.1+b2 [123 kB] Get:955 http://deb.debian.org/debian stretch/main amd64 python-biopython-doc all 1.68+dfsg-3 [11.8 MB] Get:956 http://deb.debian.org/debian stretch/main amd64 python-cairo amd64 1.8.8-2.2 [42.5 kB] Get:957 http://deb.debian.org/debian stretch/main amd64 python-chardet all 2.3.0-2 [96.0 kB] Get:958 http://deb.debian.org/debian stretch/main amd64 python2.7-dev amd64 2.7.13-2+deb9u3 [290 kB] Get:959 http://deb.debian.org/debian stretch/main amd64 python-dev amd64 2.7.13-2 [1126 B] Get:960 http://deb.debian.org/debian stretch/main amd64 python-gobject-2 amd64 2.28.6-13 [289 kB] Get:961 http://deb.debian.org/debian stretch/main amd64 python-gtk2 amd64 2.24.0-5.1 [642 kB] Get:962 http://deb.debian.org/debian stretch/main amd64 python-glade2 amd64 2.24.0-5.1 [43.4 kB] Get:963 http://deb.debian.org/debian stretch/main amd64 python-gmpy amd64 1.17-3 [74.3 kB] Get:964 http://deb.debian.org/debian stretch/main amd64 python-pil amd64 4.0.0-4+deb9u1 [376 kB] Get:965 http://deb.debian.org/debian stretch/main amd64 python-imaging all 4.0.0-4+deb9u1 [50.5 kB] Get:966 http://deb.debian.org/debian stretch/main amd64 python-pyglet all 1.1.4.dfsg-3 [736 kB] Get:967 http://deb.debian.org/debian stretch/main amd64 python-pygraphviz amd64 1.4~rc1-1 [75.9 kB] Get:968 http://deb.debian.org/debian stretch/main amd64 python-renderpm amd64 3.3.0-2+deb9u1 [47.3 kB] Get:969 http://deb.debian.org/debian stretch/main amd64 python-sympy-doc all 1.0-3 [4876 kB] Get:970 http://deb.debian.org/debian stretch/main amd64 python-tk amd64 2.7.13-1 [27.4 kB] Get:971 http://deb.debian.org/debian stretch/main amd64 python-wxversion all 3.0.2.0+dfsg-4 [114 kB] Get:972 http://deb.debian.org/debian stretch/main amd64 python-wxgtk3.0 amd64 3.0.2.0+dfsg-4 [5270 kB] Get:973 http://deb.debian.org/debian stretch/main amd64 python-yaml amd64 3.12-1 [119 kB] Get:974 http://deb.debian.org/debian stretch/main amd64 python3-numpy amd64 1:1.12.1-3 [1934 kB] Get:975 http://deb.debian.org/debian stretch/main amd64 python3-reportlab-accel amd64 3.3.0-2+deb9u1 [32.1 kB] Get:976 http://deb.debian.org/debian stretch/main amd64 python3-reportlab all 3.3.0-2+deb9u1 [474 kB] Get:977 http://deb.debian.org/debian stretch/main amd64 python3-biopython amd64 1.68+dfsg-3 [1163 kB] Get:978 http://deb.debian.org/debian stretch/main amd64 python3-pil amd64 4.0.0-4+deb9u1 [377 kB] Get:979 http://deb.debian.org/debian stretch/main amd64 python3-renderpm amd64 3.3.0-2+deb9u1 [47.4 kB] Get:980 http://deb.debian.org/debian stretch/main amd64 qt-at-spi amd64 0.4.0-5 [61.6 kB] Get:981 http://deb.debian.org/debian stretch/main amd64 zip amd64 3.0-11+b1 [234 kB] Get:982 http://deb.debian.org/debian stretch/main amd64 r-base-core amd64 3.3.3-1 [21.2 MB] Get:983 http://deb.debian.org/debian stretch/main amd64 xauth amd64 1:1.0.9-1+b2 [39.6 kB] Get:984 http://deb.debian.org/debian stretch/main amd64 r-base-dev all 3.3.3-1 [4402 B] Get:985 http://deb.debian.org/debian stretch/main amd64 r-bioc-limma amd64 3.30.8+dfsg-1 [1055 kB] Get:986 http://deb.debian.org/debian stretch/main amd64 r-bioc-edger amd64 3.14.0+dfsg-1 [543 kB] Get:987 http://deb.debian.org/debian stretch/main amd64 r-cran-lattice amd64 0.20-34-1 [713 kB] Get:988 http://deb.debian.org/debian stretch/main amd64 r-bioc-hilbertvis amd64 1.32.0-1 [972 kB] Get:989 http://deb.debian.org/debian stretch/main amd64 r-cran-boot all 1.3-18-2 [577 kB] Get:990 http://deb.debian.org/debian stretch/main amd64 r-cran-mass amd64 7.3-45-1 [1017 kB] Get:991 http://deb.debian.org/debian stretch/main amd64 r-cran-class amd64 7.3-14-1 [80.9 kB] Get:992 http://deb.debian.org/debian stretch/main amd64 r-cran-cluster amd64 2.0.5-1 [490 kB] Get:993 http://deb.debian.org/debian stretch/main amd64 r-cran-codetools all 0.2-15-1 [46.2 kB] Get:994 http://deb.debian.org/debian stretch/main amd64 r-cran-foreign amd64 0.8.67-1 [211 kB] Get:995 http://deb.debian.org/debian stretch/main amd64 r-cran-g.data all 2.4-1 [86.1 kB] Get:996 http://deb.debian.org/debian stretch/main amd64 r-cran-kernsmooth amd64 2.23-15-2 [81.7 kB] Get:997 http://deb.debian.org/debian stretch/main amd64 r-cran-matrix amd64 1.2-7.1-1 [2311 kB] Get:998 http://deb.debian.org/debian stretch/main amd64 r-cran-nlme amd64 3.1.129-1 [2042 kB] Get:999 http://deb.debian.org/debian stretch/main amd64 r-cran-mgcv amd64 1.8-16-1 [2106 kB] Get:1000 http://deb.debian.org/debian stretch/main amd64 r-cran-multicore amd64 0.2-1 [19.2 kB] Get:1001 http://deb.debian.org/debian stretch/main amd64 r-cran-nnet amd64 7.3-12-1 [96.9 kB] Get:1002 http://deb.debian.org/debian stretch/main amd64 r-cran-permute all 0.9-4-1 [493 kB] Get:1003 http://deb.debian.org/debian stretch/main amd64 r-cran-pvclust all 2.0-0-1 [147 kB] Get:1004 http://deb.debian.org/debian stretch/main amd64 r-cran-qtl amd64 1.40-8-1 [4201 kB] Get:1005 http://deb.debian.org/debian stretch/main amd64 r-cran-survival amd64 2.40-1-1 [4863 kB] Get:1006 http://deb.debian.org/debian stretch/main amd64 r-cran-rpart amd64 4.1-10-2 [861 kB] Get:1007 http://deb.debian.org/debian stretch/main amd64 r-cran-spatial amd64 7.3-11-1 [118 kB] Get:1008 http://deb.debian.org/debian stretch/main amd64 r-cran-vegan amd64 2.4-2-1 [2605 kB] Get:1009 http://deb.debian.org/debian stretch/main amd64 r-doc-html all 3.3.3-1 [551 kB] Get:1010 http://deb.debian.org/debian stretch/main amd64 r-other-mott-happy.hbrem amd64 2.4-1 [145 kB] Get:1011 http://deb.debian.org/debian stretch/main amd64 r-recommended all 3.3.3-1 [2706 B] Get:1012 http://deb.debian.org/debian stretch/main amd64 rubygems-integration all 1.11 [4994 B] Get:1013 http://deb.debian.org/debian stretch/main amd64 ruby-did-you-mean all 1.0.0-2 [11.2 kB] Get:1014 http://deb.debian.org/debian stretch/main amd64 ruby-minitest all 5.9.0-1 [51.1 kB] Get:1015 http://deb.debian.org/debian stretch/main amd64 ruby-net-telnet all 0.1.1-2 [12.5 kB] Get:1016 http://deb.debian.org/debian stretch/main amd64 ruby-power-assert all 0.3.0-1 [7902 B] Get:1017 http://deb.debian.org/debian stretch/main amd64 ruby-test-unit all 3.1.7-2 [69.6 kB] Get:1018 http://deb.debian.org/debian stretch/main amd64 libruby2.3 amd64 2.3.3-1+deb9u8 [3108 kB] Get:1019 http://deb.debian.org/debian stretch/main amd64 ruby2.3 amd64 2.3.3-1+deb9u8 [189 kB] Get:1020 http://deb.debian.org/debian stretch/main amd64 ruby amd64 1:2.3.3 [10.8 kB] Get:1021 http://deb.debian.org/debian stretch/main amd64 rake all 10.5.0-2+deb9u1 [49.7 kB] Get:1022 http://deb.debian.org/debian stretch/main amd64 raster3d amd64 3.0-3-2+b1 [168 kB] Get:1023 http://deb.debian.org/debian stretch/main amd64 raxml amd64 8.2.9+dfsg-1+b1 [1278 kB] Get:1024 http://deb.debian.org/debian stretch/main amd64 readseq amd64 1-11+b1 [56.1 kB] Get:1025 http://deb.debian.org/debian stretch/main amd64 rename all 0.20-4 [12.5 kB] Get:1026 http://deb.debian.org/debian stretch/main amd64 rnahybrid amd64 2.1.2-1+b1 [159 kB] Get:1027 http://deb.debian.org/debian stretch/main amd64 rtax all 0.984-5 [26.1 kB] Get:1028 http://deb.debian.org/debian stretch/main amd64 samtools amd64 1.3.1-3 [254 kB] Get:1029 http://deb.debian.org/debian stretch/main amd64 sibsim4 amd64 0.20-2+b1 [30.3 kB] Get:1030 http://deb.debian.org/debian stretch/main amd64 sigma-align amd64 1.1.3-4+b1 [24.3 kB] Get:1031 http://deb.debian.org/debian stretch/main amd64 sim4 amd64 0.0.20121010-4 [396 kB] Get:1032 http://deb.debian.org/debian stretch/main amd64 smalt amd64 0.7.6-6 [112 kB] Get:1033 http://deb.debian.org/debian stretch/main amd64 soapdenovo amd64 1.05-3 [343 kB] Get:1034 http://deb.debian.org/debian stretch/main amd64 soapdenovo2 amd64 240+dfsg1-2 [450 kB] Get:1035 http://deb.debian.org/debian stretch/main amd64 squizz amd64 0.99c+dfsg-1 [31.2 kB] Get:1036 http://deb.debian.org/debian stretch/main amd64 sra-toolkit amd64 2.8.1-2+dfsg-2 [1487 kB] Get:1037 http://deb.debian.org/debian stretch/main amd64 ssake all 3.8.4-1 [30.1 kB] Get:1038 http://deb.debian.org/debian stretch/main amd64 staden-io-lib-utils amd64 1.14.8-2 [250 kB] Get:1039 http://deb.debian.org/debian stretch/main amd64 t-coffee amd64 11.00.8cbe486-5 [1918 kB] Get:1040 http://deb.debian.org/debian stretch/main amd64 tabix amd64 1.3.2-2 [257 kB] Get:1041 http://deb.debian.org/debian stretch/main amd64 tcl8.6 amd64 8.6.6+dfsg-1+b1 [123 kB] Get:1042 http://deb.debian.org/debian stretch/main amd64 tcl amd64 8.6.0+9 [5468 B] Get:1043 http://deb.debian.org/debian stretch/main amd64 tcpd amd64 7.6.q-26 [23.3 kB] Get:1044 http://deb.debian.org/debian stretch/main amd64 tex-gyre all 20160520-1 [5000 kB] Get:1045 http://deb.debian.org/debian stretch/main amd64 texlive-extra-utils all 2016.20170123-5 [19.8 MB] Get:1046 http://deb.debian.org/debian stretch/main amd64 texlive-font-utils all 2016.20170123-5 [1736 kB] Get:1047 http://deb.debian.org/debian stretch/main amd64 fonts-stix all 1.1.1-4 [590 kB] Get:1048 http://deb.debian.org/debian stretch/main amd64 ttf-adf-accanthis all 0.20090423-2 [401 kB] Get:1049 http://deb.debian.org/debian stretch/main amd64 ttf-adf-gillius all 0.20090423-2 [400 kB] Get:1050 http://deb.debian.org/debian stretch/main amd64 ttf-adf-universalis all 0.20090423-2 [221 kB] Get:1051 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-extra all 2016.20170123-5 [256 MB] Get:1052 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-extra-doc all 2016.20170123-5 [82.5 MB] Get:1053 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-recommended all 2016.20170123-5 [5307 kB] Get:1054 http://deb.debian.org/debian stretch/main amd64 texlive-fonts-recommended-doc all 2016.20170123-5 [2660 kB] Get:1055 http://deb.debian.org/debian stretch/main amd64 texlive-generic-extra all 2016.20170123-5 [14.9 MB] Get:1056 http://deb.debian.org/debian stretch/main amd64 texlive-latex-base-doc all 2016.20170123-5 [45.6 MB] Get:1057 http://deb.debian.org/debian stretch/main amd64 texlive-latex-extra all 2016.20170123-5 [10.6 MB] Get:1058 http://deb.debian.org/debian stretch/main amd64 texlive-latex-extra-doc all 2016.20170123-5 [364 MB] Get:1059 http://deb.debian.org/debian stretch/main amd64 texlive-latex-recommended-doc all 2016.20170123-5 [40.6 MB] Get:1060 http://deb.debian.org/debian stretch/main amd64 texlive-pictures-doc all 2016.20170123-5 [105 MB] Get:1061 http://deb.debian.org/debian stretch/main amd64 texlive-pstricks-doc all 2016.20170123-5 [238 MB] Get:1062 http://deb.debian.org/debian stretch/main amd64 theseus amd64 3.3.0-5+b1 [432 kB] Get:1063 http://deb.debian.org/debian stretch/main amd64 tigr-glimmer amd64 3.02b-1 [283 kB] Get:1064 http://deb.debian.org/debian stretch/main amd64 tipa all 2:1.3-20 [2972 kB] Get:1065 http://deb.debian.org/debian stretch/main amd64 tk8.6 amd64 8.6.6-1+b1 [71.8 kB] Get:1066 http://deb.debian.org/debian stretch/main amd64 tk amd64 8.6.0+9 [5506 B] Get:1067 http://deb.debian.org/debian stretch/main amd64 tm-align amd64 20160521+dfsg-2 [868 kB] Get:1068 http://deb.debian.org/debian stretch/main amd64 tree-puzzle amd64 5.2-8+b3 [135 kB] Get:1069 http://deb.debian.org/debian stretch/main amd64 tree-puzzle-doc all 5.2-8 [401 kB] Get:1070 http://deb.debian.org/debian stretch/main amd64 velvet amd64 1.2.10+dfsg1-3+b1 [688 kB] Get:1071 http://deb.debian.org/debian stretch/main amd64 wise-data all 2.4.1-19 [108 kB] Get:1072 http://deb.debian.org/debian stretch/main amd64 wise amd64 2.4.1-19 [993 kB] Get:1073 http://deb.debian.org/debian stretch/main amd64 x11-xserver-utils amd64 7.7+7+b1 [167 kB] Get:1074 http://deb.debian.org/debian stretch/main amd64 xbitmaps all 1.1.1-2 [32.1 kB] Get:1075 http://deb.debian.org/debian stretch/main amd64 xdg-user-dirs amd64 0.15-2+b1 [52.2 kB] Get:1076 http://deb.debian.org/debian stretch/main amd64 xml-core all 0.17 [23.2 kB] Get:1077 http://deb.debian.org/debian stretch/main amd64 xterm amd64 327-2 [663 kB] Get:1078 http://deb.debian.org/debian stretch/main amd64 zalign amd64 0.9.1-2+b3 [48.6 kB] Get:1079 http://deb.debian.org/debian stretch/main amd64 acedb-other amd64 4.9.39+dfsg.02-1 [16.8 kB] Get:1080 http://deb.debian.org/debian stretch/main amd64 ampliconnoise amd64 1.29-6 [476 kB] Get:1081 http://deb.debian.org/debian stretch/main amd64 autodock-vina amd64 1.1.2-3+b6 [175 kB] Get:1082 http://deb.debian.org/debian stretch/main amd64 libeigen3-dev all 3.3.2-1 [839 kB] Get:1083 http://deb.debian.org/debian stretch/main amd64 cain-solvers amd64 1.10+dfsg-2 [1086 kB] Get:1084 http://deb.debian.org/debian stretch/main amd64 cain all 1.10+dfsg-2 [10.8 MB] Get:1085 http://deb.debian.org/debian stretch/main amd64 cain-examples all 1.10+dfsg-2 [170 kB] Get:1086 http://deb.debian.org/debian stretch/main amd64 concavity amd64 0.1+dfsg.1-1 [295 kB] Get:1087 http://deb.debian.org/debian stretch/main amd64 conservation-code all 20110309.0-5 [23.6 kB] Get:1088 http://deb.debian.org/debian stretch/main amd64 datamash amd64 1.0.7-1 [744 kB] Get:1089 http://deb.debian.org/debian stretch/main amd64 disulfinder-data all 1.2.11-6 [1129 kB] Get:1090 http://deb.debian.org/debian stretch/main amd64 disulfinder amd64 1.2.11-6 [261 kB] Get:1091 http://deb.debian.org/debian stretch/main amd64 fasttree amd64 2.1.9-1 [132 kB] Get:1092 http://deb.debian.org/debian stretch/main amd64 libffindex0 amd64 0.9.9.7-3 [16.7 kB] Get:1093 http://deb.debian.org/debian stretch/main amd64 ffindex amd64 0.9.9.7-3 [29.6 kB] Get:1094 http://deb.debian.org/debian stretch/main amd64 freecontact amd64 1.0.21-5 [335 kB] Get:1095 http://deb.debian.org/debian stretch/main amd64 gnupg-l10n all 2.1.18-8~deb9u4 [893 kB] Get:1096 http://deb.debian.org/debian stretch/main amd64 gromacs-data all 2016.1-2 [22.1 MB] Get:1097 http://deb.debian.org/debian stretch/main amd64 libgromacs2 amd64 2016.1-2 [11.3 MB] Get:1098 http://deb.debian.org/debian stretch/main amd64 gromacs amd64 2016.1-2 [234 kB] Get:1099 http://deb.debian.org/debian stretch/main amd64 hhsuite-data all 3.0~beta2+dfsg-3 [2164 kB] Get:1100 http://deb.debian.org/debian stretch/main amd64 hhsuite amd64 3.0~beta2+dfsg-3 [1005 kB] Get:1101 http://deb.debian.org/debian stretch/main amd64 libset-scalar-perl all 1.29-2 [31.4 kB] Get:1102 http://deb.debian.org/debian stretch/main amd64 libtxc-dxtn-s2tc amd64 1.0+git20151227-2 [48.4 kB] Get:1103 http://deb.debian.org/debian stretch/main amd64 lynx amd64 2.8.9dev11-1 [632 kB] Get:1104 http://deb.debian.org/debian stretch/main amd64 med-tasks all 3.0.1 [14.3 kB] Get:1105 http://deb.debian.org/debian stretch/main amd64 med-config all 3.0.1 [17.1 kB] Get:1106 http://deb.debian.org/debian stretch/main amd64 med-cloud all 3.0.1 [15.6 kB] Get:1107 http://deb.debian.org/debian stretch/main amd64 mpi-default-bin amd64 1.8 [4050 B] Get:1108 http://deb.debian.org/debian stretch/main amd64 neobio all 0.0.20030929-2 [291 kB] Get:1109 http://deb.debian.org/debian stretch/main amd64 publicsuffix all 20190415.1030-0+deb9u1 [108 kB] Get:1110 http://deb.debian.org/debian stretch/main amd64 pynast all 1.2.2-2 [83.5 kB] Get:1111 http://deb.debian.org/debian stretch/main amd64 python-cogent amd64 1.9-9 [1063 kB] Get:1112 http://deb.debian.org/debian stretch/main amd64 python-mpi4py amd64 2.0.0-2.1+deb9u1 [425 kB] Get:1113 http://deb.debian.org/debian stretch/main amd64 snap amd64 2013-11-29-6 [373 kB] Get:1114 http://deb.debian.org/debian stretch/main amd64 vcftools amd64 0.1.14+dfsg-4+deb9u1 [458 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2126 MB in 32s (65.1 MB/s) Selecting previously unselected 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Adding 'diversion of /usr/bin/perldoc to /usr/bin/perldoc.stub by perl-doc' Unpacking perl-doc (5.24.1-3+deb9u7) ... Selecting previously unselected package perl-tk. Preparing to unpack .../787-perl-tk_1%3a804.033-1+b3_amd64.deb ... Unpacking perl-tk (1:804.033-1+b3) ... Selecting previously unselected package perm. Preparing to unpack .../788-perm_0.4.0-2_amd64.deb ... Unpacking perm (0.4.0-2) ... Selecting previously unselected package phylip. Preparing to unpack .../789-phylip_1%3a3.696+dfsg-5_amd64.deb ... Unpacking phylip (1:3.696+dfsg-5) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../790-openmpi-common_2.0.2-2_all.deb ... Unpacking openmpi-common (2.0.2-2) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../791-openmpi-bin_2.0.2-2_amd64.deb ... Unpacking openmpi-bin (2.0.2-2) ... Selecting previously unselected package phyml. Preparing to unpack .../792-phyml_3%3a3.2.0+dfsg-7+b1_amd64.deb ... 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Setting up libdate-manip-perl (6.57-1) ... Setting up libio-string-perl (1.08-3) ... Setting up libmldbm-perl (2.05-2) ... Setting up libalgorithm-diff-perl (1.19.03-1) ... Setting up libfribidi0:amd64 (0.19.7-1+deb9u1) ... Setting up liblocale-gettext-perl (1.07-3+b1) ... Setting up probalign (1.4-5) ... Setting up libncbi-wvdb2 (2.8.1+dfsg-2) ... Setting up libclone-perl (0.38-2+b1) ... Setting up emboss-data (6.6.0+dfsg-6) ... Setting up ttf-bitstream-vera (1.10-8) ... Setting up libpciaccess0:amd64 (0.13.4-1+b2) ... Setting up libfftw3-single3:amd64 (3.3.5-3) ... Setting up python-sympy-doc (1.0-3) ... Setting up libpotrace0 (1.13-3) ... Setting up libclass-xsaccessor-perl (1.19-2+b7) ... Setting up libx11-protocol-perl (0.56-7) ... Setting up flexbar (2.50-2+b1) ... Setting up libxml-xpathengine-perl (0.13-1) ... Setting up libsensors4:amd64 (1:3.4.0-4) ... Setting up libxkbcommon0:amd64 (0.7.1-2~deb9u1) ... Setting up libpcrecpp0v5:amd64 (2:8.39-3) ... 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Setting up parsinsert (1.04-2) ... Setting up libpcre16-3:amd64 (2:8.39-3) ... Setting up libconvert-binary-c-perl (0.78-1+b1) ... Setting up libjsch-java (0.1.54-1) ... Setting up libtcl8.6:amd64 (8.6.6+dfsg-1+b1) ... Setting up libthai-data (0.1.26-1) ... Setting up liblzma-dev:amd64 (5.2.2-1.2+b1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up xml-core (0.17) ... Setting up javascript-common (11) ... Setting up libbcprov-java (1.56-1+deb9u2) ... Setting up ocl-icd-libopencl1:amd64 (2.2.11-1) ... Setting up tree-puzzle-doc (5.2-8) ... Setting up libgflags2v5 (2.1.2-4) ... Setting up libsquizz (0.99c+dfsg-1) ... Setting up fonts-gfs-artemisia (1.1-5) ... Setting up perm (0.4.0-2) ... Setting up libkeyutils1:amd64 (1.5.9-9) ... Setting up fonts-cmu (0.7.0-3) ... Setting up libdrm-nouveau2:amd64 (2.4.74-1) ... Setting up libreadline5:amd64 (5.2+dfsg-3+b1) ... Setting up seqan-apps (2.3.1+dfsg-4) ... Setting up gff2ps (0.98d-5) ... Setting up libsasl2-modules:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Setting up bc (1.06.95-9+b3) ... Setting up libconvert-binhex-perl (1.125-1) ... Setting up ttf-adf-universalis (0.20090423-2) ... Setting up libio-sessiondata-perl (1.03-1) ... Setting up libcommons-codec-java (1.10-1) ... Setting up libnl-3-200:amd64 (3.2.27-2) ... Setting up libpadwalker-perl (2.2-2+b1) ... Setting up fonts-dejavu-extra (2.37-1) ... Setting up fonts-freefont-ttf (20120503-6) ... Setting up ruby-minitest (5.9.0-1) ... Setting up libvorbis0a:amd64 (1.3.5-4+deb9u2) ... Setting up lynx-common (2.8.9dev11-1) ... Setting up x11-common (1:7.7+19) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libzzip-0-13:amd64 (0.13.62-3.2~deb9u1) ... Setting up fonts-sil-gentium (20081126:1.03-1) ... Setting up mustang (3.2.3-1) ... Setting up clustalw (2.1+lgpl-5) ... Setting up xdg-utils (1.1.1-1+deb9u2) ... Setting up libsub-name-perl (0.21-1) ... Setting up ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 126 added, 0 removed; done. Setting up libalgorithm-munkres-perl (0.08-3) ... Setting up manpages-dev (4.10-2) ... Setting up libyaml-libyaml-perl (0.63-2) ... Setting up hicolor-icon-theme (0.15-1) ... Setting up libc6-dev:amd64 (2.24-11+deb9u4) ... Setting up libpth20:amd64 (2.0.7-20+b2) ... Setting up cron (3.0pl1-128+deb9u1) ... Adding group `crontab' (GID 151) ... Done. update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libxpp3-java (1.1.4c-2) ... Setting up fonts-sil-gentium-basic (1.1-7) ... Setting up libpostscript-perl (0.06-2) ... Setting up libparams-classify-perl (0.013-6+b1) ... Setting up libassuan0:amd64 (2.4.3-2) ... Setting up libfcgi-perl (0.78-2) ... Setting up minia (1.6906-1+b2) ... Setting up lua-lpeg:amd64 (1.0.0-1) ... Setting up autodock (4.2.6-3+b1) ... ---------------------------------------------------------------------- ______ / \ / \ / \ \ /\ / \ / \ / \/ /\ \/ / \ /____\ AutoDock and AutoGrid are free software, distributed under the terms of the GNU General Public License 2 or later. This allows us to share the code and to be open for improvement from the whole scientific community. The development of the AutoDock suite is entirely funded by research grants. For that reason, we ask you to register at the AutoDock Registration page http://autodock.scripps.edu/downloads/autodock-registration in order to keep track of number of unique downloads, which we use to support the grant applications. Installing the Debian popularity-contest package is also encouraged. Thank you, and happy docking! The AutoDock Development Team If you plan to use AutoDock for commercial purposes we encourage donations to the Olson laboratory to help support further development of the AutoDock 4 suite of programs. Donation information provided on the download page. ---------------------------------------------------------------------- Setting up xdg-user-dirs (0.15-2+b1) ... Setting up libwww-robotrules-perl (6.01-1) ... Setting up libset-intspan-perl (1.19-1) ... Setting up libtexluajit2:amd64 (2016.20160513.41080.dfsg-2+deb9u1) ... Setting up fonts-gfs-olga (1.1-5) ... Setting up libxpp2-java (2.1.10-7) ... Setting up libcdt5 (2.38.0-17) ... Setting up libauthen-sasl-perl (2.1600-1) ... Setting up libdbi-perl (1.636-1+b1) ... Setting up libitm1:amd64 (6.3.0-18+deb9u1) ... Setting up gff2aplot (2.0-8+b1) ... Setting up libx11-data (2:1.6.4-3+deb9u1) ... Setting up libpython2.7-stdlib:amd64 (2.7.13-2+deb9u3) ... Setting up libhamcrest-java (1.3-6) ... Setting up libdata-stag-perl (0.14-2) ... 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Setting up libmath-random-mt-perl (1.17-1+b2) ... Setting up libmath-vecstat-perl (0.08-1) ... Setting up libdevel-symdump-perl (2.17-1) ... Setting up mafft (7.307-1) ... Setting up libio-stringy-perl (2.111-2) ... Setting up libatlas3-base (3.10.3-1+b1) ... update-alternatives: using /usr/lib/atlas-base/atlas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode update-alternatives: using /usr/lib/atlas-base/atlas/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up libhpdf-2.2.1 (2.2.1-1.1+b1) ... Setting up cd-hit (4.6.6-2) ... Setting up libipc-sharelite-perl (0.17-4) ... Setting up libsub-exporter-progressive-perl (0.001013-1) ... Setting up libtry-tiny-perl (0.28-1) ... Setting up libdata-dumper-simple-perl (0.11-5) ... Setting up libfile-slurp-tiny-perl (0.003-1) ... Setting up libpaper-utils (1.1.24+nmu5) ... Setting up libclass-method-modifiers-perl (2.12-1) ... Setting up libfont-afm-perl (1.20-2) ... 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Setting up libparse-recdescent-perl (1.967013+dfsg-1) ... Setting up bamtools (2.4.1+dfsg-1) ... Setting up libguava-java (19.0-1) ... Setting up libnss3:amd64 (2:3.26.2-1.1+deb9u1) ... Setting up libdigest-perl-md5-perl (1.9-1) ... Setting up libncbi-vdb2 (2.8.1+dfsg-2) ... Setting up libspreadsheet-writeexcel-perl (2.40-1) ... Setting up libharfbuzz0b:amd64 (1.4.2-1) ... Setting up glib-networking-services (2.50.0-1+deb9u1) ... Setting up libnl-route-3-200:amd64 (3.2.27-2) ... Setting up preview-latex-style (11.90-1) ... Setting up libthai0:amd64 (0.1.26-1) ... Setting up libtype-tiny-xs-perl (0.012-1+b2) ... Setting up libicu-dev (57.1-6+deb9u4) ... Setting up exim4-base (4.89-2+deb9u7) ... exim: DB upgrade, deleting hints-db Setting up libopenexr22:amd64 (2.2.0-11+b1) ... Setting up libjcode-pm-perl (2.06-1) ... Setting up file (1:5.30-1+deb9u3) ... Setting up fakeroot (1.21-3.1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up tcpd (7.6.q-26) ... Setting up libunicode-map-perl (0.112-11+b3) ... Setting up libyaml-tiny-perl (1.70-1) ... Setting up mapsembler2 (2.2.3+dfsg-3+b1) ... Setting up libhwloc5:amd64 (1.11.5-1) ... Setting up libkrb5support0:amd64 (1.15-1+deb9u1) ... Setting up libdevel-caller-perl (2.06-1+b4) ... Setting up libxml-writer-perl (0.625-1) ... Setting up libio-socket-ssl-perl (2.044-1) ... Setting up libmath-vec-perl (1.01-3) ... Setting up libcommons-dbcp-java (1.4-5) ... Setting up libterm-readkey-perl (2.37-1) ... Setting up libmbedtls-dev:amd64 (2.4.2-1+deb9u3) ... Setting up libstatistics-basic-perl (1.6611-1) ... Setting up gcc-6 (6.3.0-18+deb9u1) ... Setting up smalt (0.7.6-6) ... Setting up libio-all-perl (0.86-2) ... Setting up libjson-glib-1.0-0:amd64 (1.2.6-1) ... Setting up fsa (1.15.9+dfsg-3) ... 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Setting up libcolord2:amd64 (1.3.3-2) ... Setting up libjpeg62-turbo-dev:amd64 (1:1.5.1-2) ... Setting up libpng-dev:amd64 (1.6.28-1+deb9u1) ... Setting up dbus (1.10.32-0+deb9u1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libvorbisenc2:amd64 (1.3.5-4+deb9u2) ... Setting up gnupg-agent (2.1.18-8~deb9u4) ... Setting up libdbd-mysql-perl (4.041-2) ... Setting up altree (1.3.1-4+b2) ... Setting up libfile-mimeinfo-perl (0.27-1) ... Setting up libbio-perl-run-perl (1.7.1-3) ... Setting up python2.7-dev (2.7.13-2+deb9u3) ... Setting up libkyotocabinet16v5:amd64 (1.2.76-4.2+b1) ... Setting up libtree-dagnode-perl (1.29-1) ... Setting up libxcb1:amd64 (1.12-1) ... Setting up libwayland-cursor0:amd64 (1.12.0-1+deb9u1) ... Setting up lmodern (2.004.5-3) ... Setting up python (2.7.13-2) ... Setting up libqt4-xml:amd64 (4:4.8.7+dfsg-11) ... Setting up libole-storage-lite-perl (0.19-1+deb9u1) ... Setting up libpod-coverage-perl (0.23-1) ... Setting up libspreadsheet-parseexcel-perl (0.6500-1) ... Setting up python-gmpy (1.17-3) ... Setting up libxml-sax-perl (0.99+dfsg-2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up python-pyparsing (2.1.10+dfsg1-1) ... Setting up liblist-moreutils-perl (0.416-1+b1) ... Setting up libhtml-tableextract-perl (2.13-1) ... Setting up ssake (3.8.4-1) ... Setting up python3.5 (3.5.3-1+deb9u1) ... Setting up libdevel-lexalias-perl (0.05-1+b4) ... Setting up libpython3-stdlib:amd64 (3.5.3-1) ... Setting up libibverbs1 (1.2.1-2) ... Setting up libxcb-present0:amd64 (1.12-1) ... Setting up libpython-dev:amd64 (2.7.13-2) ... Setting up libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Setting up libfontconfig1:amd64 (2.11.0-6.7+b1) ... Setting up libstatistics-descriptive-perl (3.0612-1) ... Setting up libxcb-dri2-0:amd64 (1.12-1) ... Setting up libsm6:amd64 (2:1.2.2-1+b3) ... Setting up libxcb-dri3-0:amd64 (1.12-1) ... Setting up libk5crypto3:amd64 (1.15-1+deb9u1) ... Setting up libxcb-glx0:amd64 (1.12-1) ... Setting up gfortran-6 (6.3.0-18+deb9u1) ... Setting up python-functools32 (3.2.3.2-3) ... Setting up python-yaml (3.12-1) ... Setting up sigma-align (1.1.3-4+b1) ... Setting up mariadb-client-10.1 (10.1.45-0+deb9u1) ... Setting up libxcb-xfixes0:amd64 (1.12-1) ... Setting up parallel (20161222-1) ... Setting up libhttp-date-perl (6.02-1) ... Setting up python-simplegeneric (0.8.1-1) ... Setting up libxcb-render0:amd64 (1.12-1) ... Setting up libmath-spline-perl (0.02-1) ... Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up pynast (1.2.2-2) ... Setting up bowtie (1.1.2-6) ... Setting up libimport-into-perl (1.002005-1) ... Setting up libcache-cache-perl (1.08-2) ... Setting up discosnp (1.2.6-1+b2) ... Setting up libharfbuzz-icu0:amd64 (1.4.2-1) ... Setting up libmodule-implementation-perl (0.09-1) ... Setting up dconf-service (0.26.0-2+b1) ... Setting up python-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Setting up python-reportlab (3.3.0-2+deb9u1) ... Setting up libtype-tiny-perl (1.000005-1) ... Setting up libeigen3-dev (3.3.2-1) ... Setting up python-dev (2.7.13-2) ... Setting up libgromacs2 (2016.1-2) ... Setting up python-wxversion (3.0.2.0+dfsg-4) ... Setting up libpoppler64:amd64 (0.48.0-2+deb9u2) ... Setting up python-tz (2016.7-0.3) ... Setting up gnupg (2.1.18-8~deb9u4) ... Setting up libgnutls30:amd64 (3.5.8-5+deb9u5) ... Setting up libx11-6:amd64 (2:1.6.4-3+deb9u1) ... Setting up libgl1-mesa-dri:amd64 (13.0.6-1+b2) ... Setting up tcl (8.6.0+9) ... Setting up libcommons-logging-java (1.2-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-1+b1) ... Setting up librdmacm1 (1.1.0-2) ... Setting up gcc (4:6.3.0-4) ... Setting up libkdf5-2 (2.8.1+dfsg-2) ... Setting up python-pkg-resources (33.1.1-1) ... Setting up idba (1.1.3-1) ... Setting up sra-toolkit (2.8.1-2+dfsg-2) ... Setting up libxmuu1:amd64 (2:1.1.2-2) ... Setting up python-numpy (1:1.12.1-3) ... Setting up cython (0.25.2-1) ... Setting up bowtie2 (2.3.0-2) ... Setting up libcgi-fast-perl (1:2.12-1) ... Setting up libhtml-tree-perl (5.03-2) ... Setting up libparams-validate-perl (1.26-1) ... Setting up libxcb-sync1:amd64 (1.12-1) ... Setting up cain-solvers (1.10+dfsg-2) ... Setting up kissplice (2.4.0-p1-1) ... Setting up python-ipython-genutils (0.1.0-2) ... Setting up python-gobject-2 (2.28.6-13) ... Setting up libsndfile1:amd64 (1.0.27-3) ... Setting up python-six (1.10.0-3) ... Setting up python-wcwidth (0.1.7+dfsg1-1) ... Setting up python-pygments (2.2.0+dfsg-1) ... Setting up libcassie1v5 (1.0.5-1+b1) ... Setting up python-ptyprocess (0.5.1-1) ... Setting up libjpeg-dev (1:1.5.1-2) ... Setting up libdate-calc-perl (6.4-1) ... Setting up libldap-2.4-2:amd64 (2.4.44+dfsg-5+deb9u4) ... Setting up conservation-code (20110309.0-5) ... Setting up libxml-filter-buffertext-perl (1.01-5) ... Setting up python-enum34 (1.1.6-1) ... Setting up libace-perl (1.92-4+b1) ... Setting up bioperl-run (1.7.1-3) ... Setting up python-renderpm:amd64 (3.3.0-2+deb9u1) ... Setting up libfile-listing-perl (6.04-1) ... Setting up libxcomposite1:amd64 (1:0.4.4-2) ... Setting up libcommons-jexl2-java (2.1.1-3) ... Setting up libxcb-shm0:amd64 (1.12-1) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up macs (2.1.1.20160309-1) ... Setting up libxt6:amd64 (1:1.1.5-1) ... Setting up libxcb-shape0:amd64 (1.12-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libmoo-perl (2.002005-1) ... Setting up libhttp-message-perl (6.11-1) ... Setting up g++ (4:6.3.0-4) ... update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode Setting up libavahi-client3:amd64 (0.6.32-2) ... Setting up last-align (830-1) ... Setting up libkrb5-3:amd64 (1.15-1+deb9u1) ... Setting up python-decorator (4.0.11-1) ... Setting up libgts-bin (0.7.6+darcs121130-4) ... Setting up exim4-daemon-light (4.89-2+deb9u7) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Initializing GnuTLS DH parameter file Setting up tophat (2.1.1+dfsg-2+b2) ... Setting up libxml-libxml-perl (2.0128+dfsg-1+deb9u1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up python-subprocess32 (3.2.7-2) ... Setting up libxft2:amd64 (2.3.2-1+b2) ... Setting up python-pathlib2 (2.2.0+really2.1.0-1) ... Setting up python-traitlets (4.3.1-1) ... Setting up libxml-sax-writer-perl (0.56-1) ... Setting up dirmngr (2.1.18-8~deb9u4) ... Setting up dconf-gsettings-backend:amd64 (0.26.0-2+b1) ... Setting up liblist-someutils-perl (0.53-1) ... Setting up python-pil:amd64 (4.0.0-4+deb9u1) ... Setting up python-mpmath (0.19-3) ... Setting up libcommons-httpclient-java (3.1-12) ... Setting up libqtdbus4:amd64 (4:4.8.7+dfsg-11) ... Setting up isympy-common (1.0-3) ... Setting up default-mysql-client (1.0.2) ... Setting up libaudio2:amd64 (1.9.4-5+b1) ... Setting up fontconfig (2.11.0-6.7+b1) ... Regenerating fonts cache... done. Setting up giira (0.0.20140625-1) ... Setting up libhttp-negotiate-perl (6.00-2) ... Setting up aevol (4.4-1+b4) ... Setting up libaprutil1-ldap:amd64 (1.5.4-3) ... Setting up libegl1-mesa:amd64 (13.0.6-1+b2) ... Setting up lynx (2.8.9dev11-1) ... update-alternatives: using /usr/bin/lynx to provide /usr/bin/www-browser (www-browser) in auto mode Setting up gfortran (4:6.3.0-4) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libmailtools-perl (2.18-1) ... Setting up libsvg-graph-perl (0.02-2) ... Setting up libhtml-format-perl (2.12-1) ... Setting up python-networkx (1.11-2) ... Setting up python-biopython (1.68+dfsg-3) ... Setting up python-prompt-toolkit (1.0.9-1) ... Setting up python-chardet (2.3.0-2) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up libxfixes3:amd64 (1:5.0.3-1) ... Setting up python-scipy (0.18.1-2) ... Setting up gsettings-desktop-schemas (3.22.0-1) ... Setting up libhttp-cookies-perl (6.01-1) ... Setting up libfabric1 (1.4.0-1) ... Setting up libcommons-discovery-java (0.5-3) ... Setting up libblas-dev (3.7.0-2) ... update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode Setting up libgtk-3-common (3.22.11-1) ... Setting up build-essential (12.3) ... Setting up python-htseq (0.6.1p1-4) ... Setting up libatspi2.0-0:amd64 (2.22.0-6+deb9u1) ... Setting up gromacs (2016.1-2) ... Setting up libncbi6:amd64 (6.1.20170106+dfsg1-0+deb9u1) ... Setting up libxss1:amd64 (1:1.2.2-1) ... Setting up libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... Setting up libarray-compare-perl (3.0.0-1) ... Setting up ncbi-blast+ (2.6.0-1) ... Setting up libdate-calc-xs-perl (6.4-1+b2) ... Setting up apache2-bin (2.4.25-3+deb9u9) ... Setting up libgd3:amd64 (2.2.4-2+deb9u5) ... Setting up libhttp-daemon-perl (6.01-1) ... Setting up python-pexpect (4.2.1-1) ... Setting up libgd-perl (2.53-3) ... Setting up python-cycler (0.10.0-1) ... Setting up libxmu6:amd64 (2:1.1.2-2) ... Setting up qdbus (4:4.8.7+dfsg-11) ... Setting up libgssapi-krb5-2:amd64 (1.15-1+deb9u1) ... Setting up xauth (1:1.0.9-1+b2) ... Setting up libhtsjdk-java (2.8.1+dfsg-1) ... Setting up python-dateutil (2.5.3-2) ... Setting up python-imaging (4.0.0-4+deb9u1) ... Setting up fonts-sil-gentiumplus-compact (5.000-2) ... Setting up cassiopee (1.0.5-1+b1) ... Setting up libxml-simple-perl (2.22-1) ... Setting up gtk-update-icon-cache (3.22.11-1) ... Setting up libxcursor1:amd64 (1:1.1.14-1+deb9u2) ... Setting up python-pickleshare (0.7.4-1) ... Setting up libpq5:amd64 (9.6.17-0+deb9u1) ... Setting up libelk0 (3.99.8-4.1+b1) ... Setting up libxxf86dga1:amd64 (2:1.1.4-1+b3) ... Setting up libxml-libxslt-perl (1.95-1+b1) ... Setting up exim4 (4.89-2+deb9u7) ... Setting up glib-networking:amd64 (2.50.0-1+deb9u1) ... Setting up perl-tk (1:804.033-1+b3) ... Setting up libpango-1.0-0:amd64 (1.40.5-1) ... Setting up emboss-lib (6.6.0+dfsg-6) ... Setting up libwayland-egl1-mesa:amd64 (13.0.6-1+b2) ... Setting up libatk-bridge2.0-0:amd64 (2.22.0-2) ... Setting up libhtml-form-perl (6.03-1) ... Setting up liblist-allutils-perl (0.12-1) ... Setting up libxv1:amd64 (2:1.0.11-1) ... Setting up embassy-domalign (0.1.660-1) ... Setting up embassy-domainatrix (0.1.660-1) ... Setting up libopenmpi2:amd64 (2.0.2-2) ... Setting up libaxis-java (1.4-25) ... Setting up fonts-sil-gentiumplus (5.000-1) ... Setting up python-sympy (1.0-3) ... Setting up libpicard-java (2.8.1+dfsg-1) ... Setting up libgd-text-perl (0.86-9) ... Setting up pdb2pqr (2.1.1+dfsg-2) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b2) ... Setting up libqt4-dbus:amd64 (4:4.8.7+dfsg-11) ... Setting up beignet-opencl-icd:amd64 (1.3.0-4) ... Setting up embassy-domsearch (1:0.1.660-1) ... Setting up libwmf0.2-7:amd64 (0.2.8.4-10.6) ... Setting up libxrandr2:amd64 (2:1.5.1-1) ... Setting up libcups2:amd64 (2.2.1-8+deb9u6) ... Setting up libg20 (0.72-6) ... Setting up libmime-tools-perl (5.508-1) ... Setting up circos (0.69.4+dfsg-1) ... Setting up libxi6:amd64 (2:1.7.9-1) ... Setting up liblapack-dev (3.7.0-2) ... update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode Setting up libgsasl7 (1.8.0-8+b2) ... Setting up libxaw7:amd64 (2:1.0.13-1+b2) ... Setting up libmailutils5:amd64 (1:3.1.1-1) ... Setting up ncbi-blast+-legacy (2.6.0-1) ... Setting up libcairo2:amd64 (1.14.8-1) ... Setting up libnotify4:amd64 (0.7.7-2) ... Setting up readseq (1-11+b1) ... Setting up libboost-mpi1.62.0 (1.62.0+dfsg-4) ... Setting up abyss (2.0.2-2) ... Setting up libxinerama1:amd64 (2:1.1.3-1+b3) ... Setting up libqtgui4:amd64 (4:4.8.7+dfsg-11) ... Setting up libjets3t-java (0.8.1+dfsg-3) ... Setting up qt-at-spi:amd64 (0.4.0-5) ... Setting up libmagickcore-6.q16-3:amd64 (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up libxdamage1:amd64 (1:1.1.4-2+b3) ... Setting up prime-phylo (1.0.11-4+b3) ... Setting up ncbi-tools-bin (6.1.20170106+dfsg1-0+deb9u1) ... Setting up libcurl3:amd64 (7.52.1-5+deb9u10) ... Setting up libcurl3-gnutls:amd64 (7.52.1-5+deb9u10) ... Setting up clonalframe (1.2-5) ... Setting up python-ipython (5.1.0-3) ... Setting up libtk8.6:amd64 (8.6.6-1+b1) ... Setting up ffindex (0.9.9.7-3) ... Setting up blast2 (1:2.6.0-1) ... Setting up libcairo-gobject2:amd64 (1.14.8-1) ... Setting up libanfo0 (0.98-5) ... Setting up libsoup2.4-1:amd64 (2.56.0-2+deb9u2) ... Setting up ipython (5.1.0-3) ... Setting up rnahybrid (2.1.2-1+b1) ... Setting up libsoup-gnome2.4-1:amd64 (2.56.0-2+deb9u2) ... Setting up libhmsbeagle1v5 (2.1.2+20160831-5) ... Setting up zalign (0.9.1-2+b3) ... Setting up libdbd-pg-perl (3.5.3-1+b2) ... Setting up xterm (327-2) ... update-alternatives: using /usr/bin/xterm to provide /usr/bin/x-terminal-emulator (x-terminal-emulator) in auto mode update-alternatives: using /usr/bin/lxterm to provide /usr/bin/x-terminal-emulator (x-terminal-emulator) in auto mode Setting up mailutils (1:3.1.1-1) ... update-alternatives: using /usr/bin/frm.mailutils to provide /usr/bin/frm (frm) in auto mode update-alternatives: using /usr/bin/from.mailutils to provide /usr/bin/from (from) in auto mode update-alternatives: using /usr/bin/messages.mailutils to provide /usr/bin/messages (messages) in auto mode update-alternatives: using /usr/bin/movemail.mailutils to provide /usr/bin/movemail (movemail) in auto mode update-alternatives: using /usr/bin/readmsg.mailutils to provide /usr/bin/readmsg (readmsg) in auto mode update-alternatives: using /usr/bin/dotlock.mailutils to provide /usr/bin/dotlock (dotlock) in auto mode update-alternatives: using /usr/bin/mail.mailutils to provide /usr/bin/mailx (mailx) in auto mode Setting up openmpi-bin (2.0.2-2) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode Setting up libxtst6:amd64 (2:1.2.3-1) ... Setting up libpangoft2-1.0-0:amd64 (1.40.5-1) ... Setting up libcupsimage2:amd64 (2.2.1-8+deb9u6) ... Setting up ampliconnoise (1.29-6) ... Setting up circos-tools (0.22-1) ... Setting up libgd-graph-perl (1.48-2) ... Setting up libgl1-mesa-glx:amd64 (13.0.6-1+b2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-3) ... Setting up emboss (6.6.0+dfsg-6) ... Setting up libmagickwand-6.q16-3:amd64 (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up python-cairo (1.8.8-2.2) ... Setting up x11-xserver-utils (7.7+7+b1) ... Setting up phyml (3:3.2.0+dfsg-7+b1) ... Setting up tabix (1.3.2-2) ... Setting up libglu1-mesa:amd64 (9.0.0-2.1) ... Setting up isympy (1.0-3) ... Setting up librest-0.7-0:amd64 (0.8.0-2) ... Setting up libgs9:amd64 (9.26a~dfsg-0+deb9u6) ... Setting up fastx-toolkit (0.0.14-3) ... Setting up blt (2.5.3+dfsg-3) ... Setting up mpi-default-bin (1.8) ... Setting up libhts1:amd64 (1.3.2-2) ... Setting up libxerces-c3.1:amd64 (3.1.4+debian-2+deb9u1) ... Setting up libstaden-read11:amd64 (1.14.8-2) ... Setting up anfo (0.98-5) ... Setting up hyphy-mpi (2.2.7+dfsg-1+b2) ... Setting up tk8.6 (8.6.6-1+b1) ... Setting up hhsuite (3.0~beta2+dfsg-3) ... Setting up mrbayes (3.2.6+dfsg-1+b4) ... Setting up python-pysam (0.10.0+ds-2) ... Setting up at-spi2-core (2.22.0-6+deb9u1) ... Setting up x11-utils (7.7+3+b1) ... Setting up imagemagick-6.q16 (8:6.9.7.4+dfsg-11+deb9u8) ... update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare (compare) in auto mode update-alternatives: using /usr/bin/compare-im6.q16 to provide /usr/bin/compare-im6 (compare-im6) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate (animate) in auto mode update-alternatives: using /usr/bin/animate-im6.q16 to provide /usr/bin/animate-im6 (animate-im6) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert (convert) in auto mode update-alternatives: using /usr/bin/convert-im6.q16 to provide /usr/bin/convert-im6 (convert-im6) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite (composite) in auto mode update-alternatives: using /usr/bin/composite-im6.q16 to provide /usr/bin/composite-im6 (composite-im6) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure (conjure) in auto mode update-alternatives: using /usr/bin/conjure-im6.q16 to provide /usr/bin/conjure-im6 (conjure-im6) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import (import) in auto mode update-alternatives: using /usr/bin/import-im6.q16 to provide /usr/bin/import-im6 (import-im6) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify (identify) in auto mode update-alternatives: using /usr/bin/identify-im6.q16 to provide /usr/bin/identify-im6 (identify-im6) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream (stream) in auto mode update-alternatives: using /usr/bin/stream-im6.q16 to provide /usr/bin/stream-im6 (stream-im6) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display (display) in auto mode update-alternatives: using /usr/bin/display-im6.q16 to provide /usr/bin/display-im6 (display-im6) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage (montage) in auto mode update-alternatives: using /usr/bin/montage-im6.q16 to provide /usr/bin/montage-im6 (montage-im6) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify (mogrify) in auto mode update-alternatives: using /usr/bin/mogrify-im6.q16 to provide /usr/bin/mogrify-im6 (mogrify-im6) in auto mode Setting up libpangocairo-1.0-0:amd64 (1.40.5-1) ... Setting up freecontact (1.0.21-5) ... Setting up ghostscript (9.26a~dfsg-0+deb9u6) ... Setting up fitgcp (0.0.20150429-1) ... Setting up texlive-binaries (2016.20160513.41080.dfsg-2+deb9u1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up libpulse0:amd64 (10.0-1+deb9u1) ... Setting up staden-io-lib-utils (1.14.8-2) ... Setting up libcupsfilters1:amd64 (1.11.6-3+deb9u1) ... Setting up genometools-common (1.5.9+ds-4) ... Setting up tk (8.6.0+9) ... Setting up libmagickcore-6.q16-3-extra:amd64 (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up imagemagick (8:6.9.7.4+dfsg-11+deb9u8) ... Setting up ps2eps (1.68+binaryfree-2) ... Setting up samtools (1.3.1-3) ... Setting up python-tk (2.7.13-1) ... Setting up libatk-wrapper-java (0.33.3-13+deb9u1) ... Setting up python-mpi4py (2.0.0-2.1+deb9u1) ... Setting up libgvc6 (2.38.0-17) ... Setting up librsvg2-2:amd64 (2.40.16-1+b1) ... Setting up raster3d (3.0-3-2+b1) ... Setting up r-base-core (3.3.3-1) ... Creating config file /etc/R/Renviron with new version Setting up genometools (1.5.9+ds-4) ... Setting up r-cran-nnet (7.3-12-1) ... Setting up r-base-dev (3.3.3-1) ... Setting up librsvg2-common:amd64 (2.40.16-1+b1) ... Setting up r-cran-qtl (1.40-8-1) ... Setting up r-cran-spatial (7.3-11-1) ... Setting up r-cran-mass (7.3-45-1) ... Setting up r-cran-multicore (0.2-1) ... Setting up r-bioc-limma (3.30.8+dfsg-1) ... Setting up r-bioc-edger (3.14.0+dfsg-1) ... Setting up r-cran-cluster (2.0.5-1) ... Setting up r-cran-g.data (2.4-1) ... Setting up adwaita-icon-theme (3.22.0-1+deb9u1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up graphviz (2.38.0-17) ... Setting up r-cran-pvclust (2.0-0-1) ... Setting up r-cran-boot (1.3-18-2) ... Setting up libgtk2.0-0:amd64 (2.24.31-2) ... Setting up libgail18:amd64 (2.24.31-2) ... Setting up r-cran-codetools (0.2-15-1) ... Setting up r-cran-lattice (0.20-34-1) ... Setting up r-cran-nlme (3.1.129-1) ... Setting up python-gtk2 (2.24.0-5.1) ... Setting up r-cran-foreign (0.8.67-1) ... Setting up r-cran-class (7.3-14-1) ... Setting up python-matplotlib (2.0.0+dfsg1-2) ... Setting up python-pyglet (1.1.4.dfsg-3) ... Setting up r-cran-kernsmooth (2.23-15-2) ... Setting up python-cogent (1.9-9) ... Setting up libwxgtk3.0-0v5:amd64 (3.0.2+dfsg-4) ... Setting up libgail-common:amd64 (2.24.31-2) ... Setting up r-other-mott-happy.hbrem (2.4-1) ... Setting up gnome-icon-theme (3.12.0-2) ... update-alternatives: using /usr/share/icons/gnome/scalable/places/debian-swirl.svg to provide /usr/share/icons/gnome/scalable/places/start-here.svg (start-here.svg) in auto mode Setting up libgtk-3-0:amd64 (3.22.11-1) ... Setting up arden (1.0-3) ... Setting up libglade2-0:amd64 (1:2.6.4-2) ... Setting up libgtk-3-bin (3.22.11-1) ... Setting up libatk-wrapper-java-jni:amd64 (0.33.3-13+deb9u1) ... Setting up python-glade2 (2.24.0-5.1) ... Setting up r-bioc-hilbertvis (1.32.0-1) ... Setting up notification-daemon (3.20.0-1+b1) ... Setting up gasic (0.0.r19-1) ... Setting up python-pygraphviz (1.4~rc1-1) ... Setting up libgtk2.0-bin (2.24.31-2) ... Setting up r-cran-matrix (1.2-7.1-1) ... Setting up python-wxgtk3.0 (3.0.2.0+dfsg-4) ... update-alternatives: using /usr/lib/wx/python/wx3.0.pth to provide /usr/lib/wx/python/wx.pth (wx.pth) in auto mode Setting up r-cran-mgcv (1.8-16-1) ... Setting up r-cran-survival (2.40-1-1) ... Setting up cain (1.10+dfsg-2) ... Setting up cain-examples (1.10+dfsg-2) ... Setting up r-cran-vegan (2.4-2-1) ... Setting up r-cran-rpart (4.1-10-2) ... Setting up r-recommended (3.3.3-1) ... Processing triggers for tex-common (6.06) ... texlive-base is not ready, delaying updmap-sys call update-language: texlive-base not installed and configured, doing nothing! texlive-base is not ready, skipping fmtutil --all call Setting up dvipng (1.14-2+b3) ... Setting up texlive-base (2016.20170123-5) ... /usr/bin/tl-paper: setting paper size for dvips to a4. /usr/bin/tl-paper: setting paper size for dvipdfmx to a4. /usr/bin/tl-paper: setting paper size for xdvi to a4. /usr/bin/tl-paper: setting paper size for pdftex to a4. Processing triggers for tex-common (6.06) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Setting up texlive-fonts-recommended-doc (2016.20170123-5) ... Setting up texlive-fonts-recommended (2016.20170123-5) ... Setting up texlive-generic-recommended (2016.20170123-5) ... Setting up texlive-latex-base (2016.20170123-5) ... Setting up texlive-latex-base-doc (2016.20170123-5) ... Setting up texlive-fonts-extra-doc (2016.20170123-5) ... Setting up texlive-fonts-extra (2016.20170123-5) ... Setting up texlive-pictures-doc (2016.20170123-5) ... Setting up texlive-pstricks-doc (2016.20170123-5) ... Setting up texlive-font-utils (2016.20170123-5) ... Setting up texlive-latex-extra-doc (2016.20170123-5) ... Setting up texlive-generic-extra (2016.20170123-5) ... Setting up texlive-latex-recommended-doc (2016.20170123-5) ... Processing triggers for tex-common (6.06) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Setting up texlive-latex-recommended (2016.20170123-5) ... Setting up texlive-extra-utils (2016.20170123-5) ... Setting up texlive-pictures (2016.20170123-5) ... Setting up tipa (2:1.3-20) ... Regenerating '/var/lib/texmf/fmtutil.cnf-DEBIAN'... done. Regenerating '/var/lib/texmf/fmtutil.cnf-TEXLIVEDIST'... done. update-fmtutil has updated the following file(s): /var/lib/texmf/fmtutil.cnf-DEBIAN /var/lib/texmf/fmtutil.cnf-TEXLIVEDIST If you want to activate the changes in the above file(s), you should run fmtutil-sys or fmtutil. Processing triggers for menu (2.1.47+b1) ... Setting up blends-common (0.6.96) ... Setting up med-config (3.0.1) ... Adding group `med' (GID 154) ... Done. Processing triggers for tex-common (6.06) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. Setting up texlive-pstricks (2016.20170123-5) ... Setting up texlive-latex-extra (2016.20170123-5) ... Setting up prosper (1.00.4+cvs.2007.05.01-4.1) ... Processing triggers for tex-common (6.06) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Setting up liblwp-protocol-https-perl (6.06-2) ... Setting up tasksel-data (3.39) ... Setting up libruby2.3:amd64 (2.3.3-1+deb9u8) ... Setting up tasksel (3.39) ... Setting up libwww-perl (6.15-1) ... Setting up openjdk-8-jre-headless:amd64 (8u252-b09-1~deb9u1) ... update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/jjs to provide /usr/bin/jjs (jjs) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/orbd to provide /usr/bin/orbd (orbd) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/servertool to provide /usr/bin/servertool (servertool) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/tnameserv to provide /usr/bin/tnameserv (tnameserv) in auto mode update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up ca-certificates-java (20170929~deb9u3) ... Adding debian:emSign_Root_CA_-_G1.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G3.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:Trustis_FPS_Root_CA.pem Adding debian:TrustCor_RootCert_CA-2.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Taiwan_GRCA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G3.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G2.pem Adding debian:Staat_der_Nederlanden_EV_Root_CA.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Secure_Global_CA.pem Adding debian:SecureTrust_CA.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GA_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:LuxTrust_Global_Root_2.pem Adding debian:Izenpe.com.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:ISRG_Root_X1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GeoTrust_Universal_CA_2.pem Adding debian:GTS_Root_R4.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R1.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:EE_Certification_Centre_Root_CA.pem Adding debian:EC-ACC.pem Adding debian:E-Tugra_Certification_Authority.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DST_Root_CA_X3.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certigna.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:ACCVRAIZ1.pem done. Setting up med-tasks (3.0.1) ... Setting up med-cloud (3.0.1) ... Setting up libapache2-mod-perl2 (2.0.10-2+deb9u1) ... Setting up python3 (3.5.3-1) ... Setting up python3-numpy (1:1.12.1-3) ... Setting up ruby2.3 (2.3.3-1+deb9u8) ... Setting up openjdk-8-jre:amd64 (8u252-b09-1~deb9u1) ... update-alternatives: using /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/policytool to provide /usr/bin/policytool (policytool) in auto mode Setting up ant (1.9.9-1+deb9u1) ... Setting up junit4 (4.12-4) ... Setting up libxml-parser-perl (2.44-2+b1) ... Setting up libapache2-reload-perl (0.13-1) ... Setting up python3-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Setting up ruby (1:2.3.3) ... Setting up dh-python (2.20170125) ... Setting up picard-tools (2.8.1+dfsg-1) ... Setting up libxml-sax-expat-perl (0.40-2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::Expat with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up python3-renderpm:amd64 (3.3.0-2+deb9u1) ... Setting up default-jre-headless (2:1.8-58+deb9u1) ... Setting up libapache-dbi-perl (1.12-1) ... Setting up python3-pil:amd64 (4.0.0-4+deb9u1) ... Setting up libxml-twig-perl (1:3.50-1) ... Setting up fastqc (0.11.5+dfsg-6) ... Setting up libsoap-lite-perl (1.20-1) ... Setting up default-jre (2:1.8-58+deb9u1) ... Setting up rake (10.5.0-2+deb9u1) ... Setting up ant-optional (1.9.9-1+deb9u1) ... Setting up libxml-xpath-perl (1.40-1) ... Setting up neobio (0.0.20030929-2) ... Setting up libnet-dbus-perl (1.1.0-4+b1) ... Setting up libxml-perl (0.08-2) ... Setting up libmsv-java (2009.1+dfsg1-5) ... Setting up python3-reportlab (3.3.0-2+deb9u1) ... Setting up libxmlrpc-lite-perl (0.717-1) ... Setting up ant-contrib (1.0~b3+svn177-9) ... Setting up libxml-dom-perl (1.44-2) ... Setting up python3-biopython (1.68+dfsg-3) ... Setting up libgraphviz-perl (2.22-1) ... Setting up libdom4j-java (1.6.1+dfsg.3-2+deb9u1) ... Setting up libbytecode-java (0.92.svn.20090106-2) ... Setting up mipe (1.1-5) ... Setting up libbiojava1.7-java (1:1.7.1-5) ... Setting up libsaxonhe-java (9.5.1.1+dfsg-2) ... Setting up libxml-dom-xpath-perl (0.14-2) ... Setting up biomaj (1.2.3-11) ... Setting up libbiojava-java (1:1.7.1-5) ... Setting up alien-hunter (1.7-5) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Processing triggers for sgml-base (1.29) ... Processing triggers for ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. done. Processing triggers for libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... Processing triggers for menu (2.1.47+b1) ... 6m51.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', '-y', 'install', 'med-cloud=3.0.1'] 6m51.1s INFO: Running scripts post_install 6m51.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_install_exceptions'] 6m51.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_install_exceptions'] 6m51.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 6m57.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 7m13.1s ERROR: WARN: Broken symlinks: /usr/share/doc/circos/orderchr.html -> /tools/orderchr/doc/orderchr.html (circos-tools) /usr/share/doc/circos/filterlinks.html -> /tools/filterlinks/doc/filterlinks.html (circos-tools) /usr/share/doc/circos/bundlelinks.html -> /tools/bundlelinks/doc/bundlelinks.html (circos-tools) /usr/share/doc/circos/README.tableviewer -> /tools/tableviewer/README (circos-tools) /usr/lib/debug/usr/lib/jvm/java-1.8.0-openjdk-amd64 -> java-8-openjdk-amd64 (openjdk-8-jre-headless:amd64) 7m24.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', '-ac', '--ignore-obsolete'] 7m47.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', '-ac', '--ignore-obsolete'] 7m47.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 7m47.1s DUMP: 0.15.6 7m47.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 7m47.1s INFO: Running adequate version 0.15.6 now. 7m47.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'med-cloud'] 7m47.3s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'med-cloud'] 7m47.3s INFO: Running scripts pre_remove 7m47.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 7m47.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 7m47.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 7m47.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 7m47.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 9m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 9m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 9m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 9m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 9m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 9m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_exceptions'] 9m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/pre_remove_exceptions'] 9m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 9m4.1s DUMP: install ok installed abyss abyss 2.0.2-2 install ok installed acedb-other acedb-other 4.9.39+dfsg.02-1 install ok installed adduser adduser 3.115 install ok installed adwaita-icon-theme adwaita-icon-theme 3.22.0-1+deb9u1 install ok installed aevol aevol 4.4-1+b4 install ok installed alien-hunter alien-hunter 1.7-5 install ok installed altree altree 1.3.1-4+b2 install ok installed amap-align amap-align 2.2-6 install ok installed ampliconnoise ampliconnoise 1.29-6 install ok installed anfo anfo 0.98-5 install ok installed ant ant 1.9.9-1+deb9u1 install ok installed ant-contrib ant-contrib 1.0~b3+svn177-9 install ok installed ant-optional ant-optional 1.9.9-1+deb9u1 install ok installed apache2-bin apache2-bin 2.4.25-3+deb9u9 install ok installed apt apt 1.4.10 install ok installed aragorn aragorn 1.2.38-1 install ok installed arden arden 1.0-3 install ok installed at-spi2-core at-spi2-core 2.22.0-6+deb9u1 install ok installed autodock autodock 4.2.6-3+b1 install ok installed autodock-vina autodock-vina 1.1.2-3+b6 install ok installed autogrid autogrid 4.2.6-3+b1 install ok installed autotools-dev autotools-dev 20161112.1 install ok installed bamtools bamtools 2.4.1+dfsg-1 install ok installed base-files base-files 9.9+deb9u13 install ok installed base-passwd base-passwd 3.5.43 install ok installed bash bash 4.4-5 install ok installed bc bc 1.06.95-9+b3 install ok installed bedtools bedtools 2.26.0+dfsg-3 install ok installed beignet-opencl-icd:amd64 beignet-opencl-icd 1.3.0-4 install ok installed binutils binutils 2.28-5 install ok installed biomaj biomaj 1.2.3-11 install ok installed bioperl bioperl 1.7.1-2 install ok installed bioperl-run bioperl-run 1.7.1-3 install ok installed biosquid biosquid 1.9g+cvs20050121-7 install ok installed blast2 blast2 1:2.6.0-1 install ok installed blends-common blends-common 0.6.96 install ok installed blt blt 2.5.3+dfsg-3 install ok installed bowtie bowtie 1.1.2-6 install ok installed bowtie2 bowtie2 2.3.0-2 install ok installed boxshade boxshade 3.3.1-10 install ok installed bsdutils bsdutils 1:2.29.2-1+deb9u1 install ok installed build-essential build-essential 12.3 install ok installed bwa bwa 0.7.15-2+deb9u1 install ok installed bzip2 bzip2 1.0.6-8.1 install ok installed bzip2-doc bzip2-doc 1.0.6-8.1 install ok installed ca-certificates ca-certificates 20200601~deb9u1 install ok installed ca-certificates-java ca-certificates-java 20170929~deb9u3 install ok installed cain cain 1.10+dfsg-2 install ok installed cain-examples cain-examples 1.10+dfsg-2 install ok installed cain-solvers cain-solvers 1.10+dfsg-2 install ok installed cassiopee cassiopee 1.0.5-1+b1 install ok installed cd-hit cd-hit 4.6.6-2 install ok installed cdbfasta cdbfasta 0.99-20100722-3 install ok installed cdbs cdbs 0.4.150 install ok installed circos circos 0.69.4+dfsg-1 install ok installed circos-tools circos-tools 0.22-1 install ok installed clearcut clearcut 1.0.9-1+b1 install ok installed clonalframe clonalframe 1.2-5 install ok installed clustalo clustalo 1.2.4-1 install ok installed clustalw clustalw 2.1+lgpl-5 install ok installed concavity concavity 0.1+dfsg.1-1 install ok installed conservation-code conservation-code 20110309.0-5 install ok installed coreutils coreutils 8.26-3 install ok installed cpp cpp 4:6.3.0-4 install ok installed cpp-6 cpp-6 6.3.0-18+deb9u1 install ok installed cron cron 3.0pl1-128+deb9u1 install ok installed cython cython 0.25.2-1 install ok installed dash dash 0.5.8-2.4 install ok installed datamash datamash 1.0.7-1 install ok installed dbus dbus 1.10.32-0+deb9u1 install ok installed dconf-gsettings-backend:amd64 dconf-gsettings-backend 0.26.0-2+b1 install ok installed dconf-service dconf-service 0.26.0-2+b1 install ok installed debconf debconf 1.5.61 install ok installed debian-archive-keyring debian-archive-keyring 2017.5+deb9u1 install ok installed debianutils debianutils 4.8.1.1 install ok installed default-jre default-jre 2:1.8-58+deb9u1 install ok installed default-jre-headless default-jre-headless 2:1.8-58+deb9u1 install ok installed default-mysql-client default-mysql-client 1.0.2 install ok installed dh-python dh-python 2.20170125 install ok installed dialign dialign 2.2.1-8 install ok installed dialign-tx dialign-tx 1.0.2-9 install ok installed dialign-tx-data dialign-tx-data 1.0.2-9 install ok installed diffutils diffutils 1:3.5-3 install ok installed dirmngr dirmngr 2.1.18-8~deb9u4 install ok installed discosnp discosnp 1.2.6-1+b2 install ok installed disulfinder disulfinder 1.2.11-6 install ok installed disulfinder-data disulfinder-data 1.2.11-6 install ok installed dmidecode dmidecode 3.0-4 install ok installed dnaclust dnaclust 3-4+b2 install ok installed dpkg dpkg 1.18.25 install ok installed dpkg-dev dpkg-dev 1.18.25 install ok installed dssp dssp 2.2.1-3+b2 install ok installed dvipng dvipng 1.14-2+b3 install ok installed e2fslibs:amd64 e2fslibs 1.43.4-2+deb9u1 install ok installed e2fsprogs e2fsprogs 1.43.4-2+deb9u1 install ok installed embassy-domainatrix embassy-domainatrix 0.1.660-1 install ok installed embassy-domalign embassy-domalign 0.1.660-1 install ok installed embassy-domsearch embassy-domsearch 1:0.1.660-1 install ok installed emboss emboss 6.6.0+dfsg-6 install ok installed emboss-data emboss-data 6.6.0+dfsg-6 install ok installed emboss-lib emboss-lib 6.6.0+dfsg-6 install ok installed exim4 exim4 4.89-2+deb9u7 install ok installed exim4-base exim4-base 4.89-2+deb9u7 install ok installed exim4-config exim4-config 4.89-2+deb9u7 install ok installed exim4-daemon-light exim4-daemon-light 4.89-2+deb9u7 install ok installed exonerate exonerate 2.4.0-2 install ok installed fakeroot fakeroot 1.21-3.1 install ok installed fastdnaml fastdnaml 1.2.2-11+b1 install ok installed fastlink fastlink 4.1P-fix100+dfsg-1+b1 install ok installed fastqc fastqc 0.11.5+dfsg-6 install ok installed fasttree fasttree 2.1.9-1 install ok installed fastx-toolkit fastx-toolkit 0.0.14-3 install ok installed ffindex ffindex 0.9.9.7-3 install ok installed file file 1:5.30-1+deb9u3 install ok installed filo filo 1.1.0-3+b1 install ok installed findutils findutils 4.6.0+git+20161106-2 install ok installed fitgcp fitgcp 0.0.20150429-1 install ok installed flexbar flexbar 2.50-2+b1 install ok installed fontconfig fontconfig 2.11.0-6.7+b1 install ok installed fontconfig-config fontconfig-config 2.11.0-6.7 install ok installed fonts-cabin fonts-cabin 1.5-2 install ok installed fonts-circos-symbols fonts-circos-symbols 0.69.4+dfsg-1 install ok installed fonts-cmu fonts-cmu 0.7.0-3 install ok installed fonts-comfortaa fonts-comfortaa 2.003-1 install ok installed fonts-croscore fonts-croscore 20161116-1 install ok installed fonts-crosextra-caladea fonts-crosextra-caladea 20130214-1 install ok installed fonts-crosextra-carlito fonts-crosextra-carlito 20130920-1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-1 install ok installed fonts-dejavu-extra fonts-dejavu-extra 2.37-1 install ok installed fonts-droid-fallback fonts-droid-fallback 1:6.0.1r16-1.1 install ok installed fonts-ebgaramond fonts-ebgaramond 0.016-1 install ok installed fonts-ebgaramond-extra fonts-ebgaramond-extra 0.016-1 install ok installed fonts-font-awesome fonts-font-awesome 4.7.0~dfsg-1 install ok installed fonts-freefont-otf fonts-freefont-otf 20120503-6 install ok installed fonts-freefont-ttf fonts-freefont-ttf 20120503-6 install ok installed fonts-gfs-artemisia fonts-gfs-artemisia 1.1-5 install ok installed fonts-gfs-complutum fonts-gfs-complutum 1.1-6 install ok installed fonts-gfs-didot fonts-gfs-didot 1.1-6 install ok installed fonts-gfs-neohellenic fonts-gfs-neohellenic 1.1-6 install ok installed fonts-gfs-olga fonts-gfs-olga 1.1-5 install ok installed fonts-gfs-solomos fonts-gfs-solomos 1.1-5 install ok installed fonts-junicode fonts-junicode 0.7.8-2 install ok installed fonts-lato fonts-lato 2.0-1 install ok installed fonts-liberation fonts-liberation 1:1.07.4-2 install ok installed fonts-linuxlibertine fonts-linuxlibertine 5.3.0-2 install ok installed fonts-lmodern fonts-lmodern 2.004.5-3 install ok installed fonts-lobster fonts-lobster 2.0-2 install ok installed fonts-lobstertwo fonts-lobstertwo 2.0-2 install ok installed fonts-lyx fonts-lyx 2.2.2-1 install ok installed fonts-noto-hinted fonts-noto-hinted 20161116-1 install ok installed fonts-noto-mono fonts-noto-mono 20161116-1 install ok installed fonts-oflb-asana-math fonts-oflb-asana-math 000.907-6 install ok installed fonts-roboto-hinted fonts-roboto-hinted 2:0~20160106-2 install ok installed fonts-sil-gentium fonts-sil-gentium 20081126:1.03-1 install ok installed fonts-sil-gentium-basic fonts-sil-gentium-basic 1.1-7 install ok installed fonts-sil-gentiumplus fonts-sil-gentiumplus 5.000-1 install ok installed fonts-sil-gentiumplus-compact fonts-sil-gentiumplus-compact 5.000-2 install ok installed fonts-stix fonts-stix 1.1.1-4 install ok installed fonts-texgyre fonts-texgyre 20160520-1 install ok installed freecontact freecontact 1.0.21-5 install ok installed fsa fsa 1.15.9+dfsg-3 install ok installed g++ g++ 4:6.3.0-4 install ok installed g++-6 g++-6 6.3.0-18+deb9u1 install ok installed gasic gasic 0.0.r19-1 install ok installed gawk gawk 1:4.1.4+dfsg-1 install ok installed gcc gcc 4:6.3.0-4 install ok installed gcc-6 gcc-6 6.3.0-18+deb9u1 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed genometools genometools 1.5.9+ds-4 install ok installed genometools-common genometools-common 1.5.9+ds-4 install ok installed gff2aplot gff2aplot 2.0-8+b1 install ok installed gff2ps gff2ps 0.98d-5 install ok installed gfortran gfortran 4:6.3.0-4 install ok installed gfortran-6 gfortran-6 6.3.0-18+deb9u1 install ok installed ghostscript ghostscript 9.26a~dfsg-0+deb9u6 install ok installed giira giira 0.0.20140625-1 install ok installed glam2 glam2 1064-3+b1 install ok installed glib-networking:amd64 glib-networking 2.50.0-1+deb9u1 install ok installed glib-networking-common glib-networking-common 2.50.0-1+deb9u1 install ok installed glib-networking-services glib-networking-services 2.50.0-1+deb9u1 install ok installed glpk-utils glpk-utils 4.61-1 install ok installed gnome-icon-theme gnome-icon-theme 3.12.0-2 install ok installed gnupg gnupg 2.1.18-8~deb9u4 install ok installed gnupg-agent gnupg-agent 2.1.18-8~deb9u4 install ok installed gnupg-l10n gnupg-l10n 2.1.18-8~deb9u4 install ok installed gpgv gpgv 2.1.18-8~deb9u4 install ok installed graphviz graphviz 2.38.0-17 install ok installed grep grep 2.27-2 install ok installed grinder grinder 0.5.4-1 install ok installed gromacs gromacs 2016.1-2 install ok installed gromacs-data gromacs-data 2016.1-2 install ok installed gsettings-desktop-schemas gsettings-desktop-schemas 3.22.0-1 install ok installed gsfonts gsfonts 1:8.11+urwcyr1.0.7~pre44-4.3 install ok installed gtk-update-icon-cache gtk-update-icon-cache 3.22.11-1 install ok installed guile-2.0-libs:amd64 guile-2.0-libs 2.0.13+1-4 install ok installed gzip gzip 1.6-5+b1 install ok installed hhsuite hhsuite 3.0~beta2+dfsg-3 install ok installed hhsuite-data hhsuite-data 3.0~beta2+dfsg-3 install ok installed hicolor-icon-theme hicolor-icon-theme 0.15-1 install ok installed hmmer hmmer 3.1b2+dfsg-5 install ok installed hostname hostname 3.18+b1 install ok installed hyphy-common hyphy-common 2.2.7+dfsg-1 install ok installed hyphy-mpi hyphy-mpi 2.2.7+dfsg-1+b2 install ok installed icu-devtools icu-devtools 57.1-6+deb9u4 install ok installed idba idba 1.1.3-1 install ok installed imagemagick imagemagick 8:6.9.7.4+dfsg-11+deb9u8 install ok installed imagemagick-6-common imagemagick-6-common 8:6.9.7.4+dfsg-11+deb9u8 install ok installed imagemagick-6.q16 imagemagick-6.q16 8:6.9.7.4+dfsg-11+deb9u8 install ok installed infernal infernal 1.1.2-1 install ok installed init-system-helpers init-system-helpers 1.48 install ok installed ipython ipython 5.1.0-3 install ok installed isympy isympy 1.0-3 install ok installed isympy-common isympy-common 1.0-3 install ok installed java-common java-common 0.58+deb9u1 install ok installed java-wrappers java-wrappers 0.1.28 install ok installed javascript-common javascript-common 11 install ok installed jellyfish jellyfish 2.2.6-1+b1 install ok installed junit4 junit4 4.12-4 install ok installed kalign kalign 1:2.03+20110620-3 install ok installed kissplice kissplice 2.4.0-p1-1 install ok installed krb5-locales krb5-locales 1.15-1+deb9u1 install ok installed laptop-detect laptop-detect 0.13.8 install ok installed last-align last-align 830-1 install ok installed libace-perl libace-perl 1.92-4+b1 install ok installed libacl1:amd64 libacl1 2.2.52-3+b1 install ok installed libaec0:amd64 libaec0 0.3.2-1 install ok installed libaio1:amd64 libaio1 0.3.110-3 install ok installed libalgorithm-diff-perl libalgorithm-diff-perl 1.19.03-1 install ok installed libalgorithm-diff-xs-perl libalgorithm-diff-xs-perl 0.04-4+b2 install ok installed libalgorithm-merge-perl libalgorithm-merge-perl 0.08-3 install ok installed libalgorithm-munkres-perl libalgorithm-munkres-perl 0.08-3 install ok installed libamd2:amd64 libamd2 1:4.5.4-1 install ok installed libanfo0 libanfo0 0.98-5 install ok installed libann0 libann0 1.1.2+doc-6 install ok installed libapache-dbi-perl libapache-dbi-perl 1.12-1 install ok installed libapache-pom-java libapache-pom-java 10-2 install ok installed libapache2-mod-perl2 libapache2-mod-perl2 2.0.10-2+deb9u1 install ok installed libapache2-reload-perl libapache2-reload-perl 0.13-1 install ok installed libapparmor1:amd64 libapparmor1 2.11.0-3+deb9u2 install ok installed libapr1:amd64 libapr1 1.5.2-5 install ok installed libaprutil1:amd64 libaprutil1 1.5.4-3 install ok installed libaprutil1-dbd-sqlite3:amd64 libaprutil1-dbd-sqlite3 1.5.4-3 install ok installed libaprutil1-ldap:amd64 libaprutil1-ldap 1.5.4-3 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.4.10 install ok installed libargtable2-0 libargtable2-0 13-1 install ok installed libarray-compare-perl libarray-compare-perl 3.0.0-1 install ok installed libart-2.0-2:amd64 libart-2.0-2 2.3.21-2 install ok installed libasan3:amd64 libasan3 6.3.0-18+deb9u1 install ok installed libasound2:amd64 libasound2 1.1.3-5 install ok installed libasound2-data libasound2-data 1.1.3-5 install ok installed libassuan0:amd64 libassuan0 2.4.3-2 install ok installed libasyncns0:amd64 libasyncns0 0.8-6 install ok installed libatinject-jsr330-api-java libatinject-jsr330-api-java 1.0+ds1-2 install ok installed libatk-bridge2.0-0:amd64 libatk-bridge2.0-0 2.22.0-2 install ok installed libatk-wrapper-java libatk-wrapper-java 0.33.3-13+deb9u1 install ok installed libatk-wrapper-java-jni:amd64 libatk-wrapper-java-jni 0.33.3-13+deb9u1 install ok installed libatk1.0-0:amd64 libatk1.0-0 2.22.0-1 install ok installed libatk1.0-data libatk1.0-data 2.22.0-1 install ok installed libatlas3-base libatlas3-base 3.10.3-1+b1 install ok installed libatomic1:amd64 libatomic1 6.3.0-18+deb9u1 install ok installed libatspi2.0-0:amd64 libatspi2.0-0 2.22.0-6+deb9u1 install ok installed libattr1:amd64 libattr1 1:2.4.47-2+b2 install ok installed libaudio2:amd64 libaudio2 1.9.4-5+b1 install ok installed libaudit-common libaudit-common 1:2.6.7-2 install ok installed libaudit1:amd64 libaudit1 1:2.6.7-2 install ok installed libauthen-sasl-perl libauthen-sasl-perl 2.1600-1 install ok installed libavahi-client3:amd64 libavahi-client3 0.6.32-2 install ok installed libavahi-common-data:amd64 libavahi-common-data 0.6.32-2 install ok installed libavahi-common3:amd64 libavahi-common3 0.6.32-2 install ok installed libaxis-java libaxis-java 1.4-25 install ok installed libbambamc0 libbambamc0 0.0.50-1 install ok installed libbamtools2.4.0 libbamtools2.4.0 2.4.1+dfsg-1 install ok installed libbcprov-java libbcprov-java 1.56-1+deb9u2 install ok installed libbio-asn1-entrezgene-perl libbio-asn1-entrezgene-perl 1.720-1 install ok installed libbio-perl-perl libbio-perl-perl 1.7.1-2 install ok installed libbio-perl-run-perl libbio-perl-run-perl 1.7.1-3 install ok installed libbiojava-java libbiojava-java 1:1.7.1-5 install ok installed libbiojava1.7-java libbiojava1.7-java 1:1.7.1-5 install ok installed libbit-vector-perl libbit-vector-perl 7.4-1+b2 install ok installed libblas-common libblas-common 3.7.0-2 install ok installed libblas-dev libblas-dev 3.7.0-2 install ok installed libblas3 libblas3 3.7.0-2 install ok installed libblkid1:amd64 libblkid1 2.29.2-1+deb9u1 install ok installed libboost-filesystem1.62.0:amd64 libboost-filesystem1.62.0 1.62.0+dfsg-4 install ok installed libboost-iostreams1.62.0:amd64 libboost-iostreams1.62.0 1.62.0+dfsg-4 install ok installed libboost-mpi1.62.0 libboost-mpi1.62.0 1.62.0+dfsg-4 install ok installed libboost-program-options1.62.0:amd64 libboost-program-options1.62.0 1.62.0+dfsg-4 install ok installed libboost-regex1.62.0:amd64 libboost-regex1.62.0 1.62.0+dfsg-4 install ok installed libboost-serialization1.62.0:amd64 libboost-serialization1.62.0 1.62.0+dfsg-4 install ok installed libboost-system1.62.0:amd64 libboost-system1.62.0 1.62.0+dfsg-4 install ok installed libboost-thread1.62.0:amd64 libboost-thread1.62.0 1.62.0+dfsg-4 install ok installed libbsd-resource-perl libbsd-resource-perl 1.2910-1+b1 install ok installed libbsd0:amd64 libbsd0 0.8.3-1 install ok installed libbytecode-java libbytecode-java 0.92.svn.20090106-2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-8.1 install ok installed libbz2-dev:amd64 libbz2-dev 1.0.6-8.1 install ok installed libc-bin libc-bin 2.24-11+deb9u4 install ok installed libc-dev-bin libc-dev-bin 2.24-11+deb9u4 install ok installed libc6:amd64 libc6 2.24-11+deb9u4 install ok installed libc6-dev:amd64 libc6-dev 2.24-11+deb9u4 install ok installed libcache-cache-perl libcache-cache-perl 1.08-2 install ok installed libcairo-gobject2:amd64 libcairo-gobject2 1.14.8-1 install ok installed libcairo2:amd64 libcairo2 1.14.8-1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.7-3+b1 install ok installed libcap2:amd64 libcap2 1:2.25-1 install ok installed libcarp-always-perl libcarp-always-perl 0.12-1 install ok installed libcarp-clan-perl libcarp-clan-perl 6.06-1 install ok installed 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libcommons-codec-java 1.10-1 install ok installed libcommons-collections3-java libcommons-collections3-java 3.2.2-1 install ok installed libcommons-compress-java libcommons-compress-java 1.13-1 install ok installed libcommons-dbcp-java libcommons-dbcp-java 1.4-5 install ok installed libcommons-discovery-java libcommons-discovery-java 0.5-3 install ok installed libcommons-httpclient-java libcommons-httpclient-java 3.1-12 install ok installed libcommons-jexl2-java libcommons-jexl2-java 2.1.1-3 install ok installed libcommons-logging-java libcommons-logging-java 1.2-1 install ok installed libcommons-math3-java libcommons-math3-java 3.6.1-2 install ok installed libcommons-net-java libcommons-net-java 3.5-1 install ok installed libcommons-parent-java libcommons-parent-java 39-3 install ok installed libcommons-pool-java libcommons-pool-java 1.6-3 install ok installed libconfig-general-perl libconfig-general-perl 2.63-1 install ok installed libconfig-inifiles-perl libconfig-inifiles-perl 2.94-1 install ok installed libconvert-binary-c-perl libconvert-binary-c-perl 0.78-1+b1 install ok installed libconvert-binhex-perl libconvert-binhex-perl 1.125-1 install ok installed libcroco3:amd64 libcroco3 0.6.11-3 install ok installed libcrypt-rc4-perl libcrypt-rc4-perl 2.02-2 install ok installed libcups2:amd64 libcups2 2.2.1-8+deb9u6 install ok installed libcupsfilters1:amd64 libcupsfilters1 1.11.6-3+deb9u1 install ok installed libcupsimage2:amd64 libcupsimage2 2.2.1-8+deb9u6 install ok installed libcurl3:amd64 libcurl3 7.52.1-5+deb9u10 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.52.1-5+deb9u10 install ok installed libdata-dumper-simple-perl libdata-dumper-simple-perl 0.11-5 install ok installed libdata-stag-perl libdata-stag-perl 0.14-2 install ok installed libdate-calc-perl libdate-calc-perl 6.4-1 install ok installed libdate-calc-xs-perl libdate-calc-xs-perl 6.4-1+b2 install ok installed libdate-manip-perl libdate-manip-perl 6.57-1 install ok installed libdatrie1:amd64 libdatrie1 0.2.10-4+b1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28-12+deb9u1 install ok installed libdbd-mysql-perl libdbd-mysql-perl 4.041-2 install ok installed libdbd-pg-perl libdbd-pg-perl 3.5.3-1+b2 install ok installed libdbd-sqlite3-perl libdbd-sqlite3-perl 1.54-1 install ok installed libdbi-perl libdbi-perl 1.636-1+b1 install ok installed libdbus-1-3:amd64 libdbus-1-3 1.10.32-0+deb9u1 install ok installed libdconf1:amd64 libdconf1 0.26.0-2+b1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.227 install ok installed libdevel-caller-perl libdevel-caller-perl 2.06-1+b4 install ok installed libdevel-globaldestruction-perl libdevel-globaldestruction-perl 0.14-1 install ok installed libdevel-lexalias-perl libdevel-lexalias-perl 0.05-1+b4 install ok installed libdevel-symdump-perl libdevel-symdump-perl 2.17-1 install ok installed libdigest-perl-md5-perl libdigest-perl-md5-perl 1.9-1 install ok installed libdivsufsort3:amd64 libdivsufsort3 2.0.1-2 install ok installed libdjvulibre-text libdjvulibre-text 3.5.27.1-7 install ok installed libdjvulibre21:amd64 libdjvulibre21 3.5.27.1-7 install ok installed libdom4j-java libdom4j-java 1.6.1+dfsg.3-2+deb9u1 install ok installed libdpkg-perl libdpkg-perl 1.18.25 install ok installed libdrm-amdgpu1:amd64 libdrm-amdgpu1 2.4.74-1 install ok installed libdrm-intel1:amd64 libdrm-intel1 2.4.74-1 install ok installed libdrm-nouveau2:amd64 libdrm-nouveau2 2.4.74-1 install ok installed libdrm-radeon1:amd64 libdrm-radeon1 2.4.74-1 install ok installed libdrm2:amd64 libdrm2 2.4.74-1 install ok installed libedit2:amd64 libedit2 3.1-20160903-3 install ok installed libegl1-mesa:amd64 libegl1-mesa 13.0.6-1+b2 install ok installed libeigen3-dev libeigen3-dev 3.3.2-1 install ok installed libelf1:amd64 libelf1 0.168-1 install ok installed libelk0 libelk0 3.99.8-4.1+b1 install ok installed libencode-locale-perl libencode-locale-perl 1.05-1 install ok installed libepoxy0:amd64 libepoxy0 1.3.1-2 install ok installed liberror-perl liberror-perl 0.17024-1 install ok installed libexpat1:amd64 libexpat1 2.2.0-2+deb9u3 install ok installed libexpat1-dev:amd64 libexpat1-dev 2.2.0-2+deb9u3 install ok installed libexporter-tiny-perl libexporter-tiny-perl 0.042-1 install ok installed libfabric1 libfabric1 1.4.0-1 install ok installed libfakeroot:amd64 libfakeroot 1.21-3.1 install ok installed libfcgi-perl libfcgi-perl 0.78-2 install ok installed libfdisk1:amd64 libfdisk1 2.29.2-1+deb9u1 install ok installed libffi6:amd64 libffi6 3.2.1-6 install ok installed libffindex0 libffindex0 0.9.9.7-3 install ok installed libfftw3-double3:amd64 libfftw3-double3 3.3.5-3 install ok installed libfftw3-single3:amd64 libfftw3-single3 3.3.5-3 install ok installed libfile-basedir-perl libfile-basedir-perl 0.07-1 install ok installed libfile-desktopentry-perl libfile-desktopentry-perl 0.22-1 install ok installed libfile-fcntllock-perl libfile-fcntllock-perl 0.22-3+b2 install ok installed libfile-homedir-perl libfile-homedir-perl 1.00-1 install ok installed libfile-listing-perl libfile-listing-perl 6.04-1 install ok installed libfile-mimeinfo-perl libfile-mimeinfo-perl 0.27-1 install ok installed libfile-slurp-tiny-perl libfile-slurp-tiny-perl 0.003-1 install ok installed libfile-which-perl libfile-which-perl 1.21-1 install ok installed libflac8:amd64 libflac8 1.3.2-1 install ok installed libfont-afm-perl libfont-afm-perl 1.20-2 install ok installed libfont-ttf-perl libfont-ttf-perl 1.06-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.11.0-6.7+b1 install ok installed libfontenc1:amd64 libfontenc1 1:1.1.3-1+b2 install ok installed libfreecontact0v5:amd64 libfreecontact0v5 1.0.21-5 install ok installed libfreetype6:amd64 libfreetype6 2.6.3-3.2+deb9u1 install ok installed libfreezethaw-perl libfreezethaw-perl 0.5001-1 install ok installed libfribidi0:amd64 libfribidi0 0.19.7-1+deb9u1 install ok installed libfuse2:amd64 libfuse2 2.9.7-1+deb9u2 install ok installed libg20 libg20 0.72-6 install ok installed libgail-common:amd64 libgail-common 2.24.31-2 install ok installed libgail18:amd64 libgail18 2.24.31-2 install ok installed libgbm1:amd64 libgbm1 13.0.6-1+b2 install ok installed libgc1c2:amd64 libgc1c2 1:7.4.2-8 install ok installed libgcc-6-dev:amd64 libgcc-6-dev 6.3.0-18+deb9u1 install ok installed libgcc1:amd64 libgcc1 1:6.3.0-18+deb9u1 install ok installed libgcrypt20:amd64 libgcrypt20 1.7.6-2+deb9u3 install ok installed libgd-graph-perl libgd-graph-perl 1.48-2 install ok installed libgd-perl libgd-perl 2.53-3 install ok installed libgd-text-perl libgd-text-perl 0.86-9 install ok installed libgd3:amd64 libgd3 2.2.4-2+deb9u5 install ok installed libgdbm3:amd64 libgdbm3 1.8.3-14 install ok installed libgdk-pixbuf2.0-0:amd64 libgdk-pixbuf2.0-0 2.36.5-2+deb9u2 install ok installed libgdk-pixbuf2.0-common libgdk-pixbuf2.0-common 2.36.5-2+deb9u2 install ok installed libgetopt-euclid-perl libgetopt-euclid-perl 0.4.5-2 install ok installed libgetopt-simple-perl libgetopt-simple-perl 1.52-5 install ok installed libgflags2v5 libgflags2v5 2.1.2-4 install ok installed libgfortran-6-dev:amd64 libgfortran-6-dev 6.3.0-18+deb9u1 install ok installed libgfortran3:amd64 libgfortran3 6.3.0-18+deb9u1 install ok installed libgif7:amd64 libgif7 5.1.4-0.4 install ok installed libgl1-mesa-dri:amd64 libgl1-mesa-dri 13.0.6-1+b2 install ok installed libgl1-mesa-glx:amd64 libgl1-mesa-glx 13.0.6-1+b2 install ok installed libglade2-0:amd64 libglade2-0 1:2.6.4-2 install ok installed libglapi-mesa:amd64 libglapi-mesa 13.0.6-1+b2 install ok installed libglib2.0-0:amd64 libglib2.0-0 2.50.3-2+deb9u2 install ok installed libglib2.0-data libglib2.0-data 2.50.3-2+deb9u2 install ok installed libglpk-java libglpk-java 1.7.0-1 install ok installed libglpk40:amd64 libglpk40 4.61-1 install ok installed libglu1-mesa:amd64 libglu1-mesa 9.0.0-2.1 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-1 install ok installed libgnutls30:amd64 libgnutls30 3.5.8-5+deb9u5 install ok installed libgomp1:amd64 libgomp1 6.3.0-18+deb9u1 install ok installed libgoogle-glog0v5 libgoogle-glog0v5 0.3.4-2 install ok installed libgpg-error0:amd64 libgpg-error0 1.26-2 install ok installed libgpm2:amd64 libgpm2 1.20.4-6.2+b1 install ok installed libgraph-perl libgraph-perl 1:0.96-2 install ok installed libgraphics-colornames-perl libgraphics-colornames-perl 2.11-7.1 install ok installed libgraphics-colorobject-perl libgraphics-colorobject-perl 0.5.0-7.1 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.10-1 install ok installed libgraphviz-perl libgraphviz-perl 2.22-1 install ok installed libgromacs2 libgromacs2 2016.1-2 install ok installed libgs9:amd64 libgs9 9.26a~dfsg-0+deb9u6 install ok installed libgs9-common libgs9-common 9.26a~dfsg-0+deb9u6 install ok installed libgsasl7 libgsasl7 1.8.0-8+b2 install ok installed libgsl2:amd64 libgsl2 2.3+dfsg-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.15-1+deb9u1 install ok installed libgtextutils0v5:amd64 libgtextutils0v5 0.7-4 install ok installed libgtk-3-0:amd64 libgtk-3-0 3.22.11-1 install ok installed libgtk-3-bin libgtk-3-bin 3.22.11-1 install ok installed libgtk-3-common libgtk-3-common 3.22.11-1 install ok installed libgtk2.0-0:amd64 libgtk2.0-0 2.24.31-2 install ok installed libgtk2.0-bin libgtk2.0-bin 2.24.31-2 install ok installed libgtk2.0-common libgtk2.0-common 2.24.31-2 install ok installed libgts-0.7-5:amd64 libgts-0.7-5 0.7.6+darcs121130-4 install ok installed libgts-bin libgts-bin 0.7.6+darcs121130-4 install ok installed libguava-java libguava-java 19.0-1 install ok installed libgvc6 libgvc6 2.38.0-17 install ok installed libgvpr2 libgvpr2 2.38.0-17 install ok installed libhamcrest-java libhamcrest-java 1.3-6 install ok installed libharfbuzz-icu0:amd64 libharfbuzz-icu0 1.4.2-1 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 1.4.2-1 install ok installed libhdf5-100:amd64 libhdf5-100 1.10.0-patch1+docs-3+deb9u1 install ok installed libhmsbeagle1v5 libhmsbeagle1v5 2.1.2+20160831-5 install ok installed libhogweed4:amd64 libhogweed4 3.3-1+b2 install ok installed libhpdf-2.2.1 libhpdf-2.2.1 2.2.1-1.1+b1 install ok installed libhsqldb-java libhsqldb-java 2.3.4-1 install ok installed libhtml-form-perl libhtml-form-perl 6.03-1 install ok installed libhtml-format-perl libhtml-format-perl 2.12-1 install ok installed libhtml-parser-perl libhtml-parser-perl 3.72-3 install ok installed libhtml-tableextract-perl libhtml-tableextract-perl 2.13-1 install ok installed libhtml-tagset-perl libhtml-tagset-perl 3.20-3 install ok installed libhtml-tree-perl libhtml-tree-perl 5.03-2 install ok installed libhts1:amd64 libhts1 1.3.2-2 install ok installed libhtsjdk-java libhtsjdk-java 2.8.1+dfsg-1 install ok installed libhttp-cookies-perl libhttp-cookies-perl 6.01-1 install ok installed libhttp-daemon-perl libhttp-daemon-perl 6.01-1 install ok installed libhttp-date-perl libhttp-date-perl 6.02-1 install ok installed libhttp-message-perl libhttp-message-perl 6.11-1 install ok installed libhttp-negotiate-perl libhttp-negotiate-perl 6.00-2 install ok installed libhwloc-plugins libhwloc-plugins 1.11.5-1 install ok installed libhwloc5:amd64 libhwloc5 1.11.5-1 install ok installed libibverbs1 libibverbs1 1.2.1-2 install ok installed libice6:amd64 libice6 2:1.0.9-2 install ok installed libicu-dev libicu-dev 57.1-6+deb9u4 install ok installed libicu57:amd64 libicu57 57.1-6+deb9u4 install ok installed libidn11:amd64 libidn11 1.33-1+deb9u1 install ok installed libidn2-0:amd64 libidn2-0 0.16-1+deb9u1 install ok installed libijs-0.35:amd64 libijs-0.35 0.35-12 install ok installed libilmbase12:amd64 libilmbase12 2.2.0-12 install ok installed libimport-into-perl libimport-into-perl 1.002005-1 install ok installed libio-all-perl libio-all-perl 0.86-2 install ok installed libio-html-perl libio-html-perl 1.001-1 install ok installed libio-pty-perl libio-pty-perl 1:1.08-1.1+b2 install ok installed libio-sessiondata-perl libio-sessiondata-perl 1.03-1 install ok installed libio-socket-ssl-perl libio-socket-ssl-perl 2.044-1 install ok installed libio-string-perl libio-string-perl 1.08-3 install ok installed libio-stringy-perl libio-stringy-perl 2.111-2 install ok installed libipc-run-perl libipc-run-perl 0.94-1+deb9u1 install ok installed libipc-sharelite-perl libipc-sharelite-perl 0.17-4 install ok installed libipc-system-simple-perl libipc-system-simple-perl 1.25-3 install ok installed libisl15:amd64 libisl15 0.18-1 install ok installed libisorelax-java libisorelax-java 20041111-9 install ok installed libitm1:amd64 libitm1 6.3.0-18+deb9u1 install ok installed libjava-xmlbuilder-java libjava-xmlbuilder-java 0.4-2 install ok installed libjaxen-java libjaxen-java 1.1.6-1+deb9u1 install ok installed libjbig0:amd64 libjbig0 2.1-3.1+b2 install ok installed libjbig2dec0:amd64 libjbig2dec0 0.13-4.1 install ok installed libjbzip2-java libjbzip2-java 0.9.1-3 install ok installed libjcode-pm-perl libjcode-pm-perl 2.06-1 install ok installed libjcommon-java libjcommon-java 1.0.23-1 install ok installed libjdom1-java libjdom1-java 1.1.3-1 install ok installed libjellyfish-2.0-2 libjellyfish-2.0-2 2.2.6-1+b1 install ok installed libjemalloc1 libjemalloc1 3.6.0-9.1 install ok installed libjets3t-java libjets3t-java 0.8.1+dfsg-3 install ok installed libjgoodies-common-java libjgoodies-common-java 1.8.1-2 install ok installed libjgoodies-forms-java libjgoodies-forms-java 1.9.0-3 install ok installed libjpeg-dev libjpeg-dev 1:1.5.1-2 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:1.5.1-2 install ok installed libjpeg62-turbo-dev:amd64 libjpeg62-turbo-dev 1:1.5.1-2 install ok installed libjs-jquery libjs-jquery 3.1.1-2+deb9u1 install ok installed libjs-jquery-ui libjs-jquery-ui 1.12.1+dfsg-4 install ok installed libjs-underscore libjs-underscore 1.8.3~dfsg-1 install ok installed libjsch-java libjsch-java 0.1.54-1 install ok installed libjson-glib-1.0-0:amd64 libjson-glib-1.0-0 1.2.6-1 install ok installed libjson-glib-1.0-common libjson-glib-1.0-common 1.2.6-1 install ok installed libjsoncpp1:amd64 libjsoncpp1 1.7.4-3 install ok installed libjsr305-java libjsr305-java 0.1~+svn49-10 install ok installed libjxr-tools libjxr-tools 1.1-6+b1 install ok installed libjxr0:amd64 libjxr0 1.1-6+b1 install ok installed libjzlib-java libjzlib-java 1.1.3-1 install ok installed libk5crypto3:amd64 libk5crypto3 1.15-1+deb9u1 install ok installed libkdf5-2 libkdf5-2 2.8.1+dfsg-2 install ok installed libkeyutils1:amd64 libkeyutils1 1.5.9-9 install ok installed libkpathsea6:amd64 libkpathsea6 2016.20160513.41080.dfsg-2+deb9u1 install ok installed libkrb5-3:amd64 libkrb5-3 1.15-1+deb9u1 install ok installed libkrb5support0:amd64 libkrb5support0 1.15-1+deb9u1 install ok installed libksba8:amd64 libksba8 1.3.5-2 install ok installed libkyotocabinet16v5:amd64 libkyotocabinet16v5 1.2.76-4.2+b1 install ok installed liblapack-dev liblapack-dev 3.7.0-2 install ok installed liblapack3 liblapack3 3.7.0-2 install ok installed liblcms2-2:amd64 liblcms2-2 2.8-4+deb9u1 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.44+dfsg-5+deb9u4 install ok installed libldap-common libldap-common 2.4.44+dfsg-5+deb9u4 install ok installed liblist-allutils-perl liblist-allutils-perl 0.12-1 install ok installed liblist-moreutils-perl liblist-moreutils-perl 0.416-1+b1 install ok installed liblist-someutils-perl liblist-someutils-perl 0.53-1 install ok installed liblist-utilsby-perl liblist-utilsby-perl 0.10-1 install ok installed libllvm3.9:amd64 libllvm3.9 1:3.9.1-9 install ok installed liblocale-gettext-perl liblocale-gettext-perl 1.07-3+b1 install ok installed liblog4j1.2-java liblog4j1.2-java 1.2.17-7+deb9u1 install ok installed liblqr-1-0:amd64 liblqr-1-0 0.4.2-2+b2 install ok installed liblsan0:amd64 liblsan0 6.3.0-18+deb9u1 install ok installed libltdl7:amd64 libltdl7 2.4.6-2 install ok installed liblua5.1-0:amd64 liblua5.1-0 5.1.5-8.1+b2 install ok installed liblua5.2-0:amd64 liblua5.2-0 5.2.4-1.1+b2 install ok installed liblwp-mediatypes-perl liblwp-mediatypes-perl 6.02-1 install ok installed liblwp-protocol-https-perl liblwp-protocol-https-perl 6.06-2 install ok installed liblz4-1:amd64 liblz4-1 0.0~r131-2+b1 install ok installed liblzma-dev:amd64 liblzma-dev 5.2.2-1.2+b1 install ok installed liblzma5:amd64 liblzma5 5.2.2-1.2+b1 install ok installed liblzo2-2:amd64 liblzo2-2 2.08-1.2+b2 install ok installed libmagic-mgc libmagic-mgc 1:5.30-1+deb9u3 install ok installed libmagic1:amd64 libmagic1 1:5.30-1+deb9u3 install ok installed libmagickcore-6.q16-3:amd64 libmagickcore-6.q16-3 8:6.9.7.4+dfsg-11+deb9u8 install ok installed libmagickcore-6.q16-3-extra:amd64 libmagickcore-6.q16-3-extra 8:6.9.7.4+dfsg-11+deb9u8 install ok installed libmagickwand-6.q16-3:amd64 libmagickwand-6.q16-3 8:6.9.7.4+dfsg-11+deb9u8 install ok installed libmail-java libmail-java 1.5.6-2 install ok installed libmailtools-perl libmailtools-perl 2.18-1 install ok installed libmailutils5:amd64 libmailutils5 1:3.1.1-1 install ok installed libmariadbclient18:amd64 libmariadbclient18 10.1.45-0+deb9u1 install ok installed libmath-bezier-perl libmath-bezier-perl 0.01-2 install ok installed libmath-derivative-perl libmath-derivative-perl 0.04-2 install ok installed libmath-random-mt-perl libmath-random-mt-perl 1.17-1+b2 install ok installed libmath-round-perl libmath-round-perl 0.07-1 install ok installed libmath-spline-perl libmath-spline-perl 0.02-1 install ok installed libmath-tamuanova-perl libmath-tamuanova-perl 1.0.2-2+b4 install ok installed libmath-vec-perl libmath-vec-perl 1.01-3 install ok installed libmath-vecstat-perl libmath-vecstat-perl 0.08-1 install ok installed libmbedcrypto0:amd64 libmbedcrypto0 2.4.2-1+deb9u3 install ok installed libmbedtls-dev:amd64 libmbedtls-dev 2.4.2-1+deb9u3 install ok installed libmbedtls10:amd64 libmbedtls10 2.4.2-1+deb9u3 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.4.2-1+deb9u3 install ok installed libmime-tools-perl libmime-tools-perl 5.508-1 install ok installed libmldbm-perl libmldbm-perl 2.05-2 install ok installed libmng1:amd64 libmng1 1.0.10+dfsg-3.1+b5 install ok installed libmodule-implementation-perl libmodule-implementation-perl 0.09-1 install ok installed libmodule-runtime-perl libmodule-runtime-perl 0.014-2 install ok installed libmoo-perl libmoo-perl 2.002005-1 install ok installed libmount1:amd64 libmount1 2.29.2-1+deb9u1 install ok installed libmpc3:amd64 libmpc3 1.0.3-1+b2 install ok installed libmpdec2:amd64 libmpdec2 2.4.2-1 install ok installed libmpfr4:amd64 libmpfr4 3.1.5-1 install ok installed libmpx2:amd64 libmpx2 6.3.0-18+deb9u1 install ok installed libmsv-java libmsv-java 2009.1+dfsg1-5 install ok installed libmysql-java libmysql-java 5.1.49-0+deb9u1 install ok installed libncbi-vdb2 libncbi-vdb2 2.8.1+dfsg-2 install ok installed libncbi-wvdb2 libncbi-wvdb2 2.8.1+dfsg-2 install ok installed libncbi6:amd64 libncbi6 6.1.20170106+dfsg1-0+deb9u1 install ok installed libncurses5:amd64 libncurses5 6.0+20161126-1+deb9u2 install ok installed libncurses5-dev:amd64 libncurses5-dev 6.0+20161126-1+deb9u2 install ok installed libncursesw5:amd64 libncursesw5 6.0+20161126-1+deb9u2 install ok installed libnet-dbus-perl libnet-dbus-perl 1.1.0-4+b1 install ok installed libnet-http-perl libnet-http-perl 6.12-1 install ok installed libnet-smtp-ssl-perl libnet-smtp-ssl-perl 1.04-1 install ok installed libnet-ssleay-perl libnet-ssleay-perl 1.80-1 install ok installed libnetpbm10 libnetpbm10 2:10.0-15.3+b2 install ok installed libnettle6:amd64 libnettle6 3.3-1+b2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.18.1-1+deb9u1 install ok installed libngs-java libngs-java 1.3.0-2 install ok installed libngs-sdk-dev libngs-sdk-dev 1.3.0-2 install ok installed libngs-sdk1 libngs-sdk1 1.3.0-2 install ok installed libnl-3-200:amd64 libnl-3-200 3.2.27-2 install ok installed libnl-route-3-200:amd64 libnl-route-3-200 3.2.27-2 install ok installed libnotify4:amd64 libnotify4 0.7.7-2 install ok installed libnpth0:amd64 libnpth0 1.3-1 install ok installed libnspr4:amd64 libnspr4 2:4.12-6 install ok installed libnss3:amd64 libnss3 2:3.26.2-1.1+deb9u1 install ok installed libntlm0:amd64 libntlm0 1.4-8 install ok installed libnuma1:amd64 libnuma1 2.0.11-2.1 install ok installed libnumber-format-perl libnumber-format-perl 1.75-1 install ok installed libogg0:amd64 libogg0 1.3.2-1 install ok installed libole-storage-lite-perl libole-storage-lite-perl 0.19-1+deb9u1 install ok installed libopenexr22:amd64 libopenexr22 2.2.0-11+b1 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.1.2-1.1+deb9u4 install ok installed libopenmpi2:amd64 libopenmpi2 2.0.2-2 install ok installed liboro-java liboro-java 2.0.8a-12 install ok installed libossp-uuid-perl libossp-uuid-perl 1.6.2-1.5+b4 install ok installed libossp-uuid16:amd64 libossp-uuid16 1.6.2-1.5+b4 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.3-2 install ok installed libpadwalker-perl libpadwalker-perl 2.2-2+b1 install ok installed libpam-modules:amd64 libpam-modules 1.1.8-3.6 install ok installed libpam-modules-bin libpam-modules-bin 1.1.8-3.6 install ok installed libpam-runtime libpam-runtime 1.1.8-3.6 install ok installed libpam0g:amd64 libpam0g 1.1.8-3.6 install ok installed libpango-1.0-0:amd64 libpango-1.0-0 1.40.5-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.40.5-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.40.5-1 install ok installed libpaper-utils libpaper-utils 1.1.24+nmu5 install ok installed libpaper1:amd64 libpaper1 1.1.24+nmu5 install ok installed libparams-classify-perl libparams-classify-perl 0.013-6+b1 install ok installed libparams-validate-perl libparams-validate-perl 1.26-1 install ok installed libparse-recdescent-perl libparse-recdescent-perl 1.967013+dfsg-1 install ok installed libpathplan4 libpathplan4 2.38.0-17 install ok installed libpciaccess0:amd64 libpciaccess0 0.13.4-1+b2 install ok installed libpcre16-3:amd64 libpcre16-3 2:8.39-3 install ok installed libpcre3:amd64 libpcre3 2:8.39-3 install ok installed libpcre3-dev:amd64 libpcre3-dev 2:8.39-3 install ok installed libpcre32-3:amd64 libpcre32-3 2:8.39-3 install ok installed libpcrecpp0v5:amd64 libpcrecpp0v5 2:8.39-3 install ok installed libpcsclite1:amd64 libpcsclite1 1.8.20-1 install ok installed libperl4-corelibs-perl libperl4-corelibs-perl 0.003-2+deb9u1 install ok installed libperl5.24:amd64 libperl5.24 5.24.1-3+deb9u7 install ok installed libperlio-gzip-perl libperlio-gzip-perl 0.19-1+b2 install ok installed libpicard-java libpicard-java 2.8.1+dfsg-1 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.34.0-1 install ok installed libpng-dev:amd64 libpng-dev 1.6.28-1+deb9u1 install ok installed libpng-tools libpng-tools 1.6.28-1+deb9u1 install ok installed libpng16-16:amd64 libpng16-16 1.6.28-1+deb9u1 install ok installed libpod-coverage-perl libpod-coverage-perl 0.23-1 install ok installed libpoppler64:amd64 libpoppler64 0.48.0-2+deb9u2 install ok installed libpopt0:amd64 libpopt0 1.16-10+b2 install ok installed libpostscript-perl libpostscript-perl 0.06-2 install ok installed libpotrace0 libpotrace0 1.13-3 install ok installed libpq5:amd64 libpq5 9.6.17-0+deb9u1 install ok installed libprocps6:amd64 libprocps6 2:3.3.12-3+deb9u1 install ok installed libprotobuf10:amd64 libprotobuf10 3.0.0-9 install ok installed libproxy1v5:amd64 libproxy1v5 0.4.14-2 install ok installed libpsl5:amd64 libpsl5 0.17.0-3 install ok installed libpsm-infinipath1 libpsm-infinipath1 3.3+19.g67c0807.open-3 install ok installed libptexenc1:amd64 libptexenc1 2016.20160513.41080.dfsg-2+deb9u1 install ok installed libpth20:amd64 libpth20 2.0.7-20+b2 install ok installed libpulse0:amd64 libpulse0 10.0-1+deb9u1 install ok installed libpython-dev:amd64 libpython-dev 2.7.13-2 install ok installed libpython-stdlib:amd64 libpython-stdlib 2.7.13-2 install ok installed libpython2.7:amd64 libpython2.7 2.7.13-2+deb9u3 install ok installed libpython2.7-dev:amd64 libpython2.7-dev 2.7.13-2+deb9u3 install ok installed libpython2.7-minimal:amd64 libpython2.7-minimal 2.7.13-2+deb9u3 install ok installed libpython2.7-stdlib:amd64 libpython2.7-stdlib 2.7.13-2+deb9u3 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.5.3-1 install ok installed libpython3.5-minimal:amd64 libpython3.5-minimal 3.5.3-1+deb9u1 install ok installed libpython3.5-stdlib:amd64 libpython3.5-stdlib 3.5.3-1+deb9u1 install ok installed libqt4-dbus:amd64 libqt4-dbus 4:4.8.7+dfsg-11 install ok installed libqt4-xml:amd64 libqt4-xml 4:4.8.7+dfsg-11 install ok installed libqtcore4:amd64 libqtcore4 4:4.8.7+dfsg-11 install ok installed libqtdbus4:amd64 libqtdbus4 4:4.8.7+dfsg-11 install ok installed libqtgui4:amd64 libqtgui4 4:4.8.7+dfsg-11 install ok installed libquadmath0:amd64 libquadmath0 6.3.0-18+deb9u1 install ok installed librdmacm1 librdmacm1 1.1.0-2 install ok installed libreadline-dev:amd64 libreadline-dev 7.0-3 install ok installed libreadline5:amd64 libreadline5 5.2+dfsg-3+b1 install ok installed libreadline7:amd64 libreadline7 7.0-3 install ok installed libreadonly-perl libreadonly-perl 2.050-1 install ok installed libregexp-common-perl libregexp-common-perl 2016060801-1 install ok installed libregexp-java libregexp-java 1.5-3 install ok installed librelaxng-datatype-java librelaxng-datatype-java 1.0+ds1-3 install ok installed librest-0.7-0:amd64 librest-0.7-0 0.8.0-2 install ok installed librole-tiny-perl librole-tiny-perl 2.000005-1 install ok installed librsvg2-2:amd64 librsvg2-2 2.40.16-1+b1 install ok installed librsvg2-common:amd64 librsvg2-common 2.40.16-1+b1 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-1+b1 install ok installed libruby2.3:amd64 libruby2.3 2.3.3-1+deb9u8 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27~101-g0780600+dfsg-3+deb9u1 install ok installed libsasl2-modules:amd64 libsasl2-modules 2.1.27~101-g0780600+dfsg-3+deb9u1 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27~101-g0780600+dfsg-3+deb9u1 install ok installed libsaxonhe-java libsaxonhe-java 9.5.1.1+dfsg-2 install ok installed libscalar-list-utils-perl libscalar-list-utils-perl 1:1.47-1 install ok installed libselinux1:amd64 libselinux1 2.6-3+b3 install ok installed libsemanage-common libsemanage-common 2.6-2 install ok installed libsemanage1:amd64 libsemanage1 2.6-2 install ok installed libsensors4:amd64 libsensors4 1:3.4.0-4 install ok installed libsepol1:amd64 libsepol1 2.6-2 install ok installed libservlet3.1-java libservlet3.1-java 8.5.54-0+deb9u1 install ok installed libset-intspan-perl libset-intspan-perl 1.19-1 install ok installed libset-scalar-perl libset-scalar-perl 1.29-2 install ok installed libsigsegv2:amd64 libsigsegv2 2.10-5 install ok installed libsm6:amd64 libsm6 2:1.2.2-1+b3 install ok installed libsmartcols1:amd64 libsmartcols1 2.29.2-1+deb9u1 install ok installed libsnappy-java libsnappy-java 1.1.2.6-1 install ok installed libsnappy-jni libsnappy-jni 1.1.2.6-1 install ok installed libsnappy1v5:amd64 libsnappy1v5 1.1.3-3 install ok installed libsndfile1:amd64 libsndfile1 1.0.27-3 install ok installed libsoap-lite-perl libsoap-lite-perl 1.20-1 install ok installed libsort-naturally-perl libsort-naturally-perl 1.03-1 install ok installed libsoup-gnome2.4-1:amd64 libsoup-gnome2.4-1 2.56.0-2+deb9u2 install ok installed libsoup2.4-1:amd64 libsoup2.4-1 2.56.0-2+deb9u2 install ok installed libspiffy-perl libspiffy-perl 0.41-1 install ok installed libspreadsheet-parseexcel-perl libspreadsheet-parseexcel-perl 0.6500-1 install ok installed libspreadsheet-writeexcel-perl libspreadsheet-writeexcel-perl 2.40-1 install ok installed libsprng2 libsprng2 2.0a-10 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.16.2-5+deb9u1 install ok installed libsquizz libsquizz 0.99c+dfsg-1 install ok installed libss2:amd64 libss2 1.43.4-2+deb9u1 install ok installed libssh2-1:amd64 libssh2-1 1.7.0-1+deb9u1 install ok installed libssl1.0.2:amd64 libssl1.0.2 1.0.2u-1~deb9u1 install ok installed libssl1.1:amd64 libssl1.1 1.1.0l-1~deb9u1 install ok installed libstaden-read11:amd64 libstaden-read11 1.14.8-2 install ok installed libstatistics-basic-perl libstatistics-basic-perl 1.6611-1 install ok installed libstatistics-descriptive-perl libstatistics-descriptive-perl 3.0612-1 install ok installed libstdc++-6-dev:amd64 libstdc++-6-dev 6.3.0-18+deb9u1 install ok installed libstdc++6:amd64 libstdc++6 6.3.0-18+deb9u1 install ok installed libstrictures-perl libstrictures-perl 2.000003-1 install ok installed libsub-exporter-progressive-perl libsub-exporter-progressive-perl 0.001013-1 install ok installed libsub-name-perl libsub-name-perl 0.21-1 install ok installed libsuitesparseconfig4:amd64 libsuitesparseconfig4 1:4.5.4-1 install ok installed libsvg-graph-perl libsvg-graph-perl 0.02-2 install ok installed libsvg-perl libsvg-perl 2.64-1 install ok installed libsynctex1:amd64 libsynctex1 2016.20160513.41080.dfsg-2+deb9u1 install ok installed libsystemd0:amd64 libsystemd0 232-25+deb9u12 install ok installed libsz2:amd64 libsz2 0.3.2-1 install ok installed libtamuanova-0.2 libtamuanova-0.2 0.2-4 install ok installed libtask-weaken-perl libtask-weaken-perl 1.04-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.10-1.1+deb9u1 install ok installed libtbb2:amd64 libtbb2 4.3~20150611-2 install ok installed libtcl8.6:amd64 libtcl8.6 8.6.6+dfsg-1+b1 install ok installed libterm-readkey-perl libterm-readkey-perl 2.37-1 install ok installed libtest-pod-perl libtest-pod-perl 1.51-1 install ok installed libtexlua52:amd64 libtexlua52 2016.20160513.41080.dfsg-2+deb9u1 install ok installed libtexluajit2:amd64 libtexluajit2 2016.20160513.41080.dfsg-2+deb9u1 install ok installed libtext-format-perl libtext-format-perl 0.60-1 install ok installed libtext-iconv-perl libtext-iconv-perl 1.7-5+b4 install ok installed libthai-data libthai-data 0.1.26-1 install ok installed libthai0:amd64 libthai0 0.1.26-1 install ok installed libtie-ixhash-perl libtie-ixhash-perl 1.23-2 install ok installed libtiff5:amd64 libtiff5 4.0.8-2+deb9u5 install ok installed libtimedate-perl libtimedate-perl 2.3000-2+deb9u1 install ok installed libtinfo-dev:amd64 libtinfo-dev 6.0+20161126-1+deb9u2 install ok installed libtinfo5:amd64 libtinfo5 6.0+20161126-1+deb9u2 install ok installed libtk8.6:amd64 libtk8.6 8.6.6-1+b1 install ok installed libtre5:amd64 libtre5 0.8.0-6 install ok installed libtree-dagnode-perl libtree-dagnode-perl 1.29-1 install ok installed libtry-tiny-perl libtry-tiny-perl 0.28-1 install ok installed libtsan0:amd64 libtsan0 6.3.0-18+deb9u1 install ok installed libtxc-dxtn-s2tc:amd64 libtxc-dxtn-s2tc 1.0+git20151227-2 install ok installed libtype-tiny-perl libtype-tiny-perl 1.000005-1 install ok installed libtype-tiny-xs-perl libtype-tiny-xs-perl 0.012-1+b2 install ok installed libubsan0:amd64 libubsan0 6.3.0-18+deb9u1 install ok installed libudev1:amd64 libudev1 232-25+deb9u12 install ok installed libunicode-map-perl libunicode-map-perl 0.112-11+b3 install ok installed libunistring0:amd64 libunistring0 0.9.6+really0.9.3-0.1 install ok installed libunwind8 libunwind8 1.1-4.1 install ok installed liburi-perl liburi-perl 1.71-1 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libutempter0:amd64 libutempter0 1.1.6-3 install ok installed libuuid1:amd64 libuuid1 2.29.2-1+deb9u1 install ok installed libvorbis0a:amd64 libvorbis0a 1.3.5-4+deb9u2 install ok installed libvorbisenc2:amd64 libvorbisenc2 1.3.5-4+deb9u2 install ok installed libwayland-client0:amd64 libwayland-client0 1.12.0-1+deb9u1 install ok installed libwayland-cursor0:amd64 libwayland-cursor0 1.12.0-1+deb9u1 install ok installed libwayland-egl1-mesa:amd64 libwayland-egl1-mesa 13.0.6-1+b2 install ok installed libwayland-server0:amd64 libwayland-server0 1.12.0-1+deb9u1 install ok installed libwebp6:amd64 libwebp6 0.5.2-1 install ok installed libwebpdemux2:amd64 libwebpdemux2 0.5.2-1 install ok installed libwebpmux2:amd64 libwebpmux2 0.5.2-1 install ok installed libwmf0.2-7:amd64 libwmf0.2-7 0.2.8.4-10.6 install ok installed libwrap0:amd64 libwrap0 7.6.q-26 install ok installed libwsdl4j-java libwsdl4j-java 1.6.3-4 install ok installed libwww-perl libwww-perl 6.15-1 install ok installed libwww-robotrules-perl libwww-robotrules-perl 6.01-1 install ok installed libwxbase3.0-0v5:amd64 libwxbase3.0-0v5 3.0.2+dfsg-4 install ok installed libwxgtk3.0-0v5:amd64 libwxgtk3.0-0v5 3.0.2+dfsg-4 install ok installed libx11-6:amd64 libx11-6 2:1.6.4-3+deb9u1 install ok installed libx11-data libx11-data 2:1.6.4-3+deb9u1 install ok installed libx11-protocol-perl libx11-protocol-perl 0.56-7 install ok installed libx11-xcb1:amd64 libx11-xcb1 2:1.6.4-3+deb9u1 install ok installed libxau6:amd64 libxau6 1:1.0.8-1 install ok installed libxaw7:amd64 libxaw7 2:1.0.13-1+b2 install ok installed libxcb-dri2-0:amd64 libxcb-dri2-0 1.12-1 install ok installed libxcb-dri3-0:amd64 libxcb-dri3-0 1.12-1 install ok installed libxcb-glx0:amd64 libxcb-glx0 1.12-1 install ok installed libxcb-present0:amd64 libxcb-present0 1.12-1 install ok installed libxcb-render0:amd64 libxcb-render0 1.12-1 install ok installed libxcb-shape0:amd64 libxcb-shape0 1.12-1 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.12-1 install ok installed libxcb-sync1:amd64 libxcb-sync1 1.12-1 install ok installed libxcb-xfixes0:amd64 libxcb-xfixes0 1.12-1 install ok installed libxcb1:amd64 libxcb1 1.12-1 install ok installed libxcomposite1:amd64 libxcomposite1 1:0.4.4-2 install ok installed libxcursor1:amd64 libxcursor1 1:1.1.14-1+deb9u2 install ok installed libxdamage1:amd64 libxdamage1 1:1.1.4-2+b3 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxdot4 libxdot4 2.38.0-17 install ok installed libxerces-c3.1:amd64 libxerces-c3.1 3.1.4+debian-2+deb9u1 install ok installed libxerces2-java libxerces2-java 2.11.0-7 install ok installed libxext6:amd64 libxext6 2:1.3.3-1+b2 install ok installed libxfixes3:amd64 libxfixes3 1:5.0.3-1 install ok installed libxft2:amd64 libxft2 2.3.2-1+b2 install ok installed libxi6:amd64 libxi6 2:1.7.9-1 install ok installed libxinerama1:amd64 libxinerama1 2:1.1.3-1+b3 install ok installed libxkbcommon0:amd64 libxkbcommon0 0.7.1-2~deb9u1 install ok installed libxml-commons-external-java libxml-commons-external-java 1.4.01-2 install ok installed libxml-commons-resolver1.1-java libxml-commons-resolver1.1-java 1.2-7 install ok installed libxml-dom-perl libxml-dom-perl 1.44-2 install ok installed libxml-dom-xpath-perl libxml-dom-xpath-perl 0.14-2 install ok installed libxml-filter-buffertext-perl libxml-filter-buffertext-perl 1.01-5 install ok installed libxml-libxml-perl libxml-libxml-perl 2.0128+dfsg-1+deb9u1 install ok installed libxml-libxslt-perl libxml-libxslt-perl 1.95-1+b1 install ok installed libxml-namespacesupport-perl libxml-namespacesupport-perl 1.11-1 install ok installed libxml-parser-perl libxml-parser-perl 2.44-2+b1 install ok installed libxml-perl libxml-perl 0.08-2 install ok installed libxml-regexp-perl libxml-regexp-perl 0.04-1 install ok installed libxml-sax-base-perl libxml-sax-base-perl 1.07-1 install ok installed libxml-sax-expat-perl libxml-sax-expat-perl 0.40-2 install ok installed libxml-sax-perl libxml-sax-perl 0.99+dfsg-2 install ok installed libxml-sax-writer-perl libxml-sax-writer-perl 0.56-1 install ok installed libxml-simple-perl libxml-simple-perl 2.22-1 install ok installed libxml-twig-perl libxml-twig-perl 1:3.50-1 install ok installed libxml-writer-perl libxml-writer-perl 0.625-1 install ok installed libxml-xpath-perl libxml-xpath-perl 1.40-1 install ok installed libxml-xpathengine-perl libxml-xpathengine-perl 0.13-1 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-2.2+deb9u2 install ok installed libxmlrpc-lite-perl libxmlrpc-lite-perl 0.717-1 install ok installed libxmu6:amd64 libxmu6 2:1.1.2-2 install ok installed libxmuu1:amd64 libxmuu1 2:1.1.2-2 install ok installed libxom-java libxom-java 1.2.10-1 install ok installed libxpm4:amd64 libxpm4 1:3.5.12-1 install ok installed libxpp2-java libxpp2-java 2.1.10-7 install ok installed libxpp3-java libxpp3-java 1.1.4c-2 install ok installed libxrandr2:amd64 libxrandr2 2:1.5.1-1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1 install ok installed libxshmfence1:amd64 libxshmfence1 1.2-1+b2 install ok installed libxslt1.1:amd64 libxslt1.1 1.1.29-2.1+deb9u2 install ok installed libxss1:amd64 libxss1 1:1.2.2-1 install ok installed libxt6:amd64 libxt6 1:1.1.5-1 install ok installed libxtst6:amd64 libxtst6 2:1.2.3-1 install ok installed libxv1:amd64 libxv1 2:1.0.11-1 install ok installed libxxf86dga1:amd64 libxxf86dga1 2:1.1.4-1+b3 install ok installed libxxf86vm1:amd64 libxxf86vm1 1:1.1.4-1+b2 install ok installed libxz-java libxz-java 1.6-1 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.1.7-2 install ok installed libyaml-libyaml-perl libyaml-libyaml-perl 0.63-2 install ok installed libyaml-perl libyaml-perl 1.21-1 install ok installed libyaml-tiny-perl libyaml-tiny-perl 1.70-1 install ok installed libzzip-0-13:amd64 libzzip-0-13 0.13.62-3.2~deb9u1 install ok installed linux-libc-dev:amd64 linux-libc-dev 4.9.228-1 install ok installed lmodern lmodern 2.004.5-3 install ok installed login login 1:4.4-4.1 install ok installed loki loki 2.4.7.4-6+b1 install ok installed lsb-base lsb-base 9.20161125 install ok installed lua-filesystem:amd64 lua-filesystem 1.6.3-1 install ok installed lua-lpeg:amd64 lua-lpeg 1.0.0-1 install ok installed lua-md5:amd64 lua-md5 1.2+git+1+8d87fee-1 install ok installed lynx lynx 2.8.9dev11-1 install ok installed lynx-common lynx-common 2.8.9dev11-1 install ok installed macs macs 2.1.1.20160309-1 install ok installed mafft mafft 7.307-1 install ok installed mailutils mailutils 1:3.1.1-1 install ok installed mailutils-common mailutils-common 1:3.1.1-1 install ok installed make make 4.1-9.1 install ok installed manpages manpages 4.10-2 install ok installed manpages-dev manpages-dev 4.10-2 install ok installed mapsembler2 mapsembler2 2.2.3+dfsg-3+b1 install ok installed maq maq 0.7.1-7 install ok installed mariadb-client-10.1 mariadb-client-10.1 10.1.45-0+deb9u1 install ok installed mariadb-client-core-10.1 mariadb-client-core-10.1 10.1.45-0+deb9u1 install ok installed mariadb-common mariadb-common 10.1.45-0+deb9u1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed med-cloud med-cloud 3.0.1 install ok installed med-config med-config 3.0.1 install ok installed med-tasks med-tasks 3.0.1 install ok installed melting melting 4.3.1+dfsg-2+b1 install ok installed menu menu 2.1.47+b1 install ok installed mime-support mime-support 3.60 install ok installed minia minia 1.6906-1+b2 install ok installed mipe mipe 1.1-5 install ok installed mira-assembler mira-assembler 4.9.6-2 install ok installed mira-rfam-12s-rrna mira-rfam-12s-rrna 4.9.6-2 install ok installed mlv-smile mlv-smile 1.47-4+b1 install ok installed mothur mothur 1.38.1.1-1 install ok installed mount mount 2.29.2-1+deb9u1 install ok installed mpi-default-bin mpi-default-bin 1.8 install ok installed mrbayes mrbayes 3.2.6+dfsg-1+b4 install ok installed multiarch-support multiarch-support 2.24-11+deb9u4 install ok installed mummer mummer 3.23+dfsg-2 install ok installed muscle muscle 1:3.8.31+dfsg-2 install ok installed mustang mustang 3.2.3-1 install ok installed mysql-common mysql-common 5.8+1.0.2 install ok installed ncbi-blast+ ncbi-blast+ 2.6.0-1 install ok installed ncbi-blast+-legacy ncbi-blast+-legacy 2.6.0-1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-0+deb9u1 install ok installed ncbi-epcr ncbi-epcr 2.3.12-1-4 install ok installed ncbi-tools-bin ncbi-tools-bin 6.1.20170106+dfsg1-0+deb9u1 install ok installed ncoils ncoils 2002-4+b1 install ok installed ncurses-base ncurses-base 6.0+20161126-1+deb9u2 install ok installed ncurses-bin ncurses-bin 6.0+20161126-1+deb9u2 install ok installed neobio neobio 0.0.20030929-2 install ok installed netbase netbase 5.4 install ok installed netpbm netpbm 2:10.0-15.3+b2 install ok installed notification-daemon notification-daemon 3.20.0-1+b1 install ok installed ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.2.11-1 install ok installed openjdk-8-jre:amd64 openjdk-8-jre 8u252-b09-1~deb9u1 install ok installed openjdk-8-jre-headless:amd64 openjdk-8-jre-headless 8u252-b09-1~deb9u1 install ok installed openmpi-bin openmpi-bin 2.0.2-2 install ok installed openmpi-common openmpi-common 2.0.2-2 install ok installed openssl openssl 1.1.0l-1~deb9u1 install ok installed paraclu paraclu 9-1+b2 install ok installed parallel parallel 20161222-1 install ok installed parsinsert parsinsert 1.04-2 install ok installed passwd passwd 1:4.4-4.1 install ok installed patch patch 2.7.5-1+deb9u2 install ok installed pdb2pqr pdb2pqr 2.1.1+dfsg-2 install ok installed perl perl 5.24.1-3+deb9u7 install ok installed perl-base perl-base 5.24.1-3+deb9u7 install ok installed perl-doc perl-doc 5.24.1-3+deb9u7 install ok installed perl-modules-5.24 perl-modules-5.24 5.24.1-3+deb9u7 install ok installed perl-openssl-defaults:amd64 perl-openssl-defaults 3 install ok installed perl-tk perl-tk 1:804.033-1+b3 install ok installed perm perm 0.4.0-2 install ok installed phylip phylip 1:3.696+dfsg-5 install ok installed phyml phyml 3:3.2.0+dfsg-7+b1 install ok installed phyutility phyutility 2.7.3-1 install ok installed picard-tools picard-tools 2.8.1+dfsg-1 install ok installed pinentry-curses pinentry-curses 1.0.0-2 install ok installed pkg-config pkg-config 0.29-4+b1 install ok installed plink plink 1.07-7 install ok installed poa poa 2.0+20060928-4+b1 install ok installed poppler-data poppler-data 0.4.7-8 install ok installed prank prank 0.0.150803-2 install ok installed preview-latex-style preview-latex-style 11.90-1 install ok installed prime-phylo prime-phylo 1.0.11-4+b3 install ok installed primer3 primer3 2.3.7-3 install ok installed probabel probabel 0.4.5-3+b1 install ok installed probalign probalign 1.4-5 install ok installed probcons probcons 1.12-11 install ok installed procps procps 2:3.3.12-3+deb9u1 install ok installed proda proda 1.0-10 install ok installed prodigal prodigal 1:2.6.3-1+b1 install ok installed prosper prosper 1.00.4+cvs.2007.05.01-4.1 install ok installed ps2eps ps2eps 1.68+binaryfree-2 install ok installed psmisc psmisc 22.21-2.1+b2 install ok installed publicsuffix publicsuffix 20190415.1030-0+deb9u1 install ok installed pynast pynast 1.2.2-2 install ok installed python python 2.7.13-2 install ok installed python-backports-shutil-get-terminal-size python-backports-shutil-get-terminal-size 1.0.0-3 install ok installed python-biopython python-biopython 1.68+dfsg-3 install ok installed python-biopython-doc python-biopython-doc 1.68+dfsg-3 install ok installed python-cairo python-cairo 1.8.8-2.2 install ok installed python-chardet python-chardet 2.3.0-2 install ok installed python-cogent python-cogent 1.9-9 install ok installed python-cycler python-cycler 0.10.0-1 install ok installed python-dateutil python-dateutil 2.5.3-2 install ok installed python-decorator python-decorator 4.0.11-1 install ok installed python-dev python-dev 2.7.13-2 install ok installed python-enum34 python-enum34 1.1.6-1 install ok installed python-functools32 python-functools32 3.2.3.2-3 install ok installed python-glade2 python-glade2 2.24.0-5.1 install ok installed python-gmpy python-gmpy 1.17-3 install ok installed python-gobject-2 python-gobject-2 2.28.6-13 install ok installed python-gtk2 python-gtk2 2.24.0-5.1 install ok installed python-htseq python-htseq 0.6.1p1-4 install ok installed python-imaging python-imaging 4.0.0-4+deb9u1 install ok installed python-ipython python-ipython 5.1.0-3 install ok installed python-ipython-genutils python-ipython-genutils 0.1.0-2 install ok installed python-matplotlib python-matplotlib 2.0.0+dfsg1-2 install ok installed python-matplotlib-data python-matplotlib-data 2.0.0+dfsg1-2 install ok installed python-minimal python-minimal 2.7.13-2 install ok installed python-mpi4py python-mpi4py 2.0.0-2.1+deb9u1 install ok installed python-mpmath python-mpmath 0.19-3 install ok installed python-networkx python-networkx 1.11-2 install ok installed python-numpy python-numpy 1:1.12.1-3 install ok installed python-pathlib2 python-pathlib2 2.2.0+really2.1.0-1 install ok installed python-pexpect python-pexpect 4.2.1-1 install ok installed python-pickleshare python-pickleshare 0.7.4-1 install ok installed python-pil:amd64 python-pil 4.0.0-4+deb9u1 install ok installed python-pkg-resources python-pkg-resources 33.1.1-1 install ok installed python-prompt-toolkit python-prompt-toolkit 1.0.9-1 install ok installed python-ptyprocess python-ptyprocess 0.5.1-1 install ok installed python-pyglet python-pyglet 1.1.4.dfsg-3 install ok installed python-pygments python-pygments 2.2.0+dfsg-1 install ok installed python-pygraphviz python-pygraphviz 1.4~rc1-1 install ok installed python-pyparsing python-pyparsing 2.1.10+dfsg1-1 install ok installed python-pysam python-pysam 0.10.0+ds-2 install ok installed python-renderpm:amd64 python-renderpm 3.3.0-2+deb9u1 install ok installed python-reportlab python-reportlab 3.3.0-2+deb9u1 install ok installed python-reportlab-accel:amd64 python-reportlab-accel 3.3.0-2+deb9u1 install ok installed python-scipy python-scipy 0.18.1-2 install ok installed python-simplegeneric python-simplegeneric 0.8.1-1 install ok installed python-six python-six 1.10.0-3 install ok installed python-subprocess32 python-subprocess32 3.2.7-2 install ok installed python-sympy python-sympy 1.0-3 install ok installed python-sympy-doc python-sympy-doc 1.0-3 install ok installed python-tk python-tk 2.7.13-1 install ok installed python-traitlets python-traitlets 4.3.1-1 install ok installed python-tz python-tz 2016.7-0.3 install ok installed python-wcwidth python-wcwidth 0.1.7+dfsg1-1 install ok installed python-wxgtk3.0 python-wxgtk3.0 3.0.2.0+dfsg-4 install ok installed python-wxversion python-wxversion 3.0.2.0+dfsg-4 install ok installed python-yaml python-yaml 3.12-1 install ok installed python2.7 python2.7 2.7.13-2+deb9u3 install ok installed python2.7-dev python2.7-dev 2.7.13-2+deb9u3 install ok installed python2.7-minimal python2.7-minimal 2.7.13-2+deb9u3 install ok installed python3 python3 3.5.3-1 install ok installed python3-biopython python3-biopython 1.68+dfsg-3 install ok installed python3-minimal python3-minimal 3.5.3-1 install ok installed python3-numpy python3-numpy 1:1.12.1-3 install ok installed python3-pil:amd64 python3-pil 4.0.0-4+deb9u1 install ok installed python3-renderpm:amd64 python3-renderpm 3.3.0-2+deb9u1 install ok installed python3-reportlab python3-reportlab 3.3.0-2+deb9u1 install ok installed python3-reportlab-accel:amd64 python3-reportlab-accel 3.3.0-2+deb9u1 install ok installed python3.5 python3.5 3.5.3-1+deb9u1 install ok installed python3.5-minimal python3.5-minimal 3.5.3-1+deb9u1 install ok installed qdbus qdbus 4:4.8.7+dfsg-11 install ok installed qt-at-spi:amd64 qt-at-spi 0.4.0-5 install ok installed qtchooser qtchooser 63-g13a3d08-1 install ok installed qtcore4-l10n qtcore4-l10n 4:4.8.7+dfsg-11 install ok installed r-base-core r-base-core 3.3.3-1 install ok installed r-base-dev r-base-dev 3.3.3-1 install ok installed r-bioc-edger r-bioc-edger 3.14.0+dfsg-1 install ok installed r-bioc-hilbertvis r-bioc-hilbertvis 1.32.0-1 install ok installed r-bioc-limma r-bioc-limma 3.30.8+dfsg-1 install ok installed r-cran-boot r-cran-boot 1.3-18-2 install ok installed r-cran-class r-cran-class 7.3-14-1 install ok installed r-cran-cluster r-cran-cluster 2.0.5-1 install ok installed r-cran-codetools r-cran-codetools 0.2-15-1 install ok installed r-cran-foreign r-cran-foreign 0.8.67-1 install ok installed r-cran-g.data r-cran-g.data 2.4-1 install ok installed r-cran-kernsmooth r-cran-kernsmooth 2.23-15-2 install ok installed r-cran-lattice r-cran-lattice 0.20-34-1 install ok installed r-cran-mass r-cran-mass 7.3-45-1 install ok installed r-cran-matrix r-cran-matrix 1.2-7.1-1 install ok installed r-cran-mgcv r-cran-mgcv 1.8-16-1 install ok installed r-cran-multicore r-cran-multicore 0.2-1 install ok installed r-cran-nlme r-cran-nlme 3.1.129-1 install ok installed r-cran-nnet r-cran-nnet 7.3-12-1 install ok installed r-cran-permute r-cran-permute 0.9-4-1 install ok installed r-cran-pvclust r-cran-pvclust 2.0-0-1 install ok installed r-cran-qtl r-cran-qtl 1.40-8-1 install ok installed r-cran-rpart r-cran-rpart 4.1-10-2 install ok installed r-cran-spatial r-cran-spatial 7.3-11-1 install ok installed r-cran-survival r-cran-survival 2.40-1-1 install ok installed r-cran-vegan r-cran-vegan 2.4-2-1 install ok installed r-doc-html r-doc-html 3.3.3-1 install ok installed r-other-mott-happy.hbrem r-other-mott-happy.hbrem 2.4-1 install ok installed r-recommended r-recommended 3.3.3-1 install ok installed rake rake 10.5.0-2+deb9u1 install ok installed raster3d raster3d 3.0-3-2+b1 install ok installed raxml raxml 8.2.9+dfsg-1+b1 install ok installed readline-common readline-common 7.0-3 install ok installed readseq readseq 1-11+b1 install ok installed rename rename 0.20-4 install ok installed rnahybrid rnahybrid 2.1.2-1+b1 install ok installed rtax rtax 0.984-5 install ok installed ruby ruby 1:2.3.3 install ok installed ruby-did-you-mean ruby-did-you-mean 1.0.0-2 install ok installed ruby-minitest ruby-minitest 5.9.0-1 install ok installed ruby-net-telnet ruby-net-telnet 0.1.1-2 install ok installed ruby-power-assert ruby-power-assert 0.3.0-1 install ok installed ruby-test-unit ruby-test-unit 3.1.7-2 install ok installed ruby2.3 ruby2.3 2.3.3-1+deb9u8 install ok installed rubygems-integration rubygems-integration 1.11 install ok installed samtools samtools 1.3.1-3 install ok installed sed sed 4.4-1 install ok installed sensible-utils sensible-utils 0.0.9+deb9u1 install ok installed seqan-apps seqan-apps 2.3.1+dfsg-4 install ok installed sgml-base sgml-base 1.29 install ok installed shared-mime-info shared-mime-info 1.8-1+deb9u1 install ok installed sibsim4 sibsim4 0.20-2+b1 install ok installed sigma-align sigma-align 1.1.3-4+b1 install ok installed sim4 sim4 0.0.20121010-4 install ok installed smalt smalt 0.7.6-6 install ok installed snap snap 2013-11-29-6 install ok installed soapdenovo soapdenovo 1.05-3 install ok installed soapdenovo2 soapdenovo2 240+dfsg1-2 install ok installed squizz squizz 0.99c+dfsg-1 install ok installed sra-toolkit sra-toolkit 2.8.1-2+dfsg-2 install ok installed ssake ssake 3.8.4-1 install ok installed staden-io-lib-utils staden-io-lib-utils 1.14.8-2 install ok installed sysstat sysstat 11.4.3-2 install ok installed sysvinit-utils sysvinit-utils 2.88dsf-59.9 install ok installed t-coffee t-coffee 11.00.8cbe486-5 install ok installed t1utils t1utils 1.39-2 install ok installed tabix tabix 1.3.2-2 install ok installed tar tar 1.29b-1.1 install ok installed tasksel tasksel 3.39 install ok installed tasksel-data tasksel-data 3.39 install ok installed tcl tcl 8.6.0+9 install ok installed tcl8.6 tcl8.6 8.6.6+dfsg-1+b1 install ok installed tcpd tcpd 7.6.q-26 install ok installed tex-common tex-common 6.06 install ok installed tex-gyre tex-gyre 20160520-1 install ok installed texlive-base texlive-base 2016.20170123-5 install ok installed texlive-binaries texlive-binaries 2016.20160513.41080.dfsg-2+deb9u1 install ok installed texlive-extra-utils texlive-extra-utils 2016.20170123-5 install ok installed texlive-font-utils texlive-font-utils 2016.20170123-5 install ok installed texlive-fonts-extra texlive-fonts-extra 2016.20170123-5 install ok installed texlive-fonts-extra-doc texlive-fonts-extra-doc 2016.20170123-5 install ok installed texlive-fonts-recommended texlive-fonts-recommended 2016.20170123-5 install ok installed texlive-fonts-recommended-doc texlive-fonts-recommended-doc 2016.20170123-5 install ok installed texlive-generic-extra texlive-generic-extra 2016.20170123-5 install ok installed texlive-generic-recommended texlive-generic-recommended 2016.20170123-5 install ok installed texlive-latex-base texlive-latex-base 2016.20170123-5 install ok installed texlive-latex-base-doc texlive-latex-base-doc 2016.20170123-5 install ok installed texlive-latex-extra texlive-latex-extra 2016.20170123-5 install ok installed texlive-latex-extra-doc texlive-latex-extra-doc 2016.20170123-5 install ok installed texlive-latex-recommended texlive-latex-recommended 2016.20170123-5 install ok installed texlive-latex-recommended-doc texlive-latex-recommended-doc 2016.20170123-5 install ok installed texlive-pictures texlive-pictures 2016.20170123-5 install ok installed texlive-pictures-doc texlive-pictures-doc 2016.20170123-5 install ok installed texlive-pstricks texlive-pstricks 2016.20170123-5 install ok installed texlive-pstricks-doc texlive-pstricks-doc 2016.20170123-5 install ok installed theseus theseus 3.3.0-5+b1 install ok installed tigr-glimmer tigr-glimmer 3.02b-1 install ok installed tipa tipa 2:1.3-20 install ok installed tk tk 8.6.0+9 install ok installed tk8.6 tk8.6 8.6.6-1+b1 install ok installed tk8.6-blt2.5 tk8.6-blt2.5 2.5.3+dfsg-3 install ok installed tm-align tm-align 20160521+dfsg-2 install ok installed tophat tophat 2.1.1+dfsg-2+b2 install ok installed tree-puzzle tree-puzzle 5.2-8+b3 install ok installed tree-puzzle-doc tree-puzzle-doc 5.2-8 install ok installed ttf-adf-accanthis ttf-adf-accanthis 0.20090423-2 install ok installed ttf-adf-gillius ttf-adf-gillius 0.20090423-2 install ok installed ttf-adf-universalis ttf-adf-universalis 0.20090423-2 install ok installed ttf-bitstream-vera ttf-bitstream-vera 1.10-8 install ok installed tzdata tzdata 2020a-0+deb9u1 install ok installed ucf ucf 3.0036 install ok installed unzip unzip 6.0-21+deb9u2 install ok installed util-linux util-linux 2.29.2-1+deb9u1 install ok installed vcftools vcftools 0.1.14+dfsg-4+deb9u1 install ok installed velvet velvet 1.2.10+dfsg1-3+b1 install ok installed wise wise 2.4.1-19 install ok installed wise-data wise-data 2.4.1-19 install ok installed x11-common x11-common 1:7.7+19 install ok installed x11-utils x11-utils 7.7+3+b1 install ok installed x11-xserver-utils x11-xserver-utils 7.7+7+b1 install ok installed xauth xauth 1:1.0.9-1+b2 install ok installed xbitmaps xbitmaps 1.1.1-2 install ok installed xdg-user-dirs xdg-user-dirs 0.15-2+b1 install ok installed xdg-utils xdg-utils 1.1.1-1+deb9u2 install ok installed xkb-data xkb-data 2.19-1+deb9u1 install ok installed xml-core xml-core 0.17 install ok installed xterm xterm 327-2 install ok installed xz-utils xz-utils 5.2.2-1.2+b1 install ok installed zalign zalign 0.9.1-2+b3 install ok installed zip zip 3.0-11+b1 install ok installed zlib1g:amd64 zlib1g 1:1.2.8.dfsg-5 install ok installed zlib1g-dev:amd64 zlib1g-dev 1:1.2.8.dfsg-5 9m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 9m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'remove', 'abyss', 'acedb-other', 'adwaita-icon-theme', 'aevol', 'alien-hunter', 'altree', 'amap-align', 'ampliconnoise', 'anfo', 'ant', 'ant-contrib', 'ant-optional', 'apache2-bin', 'aragorn', 'arden', 'at-spi2-core', 'autodock', 'autodock-vina', 'autogrid', 'autotools-dev', 'bamtools', 'bc', 'bedtools', 'beignet-opencl-icd:amd64', 'binutils', 'biomaj', 'bioperl', 'bioperl-run', 'biosquid', 'blast2', 'blends-common', 'blt', 'bowtie', 'bowtie2', 'boxshade', 'build-essential', 'bwa', 'bzip2', 'bzip2-doc', 'ca-certificates', 'ca-certificates-java', 'cain', 'cain-examples', 'cain-solvers', 'cassiopee', 'cd-hit', 'cdbfasta', 'cdbs', 'circos', 'circos-tools', 'clearcut', 'clonalframe', 'clustalo', 'clustalw', 'concavity', 'conservation-code', 'cpp', 'cpp-6', 'cron', 'cython', 'datamash', 'dbus', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'default-mysql-client', 'dh-python', 'dialign', 'dialign-tx', 'dialign-tx-data', 'dirmngr', 'discosnp', 'disulfinder', 'disulfinder-data', 'dmidecode', 'dnaclust', 'dpkg-dev', 'dssp', 'dvipng', 'embassy-domainatrix', 'embassy-domalign', 'embassy-domsearch', 'emboss', 'emboss-data', 'emboss-lib', 'exim4', 'exim4-base', 'exim4-config', 'exim4-daemon-light', 'exonerate', 'fakeroot', 'fastdnaml', 'fastlink', 'fastqc', 'fasttree', 'fastx-toolkit', 'ffindex', 'file', 'filo', 'fitgcp', 'flexbar', 'fontconfig', 'fontconfig-config', 'fonts-cabin', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-comfortaa', 'fonts-croscore', 'fonts-crosextra-caladea', 'fonts-crosextra-carlito', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-droid-fallback', 'fonts-ebgaramond', 'fonts-ebgaramond-extra', 'fonts-font-awesome', 'fonts-freefont-otf', 'fonts-freefont-ttf', 'fonts-gfs-artemisia', 'fonts-gfs-complutum', 'fonts-gfs-didot', 'fonts-gfs-neohellenic', 'fonts-gfs-olga', 'fonts-gfs-solomos', 'fonts-junicode', 'fonts-lato', 'fonts-liberation', 'fonts-linuxlibertine', 'fonts-lmodern', 'fonts-lobster', 'fonts-lobstertwo', 'fonts-lyx', 'fonts-noto-hinted', 'fonts-noto-mono', 'fonts-oflb-asana-math', 'fonts-roboto-hinted', 'fonts-sil-gentium', 'fonts-sil-gentium-basic', 'fonts-sil-gentiumplus', 'fonts-sil-gentiumplus-compact', 'fonts-stix', 'fonts-texgyre', 'freecontact', 'fsa', 'g++-', 'g++-6', 'gasic', 'gawk', 'gcc', 'gcc-6', 'genometools', 'genometools-common', 'gff2aplot', 'gff2ps', 'gfortran', 'gfortran-6', 'ghostscript', 'giira', 'glam2', 'glib-networking:amd64', 'glib-networking-common', 'glib-networking-services', 'glpk-utils', 'gnome-icon-theme', 'gnupg', 'gnupg-agent', 'gnupg-l10n', 'graphviz', 'grinder', 'gromacs', 'gromacs-data', 'gsettings-desktop-schemas', 'gsfonts', 'gtk-update-icon-cache', 'guile-2.0-libs:amd64', 'hhsuite', 'hhsuite-data', 'hicolor-icon-theme', 'hmmer', 'hyphy-common', 'hyphy-mpi', 'icu-devtools', 'idba', 'imagemagick', 'imagemagick-6-common', 'imagemagick-6.q16', 'infernal', 'ipython', 'isympy', 'isympy-common', 'java-common', 'java-wrappers', 'javascript-common', 'jellyfish', 'junit4', 'kalign', 'kissplice', 'krb5-locales', 'laptop-detect', 'last-align', 'libace-perl', 'libaec0:amd64', 'libaio1:amd64', 'libalgorithm-diff-perl', 'libalgorithm-diff-xs-perl', 'libalgorithm-merge-perl', 'libalgorithm-munkres-perl', 'libamd2:amd64', 'libanfo0', 'libann0', 'libapache-dbi-perl', 'libapache-pom-java', 'libapache2-mod-perl2', 'libapache2-reload-perl', 'libapparmor1:amd64', 'libapr1:amd64', 'libaprutil1:amd64', 'libaprutil1-dbd-sqlite3:amd64', 'libaprutil1-ldap:amd64', 'libargtable2-0', 'libarray-compare-perl', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasound2:amd64', 'libasound2-data', 'libassuan0:amd64', 'libasyncns0:amd64', 'libatinject-jsr330-api-java', 'libatk-bridge2.0-0:amd64', 'libatk-wrapper-java', 'libatk-wrapper-java-jni:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatlas3-base', 'libatomic1:amd64', 'libatspi2.0-0:amd64', 'libaudio2:amd64', 'libauthen-sasl-perl', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libaxis-java', 'libbambamc0', 'libbamtools2.4.0', 'libbcprov-java', 'libbio-asn1-entrezgene-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbiojava-java', 'libbiojava1.7-java', 'libbit-vector-perl', 'libblas-common', 'libblas-dev', 'libblas3', 'libboost-filesystem1.62.0:amd64', 'libboost-iostreams1.62.0:amd64', 'libboost-mpi1.62.0', 'libboost-program-options1.62.0:amd64', 'libboost-regex1.62.0:amd64', 'libboost-serialization1.62.0:amd64', 'libboost-system1.62.0:amd64', 'libboost-thread1.62.0:amd64', 'libbsd-resource-perl', 'libbsd0:amd64', 'libbytecode-java', 'libbz2-dev:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcache-cache-perl', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcarp-always-perl', 'libcarp-clan-perl', 'libcassie1v5', 'libcc1-0:amd64', 'libcdt5', 'libcgi-fast-perl', 'libcgi-pm-perl', 'libcgraph6', 'libcilkrts5:amd64', 'libclass-inspector-perl', 'libclass-method-modifiers-perl', 'libclass-xsaccessor-perl', 'libclone-perl', 'libcolamd2:amd64', 'libcolord2:amd64', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-compress-java', 'libcommons-dbcp-java', 'libcommons-discovery-java', 'libcommons-httpclient-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-net-java', 'libcommons-parent-java', 'libcommons-pool-java', 'libconfig-general-perl', 'libconfig-inifiles-perl', 'libconvert-binary-c-perl', 'libconvert-binhex-perl', 'libcroco3:amd64', 'libcrypt-rc4-perl', 'libcups2:amd64', 'libcupsfilters1:amd64', 'libcupsimage2:amd64', 'libcurl3:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdate-calc-perl', 'libdate-calc-xs-perl', 'libdate-manip-perl', 'libdatrie1:amd64', 'libdbd-mysql-perl', 'libdbd-pg-perl', 'libdbd-sqlite3-perl', 'libdbi-perl', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdevel-caller-perl', 'libdevel-globaldestruction-perl', 'libdevel-lexalias-perl', 'libdevel-symdump-perl', 'libdigest-perl-md5-perl', 'libdivsufsort3:amd64', 'libdjvulibre-text', 'libdjvulibre21:amd64', 'libdom4j-java', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libegl1-mesa:amd64', 'libeigen3-dev', 'libelf1:amd64', 'libelk0', 'libencode-locale-perl', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libexporter-tiny-perl', 'libfabric1', 'libfakeroot:amd64', 'libfcgi-perl', 'libffi6:amd64', 'libffindex0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libfile-basedir-perl', 'libfile-desktopentry-perl', 'libfile-fcntllock-perl', 'libfile-homedir-perl', 'libfile-listing-perl', 'libfile-mimeinfo-perl', 'libfile-slurp-tiny-perl', 'libfile-which-perl', 'libflac8:amd64', 'libfont-afm-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreecontact0v5:amd64', 'libfreetype6:amd64', 'libfreezethaw-perl', 'libfribidi0:amd64', 'libfuse2:amd64', 'libg20', 'libgail-common:amd64', 'libgail18:amd64', 'libgbm1:amd64', 'libgc1c2:amd64', 'libgcc-6-dev:amd64', 'libgd-graph-perl', 'libgd-perl', 'libgd-text-perl', 'libgd3:amd64', 'libgdbm3:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-euclid-perl', 'libgetopt-simple-perl', 'libgflags2v5', 'libgfortran-6-dev:amd64', 'libgfortran3:amd64', 'libgif7:amd64', 'libgl1-mesa-dri:amd64', 'libgl1-mesa-glx:amd64', 'libglade2-0:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libglpk-java', 'libglpk40:amd64', 'libglu1-mesa:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgomp1:amd64', 'libgoogle-glog0v5', 'libgpm2:amd64', 'libgraph-perl', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgraphviz-perl', 'libgromacs2', 'libgs9:amd64', 'libgs9-common', 'libgsasl7', 'libgsl2:amd64', 'libgssapi-krb5-2:amd64', 'libgtextutils0v5:amd64', 'libgtk-3-0:amd64', 'libgtk-3-bin', 'libgtk-3-common', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libgts-0.7-5:amd64', 'libgts-bin', 'libguava-java', 'libgvc6', 'libgvpr2', 'libhamcrest-java', 'libharfbuzz-icu0:amd64', 'libharfbuzz0b:amd64', 'libhdf5-100:amd64', 'libhmsbeagle1v5', 'libhogweed4:amd64', 'libhpdf-2.2.1', 'libhsqldb-java', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tableextract-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhts1:amd64', 'libhtsjdk-java', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-plugins', 'libhwloc5:amd64', 'libibverbs1', 'libice6:amd64', 'libicu-dev', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libijs-0.35:amd64', 'libilmbase12:amd64', 'libimport-into-perl', 'libio-all-perl', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libipc-sharelite-perl', 'libipc-system-simple-perl', 'libisl15:amd64', 'libisorelax-java', 'libitm1:amd64', 'libjava-xmlbuilder-java', 'libjaxen-java', 'libjbig0:amd64', 'libjbig2dec0:amd64', 'libjbzip2-java', 'libjcode-pm-perl', 'libjcommon-java', 'libjdom1-java', 'libjellyfish-2.0-2', 'libjemalloc1', 'libjets3t-java', 'libjgoodies-common-java', 'libjgoodies-forms-java', 'libjpeg-dev', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-underscore', 'libjsch-java', 'libjson-glib-1.0-0:amd64', 'libjson-glib-1.0-common', 'libjsoncpp1:amd64', 'libjsr305-java', 'libjxr-tools', 'libjxr0:amd64', 'libjzlib-java', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkpathsea6:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libksba8:amd64', 'libkyotocabinet16v5:amd64', 'liblapack-dev', 'liblapack3', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblist-allutils-perl', 'liblist-moreutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm3.9:amd64', 'liblocale-gettext-perl', 'liblog4j1.2-java', 'liblqr-1-0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'liblua5.1-0:amd64', 'liblua5.2-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'liblzma-dev:amd64', 'liblzo2-2:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmagickcore-6.q16-3:amd64', 'libmagickcore-6.q16-3-extra:amd64', 'libmagickwand-6.q16-3:amd64', 'libmail-java', 'libmailtools-perl', 'libmailutils5:amd64', 'libmariadbclient18:amd64', 'libmath-bezier-perl', 'libmath-derivative-perl', 'libmath-random-mt-perl', 'libmath-round-perl', 'libmath-spline-perl', 'libmath-tamuanova-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libmime-tools-perl', 'libmldbm-perl', 'libmng1:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmoo-perl', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpx2:amd64', 'libmsv-java', 'libmysql-java', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncbi6:amd64', 'libncurses5:amd64', 'libncurses5-dev:amd64', 'libnet-dbus-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnetpbm10', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libngs-java', 'libngs-sdk-dev', 'libngs-sdk1', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnotify4:amd64', 'libnpth0:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libntlm0:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libogg0:amd64', 'libole-storage-lite-perl', 'libopenexr22:amd64', 'libopenjp2-7:amd64', 'libopenmpi2:amd64', 'liboro-java', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libp11-kit0:amd64', 'libpadwalker-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libparams-classify-perl', 'libparams-validate-perl', 'libparse-recdescent-perl', 'libpathplan4', 'libpciaccess0:amd64', 'libpcre16-3:amd64', 'libpcre3-dev:amd64', 'libpcre32-3:amd64', 'libpcrecpp0v5:amd64', 'libpcsclite1:amd64', 'libperl4-corelibs-perl', 'libperl5.24:amd64', 'libperlio-gzip-perl', 'libpicard-java', 'libpixman-1-0:amd64', 'libpng-dev:amd64', 'libpng-tools', 'libpng16-16:amd64', 'libpod-coverage-perl', 'libpoppler64:amd64', 'libpopt0:amd64', 'libpostscript-perl', 'libpotrace0', 'libpq5:amd64', 'libprocps6:amd64', 'libprotobuf10:amd64', 'libproxy1v5:amd64', 'libpsl5:amd64', 'libpsm-infinipath1', 'libptexenc1:amd64', 'libpth20:amd64', 'libpulse0:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libqt4-dbus:amd64', 'libqt4-xml:amd64', 'libqtcore4:amd64', 'libqtdbus4:amd64', 'libqtgui4:amd64', 'libquadmath0:amd64', 'librdmacm1', 'libreadline-dev:amd64', 'libreadline5:amd64', 'libreadline7:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'libregexp-java', 'librelaxng-datatype-java', 'librest-0.7-0:amd64', 'librole-tiny-perl', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libruby2.3:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsaxonhe-java', 'libscalar-list-utils-perl', 'libsensors4:amd64', 'libservlet3.1-java', 'libset-intspan-perl', 'libset-scalar-perl', 'libsigsegv2:amd64', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsndfile1:amd64', 'libsoap-lite-perl', 'libsort-naturally-perl', 'libsoup-gnome2.4-1:amd64', 'libsoup2.4-1:amd64', 'libspiffy-perl', 'libspreadsheet-parseexcel-perl', 'libspreadsheet-writeexcel-perl', 'libsprng2', 'libsqlite3-0:amd64', 'libsquizz', 'libssh2-1:amd64', 'libssl1.0.2:amd64', 'libssl1.1:amd64', 'libstaden-read11:amd64', 'libstatistics-basic-perl', 'libstatistics-descriptive-perl', 'libstdc++-6-dev:amd64', 'libstrictures-perl', 'libsub-exporter-progressive-perl', 'libsub-name-perl', 'libsuitesparseconfig4:amd64', 'libsvg-graph-perl', 'libsvg-perl', 'libsynctex1:amd64', 'libsz2:amd64', 'libtamuanova-0.2', 'libtask-weaken-perl', 'libtasn1-6:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libterm-readkey-perl', 'libtest-pod-perl', 'libtexlua52:amd64', 'libtexluajit2:amd64', 'libtext-format-perl', 'libtext-iconv-perl', 'libthai-data', 'libthai0:amd64', 'libtie-ixhash-perl', 'libtiff5:amd64', 'libtimedate-perl', 'libtinfo-dev:amd64', 'libtk8.6:amd64', 'libtre5:amd64', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'libtsan0:amd64', 'libtxc-dxtn-s2tc:amd64', 'libtype-tiny-perl', 'libtype-tiny-xs-perl', 'libubsan0:amd64', 'libunicode-map-perl', 'libunistring0:amd64', 'libunwind8', 'liburi-perl', 'libutempter0:amd64', 'libvorbis0a:amd64', 'libvorbisenc2:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1-mesa:amd64', 'libwayland-server0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwmf0.2-7:amd64', 'libwrap0:amd64', 'libwsdl4j-java', 'libwww-perl', 'libwww-robotrules-perl', 'libwxbase3.0-0v5:amd64', 'libwxgtk3.0-0v5:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-protocol-perl', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shape0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxerces-c3.1:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-filter-buffertext-perl', 'libxml-libxml-perl', 'libxml-libxslt-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-sax-writer-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpath-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libxmu6:amd64', 'libxmuu1:amd64', 'libxom-java', 'libxpm4:amd64', 'libxpp2-java', 'libxpp3-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxv1:amd64', 'libxxf86dga1:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libyaml-0-2:amd64', 'libyaml-libyaml-perl', 'libyaml-perl', 'libyaml-tiny-perl', 'libzzip-0-13:amd64', 'linux-libc-dev:amd64', 'lmodern', 'loki', 'lsb-base', 'lua-filesystem:amd64', 'lua-lpeg:amd64', 'lua-md5:amd64', 'lynx', 'lynx-common', 'macs', 'mafft', 'mailutils', 'mailutils-common', 'make', 'manpages', 'manpages-dev', 'mapsembler2', 'maq', 'mariadb-client-10.1', 'mariadb-client-core-10.1', 'mariadb-common', 'med-config', 'med-tasks', 'melting', 'menu', 'mime-support', 'minia', 'mipe', 'mira-assembler', 'mira-rfam-12s-rrna', 'mlv-smile', 'mothur', 'mpi-default-bin', 'mrbayes', 'mummer', 'muscle', 'mustang', 'mysql-common', 'ncbi-blast+-', 'ncbi-blast+-legacy', 'ncbi-data', 'ncbi-epcr', 'ncbi-tools-bin', 'ncoils', 'neobio', 'netbase', 'netpbm', 'notification-daemon', 'ocl-icd-libopencl1:amd64', 'openjdk-8-jre:amd64', 'openjdk-8-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssl', 'paraclu', 'parallel', 'parsinsert', 'patch', 'pdb2pqr', 'perl', 'perl-doc', 'perl-modules-5.24', 'perl-openssl-defaults:amd64', 'perl-tk', 'perm', 'phylip', 'phyml', 'phyutility', 'picard-tools', 'pinentry-curses', 'pkg-config', 'plink', 'poa', 'poppler-data', 'prank', 'preview-latex-style', 'prime-phylo', 'primer3', 'probabel', 'probalign', 'probcons', 'procps', 'proda', 'prodigal', 'prosper', 'ps2eps', 'psmisc', 'publicsuffix', 'pynast', 'python', 'python-backports-shutil-get-terminal-size', 'python-biopython', 'python-biopython-doc', 'python-cairo', 'python-chardet', 'python-cogent', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-enum34', 'python-functools32', 'python-glade2', 'python-gmpy', 'python-gobject-2', 'python-gtk2', 'python-htseq', 'python-imaging', 'python-ipython', 'python-ipython-genutils', 'python-matplotlib', 'python-matplotlib-data', 'python-minimal', 'python-mpi4py', 'python-mpmath', 'python-networkx', 'python-numpy', 'python-pathlib2', 'python-pexpect', 'python-pickleshare', 'python-pil:amd64', 'python-pkg-resources', 'python-prompt-toolkit', 'python-ptyprocess', 'python-pyglet', 'python-pygments', 'python-pygraphviz', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-simplegeneric', 'python-six', 'python-subprocess32', 'python-sympy', 'python-sympy-doc', 'python-tk', 'python-traitlets', 'python-tz', 'python-wcwidth', 'python-wxgtk3.0', 'python-wxversion', 'python-yaml', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.5', 'python3.5-minimal', 'qdbus', 'qt-at-spi:amd64', 'qtchooser', 'qtcore4-l10n', 'r-base-core', 'r-base-dev', 'r-bioc-edger', 'r-bioc-hilbertvis', 'r-bioc-limma', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-g.data', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-multicore', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-permute', 'r-cran-pvclust', 'r-cran-qtl', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-cran-vegan', 'r-doc-html', 'r-other-mott-happy.hbrem', 'r-recommended', 'rake', 'raster3d', 'raxml', 'readline-common', 'readseq', 'rename', 'rnahybrid', 'rtax', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby2.3', 'rubygems-integration', 'samtools', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'sibsim4', 'sigma-align', 'sim4', 'smalt', 'snap', 'soapdenovo', 'soapdenovo2', 'squizz', 'sra-toolkit', 'ssake', 'staden-io-lib-utils', 'sysstat', 't-coffee', 't1utils', 'tabix', 'tasksel', 'tasksel-data', 'tcl', 'tcl8.6', 'tcpd', 'tex-common', 'tex-gyre', 'texlive-base', 'texlive-binaries', 'texlive-extra-utils', 'texlive-font-utils', 'texlive-fonts-extra', 'texlive-fonts-extra-doc', 'texlive-fonts-recommended', 'texlive-fonts-recommended-doc', 'texlive-generic-extra', 'texlive-generic-recommended', 'texlive-latex-base', 'texlive-latex-base-doc', 'texlive-latex-extra', 'texlive-latex-extra-doc', 'texlive-latex-recommended', 'texlive-latex-recommended-doc', 'texlive-pictures', 'texlive-pictures-doc', 'texlive-pstricks', 'texlive-pstricks-doc', 'theseus', 'tigr-glimmer', 'tipa', 'tk', 'tk8.6', 'tk8.6-blt2.5', 'tm-align', 'tophat', 'tree-puzzle', 'tree-puzzle-doc', 'ttf-adf-accanthis', 'ttf-adf-gillius', 'ttf-adf-universalis', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'unzip', 'vcftools', 'velvet', 'wise', 'wise-data', 'x11-common', 'x11-utils', 'x11-xserver-utils', 'xauth', 'xbitmaps', 'xdg-user-dirs', 'xdg-utils', 'xkb-data', 'xml-core', 'xterm', 'xz-utils', 'zalign', 'zip', 'zlib1g-dev:amd64', 'med-cloud'] 9m39.2s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: abyss acedb-other adwaita-icon-theme aevol alien-hunter altree amap-align ampliconnoise anfo ant ant-contrib ant-optional apache2-bin aragorn arden at-spi2-core autodock autodock-vina autogrid autotools-dev bamtools bc bedtools beignet-opencl-icd binutils biomaj bioperl bioperl-run biosquid blast2 blends-common blt bowtie bowtie2 boxshade build-essential bwa bzip2 bzip2-doc ca-certificates ca-certificates-java cain cain-examples cain-solvers cassiopee cd-hit cdbfasta cdbs circos circos-tools clearcut clonalframe clustalo clustalw concavity conservation-code cpp cpp-6 cron cython datamash dbus dconf-gsettings-backend dconf-service default-jre default-jre-headless default-mysql-client dh-python dialign dialign-tx dialign-tx-data dirmngr discosnp disulfinder disulfinder-data dmidecode dnaclust dpkg-dev dssp dvipng embassy-domainatrix embassy-domalign embassy-domsearch emboss emboss-data emboss-lib exim4 exim4-base exim4-config exim4-daemon-light exonerate fakeroot fastdnaml fastlink fastqc fasttree fastx-toolkit ffindex file filo fitgcp flexbar fontconfig fontconfig-config fonts-cabin fonts-circos-symbols fonts-cmu fonts-comfortaa fonts-croscore fonts-crosextra-caladea fonts-crosextra-carlito fonts-dejavu-core fonts-dejavu-extra fonts-droid-fallback fonts-ebgaramond fonts-ebgaramond-extra fonts-font-awesome fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-junicode fonts-lato fonts-liberation fonts-linuxlibertine fonts-lmodern fonts-lobster fonts-lobstertwo fonts-lyx fonts-noto-hinted fonts-noto-mono fonts-oflb-asana-math fonts-roboto-hinted fonts-sil-gentium fonts-sil-gentium-basic fonts-sil-gentiumplus fonts-sil-gentiumplus-compact fonts-stix fonts-texgyre freecontact fsa g++ g++-6 gasic gawk gcc gcc-6 genometools genometools-common gff2aplot gff2ps gfortran gfortran-6 ghostscript giira glam2 glib-networking 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libgraphviz-perl libgromacs2 libgs9 libgs9-common libgsasl7 libgsl2 libgssapi-krb5-2 libgtextutils0v5 libgtk-3-0 libgtk-3-bin libgtk-3-common libgtk2.0-0 libgtk2.0-bin libgtk2.0-common libgts-0.7-5 libgts-bin libguava-java libgvc6 libgvpr2 libhamcrest-java libharfbuzz-icu0 libharfbuzz0b libhdf5-100 libhmsbeagle1v5 libhogweed4 libhpdf-2.2.1 libhsqldb-java libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tableextract-perl libhtml-tagset-perl libhtml-tree-perl libhts1 libhtsjdk-java libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhwloc-plugins libhwloc5 libibverbs1 libice6 libicu-dev libicu57 libidn11 libidn2-0 libijs-0.35 libilmbase12 libimport-into-perl libio-all-perl libio-html-perl libio-pty-perl libio-sessiondata-perl libio-socket-ssl-perl libio-string-perl libio-stringy-perl libipc-run-perl libipc-sharelite-perl libipc-system-simple-perl libisl15 libisorelax-java libitm1 libjava-xmlbuilder-java libjaxen-java 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perl-openssl-defaults perl-tk perm phylip phyml phyutility picard-tools pinentry-curses pkg-config plink poa poppler-data prank preview-latex-style prime-phylo primer3 probabel probalign probcons procps proda prodigal prosper ps2eps psmisc publicsuffix pynast python python-backports-shutil-get-terminal-size python-biopython python-biopython-doc python-cairo python-chardet python-cogent python-cycler python-dateutil python-decorator python-dev python-enum34 python-functools32 python-glade2 python-gmpy python-gobject-2 python-gtk2 python-htseq python-imaging python-ipython python-ipython-genutils python-matplotlib python-matplotlib-data python-minimal python-mpi4py python-mpmath python-networkx python-numpy python-pathlib2 python-pexpect python-pickleshare python-pil python-pkg-resources python-prompt-toolkit python-ptyprocess python-pyglet python-pygments python-pygraphviz python-pyparsing python-pysam python-renderpm python-reportlab python-reportlab-accel python-scipy python-simplegeneric python-six python-subprocess32 python-sympy python-sympy-doc python-tk python-traitlets python-tz python-wcwidth python-wxgtk3.0 python-wxversion python-yaml python2.7 python2.7-dev python2.7-minimal python3 python3-biopython python3-minimal python3-numpy python3-pil python3-renderpm python3-reportlab python3-reportlab-accel python3.5 python3.5-minimal qdbus qt-at-spi qtchooser qtcore4-l10n r-base-core r-base-dev r-bioc-edger r-bioc-hilbertvis r-bioc-limma r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-g.data r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-multicore r-cran-nlme r-cran-nnet r-cran-permute r-cran-pvclust r-cran-qtl r-cran-rpart r-cran-spatial r-cran-survival r-cran-vegan r-doc-html r-other-mott-happy.hbrem r-recommended rake raster3d raxml readline-common readseq rename rnahybrid rtax ruby ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert ruby-test-unit ruby2.3 rubygems-integration samtools seqan-apps sgml-base shared-mime-info sibsim4 sigma-align sim4 smalt snap soapdenovo soapdenovo2 squizz sra-toolkit ssake staden-io-lib-utils sysstat t-coffee t1utils tabix tasksel tasksel-data tcl tcl8.6 tcpd tex-common tex-gyre texlive-base texlive-binaries texlive-extra-utils texlive-font-utils texlive-fonts-extra texlive-fonts-extra-doc texlive-fonts-recommended texlive-fonts-recommended-doc texlive-generic-extra texlive-generic-recommended texlive-latex-base texlive-latex-base-doc texlive-latex-extra texlive-latex-extra-doc texlive-latex-recommended texlive-latex-recommended-doc texlive-pictures texlive-pictures-doc texlive-pstricks texlive-pstricks-doc theseus tigr-glimmer tipa tk tk8.6 tk8.6-blt2.5 tm-align tophat tree-puzzle tree-puzzle-doc ttf-adf-accanthis ttf-adf-gillius ttf-adf-universalis ttf-bitstream-vera tzdata ucf unzip vcftools velvet wise wise-data x11-common x11-utils x11-xserver-utils xauth xbitmaps xdg-user-dirs xdg-utils xkb-data xml-core xterm xz-utils zalign zip zlib1g-dev 0 upgraded, 0 newly installed, 1114 to remove and 0 not upgraded. After this operation, 5409 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 ... 177947 files and directories currently installed.) Removing abyss (2.0.2-2) ... Removing acedb-other (4.9.39+dfsg.02-1) ... Removing notification-daemon (3.20.0-1+b1) ... Removing picard-tools (2.8.1+dfsg-1) ... Removing fastqc (0.11.5+dfsg-6) ... Removing neobio (0.0.20030929-2) ... Removing biomaj (1.2.3-11) ... Warning, BioMAJ database for MySQL is not deleted by process removal. Removing cain-examples (1.10+dfsg-2) ... Removing cain (1.10+dfsg-2) ... Removing python-wxgtk3.0 (3.0.2.0+dfsg-4) ... Removing libwxgtk3.0-0v5:amd64 (3.0.2+dfsg-4) ... Removing aevol (4.4-1+b4) ... Removing alien-hunter (1.7-5) ... Removing altree (1.3.1-4+b2) ... Removing amap-align (2.2-6) ... Removing ampliconnoise (1.29-6) ... Removing anfo (0.98-5) ... Removing libsaxonhe-java (9.5.1.1+dfsg-2) ... Removing libdom4j-java (1.6.1+dfsg.3-2+deb9u1) ... Removing libmsv-java (2009.1+dfsg1-5) ... Removing ant-optional (1.9.9-1+deb9u1) ... Removing ant-contrib (1.0~b3+svn177-9) ... Removing libapache2-reload-perl (0.13-1) ... Removing libapache-dbi-perl (1.12-1) ... Removing libapache2-mod-perl2 (2.0.10-2+deb9u1) ... Removing apache2-bin (2.4.25-3+deb9u9) ... Removing aragorn (1.2.38-1) ... Removing arden (1.0-3) ... Removing at-spi2-core (2.22.0-6+deb9u1) ... Removing autodock (4.2.6-3+b1) ... Removing autodock-vina (1.1.2-3+b6) ... Removing autogrid (4.2.6-3+b1) ... Removing autotools-dev (20161112.1) ... Removing bamtools (2.4.1+dfsg-1) ... Removing minia (1.6906-1+b2) ... Removing mapsembler2 (2.2.3+dfsg-3+b1) ... Removing bedtools (2.26.0+dfsg-3) ... Removing phyml (3:3.2.0+dfsg-7+b1) ... Removing mrbayes (3.2.6+dfsg-1+b4) ... Removing libhmsbeagle1v5 (2.1.2+20160831-5) ... Removing beignet-opencl-icd:amd64 (1.3.0-4) ... Removing r-base-dev (3.3.3-1) ... Removing build-essential (12.3) ... Removing g++ (4:6.3.0-4) ... Removing liblapack-dev (3.7.0-2) ... Removing libblas-dev (3.7.0-2) ... Removing gfortran (4:6.3.0-4) ... Removing gcc (4:6.3.0-4) ... Removing dpkg-dev (1.18.25) ... Removing bioperl-run (1.7.1-3) ... Removing bioperl (1.7.1-2) ... Removing biosquid (1.9g+cvs20050121-7) ... Removing blast2 (1:2.6.0-1) ... Removing med-cloud (3.0.1) ... Removing med-config (3.0.1) ... Removing blends-common (0.6.96) ... Removing python-tk (2.7.13-1) ... 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Removing exim4-daemon-light (4.89-2+deb9u7) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing exim4-base (4.89-2+deb9u7) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing cron (3.0pl1-128+deb9u1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing macs (2.1.1.20160309-1) ... Removing cython (0.25.2-1) ... Removing datamash (1.0.7-1) ... Removing dbus (1.10.32-0+deb9u1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing libgtk-3-bin (3.22.11-1) ... Removing default-mysql-client (1.0.2) ... Removing python3-biopython (1.68+dfsg-3) ... Removing python3-reportlab (3.3.0-2+deb9u1) ... Removing python3-reportlab-accel:amd64 (3.3.0-2+deb9u1) ... Removing python3-numpy (1:1.12.1-3) ... Removing python3-renderpm:amd64 (3.3.0-2+deb9u1) ... 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Removing gnome-icon-theme (3.12.0-2) ... update-alternatives: using /usr/share/icons/gnome/scalable/places/gnome-foot.svg to provide /usr/share/icons/gnome/scalable/places/start-here.svg (start-here.svg) in auto mode update-alternatives: warning: skip creation of /usr/share/icons/gnome/256x256/places/start-here.png because associated file /usr/share/icons/gnome/256x256/places/gnome-foot.png (of link group start-here.svg) doesn't exist Removing gnupg (2.1.18-8~deb9u4) ... Removing gnupg-agent (2.1.18-8~deb9u4) ... Removing gnupg-l10n (2.1.18-8~deb9u4) ... Removing python-pygraphviz (1.4~rc1-1) ... Removing libgraphviz-perl (2.22-1) ... Removing graphviz (2.38.0-17) ... Removing grinder (0.5.4-1) ... Removing gromacs (2016.1-2) ... Removing gromacs-data (2016.1-2) ... Removing python-renderpm:amd64 (3.3.0-2+deb9u1) ... Removing gsfonts (1:8.11+urwcyr1.0.7~pre44-4.3) ... Removing libgtk2.0-bin (2.24.31-2) ... Removing libmailutils5:amd64 (1:3.1.1-1) ... 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Removing r-recommended (3.3.3-1) ... Removing r-cran-rpart (4.1-10-2) ... Removing r-cran-survival (2.40-1-1) ... Removing r-cran-vegan (2.4-2-1) ... Removing r-cran-mgcv (1.8-16-1) ... Removing r-cran-matrix (1.2-7.1-1) ... Removing r-cran-qtl (1.40-8-1) ... Removing r-bioc-edger (3.14.0+dfsg-1) ... Removing r-other-mott-happy.hbrem (2.4-1) ... Removing r-cran-spatial (7.3-11-1) ... Removing libatlas3-base (3.10.3-1+b1) ... update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Removing libtbb2:amd64 (4.3~20150611-2) ... Removing libaudio2:amd64 (1.9.4-5+b1) ... Removing libauthen-sasl-perl (2.1600-1) ... Removing texlive-pstricks-doc (2016.20170123-5) ... Removing prosper (1.00.4+cvs.2007.05.01-4.1) ... Removing texlive-pstricks (2016.20170123-5) ... Removing texlive-latex-extra (2016.20170123-5) ... 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Removing libconfig-general-perl (2.63-1) ... Removing libconfig-inifiles-perl (2.94-1) ... Removing libconvert-binary-c-perl (0.78-1+b1) ... Removing libmime-tools-perl (5.508-1) ... Removing libconvert-binhex-perl (1.125-1) ... Removing libspreadsheet-parseexcel-perl (0.6500-1) ... Removing libcrypt-rc4-perl (2.02-2) ... Removing libxerces-c3.1:amd64 (3.1.4+debian-2+deb9u1) ... Removing staden-io-lib-utils (1.14.8-2) ... Removing libstaden-read11:amd64 (1.14.8-2) ... Removing libdata-dumper-simple-perl (0.11-5) ... Removing libdata-stag-perl (0.14-2) ... Removing libdate-manip-perl (6.57-1) ... Removing libdbd-mysql-perl (4.041-2) ... Removing libdbd-pg-perl (3.5.3-1+b2) ... Removing libdbd-sqlite3-perl (1.54-1) ... Removing libdbi-perl (1.636-1+b1) ... Removing libqt4-dbus:amd64 (4:4.8.7+dfsg-11) ... Removing qdbus (4:4.8.7+dfsg-11) ... Removing libqtdbus4:amd64 (4:4.8.7+dfsg-11) ... Removing libnet-dbus-perl (1.1.0-4+b1) ... Removing libdevel-lexalias-perl (0.05-1+b4) ... Removing libdevel-caller-perl (2.06-1+b4) ... Removing libdevel-globaldestruction-perl (0.14-1) ... Removing libpod-coverage-perl (0.23-1) ... Removing libdevel-symdump-perl (2.17-1) ... Removing libdigest-perl-md5-perl (1.9-1) ... Removing libdivsufsort3:amd64 (2.0.1-2) ... Removing libdjvulibre21:amd64 (3.5.27.1-7) ... Removing libdjvulibre-text (3.5.27.1-7) ... Removing libeigen3-dev (3.3.2-1) ... Removing pkg-config (0.29-4+b1) ... Removing libdpkg-perl (1.18.25) ... Removing libgl1-mesa-dri:amd64 (13.0.6-1+b2) ... Removing libdrm-amdgpu1:amd64 (2.4.74-1) ... Removing libdrm-intel1:amd64 (2.4.74-1) ... Removing libdrm-nouveau2:amd64 (2.4.74-1) ... Removing libdrm-radeon1:amd64 (2.4.74-1) ... Removing python-pyglet (1.1.4.dfsg-3) ... Removing libglu1-mesa:amd64 (9.0.0-2.1) ... Removing libllvm3.9:amd64 (1:3.9.1-9) ... Removing libedit2:amd64 (3.1-20160903-3) ... Removing libelk0 (3.99.8-4.1+b1) ... Removing libelf1:amd64 (0.168-1) ... Removing libxml-simple-perl (2.22-1) ... Removing libxml-sax-expat-perl (0.40-2) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::Expat with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Removing libxml-xpath-perl (1.40-1) ... Removing libxml-dom-xpath-perl (0.14-2) ... Removing libxml-dom-perl (1.44-2) ... Removing liberror-perl (0.17024-1) ... Removing libwxbase3.0-0v5:amd64 (3.0.2+dfsg-4) ... Removing python-dev (2.7.13-2) ... Removing python2.7-dev (2.7.13-2+deb9u3) ... Removing libpython-dev:amd64 (2.7.13-2) ... Removing libpython2.7-dev:amd64 (2.7.13-2+deb9u3) ... Removing libexpat1-dev:amd64 (2.2.0-2+deb9u3) ... Removing libtype-tiny-perl (1.000005-1) ... Removing libsvg-graph-perl (0.02-2) ... Removing libstatistics-descriptive-perl (3.0612-1) ... Removing liblist-moreutils-perl (0.416-1+b1) ... Removing libexporter-tiny-perl (0.042-1) ... Removing zalign (0.9.1-2+b3) ... Removing python-mpi4py (2.0.0-2.1+deb9u1) ... Removing mpi-default-bin (1.8) ... Removing openmpi-bin (2.0.2-2) ... Removing libopenmpi2:amd64 (2.0.2-2) ... Removing libfabric1 (1.4.0-1) ... Removing libfakeroot:amd64 (1.21-3.1) ... Removing libfcgi-perl (0.78-2) ... Removing libffindex0 (0.9.9.7-3) ... Removing libgromacs2 (2016.1-2) ... Removing libfftw3-double3:amd64 (3.3.5-3) ... Removing libfftw3-single3:amd64 (3.3.5-3) ... Removing libfile-mimeinfo-perl (0.27-1) ... Removing libfile-desktopentry-perl (0.22-1) ... Removing libfile-basedir-perl (0.07-1) ... Removing libfile-fcntllock-perl (0.22-3+b2) ... Removing libfile-homedir-perl (1.00-1) ... Removing libtree-dagnode-perl (1.29-1) ... Removing libfile-slurp-tiny-perl (0.003-1) ... Removing libfile-which-perl (1.21-1) ... Removing libhtml-format-perl (2.12-1) ... Removing libfont-afm-perl (1.20-2) ... Removing libfont-ttf-perl (1.06-1) ... Removing libfreecontact0v5:amd64 (1.0.21-5) ... Removing tk (8.6.0+9) ... Removing tk8.6 (8.6.6-1+b1) ... Removing tk8.6-blt2.5 (2.5.3+dfsg-3) ... Removing libfreezethaw-perl (0.5001-1) ... Removing libfribidi0:amd64 (0.19.7-1+deb9u1) ... Removing libfuse2:amd64 (2.9.7-1+deb9u2) ... Removing rnahybrid (2.1.2-1+b1) ... Removing libg20 (0.72-6) ... Removing libgc1c2:amd64 (1:7.4.2-8) ... Removing libgd-graph-perl (1.48-2) ... Removing libgd-text-perl (0.86-9) ... Removing libgd-perl (2.53-3) ... Removing libgd3:amd64 (2.2.4-2+deb9u5) ... Removing vcftools (0.1.14+dfsg-4+deb9u1) ... Removing rtax (0.984-5) ... Removing libwmf0.2-7:amd64 (0.2.8.4-10.6) ... Removing libnotify4:amd64 (0.7.7-2) ... Removing libgetopt-euclid-perl (0.4.5-2) ... Removing libgetopt-simple-perl (1.52-5) ... Removing libgoogle-glog0v5 (0.3.4-2) ... Removing libgflags2v5 (2.1.2-4) ... Removing tm-align (20160521+dfsg-2) ... Removing r-cran-nlme (3.1.129-1) ... Removing wise (2.4.1-19) ... Removing sigma-align (1.1.3-4+b1) ... Removing libglib2.0-data (2.50.3-2+deb9u2) ... Removing tree-puzzle (5.2-8+b3) ... Removing libsprng2 (2.0a-10) ... Removing libpq5:amd64 (9.6.17-0+deb9u1) ... Removing velvet (1.2.10+dfsg1-3+b1) ... Removing seqan-apps (2.3.1+dfsg-4) ... Removing libgpm2:amd64 (1.20.4-6.2+b1) ... Removing libgraph-perl (1:0.96-2) ... Removing libgraphics-colorobject-perl (0.5.0-7.1) ... Removing libgraphics-colornames-perl (2.11-7.1) ... Removing libgsasl7 (1.8.0-8+b2) ... Removing libmath-tamuanova-perl (1.0.2-2+b4) ... Removing libtamuanova-0.2 (0.2-4) ... Removing libgsl2:amd64 (2.3+dfsg-1) ... Removing libgtextutils0v5:amd64 (0.7-4) ... Removing libgts-bin (0.7.6+darcs121130-4) ... Removing libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Removing libhamcrest-java (1.3-6) ... Removing libhpdf-2.2.1 (2.2.1-1.1+b1) ... Removing libhsqldb-java (2.3.4-1) ... Removing libhtml-form-perl (6.03-1) ... Removing libhtml-tableextract-perl (2.13-1) ... Removing samtools (1.3.1-3) ... Removing python-pysam (0.10.0+ds-2) ... Removing libhts1:amd64 (1.3.2-2) ... Removing libhttp-daemon-perl (6.01-1) ... Removing libhwloc-plugins (1.11.5-1) ... Removing libhwloc5:amd64 (1.11.5-1) ... Removing librdmacm1 (1.1.0-2) ... Removing libibverbs1 (1.2.1-2) ... Removing libncbi-wvdb2 (2.8.1+dfsg-2) ... Removing libopenexr22:amd64 (2.2.0-11+b1) ... Removing libilmbase12:amd64 (2.2.0-12) ... Removing libimport-into-perl (1.002005-1) ... Removing libio-all-perl (0.86-2) ... Removing libipc-run-perl (0.94-1+deb9u1) ... Removing libio-pty-perl (1:1.08-1.1+b2) ... Removing libio-sessiondata-perl (1.03-1) ... Removing libmailtools-perl (2.18-1) ... Removing libnet-smtp-ssl-perl (1.04-1) ... Removing libio-string-perl (1.08-3) ... Removing libole-storage-lite-perl (0.19-1+deb9u1) ... Removing libio-stringy-perl (2.111-2) ... Removing libipc-sharelite-perl (0.17-4) ... Removing libipc-system-simple-perl (1.25-3) ... Removing libisorelax-java (20041111-9) ... Removing libjava-xmlbuilder-java (0.4-2) ... Removing libxom-java (1.2.10-1) ... Removing libjdom1-java (1.1.3-1) ... Removing libjaxen-java (1.1.6-1+deb9u1) ... Removing python-imaging (4.0.0-4+deb9u1) ... Removing python-pil:amd64 (4.0.0-4+deb9u1) ... Removing libjbzip2-java (0.9.1-3) ... Removing libjcode-pm-perl (2.06-1) ... Removing libjcommon-java (1.0.23-1) ... Removing libjellyfish-2.0-2 (2.2.6-1+b1) ... Removing libjemalloc1 (3.6.0-9.1) ... Removing libjgoodies-forms-java (1.9.0-3) ... Removing libjgoodies-common-java (1.8.1-2) ... Removing perl-tk (1:804.033-1+b3) ... Removing pynast (1.2.2-2) ... Removing libjs-jquery-ui (1.12.1+dfsg-4) ... Removing libjs-jquery (3.1.1-2+deb9u1) ... Removing libjs-underscore (1.8.3~dfsg-1) ... Removing libjsch-java (0.1.54-1) ... Removing libjsoncpp1:amd64 (1.7.4-3) ... Removing libjsr305-java (0.1~+svn49-10) ... Removing libjxr-tools (1.1-6+b1) ... Removing libjxr0:amd64 (1.1-6+b1) ... Removing libjzlib-java (1.1.3-1) ... Removing libksba8:amd64 (1.3.5-2) ... Removing libkyotocabinet16v5:amd64 (1.2.76-4.2+b1) ... Removing libmng1:amd64 (1.0.10+dfsg-3.1+b5) ... Removing liblist-allutils-perl (0.12-1) ... Removing liblist-someutils-perl (0.53-1) ... Removing liblist-utilsby-perl (0.10-1) ... Removing med-tasks (3.0.1) ... Removing liblog4j1.2-java (1.2.17-7+deb9u1) ... Removing liblqr-1-0:amd64 (0.4.2-2+b2) ... Removing libltdl7:amd64 (2.4.6-2) ... Removing liblua5.1-0:amd64 (5.1.5-8.1+b2) ... Removing liblua5.2-0:amd64 (5.2.4-1.1+b2) ... Removing liblzma-dev:amd64 (5.2.2-1.2+b1) ... Removing liblzo2-2:amd64 (2.08-1.2+b2) ... Removing libmagic1:amd64 (1:5.30-1+deb9u3) ... Removing libmagic-mgc (1:5.30-1+deb9u3) ... Removing libmail-java (1.5.6-2) ... Removing libmariadbclient18:amd64 (10.1.45-0+deb9u1) ... Removing libmath-bezier-perl (0.01-2) ... Removing libmath-spline-perl (0.02-1) ... Removing libmath-derivative-perl (0.04-2) ... Removing libmath-random-mt-perl (1.17-1+b2) ... Removing libmath-round-perl (0.07-1) ... Removing libmath-vec-perl (1.01-3) ... Removing libmath-vecstat-perl (0.08-1) ... Removing libmbedtls-dev:amd64 (2.4.2-1+deb9u3) ... Removing libncbi-vdb2 (2.8.1+dfsg-2) ... Removing libmbedtls10:amd64 (2.4.2-1+deb9u3) ... Removing libmbedx509-0:amd64 (2.4.2-1+deb9u3) ... Removing libmldbm-perl (2.05-2) ... Removing libparams-validate-perl (1.26-1) ... Removing libmodule-implementation-perl (0.09-1) ... Removing libmodule-runtime-perl (0.014-2) ... Removing libmysql-java (5.1.49-0+deb9u1) ... Removing readseq (1-11+b1) ... Removing ncbi-tools-bin (6.1.20170106+dfsg1-0+deb9u1) ... Removing libncbi6:amd64 (6.1.20170106+dfsg1-0+deb9u1) ... Removing parallel (20161222-1) ... Removing 'diversion of /usr/bin/parallel to /usr/bin/parallel.moreutils by parallel' Removing 'diversion of /usr/share/man/man1/parallel.1.gz to /usr/share/man/man1/parallel.moreutils.1.gz by parallel' Removing procps (2:3.3.12-3+deb9u1) ... Removing netpbm (2:10.0-15.3+b2) ... Removing libnetpbm10 (2:10.0-15.3+b2) ... Removing libngs-java (1.3.0-2) ... Removing libngs-sdk-dev (1.3.0-2) ... Removing libngs-sdk1 (1.3.0-2) ... Removing libnl-route-3-200:amd64 (3.2.27-2) ... Removing libnl-3-200:amd64 (3.2.27-2) ... Removing libnpth0:amd64 (1.3-1) ... Removing libntlm0:amd64 (1.4-8) ... Removing libnuma1:amd64 (2.0.11-2.1) ... Removing libstatistics-basic-perl (1.6611-1) ... Removing libnumber-format-perl (1.75-1) ... Removing liboro-java (2.0.8a-12) ... Removing libossp-uuid-perl (1.6.2-1.5+b4) ... Removing libossp-uuid16:amd64 (1.6.2-1.5+b4) ... Removing libpadwalker-perl (2.2-2+b1) ... Removing libparams-classify-perl (0.013-6+b1) ... Removing libspreadsheet-writeexcel-perl (2.40-1) ... Removing libparse-recdescent-perl (1.967013+dfsg-1) ... Removing libpathplan4 (2.38.0-17) ... Removing libpciaccess0:amd64 (0.13.4-1+b2) ... Removing libpcre16-3:amd64 (2:8.39-3) ... Removing libpcre32-3:amd64 (2:8.39-3) ... Removing libpcrecpp0v5:amd64 (2:8.39-3) ... Removing ssake (3.8.4-1) ... Removing libperl4-corelibs-perl (0.003-2+deb9u1) ... Removing libperlio-gzip-perl (0.19-1+b2) ... Removing libpng-tools (1.6.28-1+deb9u1) ... Removing libpopt0:amd64 (1.16-10+b2) ... Removing libpostscript-perl (0.06-2) ... Removing libprocps6:amd64 (2:3.3.12-3+deb9u1) ... Removing libprotobuf10:amd64 (3.0.0-9) ... Removing libpsm-infinipath1 (3.3+19.g67c0807.open-3) ... Removing libpth20:amd64 (2.0.7-20+b2) ... Removing texlive-extra-utils (2016.20170123-5) ... Removing python-wxversion (3.0.2.0+dfsg-4) ... Removing texlive-pictures (2016.20170123-5) ... Removing python-ipython (5.1.0-3) ... Removing python-prompt-toolkit (1.0.9-1) ... Removing python-wcwidth (0.1.7+dfsg1-1) ... Removing pdb2pqr (2.1.1+dfsg-2) ... Removing libpython2.7:amd64 (2.7.13-2+deb9u3) ... Removing python-simplegeneric (0.8.1-1) ... Removing libqt4-xml:amd64 (4:4.8.7+dfsg-11) ... Removing libqtcore4:amd64 (4:4.8.7+dfsg-11) ... Removing r-cran-kernsmooth (2.23-15-2) ... Removing libreadline-dev:amd64 (7.0-3) ... Removing libreadline5:amd64 (5.2+dfsg-3+b1) ... Removing libreadonly-perl (2.050-1) ... Removing libregexp-common-perl (2016060801-1) ... Removing libregexp-java (1.5-3) ... Removing librelaxng-datatype-java (1.0+ds1-3) ... Removing libsasl2-modules:amd64 (2.1.27~101-g0780600+dfsg-3+deb9u1) ... Removing libspiffy-perl (0.41-1) ... Removing libscalar-list-utils-perl (1:1.47-1) ... Removing sysstat (11.4.3-2) ... Removing libsensors4:amd64 (1:3.4.0-4) ... Removing libservlet3.1-java (8.5.54-0+deb9u1) ... Removing libset-intspan-perl (1.19-1) ... Removing libset-scalar-perl (1.29-2) ... Removing libsigsegv2:amd64 (2.10-5) ... Removing libsnappy-java (1.1.2.6-1) ... Removing libsnappy-jni (1.1.2.6-1) ... Removing libsnappy1v5:amd64 (1.1.3-3) ... Removing libsort-naturally-perl (1.03-1) ... Removing squizz (0.99c+dfsg-1) ... Removing libsquizz (0.99c+dfsg-1) ... Removing libstrictures-perl (2.000003-1) ... Removing libsub-exporter-progressive-perl (0.001013-1) ... Removing libsub-name-perl (0.21-1) ... Removing libsuitesparseconfig4:amd64 (1:4.5.4-1) ... Removing libsvg-perl (2.64-1) ... Removing libtask-weaken-perl (1.04-1) ... Removing tcl (8.6.0+9) ... Removing tcl8.6 (8.6.6+dfsg-1+b1) ... Removing libterm-readkey-perl (2.37-1) ... Removing libtest-pod-perl (1.51-1) ... Removing libtext-format-perl (0.60-1) ... Removing libtext-iconv-perl (1.7-5+b4) ... Removing libtie-ixhash-perl (1.23-2) ... Removing libtinfo-dev:amd64 (6.0+20161126-1+deb9u2) ... Removing libtre5:amd64 (0.8.0-6) ... Removing libtry-tiny-perl (0.28-1) ... Removing libtxc-dxtn-s2tc:amd64 (1.0+git20151227-2) ... Removing libtype-tiny-xs-perl (0.012-1+b2) ... Removing libunicode-map-perl (0.112-11+b3) ... Removing libunwind8 (1.1-4.1) ... Removing libutempter0:amd64 (1.1.6-3) ... Removing libwebpmux2:amd64 (0.5.2-1) ... Removing libwebpdemux2:amd64 (0.5.2-1) ... Removing libwebp6:amd64 (0.5.2-1) ... Removing tcpd (7.6.q-26) ... Removing libwsdl4j-java (1.6.3-4) ... Removing libx11-protocol-perl (0.56-7) ... Removing libxdot4 (2.38.0-17) ... Removing libxerces2-java (2.11.0-7) ... Removing libxml-commons-external-java (1.4.01-2) ... Removing libxml-commons-resolver1.1-java (1.2-7) ... Removing libxml-sax-writer-perl (0.56-1) ... Removing libxml-filter-buffertext-perl (1.01-5) ... Removing libxml-libxslt-perl (1.95-1+b1) ... Removing libxml-libxml-perl (2.0128+dfsg-1+deb9u1) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Unregistering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Removing libxml-sax-perl (0.99+dfsg-2) ... update-perl-sax-parsers: Unregistering Perl SAX parser XML::SAX::PurePerl with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Removing libxml-namespacesupport-perl (1.11-1) ... Removing mipe (1.1-5) ... Removing libxml-perl (0.08-2) ... Removing libxml-regexp-perl (0.04-1) ... Removing libxml-sax-base-perl (1.07-1) ... Removing libxml-twig-perl (1:3.50-1) ... Removing libxml-writer-perl (0.625-1) ... Removing libxml-xpathengine-perl (0.13-1) ... Removing libxpp2-java (2.1.10-7) ... Removing libxpp3-java (1.1.4c-2) ... Removing libxslt1.1:amd64 (1.1.29-2.1+deb9u2) ... Removing libxz-java (1.6-1) ... Removing python-yaml (3.12-1) ... Removing libyaml-libyaml-perl (0.63-2) ... Removing libyaml-perl (1.21-1) ... Removing libyaml-tiny-perl (1.70-1) ... Removing loki (2.4.7.4-6+b1) ... Removing lua-filesystem:amd64 (1.6.3-1) ... 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Removing libxpm4:amd64 (1:3.5.12-1) ... Removing libxrandr2:amd64 (2:1.5.1-1) ... Removing libxshmfence1:amd64 (1.2-1+b2) ... Removing libxss1:amd64 (1:1.2.2-1) ... Removing libxv1:amd64 (2:1.0.11-1) ... Removing libzzip-0-13:amd64 (0.13.62-3.2~deb9u1) ... Removing linux-libc-dev:amd64 (4.9.228-1) ... Removing poppler-data (0.4.7-8) ... Removing t1utils (1.39-2) ... Removing tex-common (6.06) ... Removing tzdata (2020a-0+deb9u1) ... Removing unzip (6.0-21+deb9u2) ... Removing xdg-utils (1.1.1-1+deb9u2) ... Removing xkb-data (2.19-1+deb9u1) ... Removing zip (3.0-11+b1) ... Removing libpango-1.0-0:amd64 (1.40.5-1) ... Removing fontconfig (2.11.0-6.7+b1) ... Removing libxft2:amd64 (2.3.2-1+b2) ... Removing libblas3 (3.7.0-2) ... Removing libblas-common (3.7.0-2) ... Removing libthai0:amd64 (0.1.26-1) ... Removing libdatrie1:amd64 (0.2.10-4+b1) ... Removing libdrm2:amd64 (2.4.74-1) ... Removing libgfortran3:amd64 (6.3.0-18+deb9u1) ... Removing libglib2.0-0:amd64 (2.50.3-2+deb9u2) ... Removing libquadmath0:amd64 (6.3.0-18+deb9u1) ... Removing libthai-data (0.1.26-1) ... Removing openjdk-8-jre-headless:amd64 (8u252-b09-1~deb9u1) ... Removing libruby2.3:amd64 (2.3.3-1+deb9u8) ... Removing rake (10.5.0-2+deb9u1) ... Removing ruby (1:2.3.3) ... Removing ruby2.3 (2.3.3-1+deb9u8) ... Removing rubygems-integration (1.11) ... Removing dh-python (2.20170125) ... Removing libfontconfig1:amd64 (2.11.0-6.7+b1) ... Removing fontconfig-config (2.11.0-6.7) ... Removing java-common (0.58+deb9u1) ... Removing libcups2:amd64 (2.2.1-8+deb9u6) ... Removing libavahi-client3:amd64 (0.6.32-2) ... Removing libavahi-common3:amd64 (0.6.32-2) ... Removing libavahi-common-data:amd64 (0.6.32-2) ... Removing libdbus-1-3:amd64 (1.10.32-0+deb9u1) ... Removing libwww-perl (6.15-1) ... Removing libhttp-negotiate-perl (6.00-2) ... Removing libfile-listing-perl (6.04-1) ... Removing libfreetype6:amd64 (2.6.3-3.2+deb9u1) ... Removing libgnutls30:amd64 (3.5.8-5+deb9u5) ... Removing libgssapi-krb5-2:amd64 (1.15-1+deb9u1) ... Removing libhogweed4:amd64 (3.3-1+b2) ... Removing libhtml-tree-perl (5.03-2) ... Removing libhtml-parser-perl (3.72-3) ... Removing libhtml-tagset-perl (3.20-3) ... Removing libhttp-cookies-perl (6.01-1) ... Removing libidn11:amd64 (1.33-1+deb9u1) ... Removing liblwp-protocol-https-perl (6.06-2) ... Removing libio-socket-ssl-perl (2.044-1) ... Removing libjpeg62-turbo:amd64 (1:1.5.1-2) ... Removing libkrb5-3:amd64 (1.15-1+deb9u1) ... Removing libk5crypto3:amd64 (1.15-1+deb9u1) ... Removing libkrb5support0:amd64 (1.15-1+deb9u1) ... Removing libkeyutils1:amd64 (1.5.9-9) ... Removing liblcms2-2:amd64 (2.8-4+deb9u1) ... Removing tasksel-data (3.39) ... Removing libncurses5:amd64 (6.0+20161126-1+deb9u2) ... Removing libnet-http-perl (6.12-1) ... Removing libnet-ssleay-perl (1.80-1) ... Removing libnettle6:amd64 (3.3-1+b2) ... Removing libp11-kit0:amd64 (0.23.3-2) ... Removing libpcsclite1:amd64 (1.8.20-1) ... Removing libpng16-16:amd64 (1.6.28-1+deb9u1) ... Removing libssl1.0.2:amd64 (1.0.2u-1~deb9u1) ... Removing perl-openssl-defaults:amd64 (3) ... Removing libtasn1-6:amd64 (4.10-1.1+deb9u1) ... Removing libwww-robotrules-perl (6.01-1) ... Removing libxtst6:amd64 (2:1.2.3-1) ... Removing libxi6:amd64 (2:1.7.9-1) ... Removing libxrender1:amd64 (1:0.9.10-1) ... Removing libyaml-0-2:amd64 (0.1.7-2) ... 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 (9.20161125) ... Removing netbase (5.4) ... Removing ruby-did-you-mean (1.0.0-2) ... Removing ruby-minitest (5.9.0-1) ... Removing ruby-net-telnet (0.1.1-2) ... Removing ruby-test-unit (3.1.7-2) ... Removing ruby-power-assert (0.3.0-1) ... Removing ttf-bitstream-vera (1.10-8) ... Removing ucf (3.0036) ... Removing ca-certificates-java (20170929~deb9u3) ... Removing ca-certificates (20200601~deb9u1) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing python3 (3.5.3-1) ... Removing libhttp-message-perl (6.11-1) ... Removing libencode-locale-perl (1.05-1) ... Removing python3.5 (3.5.3-1+deb9u1) ... Removing libffi6:amd64 (3.2.1-6) ... Removing libgmp10:amd64 (2:6.1.2+dfsg-1) ... Removing libhttp-date-perl (6.02-1) ... Removing libio-html-perl (1.001-1) ... Removing tasksel (3.39) ... Removing liblocale-gettext-perl (1.07-3+b1) ... Removing liblwp-mediatypes-perl (6.02-1) ... Removing libpython3-stdlib:amd64 (3.5.3-1) ... Removing libpython3.5-stdlib:amd64 (3.5.3-1+deb9u1) ... Removing libmpdec2:amd64 (2.4.2-1) ... Removing libnss3:amd64 (2:3.26.2-1.1+deb9u1) ... Removing libnspr4:amd64 (2:4.12-6) ... Removing python3-minimal (3.5.3-1) ... Removing libreadline7:amd64 (7.0-3) ... Removing libsqlite3-0:amd64 (3.16.2-5+deb9u1) ... Removing openssl (1.1.0l-1~deb9u1) ... Removing libtimedate-perl (2.3000-2+deb9u1) ... Removing liburi-perl (1.71-1) ... Removing libxext6:amd64 (2:1.3.3-1+b2) ... Removing mime-support (3.60) ... Removing readline-common (7.0-3) ... Removing libx11-6:amd64 (2:1.6.4-3+deb9u1) ... Removing libxcb1:amd64 (1.12-1) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.8.3-1) ... Removing python3.5-minimal (3.5.3-1+deb9u1) ... Removing libexpat1:amd64 (2.2.0-2+deb9u3) ... Removing perl (5.24.1-3+deb9u7) ... Removing libperl5.24:amd64 (5.24.1-3+deb9u7) ... Removing libgdbm3:amd64 (1.8.3-14) ... Removing libpython3.5-minimal:amd64 (3.5.3-1+deb9u1) ... Removing libssl1.1:amd64 (1.1.0l-1~deb9u1) ... Removing libx11-data (2:1.6.4-3+deb9u1) ... Removing libxau6:amd64 (1:1.0.8-1) ... Removing perl-modules-5.24 (5.24.1-3+deb9u7) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... 9m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'remove', 'abyss', 'acedb-other', 'adwaita-icon-theme', 'aevol', 'alien-hunter', 'altree', 'amap-align', 'ampliconnoise', 'anfo', 'ant', 'ant-contrib', 'ant-optional', 'apache2-bin', 'aragorn', 'arden', 'at-spi2-core', 'autodock', 'autodock-vina', 'autogrid', 'autotools-dev', 'bamtools', 'bc', 'bedtools', 'beignet-opencl-icd:amd64', 'binutils', 'biomaj', 'bioperl', 'bioperl-run', 'biosquid', 'blast2', 'blends-common', 'blt', 'bowtie', 'bowtie2', 'boxshade', 'build-essential', 'bwa', 'bzip2', 'bzip2-doc', 'ca-certificates', 'ca-certificates-java', 'cain', 'cain-examples', 'cain-solvers', 'cassiopee', 'cd-hit', 'cdbfasta', 'cdbs', 'circos', 'circos-tools', 'clearcut', 'clonalframe', 'clustalo', 'clustalw', 'concavity', 'conservation-code', 'cpp', 'cpp-6', 'cron', 'cython', 'datamash', 'dbus', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'default-mysql-client', 'dh-python', 'dialign', 'dialign-tx', 'dialign-tx-data', 'dirmngr', 'discosnp', 'disulfinder', 'disulfinder-data', 'dmidecode', 'dnaclust', 'dpkg-dev', 'dssp', 'dvipng', 'embassy-domainatrix', 'embassy-domalign', 'embassy-domsearch', 'emboss', 'emboss-data', 'emboss-lib', 'exim4', 'exim4-base', 'exim4-config', 'exim4-daemon-light', 'exonerate', 'fakeroot', 'fastdnaml', 'fastlink', 'fastqc', 'fasttree', 'fastx-toolkit', 'ffindex', 'file', 'filo', 'fitgcp', 'flexbar', 'fontconfig', 'fontconfig-config', 'fonts-cabin', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-comfortaa', 'fonts-croscore', 'fonts-crosextra-caladea', 'fonts-crosextra-carlito', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-droid-fallback', 'fonts-ebgaramond', 'fonts-ebgaramond-extra', 'fonts-font-awesome', 'fonts-freefont-otf', 'fonts-freefont-ttf', 'fonts-gfs-artemisia', 'fonts-gfs-complutum', 'fonts-gfs-didot', 'fonts-gfs-neohellenic', 'fonts-gfs-olga', 'fonts-gfs-solomos', 'fonts-junicode', 'fonts-lato', 'fonts-liberation', 'fonts-linuxlibertine', 'fonts-lmodern', 'fonts-lobster', 'fonts-lobstertwo', 'fonts-lyx', 'fonts-noto-hinted', 'fonts-noto-mono', 'fonts-oflb-asana-math', 'fonts-roboto-hinted', 'fonts-sil-gentium', 'fonts-sil-gentium-basic', 'fonts-sil-gentiumplus', 'fonts-sil-gentiumplus-compact', 'fonts-stix', 'fonts-texgyre', 'freecontact', 'fsa', 'g++-', 'g++-6', 'gasic', 'gawk', 'gcc', 'gcc-6', 'genometools', 'genometools-common', 'gff2aplot', 'gff2ps', 'gfortran', 'gfortran-6', 'ghostscript', 'giira', 'glam2', 'glib-networking:amd64', 'glib-networking-common', 'glib-networking-services', 'glpk-utils', 'gnome-icon-theme', 'gnupg', 'gnupg-agent', 'gnupg-l10n', 'graphviz', 'grinder', 'gromacs', 'gromacs-data', 'gsettings-desktop-schemas', 'gsfonts', 'gtk-update-icon-cache', 'guile-2.0-libs:amd64', 'hhsuite', 'hhsuite-data', 'hicolor-icon-theme', 'hmmer', 'hyphy-common', 'hyphy-mpi', 'icu-devtools', 'idba', 'imagemagick', 'imagemagick-6-common', 'imagemagick-6.q16', 'infernal', 'ipython', 'isympy', 'isympy-common', 'java-common', 'java-wrappers', 'javascript-common', 'jellyfish', 'junit4', 'kalign', 'kissplice', 'krb5-locales', 'laptop-detect', 'last-align', 'libace-perl', 'libaec0:amd64', 'libaio1:amd64', 'libalgorithm-diff-perl', 'libalgorithm-diff-xs-perl', 'libalgorithm-merge-perl', 'libalgorithm-munkres-perl', 'libamd2:amd64', 'libanfo0', 'libann0', 'libapache-dbi-perl', 'libapache-pom-java', 'libapache2-mod-perl2', 'libapache2-reload-perl', 'libapparmor1:amd64', 'libapr1:amd64', 'libaprutil1:amd64', 'libaprutil1-dbd-sqlite3:amd64', 'libaprutil1-ldap:amd64', 'libargtable2-0', 'libarray-compare-perl', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasound2:amd64', 'libasound2-data', 'libassuan0:amd64', 'libasyncns0:amd64', 'libatinject-jsr330-api-java', 'libatk-bridge2.0-0:amd64', 'libatk-wrapper-java', 'libatk-wrapper-java-jni:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatlas3-base', 'libatomic1:amd64', 'libatspi2.0-0:amd64', 'libaudio2:amd64', 'libauthen-sasl-perl', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libaxis-java', 'libbambamc0', 'libbamtools2.4.0', 'libbcprov-java', 'libbio-asn1-entrezgene-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbiojava-java', 'libbiojava1.7-java', 'libbit-vector-perl', 'libblas-common', 'libblas-dev', 'libblas3', 'libboost-filesystem1.62.0:amd64', 'libboost-iostreams1.62.0:amd64', 'libboost-mpi1.62.0', 'libboost-program-options1.62.0:amd64', 'libboost-regex1.62.0:amd64', 'libboost-serialization1.62.0:amd64', 'libboost-system1.62.0:amd64', 'libboost-thread1.62.0:amd64', 'libbsd-resource-perl', 'libbsd0:amd64', 'libbytecode-java', 'libbz2-dev:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcache-cache-perl', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcarp-always-perl', 'libcarp-clan-perl', 'libcassie1v5', 'libcc1-0:amd64', 'libcdt5', 'libcgi-fast-perl', 'libcgi-pm-perl', 'libcgraph6', 'libcilkrts5:amd64', 'libclass-inspector-perl', 'libclass-method-modifiers-perl', 'libclass-xsaccessor-perl', 'libclone-perl', 'libcolamd2:amd64', 'libcolord2:amd64', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-compress-java', 'libcommons-dbcp-java', 'libcommons-discovery-java', 'libcommons-httpclient-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-net-java', 'libcommons-parent-java', 'libcommons-pool-java', 'libconfig-general-perl', 'libconfig-inifiles-perl', 'libconvert-binary-c-perl', 'libconvert-binhex-perl', 'libcroco3:amd64', 'libcrypt-rc4-perl', 'libcups2:amd64', 'libcupsfilters1:amd64', 'libcupsimage2:amd64', 'libcurl3:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdate-calc-perl', 'libdate-calc-xs-perl', 'libdate-manip-perl', 'libdatrie1:amd64', 'libdbd-mysql-perl', 'libdbd-pg-perl', 'libdbd-sqlite3-perl', 'libdbi-perl', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdevel-caller-perl', 'libdevel-globaldestruction-perl', 'libdevel-lexalias-perl', 'libdevel-symdump-perl', 'libdigest-perl-md5-perl', 'libdivsufsort3:amd64', 'libdjvulibre-text', 'libdjvulibre21:amd64', 'libdom4j-java', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libegl1-mesa:amd64', 'libeigen3-dev', 'libelf1:amd64', 'libelk0', 'libencode-locale-perl', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libexporter-tiny-perl', 'libfabric1', 'libfakeroot:amd64', 'libfcgi-perl', 'libffi6:amd64', 'libffindex0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libfile-basedir-perl', 'libfile-desktopentry-perl', 'libfile-fcntllock-perl', 'libfile-homedir-perl', 'libfile-listing-perl', 'libfile-mimeinfo-perl', 'libfile-slurp-tiny-perl', 'libfile-which-perl', 'libflac8:amd64', 'libfont-afm-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreecontact0v5:amd64', 'libfreetype6:amd64', 'libfreezethaw-perl', 'libfribidi0:amd64', 'libfuse2:amd64', 'libg20', 'libgail-common:amd64', 'libgail18:amd64', 'libgbm1:amd64', 'libgc1c2:amd64', 'libgcc-6-dev:amd64', 'libgd-graph-perl', 'libgd-perl', 'libgd-text-perl', 'libgd3:amd64', 'libgdbm3:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-euclid-perl', 'libgetopt-simple-perl', 'libgflags2v5', 'libgfortran-6-dev:amd64', 'libgfortran3:amd64', 'libgif7:amd64', 'libgl1-mesa-dri:amd64', 'libgl1-mesa-glx:amd64', 'libglade2-0:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libglpk-java', 'libglpk40:amd64', 'libglu1-mesa:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgomp1:amd64', 'libgoogle-glog0v5', 'libgpm2:amd64', 'libgraph-perl', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgraphviz-perl', 'libgromacs2', 'libgs9:amd64', 'libgs9-common', 'libgsasl7', 'libgsl2:amd64', 'libgssapi-krb5-2:amd64', 'libgtextutils0v5:amd64', 'libgtk-3-0:amd64', 'libgtk-3-bin', 'libgtk-3-common', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libgts-0.7-5:amd64', 'libgts-bin', 'libguava-java', 'libgvc6', 'libgvpr2', 'libhamcrest-java', 'libharfbuzz-icu0:amd64', 'libharfbuzz0b:amd64', 'libhdf5-100:amd64', 'libhmsbeagle1v5', 'libhogweed4:amd64', 'libhpdf-2.2.1', 'libhsqldb-java', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tableextract-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhts1:amd64', 'libhtsjdk-java', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-plugins', 'libhwloc5:amd64', 'libibverbs1', 'libice6:amd64', 'libicu-dev', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libijs-0.35:amd64', 'libilmbase12:amd64', 'libimport-into-perl', 'libio-all-perl', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libipc-sharelite-perl', 'libipc-system-simple-perl', 'libisl15:amd64', 'libisorelax-java', 'libitm1:amd64', 'libjava-xmlbuilder-java', 'libjaxen-java', 'libjbig0:amd64', 'libjbig2dec0:amd64', 'libjbzip2-java', 'libjcode-pm-perl', 'libjcommon-java', 'libjdom1-java', 'libjellyfish-2.0-2', 'libjemalloc1', 'libjets3t-java', 'libjgoodies-common-java', 'libjgoodies-forms-java', 'libjpeg-dev', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-underscore', 'libjsch-java', 'libjson-glib-1.0-0:amd64', 'libjson-glib-1.0-common', 'libjsoncpp1:amd64', 'libjsr305-java', 'libjxr-tools', 'libjxr0:amd64', 'libjzlib-java', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkpathsea6:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libksba8:amd64', 'libkyotocabinet16v5:amd64', 'liblapack-dev', 'liblapack3', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblist-allutils-perl', 'liblist-moreutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm3.9:amd64', 'liblocale-gettext-perl', 'liblog4j1.2-java', 'liblqr-1-0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'liblua5.1-0:amd64', 'liblua5.2-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'liblzma-dev:amd64', 'liblzo2-2:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmagickcore-6.q16-3:amd64', 'libmagickcore-6.q16-3-extra:amd64', 'libmagickwand-6.q16-3:amd64', 'libmail-java', 'libmailtools-perl', 'libmailutils5:amd64', 'libmariadbclient18:amd64', 'libmath-bezier-perl', 'libmath-derivative-perl', 'libmath-random-mt-perl', 'libmath-round-perl', 'libmath-spline-perl', 'libmath-tamuanova-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libmime-tools-perl', 'libmldbm-perl', 'libmng1:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmoo-perl', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpx2:amd64', 'libmsv-java', 'libmysql-java', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncbi6:amd64', 'libncurses5:amd64', 'libncurses5-dev:amd64', 'libnet-dbus-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnetpbm10', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libngs-java', 'libngs-sdk-dev', 'libngs-sdk1', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnotify4:amd64', 'libnpth0:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libntlm0:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libogg0:amd64', 'libole-storage-lite-perl', 'libopenexr22:amd64', 'libopenjp2-7:amd64', 'libopenmpi2:amd64', 'liboro-java', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libp11-kit0:amd64', 'libpadwalker-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libparams-classify-perl', 'libparams-validate-perl', 'libparse-recdescent-perl', 'libpathplan4', 'libpciaccess0:amd64', 'libpcre16-3:amd64', 'libpcre3-dev:amd64', 'libpcre32-3:amd64', 'libpcrecpp0v5:amd64', 'libpcsclite1:amd64', 'libperl4-corelibs-perl', 'libperl5.24:amd64', 'libperlio-gzip-perl', 'libpicard-java', 'libpixman-1-0:amd64', 'libpng-dev:amd64', 'libpng-tools', 'libpng16-16:amd64', 'libpod-coverage-perl', 'libpoppler64:amd64', 'libpopt0:amd64', 'libpostscript-perl', 'libpotrace0', 'libpq5:amd64', 'libprocps6:amd64', 'libprotobuf10:amd64', 'libproxy1v5:amd64', 'libpsl5:amd64', 'libpsm-infinipath1', 'libptexenc1:amd64', 'libpth20:amd64', 'libpulse0:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libqt4-dbus:amd64', 'libqt4-xml:amd64', 'libqtcore4:amd64', 'libqtdbus4:amd64', 'libqtgui4:amd64', 'libquadmath0:amd64', 'librdmacm1', 'libreadline-dev:amd64', 'libreadline5:amd64', 'libreadline7:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'libregexp-java', 'librelaxng-datatype-java', 'librest-0.7-0:amd64', 'librole-tiny-perl', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libruby2.3:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsaxonhe-java', 'libscalar-list-utils-perl', 'libsensors4:amd64', 'libservlet3.1-java', 'libset-intspan-perl', 'libset-scalar-perl', 'libsigsegv2:amd64', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsndfile1:amd64', 'libsoap-lite-perl', 'libsort-naturally-perl', 'libsoup-gnome2.4-1:amd64', 'libsoup2.4-1:amd64', 'libspiffy-perl', 'libspreadsheet-parseexcel-perl', 'libspreadsheet-writeexcel-perl', 'libsprng2', 'libsqlite3-0:amd64', 'libsquizz', 'libssh2-1:amd64', 'libssl1.0.2:amd64', 'libssl1.1:amd64', 'libstaden-read11:amd64', 'libstatistics-basic-perl', 'libstatistics-descriptive-perl', 'libstdc++-6-dev:amd64', 'libstrictures-perl', 'libsub-exporter-progressive-perl', 'libsub-name-perl', 'libsuitesparseconfig4:amd64', 'libsvg-graph-perl', 'libsvg-perl', 'libsynctex1:amd64', 'libsz2:amd64', 'libtamuanova-0.2', 'libtask-weaken-perl', 'libtasn1-6:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libterm-readkey-perl', 'libtest-pod-perl', 'libtexlua52:amd64', 'libtexluajit2:amd64', 'libtext-format-perl', 'libtext-iconv-perl', 'libthai-data', 'libthai0:amd64', 'libtie-ixhash-perl', 'libtiff5:amd64', 'libtimedate-perl', 'libtinfo-dev:amd64', 'libtk8.6:amd64', 'libtre5:amd64', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'libtsan0:amd64', 'libtxc-dxtn-s2tc:amd64', 'libtype-tiny-perl', 'libtype-tiny-xs-perl', 'libubsan0:amd64', 'libunicode-map-perl', 'libunistring0:amd64', 'libunwind8', 'liburi-perl', 'libutempter0:amd64', 'libvorbis0a:amd64', 'libvorbisenc2:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1-mesa:amd64', 'libwayland-server0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwmf0.2-7:amd64', 'libwrap0:amd64', 'libwsdl4j-java', 'libwww-perl', 'libwww-robotrules-perl', 'libwxbase3.0-0v5:amd64', 'libwxgtk3.0-0v5:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-protocol-perl', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shape0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxerces-c3.1:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-filter-buffertext-perl', 'libxml-libxml-perl', 'libxml-libxslt-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-sax-writer-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpath-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libxmu6:amd64', 'libxmuu1:amd64', 'libxom-java', 'libxpm4:amd64', 'libxpp2-java', 'libxpp3-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxv1:amd64', 'libxxf86dga1:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libyaml-0-2:amd64', 'libyaml-libyaml-perl', 'libyaml-perl', 'libyaml-tiny-perl', 'libzzip-0-13:amd64', 'linux-libc-dev:amd64', 'lmodern', 'loki', 'lsb-base', 'lua-filesystem:amd64', 'lua-lpeg:amd64', 'lua-md5:amd64', 'lynx', 'lynx-common', 'macs', 'mafft', 'mailutils', 'mailutils-common', 'make', 'manpages', 'manpages-dev', 'mapsembler2', 'maq', 'mariadb-client-10.1', 'mariadb-client-core-10.1', 'mariadb-common', 'med-config', 'med-tasks', 'melting', 'menu', 'mime-support', 'minia', 'mipe', 'mira-assembler', 'mira-rfam-12s-rrna', 'mlv-smile', 'mothur', 'mpi-default-bin', 'mrbayes', 'mummer', 'muscle', 'mustang', 'mysql-common', 'ncbi-blast+-', 'ncbi-blast+-legacy', 'ncbi-data', 'ncbi-epcr', 'ncbi-tools-bin', 'ncoils', 'neobio', 'netbase', 'netpbm', 'notification-daemon', 'ocl-icd-libopencl1:amd64', 'openjdk-8-jre:amd64', 'openjdk-8-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssl', 'paraclu', 'parallel', 'parsinsert', 'patch', 'pdb2pqr', 'perl', 'perl-doc', 'perl-modules-5.24', 'perl-openssl-defaults:amd64', 'perl-tk', 'perm', 'phylip', 'phyml', 'phyutility', 'picard-tools', 'pinentry-curses', 'pkg-config', 'plink', 'poa', 'poppler-data', 'prank', 'preview-latex-style', 'prime-phylo', 'primer3', 'probabel', 'probalign', 'probcons', 'procps', 'proda', 'prodigal', 'prosper', 'ps2eps', 'psmisc', 'publicsuffix', 'pynast', 'python', 'python-backports-shutil-get-terminal-size', 'python-biopython', 'python-biopython-doc', 'python-cairo', 'python-chardet', 'python-cogent', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-enum34', 'python-functools32', 'python-glade2', 'python-gmpy', 'python-gobject-2', 'python-gtk2', 'python-htseq', 'python-imaging', 'python-ipython', 'python-ipython-genutils', 'python-matplotlib', 'python-matplotlib-data', 'python-minimal', 'python-mpi4py', 'python-mpmath', 'python-networkx', 'python-numpy', 'python-pathlib2', 'python-pexpect', 'python-pickleshare', 'python-pil:amd64', 'python-pkg-resources', 'python-prompt-toolkit', 'python-ptyprocess', 'python-pyglet', 'python-pygments', 'python-pygraphviz', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-simplegeneric', 'python-six', 'python-subprocess32', 'python-sympy', 'python-sympy-doc', 'python-tk', 'python-traitlets', 'python-tz', 'python-wcwidth', 'python-wxgtk3.0', 'python-wxversion', 'python-yaml', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.5', 'python3.5-minimal', 'qdbus', 'qt-at-spi:amd64', 'qtchooser', 'qtcore4-l10n', 'r-base-core', 'r-base-dev', 'r-bioc-edger', 'r-bioc-hilbertvis', 'r-bioc-limma', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-g.data', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-multicore', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-permute', 'r-cran-pvclust', 'r-cran-qtl', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-cran-vegan', 'r-doc-html', 'r-other-mott-happy.hbrem', 'r-recommended', 'rake', 'raster3d', 'raxml', 'readline-common', 'readseq', 'rename', 'rnahybrid', 'rtax', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby2.3', 'rubygems-integration', 'samtools', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'sibsim4', 'sigma-align', 'sim4', 'smalt', 'snap', 'soapdenovo', 'soapdenovo2', 'squizz', 'sra-toolkit', 'ssake', 'staden-io-lib-utils', 'sysstat', 't-coffee', 't1utils', 'tabix', 'tasksel', 'tasksel-data', 'tcl', 'tcl8.6', 'tcpd', 'tex-common', 'tex-gyre', 'texlive-base', 'texlive-binaries', 'texlive-extra-utils', 'texlive-font-utils', 'texlive-fonts-extra', 'texlive-fonts-extra-doc', 'texlive-fonts-recommended', 'texlive-fonts-recommended-doc', 'texlive-generic-extra', 'texlive-generic-recommended', 'texlive-latex-base', 'texlive-latex-base-doc', 'texlive-latex-extra', 'texlive-latex-extra-doc', 'texlive-latex-recommended', 'texlive-latex-recommended-doc', 'texlive-pictures', 'texlive-pictures-doc', 'texlive-pstricks', 'texlive-pstricks-doc', 'theseus', 'tigr-glimmer', 'tipa', 'tk', 'tk8.6', 'tk8.6-blt2.5', 'tm-align', 'tophat', 'tree-puzzle', 'tree-puzzle-doc', 'ttf-adf-accanthis', 'ttf-adf-gillius', 'ttf-adf-universalis', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'unzip', 'vcftools', 'velvet', 'wise', 'wise-data', 'x11-common', 'x11-utils', 'x11-xserver-utils', 'xauth', 'xbitmaps', 'xdg-user-dirs', 'xdg-utils', 'xkb-data', 'xml-core', 'xterm', 'xz-utils', 'zalign', 'zip', 'zlib1g-dev:amd64', 'med-cloud'] 9m39.2s INFO: Running scripts post_remove 9m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_remove_exceptions'] 9m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_remove_exceptions'] 9m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--purge', 'abyss', 'acedb-other', 'adwaita-icon-theme', 'aevol', 'alien-hunter', 'altree', 'amap-align', 'ampliconnoise', 'anfo', 'ant', 'ant-contrib', 'ant-optional', 'apache2-bin', 'aragorn', 'arden', 'at-spi2-core', 'autodock', 'autodock-vina', 'autogrid', 'autotools-dev', 'bamtools', 'bc', 'bedtools', 'beignet-opencl-icd:amd64', 'binutils', 'biomaj', 'bioperl', 'bioperl-run', 'biosquid', 'blast2', 'blends-common', 'blt', 'bowtie', 'bowtie2', 'boxshade', 'build-essential', 'bwa', 'bzip2', 'bzip2-doc', 'ca-certificates', 'ca-certificates-java', 'cain', 'cain-examples', 'cain-solvers', 'cassiopee', 'cd-hit', 'cdbfasta', 'cdbs', 'circos', 'circos-tools', 'clearcut', 'clonalframe', 'clustalo', 'clustalw', 'concavity', 'conservation-code', 'cpp', 'cpp-6', 'cron', 'cython', 'datamash', 'dbus', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'default-mysql-client', 'dh-python', 'dialign', 'dialign-tx', 'dialign-tx-data', 'dirmngr', 'discosnp', 'disulfinder', 'disulfinder-data', 'dmidecode', 'dnaclust', 'dpkg-dev', 'dssp', 'dvipng', 'embassy-domainatrix', 'embassy-domalign', 'embassy-domsearch', 'emboss', 'emboss-data', 'emboss-lib', 'exim4', 'exim4-base', 'exim4-config', 'exim4-daemon-light', 'exonerate', 'fakeroot', 'fastdnaml', 'fastlink', 'fastqc', 'fasttree', 'fastx-toolkit', 'ffindex', 'file', 'filo', 'fitgcp', 'flexbar', 'fontconfig', 'fontconfig-config', 'fonts-cabin', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-comfortaa', 'fonts-croscore', 'fonts-crosextra-caladea', 'fonts-crosextra-carlito', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-droid-fallback', 'fonts-ebgaramond', 'fonts-ebgaramond-extra', 'fonts-font-awesome', 'fonts-freefont-otf', 'fonts-freefont-ttf', 'fonts-gfs-artemisia', 'fonts-gfs-complutum', 'fonts-gfs-didot', 'fonts-gfs-neohellenic', 'fonts-gfs-olga', 'fonts-gfs-solomos', 'fonts-junicode', 'fonts-lato', 'fonts-liberation', 'fonts-linuxlibertine', 'fonts-lmodern', 'fonts-lobster', 'fonts-lobstertwo', 'fonts-lyx', 'fonts-noto-hinted', 'fonts-noto-mono', 'fonts-oflb-asana-math', 'fonts-roboto-hinted', 'fonts-sil-gentium', 'fonts-sil-gentium-basic', 'fonts-sil-gentiumplus', 'fonts-sil-gentiumplus-compact', 'fonts-stix', 'fonts-texgyre', 'freecontact', 'fsa', 'g++', 'g++-6', 'gasic', 'gawk', 'gcc', 'gcc-6', 'genometools', 'genometools-common', 'gff2aplot', 'gff2ps', 'gfortran', 'gfortran-6', 'ghostscript', 'giira', 'glam2', 'glib-networking:amd64', 'glib-networking-common', 'glib-networking-services', 'glpk-utils', 'gnome-icon-theme', 'gnupg', 'gnupg-agent', 'gnupg-l10n', 'graphviz', 'grinder', 'gromacs', 'gromacs-data', 'gsettings-desktop-schemas', 'gsfonts', 'gtk-update-icon-cache', 'guile-2.0-libs:amd64', 'hhsuite', 'hhsuite-data', 'hicolor-icon-theme', 'hmmer', 'hyphy-common', 'hyphy-mpi', 'icu-devtools', 'idba', 'imagemagick', 'imagemagick-6-common', 'imagemagick-6.q16', 'infernal', 'ipython', 'isympy', 'isympy-common', 'java-common', 'java-wrappers', 'javascript-common', 'jellyfish', 'junit4', 'kalign', 'kissplice', 'krb5-locales', 'laptop-detect', 'last-align', 'libace-perl', 'libaec0:amd64', 'libaio1:amd64', 'libalgorithm-diff-perl', 'libalgorithm-diff-xs-perl', 'libalgorithm-merge-perl', 'libalgorithm-munkres-perl', 'libamd2:amd64', 'libanfo0', 'libann0', 'libapache-dbi-perl', 'libapache-pom-java', 'libapache2-mod-perl2', 'libapache2-reload-perl', 'libapparmor1:amd64', 'libapr1:amd64', 'libaprutil1:amd64', 'libaprutil1-dbd-sqlite3:amd64', 'libaprutil1-ldap:amd64', 'libargtable2-0', 'libarray-compare-perl', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasound2:amd64', 'libasound2-data', 'libassuan0:amd64', 'libasyncns0:amd64', 'libatinject-jsr330-api-java', 'libatk-bridge2.0-0:amd64', 'libatk-wrapper-java', 'libatk-wrapper-java-jni:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatlas3-base', 'libatomic1:amd64', 'libatspi2.0-0:amd64', 'libaudio2:amd64', 'libauthen-sasl-perl', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libaxis-java', 'libbambamc0', 'libbamtools2.4.0', 'libbcprov-java', 'libbio-asn1-entrezgene-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbiojava-java', 'libbiojava1.7-java', 'libbit-vector-perl', 'libblas-common', 'libblas-dev', 'libblas3', 'libboost-filesystem1.62.0:amd64', 'libboost-iostreams1.62.0:amd64', 'libboost-mpi1.62.0', 'libboost-program-options1.62.0:amd64', 'libboost-regex1.62.0:amd64', 'libboost-serialization1.62.0:amd64', 'libboost-system1.62.0:amd64', 'libboost-thread1.62.0:amd64', 'libbsd-resource-perl', 'libbsd0:amd64', 'libbytecode-java', 'libbz2-dev:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcache-cache-perl', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcarp-always-perl', 'libcarp-clan-perl', 'libcassie1v5', 'libcc1-0:amd64', 'libcdt5', 'libcgi-fast-perl', 'libcgi-pm-perl', 'libcgraph6', 'libcilkrts5:amd64', 'libclass-inspector-perl', 'libclass-method-modifiers-perl', 'libclass-xsaccessor-perl', 'libclone-perl', 'libcolamd2:amd64', 'libcolord2:amd64', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-compress-java', 'libcommons-dbcp-java', 'libcommons-discovery-java', 'libcommons-httpclient-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-net-java', 'libcommons-parent-java', 'libcommons-pool-java', 'libconfig-general-perl', 'libconfig-inifiles-perl', 'libconvert-binary-c-perl', 'libconvert-binhex-perl', 'libcroco3:amd64', 'libcrypt-rc4-perl', 'libcups2:amd64', 'libcupsfilters1:amd64', 'libcupsimage2:amd64', 'libcurl3:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdate-calc-perl', 'libdate-calc-xs-perl', 'libdate-manip-perl', 'libdatrie1:amd64', 'libdbd-mysql-perl', 'libdbd-pg-perl', 'libdbd-sqlite3-perl', 'libdbi-perl', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdevel-caller-perl', 'libdevel-globaldestruction-perl', 'libdevel-lexalias-perl', 'libdevel-symdump-perl', 'libdigest-perl-md5-perl', 'libdivsufsort3:amd64', 'libdjvulibre-text', 'libdjvulibre21:amd64', 'libdom4j-java', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libegl1-mesa:amd64', 'libeigen3-dev', 'libelf1:amd64', 'libelk0', 'libencode-locale-perl', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libexporter-tiny-perl', 'libfabric1', 'libfakeroot:amd64', 'libfcgi-perl', 'libffi6:amd64', 'libffindex0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libfile-basedir-perl', 'libfile-desktopentry-perl', 'libfile-fcntllock-perl', 'libfile-homedir-perl', 'libfile-listing-perl', 'libfile-mimeinfo-perl', 'libfile-slurp-tiny-perl', 'libfile-which-perl', 'libflac8:amd64', 'libfont-afm-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreecontact0v5:amd64', 'libfreetype6:amd64', 'libfreezethaw-perl', 'libfribidi0:amd64', 'libfuse2:amd64', 'libg20', 'libgail-common:amd64', 'libgail18:amd64', 'libgbm1:amd64', 'libgc1c2:amd64', 'libgcc-6-dev:amd64', 'libgd-graph-perl', 'libgd-perl', 'libgd-text-perl', 'libgd3:amd64', 'libgdbm3:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-euclid-perl', 'libgetopt-simple-perl', 'libgflags2v5', 'libgfortran-6-dev:amd64', 'libgfortran3:amd64', 'libgif7:amd64', 'libgl1-mesa-dri:amd64', 'libgl1-mesa-glx:amd64', 'libglade2-0:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libglpk-java', 'libglpk40:amd64', 'libglu1-mesa:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgomp1:amd64', 'libgoogle-glog0v5', 'libgpm2:amd64', 'libgraph-perl', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgraphviz-perl', 'libgromacs2', 'libgs9:amd64', 'libgs9-common', 'libgsasl7', 'libgsl2:amd64', 'libgssapi-krb5-2:amd64', 'libgtextutils0v5:amd64', 'libgtk-3-0:amd64', 'libgtk-3-bin', 'libgtk-3-common', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libgts-0.7-5:amd64', 'libgts-bin', 'libguava-java', 'libgvc6', 'libgvpr2', 'libhamcrest-java', 'libharfbuzz-icu0:amd64', 'libharfbuzz0b:amd64', 'libhdf5-100:amd64', 'libhmsbeagle1v5', 'libhogweed4:amd64', 'libhpdf-2.2.1', 'libhsqldb-java', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tableextract-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhts1:amd64', 'libhtsjdk-java', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-plugins', 'libhwloc5:amd64', 'libibverbs1', 'libice6:amd64', 'libicu-dev', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libijs-0.35:amd64', 'libilmbase12:amd64', 'libimport-into-perl', 'libio-all-perl', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libipc-sharelite-perl', 'libipc-system-simple-perl', 'libisl15:amd64', 'libisorelax-java', 'libitm1:amd64', 'libjava-xmlbuilder-java', 'libjaxen-java', 'libjbig0:amd64', 'libjbig2dec0:amd64', 'libjbzip2-java', 'libjcode-pm-perl', 'libjcommon-java', 'libjdom1-java', 'libjellyfish-2.0-2', 'libjemalloc1', 'libjets3t-java', 'libjgoodies-common-java', 'libjgoodies-forms-java', 'libjpeg-dev', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-underscore', 'libjsch-java', 'libjson-glib-1.0-0:amd64', 'libjson-glib-1.0-common', 'libjsoncpp1:amd64', 'libjsr305-java', 'libjxr-tools', 'libjxr0:amd64', 'libjzlib-java', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkpathsea6:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libksba8:amd64', 'libkyotocabinet16v5:amd64', 'liblapack-dev', 'liblapack3', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblist-allutils-perl', 'liblist-moreutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm3.9:amd64', 'liblocale-gettext-perl', 'liblog4j1.2-java', 'liblqr-1-0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'liblua5.1-0:amd64', 'liblua5.2-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'liblzma-dev:amd64', 'liblzo2-2:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmagickcore-6.q16-3:amd64', 'libmagickcore-6.q16-3-extra:amd64', 'libmagickwand-6.q16-3:amd64', 'libmail-java', 'libmailtools-perl', 'libmailutils5:amd64', 'libmariadbclient18:amd64', 'libmath-bezier-perl', 'libmath-derivative-perl', 'libmath-random-mt-perl', 'libmath-round-perl', 'libmath-spline-perl', 'libmath-tamuanova-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libmime-tools-perl', 'libmldbm-perl', 'libmng1:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmoo-perl', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpx2:amd64', 'libmsv-java', 'libmysql-java', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncbi6:amd64', 'libncurses5:amd64', 'libncurses5-dev:amd64', 'libnet-dbus-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnetpbm10', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libngs-java', 'libngs-sdk-dev', 'libngs-sdk1', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnotify4:amd64', 'libnpth0:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libntlm0:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libogg0:amd64', 'libole-storage-lite-perl', 'libopenexr22:amd64', 'libopenjp2-7:amd64', 'libopenmpi2:amd64', 'liboro-java', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libp11-kit0:amd64', 'libpadwalker-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libparams-classify-perl', 'libparams-validate-perl', 'libparse-recdescent-perl', 'libpathplan4', 'libpciaccess0:amd64', 'libpcre16-3:amd64', 'libpcre3-dev:amd64', 'libpcre32-3:amd64', 'libpcrecpp0v5:amd64', 'libpcsclite1:amd64', 'libperl4-corelibs-perl', 'libperl5.24:amd64', 'libperlio-gzip-perl', 'libpicard-java', 'libpixman-1-0:amd64', 'libpng-dev:amd64', 'libpng-tools', 'libpng16-16:amd64', 'libpod-coverage-perl', 'libpoppler64:amd64', 'libpopt0:amd64', 'libpostscript-perl', 'libpotrace0', 'libpq5:amd64', 'libprocps6:amd64', 'libprotobuf10:amd64', 'libproxy1v5:amd64', 'libpsl5:amd64', 'libpsm-infinipath1', 'libptexenc1:amd64', 'libpth20:amd64', 'libpulse0:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libqt4-dbus:amd64', 'libqt4-xml:amd64', 'libqtcore4:amd64', 'libqtdbus4:amd64', 'libqtgui4:amd64', 'libquadmath0:amd64', 'librdmacm1', 'libreadline-dev:amd64', 'libreadline5:amd64', 'libreadline7:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'libregexp-java', 'librelaxng-datatype-java', 'librest-0.7-0:amd64', 'librole-tiny-perl', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libruby2.3:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsaxonhe-java', 'libscalar-list-utils-perl', 'libsensors4:amd64', 'libservlet3.1-java', 'libset-intspan-perl', 'libset-scalar-perl', 'libsigsegv2:amd64', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsndfile1:amd64', 'libsoap-lite-perl', 'libsort-naturally-perl', 'libsoup-gnome2.4-1:amd64', 'libsoup2.4-1:amd64', 'libspiffy-perl', 'libspreadsheet-parseexcel-perl', 'libspreadsheet-writeexcel-perl', 'libsprng2', 'libsqlite3-0:amd64', 'libsquizz', 'libssh2-1:amd64', 'libssl1.0.2:amd64', 'libssl1.1:amd64', 'libstaden-read11:amd64', 'libstatistics-basic-perl', 'libstatistics-descriptive-perl', 'libstdc++-6-dev:amd64', 'libstrictures-perl', 'libsub-exporter-progressive-perl', 'libsub-name-perl', 'libsuitesparseconfig4:amd64', 'libsvg-graph-perl', 'libsvg-perl', 'libsynctex1:amd64', 'libsz2:amd64', 'libtamuanova-0.2', 'libtask-weaken-perl', 'libtasn1-6:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libterm-readkey-perl', 'libtest-pod-perl', 'libtexlua52:amd64', 'libtexluajit2:amd64', 'libtext-format-perl', 'libtext-iconv-perl', 'libthai-data', 'libthai0:amd64', 'libtie-ixhash-perl', 'libtiff5:amd64', 'libtimedate-perl', 'libtinfo-dev:amd64', 'libtk8.6:amd64', 'libtre5:amd64', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'libtsan0:amd64', 'libtxc-dxtn-s2tc:amd64', 'libtype-tiny-perl', 'libtype-tiny-xs-perl', 'libubsan0:amd64', 'libunicode-map-perl', 'libunistring0:amd64', 'libunwind8', 'liburi-perl', 'libutempter0:amd64', 'libvorbis0a:amd64', 'libvorbisenc2:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1-mesa:amd64', 'libwayland-server0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwmf0.2-7:amd64', 'libwrap0:amd64', 'libwsdl4j-java', 'libwww-perl', 'libwww-robotrules-perl', 'libwxbase3.0-0v5:amd64', 'libwxgtk3.0-0v5:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-protocol-perl', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shape0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxerces-c3.1:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-filter-buffertext-perl', 'libxml-libxml-perl', 'libxml-libxslt-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-sax-writer-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpath-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libxmu6:amd64', 'libxmuu1:amd64', 'libxom-java', 'libxpm4:amd64', 'libxpp2-java', 'libxpp3-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxv1:amd64', 'libxxf86dga1:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libyaml-0-2:amd64', 'libyaml-libyaml-perl', 'libyaml-perl', 'libyaml-tiny-perl', 'libzzip-0-13:amd64', 'linux-libc-dev:amd64', 'lmodern', 'loki', 'lsb-base', 'lua-filesystem:amd64', 'lua-lpeg:amd64', 'lua-md5:amd64', 'lynx', 'lynx-common', 'macs', 'mafft', 'mailutils', 'mailutils-common', 'make', 'manpages', 'manpages-dev', 'mapsembler2', 'maq', 'mariadb-client-10.1', 'mariadb-client-core-10.1', 'mariadb-common', 'med-config', 'med-tasks', 'melting', 'menu', 'mime-support', 'minia', 'mipe', 'mira-assembler', 'mira-rfam-12s-rrna', 'mlv-smile', 'mothur', 'mpi-default-bin', 'mrbayes', 'mummer', 'muscle', 'mustang', 'mysql-common', 'ncbi-blast+', 'ncbi-blast+-legacy', 'ncbi-data', 'ncbi-epcr', 'ncbi-tools-bin', 'ncoils', 'neobio', 'netbase', 'netpbm', 'notification-daemon', 'ocl-icd-libopencl1:amd64', 'openjdk-8-jre:amd64', 'openjdk-8-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssl', 'paraclu', 'parallel', 'parsinsert', 'patch', 'pdb2pqr', 'perl', 'perl-doc', 'perl-modules-5.24', 'perl-openssl-defaults:amd64', 'perl-tk', 'perm', 'phylip', 'phyml', 'phyutility', 'picard-tools', 'pinentry-curses', 'pkg-config', 'plink', 'poa', 'poppler-data', 'prank', 'preview-latex-style', 'prime-phylo', 'primer3', 'probabel', 'probalign', 'probcons', 'procps', 'proda', 'prodigal', 'prosper', 'ps2eps', 'psmisc', 'publicsuffix', 'pynast', 'python', 'python-backports-shutil-get-terminal-size', 'python-biopython', 'python-biopython-doc', 'python-cairo', 'python-chardet', 'python-cogent', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-enum34', 'python-functools32', 'python-glade2', 'python-gmpy', 'python-gobject-2', 'python-gtk2', 'python-htseq', 'python-imaging', 'python-ipython', 'python-ipython-genutils', 'python-matplotlib', 'python-matplotlib-data', 'python-minimal', 'python-mpi4py', 'python-mpmath', 'python-networkx', 'python-numpy', 'python-pathlib2', 'python-pexpect', 'python-pickleshare', 'python-pil:amd64', 'python-pkg-resources', 'python-prompt-toolkit', 'python-ptyprocess', 'python-pyglet', 'python-pygments', 'python-pygraphviz', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-simplegeneric', 'python-six', 'python-subprocess32', 'python-sympy', 'python-sympy-doc', 'python-tk', 'python-traitlets', 'python-tz', 'python-wcwidth', 'python-wxgtk3.0', 'python-wxversion', 'python-yaml', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.5', 'python3.5-minimal', 'qdbus', 'qt-at-spi:amd64', 'qtchooser', 'qtcore4-l10n', 'r-base-core', 'r-base-dev', 'r-bioc-edger', 'r-bioc-hilbertvis', 'r-bioc-limma', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-g.data', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-multicore', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-permute', 'r-cran-pvclust', 'r-cran-qtl', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-cran-vegan', 'r-doc-html', 'r-other-mott-happy.hbrem', 'r-recommended', 'rake', 'raster3d', 'raxml', 'readline-common', 'readseq', 'rename', 'rnahybrid', 'rtax', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby2.3', 'rubygems-integration', 'samtools', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'sibsim4', 'sigma-align', 'sim4', 'smalt', 'snap', 'soapdenovo', 'soapdenovo2', 'squizz', 'sra-toolkit', 'ssake', 'staden-io-lib-utils', 'sysstat', 't-coffee', 't1utils', 'tabix', 'tasksel', 'tasksel-data', 'tcl', 'tcl8.6', 'tcpd', 'tex-common', 'tex-gyre', 'texlive-base', 'texlive-binaries', 'texlive-extra-utils', 'texlive-font-utils', 'texlive-fonts-extra', 'texlive-fonts-extra-doc', 'texlive-fonts-recommended', 'texlive-fonts-recommended-doc', 'texlive-generic-extra', 'texlive-generic-recommended', 'texlive-latex-base', 'texlive-latex-base-doc', 'texlive-latex-extra', 'texlive-latex-extra-doc', 'texlive-latex-recommended', 'texlive-latex-recommended-doc', 'texlive-pictures', 'texlive-pictures-doc', 'texlive-pstricks', 'texlive-pstricks-doc', 'theseus', 'tigr-glimmer', 'tipa', 'tk', 'tk8.6', 'tk8.6-blt2.5', 'tm-align', 'tophat', 'tree-puzzle', 'tree-puzzle-doc', 'ttf-adf-accanthis', 'ttf-adf-gillius', 'ttf-adf-universalis', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'unzip', 'vcftools', 'velvet', 'wise', 'wise-data', 'x11-common', 'x11-utils', 'x11-xserver-utils', 'xauth', 'xbitmaps', 'xdg-user-dirs', 'xdg-utils', 'xkb-data', 'xml-core', 'xterm', 'xz-utils', 'zalign', 'zip', 'zlib1g-dev:amd64'] 9m42.9s DUMP: dpkg: warning: ignoring request to remove abyss which isn't installed dpkg: warning: ignoring request to remove acedb-other which isn't installed (Reading database ... 4859 files and directories currently installed.) Purging configuration files for adwaita-icon-theme (3.22.0-1+deb9u1) ... dpkg: warning: ignoring request to remove aevol which isn't installed dpkg: warning: ignoring request to remove alien-hunter which isn't installed dpkg: warning: ignoring request to remove altree which isn't installed dpkg: warning: ignoring request to remove amap-align which isn't installed dpkg: warning: ignoring request to remove ampliconnoise which isn't installed dpkg: warning: ignoring request to remove anfo which isn't installed dpkg: warning: ignoring request to remove ant which isn't installed dpkg: warning: ignoring request to remove ant-contrib which isn't installed dpkg: warning: ignoring request to remove ant-optional which isn't installed dpkg: warning: ignoring request to remove apache2-bin which isn't installed dpkg: warning: ignoring request to remove aragorn which isn't installed dpkg: warning: ignoring request to remove arden which isn't installed Purging configuration files for at-spi2-core (2.22.0-6+deb9u1) ... dpkg: warning: ignoring request to remove autodock which isn't installed dpkg: warning: ignoring request to remove autodock-vina which isn't installed dpkg: warning: ignoring request to remove autogrid which isn't installed dpkg: warning: ignoring request to remove autotools-dev which isn't installed dpkg: warning: ignoring request to remove bamtools which isn't installed Purging configuration files for bc (1.06.95-9+b3) ... dpkg: warning: ignoring request to remove bedtools which isn't installed Purging configuration files for beignet-opencl-icd:amd64 (1.3.0-4) ... dpkg: warning: ignoring request to remove binutils which isn't installed Purging configuration files for biomaj (1.2.3-11) ... Warning, BioMAJ database for MySQL is not deleted by process removal. dpkg: warning: ignoring request to remove bioperl which isn't installed dpkg: warning: ignoring request to remove bioperl-run which isn't installed dpkg: warning: ignoring request to remove biosquid which isn't installed dpkg: warning: ignoring request to remove blast2 which isn't installed Purging configuration files for blends-common (0.6.96) ... dpkg: warning: ignoring request to remove blt which isn't installed dpkg: warning: ignoring request to remove bowtie which isn't installed dpkg: warning: ignoring request to remove bowtie2 which isn't installed Purging configuration files for boxshade (3.3.1-10) ... dpkg: warning: ignoring request to remove build-essential which isn't installed dpkg: warning: ignoring request to remove bwa which isn't installed dpkg: warning: ignoring request to remove bzip2 which isn't installed dpkg: warning: ignoring request to remove bzip2-doc which isn't installed Purging configuration files for ca-certificates (20200601~deb9u1) ... Removing dangling symlinks from /etc/ssl/certs... done. 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Purging configuration files for exim4-base (4.89-2+deb9u7) ... Purging configuration files for exim4-config (4.89-2+deb9u7) ... dpkg-statoverride: warning: no override present Purging configuration files for exim4-daemon-light (4.89-2+deb9u7) ... dpkg: warning: ignoring request to remove exonerate which isn't installed dpkg: warning: ignoring request to remove fakeroot which isn't installed Purging configuration files for fastdnaml (1.2.2-11+b1) ... Purging configuration files for fastlink (4.1P-fix100+dfsg-1+b1) ... Purging configuration files for fastqc (0.11.5+dfsg-6) ... dpkg: warning: ignoring request to remove fasttree which isn't installed dpkg: warning: ignoring request to remove fastx-toolkit which isn't installed dpkg: warning: ignoring request to remove ffindex which isn't installed dpkg: warning: ignoring request to remove file which isn't installed dpkg: warning: ignoring request to remove filo which isn't installed dpkg: warning: ignoring request to remove fitgcp which isn't installed dpkg: warning: ignoring request to remove flexbar which isn't installed Purging configuration files for fontconfig (2.11.0-6.7+b1) ... 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Purging configuration files for fonts-dejavu-core (2.37-1) ... dpkg: warning: ignoring request to remove fonts-dejavu-extra which isn't installed Purging configuration files for fonts-droid-fallback (1:6.0.1r16-1.1) ... dpkg: warning: ignoring request to remove fonts-ebgaramond which isn't installed dpkg: warning: ignoring request to remove fonts-ebgaramond-extra which isn't installed dpkg: warning: ignoring request to remove fonts-font-awesome which isn't installed dpkg: warning: ignoring request to remove fonts-freefont-otf which isn't installed dpkg: warning: ignoring request to remove fonts-freefont-ttf which isn't installed dpkg: warning: ignoring request to remove fonts-gfs-artemisia which isn't installed dpkg: warning: ignoring request to remove fonts-gfs-complutum which isn't installed dpkg: warning: ignoring request to remove fonts-gfs-didot which isn't installed dpkg: warning: ignoring request to remove fonts-gfs-neohellenic which isn't installed dpkg: warning: ignoring request to remove fonts-gfs-olga which isn't installed dpkg: warning: ignoring request to remove fonts-gfs-solomos which isn't installed Purging configuration files for fonts-junicode (0.7.8-2) ... dpkg: warning: ignoring request to remove fonts-lato which isn't installed dpkg: warning: ignoring request to remove fonts-liberation which isn't installed Purging configuration files for fonts-linuxlibertine (5.3.0-2) ... Purging configuration files for fonts-lmodern (2.004.5-3) ... dpkg: warning: ignoring request to remove fonts-lobster which isn't installed dpkg: warning: ignoring request to remove fonts-lobstertwo which isn't installed dpkg: warning: ignoring request to remove fonts-lyx which isn't installed Purging configuration files for fonts-noto-hinted (20161116-1) ... Purging configuration files for fonts-noto-mono (20161116-1) ... dpkg: warning: ignoring request to remove fonts-oflb-asana-math which isn't installed dpkg: warning: ignoring request to remove fonts-roboto-hinted which isn't installed dpkg: warning: ignoring request to remove fonts-sil-gentium which isn't installed dpkg: warning: ignoring request to remove fonts-sil-gentium-basic which isn't installed dpkg: warning: ignoring request to remove fonts-sil-gentiumplus which isn't installed dpkg: warning: ignoring request to remove fonts-sil-gentiumplus-compact which isn't installed dpkg: warning: ignoring request to remove fonts-stix which isn't installed Purging configuration files for fonts-texgyre (20160520-1) ... dpkg: warning: ignoring request to remove freecontact which isn't installed dpkg: warning: ignoring request to remove fsa which isn't installed dpkg: warning: ignoring request to remove g++ which isn't installed dpkg: warning: ignoring request to remove g++-6 which isn't installed dpkg: warning: ignoring request to remove gasic which isn't installed dpkg: warning: ignoring request to remove gawk which isn't installed dpkg: warning: ignoring request to remove gcc which isn't installed dpkg: warning: ignoring request to remove gcc-6 which isn't installed dpkg: warning: ignoring request to remove genometools which isn't installed dpkg: warning: ignoring request to remove genometools-common which isn't installed dpkg: warning: ignoring request to remove gff2aplot which isn't installed dpkg: warning: ignoring request to remove gff2ps which isn't installed dpkg: warning: ignoring request to remove gfortran which isn't installed dpkg: warning: ignoring request to remove gfortran-6 which isn't installed dpkg: warning: ignoring request to remove ghostscript which isn't installed dpkg: warning: ignoring request to remove giira which isn't installed dpkg: warning: ignoring request to remove glam2 which isn't installed dpkg: warning: ignoring request to remove glib-networking which isn't installed dpkg: warning: ignoring request to remove glib-networking-common which isn't installed dpkg: warning: ignoring request to remove glib-networking-services which isn't installed dpkg: warning: ignoring request to remove glpk-utils which isn't installed dpkg: warning: ignoring request to remove gnome-icon-theme which isn't installed dpkg: warning: ignoring request to remove gnupg which isn't installed Purging configuration files for gnupg-agent (2.1.18-8~deb9u4) ... dpkg: warning: ignoring request to remove gnupg-l10n which isn't installed Purging configuration files for graphviz (2.38.0-17) ... dpkg: warning: ignoring request to remove grinder which isn't installed dpkg: warning: ignoring request to remove gromacs which isn't installed dpkg: warning: ignoring request to remove gromacs-data which isn't installed dpkg: warning: ignoring request to remove gsettings-desktop-schemas which isn't installed Purging configuration files for gsfonts (1:8.11+urwcyr1.0.7~pre44-4.3) ... dpkg: warning: ignoring request to remove gtk-update-icon-cache which isn't installed dpkg: warning: ignoring request to remove guile-2.0-libs which isn't installed dpkg: warning: ignoring request to remove hhsuite which isn't installed dpkg: warning: ignoring request to remove hhsuite-data which isn't installed dpkg: warning: ignoring request to remove hicolor-icon-theme which isn't installed dpkg: warning: ignoring request to remove hmmer which isn't installed dpkg: warning: ignoring request to remove hyphy-common which isn't installed dpkg: warning: ignoring request to remove hyphy-mpi which isn't installed dpkg: warning: ignoring request to remove icu-devtools which isn't installed dpkg: warning: ignoring request to remove idba which isn't installed Purging configuration files for imagemagick (8:6.9.7.4+dfsg-11+deb9u8) ... Purging configuration files for imagemagick-6-common (8:6.9.7.4+dfsg-11+deb9u8) ... dpkg: warning: ignoring request to remove imagemagick-6.q16 which isn't installed dpkg: warning: ignoring request to remove infernal which isn't installed dpkg: warning: ignoring request to remove ipython which isn't installed dpkg: warning: ignoring request to remove isympy which isn't installed dpkg: warning: ignoring request to remove isympy-common which isn't installed Purging configuration files for java-common (0.58+deb9u1) ... dpkg: warning: ignoring request to remove java-wrappers which isn't installed Purging configuration files for javascript-common (11) ... dpkg: warning: ignoring request to remove jellyfish which isn't installed dpkg: warning: ignoring request to remove junit4 which isn't installed dpkg: warning: ignoring request to remove kalign which isn't installed dpkg: warning: ignoring request to remove kissplice which isn't installed dpkg: warning: ignoring request to remove krb5-locales which isn't installed dpkg: warning: ignoring request to remove laptop-detect which isn't installed dpkg: warning: ignoring request to remove last-align which isn't installed dpkg: warning: ignoring request to remove libace-perl which isn't installed dpkg: warning: ignoring request to remove libaec0 which isn't installed dpkg: warning: ignoring request to remove libaio1 which isn't installed dpkg: warning: ignoring request to remove libalgorithm-diff-perl which isn't installed dpkg: warning: ignoring request to remove libalgorithm-diff-xs-perl which isn't installed dpkg: warning: ignoring request to remove libalgorithm-merge-perl which isn't installed dpkg: warning: ignoring request to remove libalgorithm-munkres-perl which isn't installed dpkg: warning: ignoring request to remove libamd2 which isn't installed dpkg: warning: ignoring request to remove libanfo0 which isn't installed dpkg: warning: ignoring request to remove libann0 which isn't installed dpkg: warning: ignoring request to remove libapache-dbi-perl which isn't installed dpkg: warning: ignoring request to remove libapache-pom-java which isn't installed Purging configuration files for libapache2-mod-perl2 (2.0.10-2+deb9u1) ... dpkg: warning: ignoring request to remove libapache2-reload-perl which isn't installed dpkg: warning: ignoring request to remove libapparmor1 which isn't installed dpkg: warning: ignoring request to remove libapr1 which isn't installed dpkg: warning: ignoring request to remove libaprutil1 which isn't installed dpkg: warning: ignoring request to remove libaprutil1-dbd-sqlite3 which isn't installed dpkg: warning: ignoring request to remove libaprutil1-ldap which isn't installed dpkg: warning: ignoring request to remove libargtable2-0 which isn't installed dpkg: warning: ignoring request to remove libarray-compare-perl which isn't installed Purging configuration files for libart-2.0-2:amd64 (2.3.21-2) ... dpkg: warning: ignoring request to remove libasan3 which isn't installed dpkg: warning: ignoring request to remove libasound2 which isn't installed dpkg: warning: ignoring request to remove libasound2-data which isn't installed dpkg: warning: ignoring request to remove libassuan0 which isn't installed dpkg: warning: ignoring request to remove libasyncns0 which isn't installed dpkg: warning: ignoring request to remove libatinject-jsr330-api-java which isn't installed dpkg: warning: ignoring request to remove libatk-bridge2.0-0 which isn't installed dpkg: warning: ignoring request to remove libatk-wrapper-java which isn't installed dpkg: warning: ignoring request to remove libatk-wrapper-java-jni which isn't installed dpkg: warning: ignoring request to remove libatk1.0-0 which isn't installed dpkg: warning: ignoring request to remove libatk1.0-data which isn't installed dpkg: warning: ignoring request to remove libatlas3-base which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libatspi2.0-0 which isn't installed dpkg: warning: ignoring request to remove libaudio2 which isn't installed dpkg: warning: ignoring request to remove libauthen-sasl-perl which isn't installed dpkg: warning: ignoring request to remove libavahi-client3 which isn't installed dpkg: warning: ignoring request to remove libavahi-common-data which isn't installed dpkg: warning: ignoring request to remove libavahi-common3 which isn't installed dpkg: warning: ignoring request to remove libaxis-java which isn't installed Purging configuration files for libbambamc0 (0.0.50-1) ... dpkg: warning: ignoring request to remove libbamtools2.4.0 which isn't installed Purging configuration files for libbcprov-java (1.56-1+deb9u2) ... dpkg: warning: ignoring request to remove libbio-asn1-entrezgene-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-perl which isn't installed dpkg: warning: ignoring request to remove libbio-perl-run-perl which isn't installed dpkg: warning: ignoring request to remove libbiojava-java which isn't installed dpkg: warning: ignoring request to remove libbiojava1.7-java which isn't installed dpkg: warning: ignoring request to remove libbit-vector-perl which isn't installed dpkg: warning: ignoring request to remove libblas-common which isn't installed dpkg: warning: ignoring request to remove libblas-dev which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libboost-filesystem1.62.0 which isn't installed dpkg: warning: ignoring request to remove libboost-iostreams1.62.0 which isn't installed dpkg: warning: ignoring request to remove libboost-mpi1.62.0 which isn't installed dpkg: warning: ignoring request to remove libboost-program-options1.62.0 which isn't installed dpkg: warning: ignoring request to remove libboost-regex1.62.0 which isn't installed dpkg: warning: ignoring request to remove libboost-serialization1.62.0 which isn't 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libcommons-math3-java which isn't installed dpkg: warning: ignoring request to remove libcommons-net-java which isn't installed dpkg: warning: ignoring request to remove libcommons-parent-java which isn't installed dpkg: warning: ignoring request to remove libcommons-pool-java which isn't installed dpkg: warning: ignoring request to remove libconfig-general-perl which isn't installed dpkg: warning: ignoring request to remove libconfig-inifiles-perl which isn't installed dpkg: warning: ignoring request to remove libconvert-binary-c-perl which isn't installed dpkg: warning: ignoring request to remove libconvert-binhex-perl which isn't installed dpkg: warning: ignoring request to remove libcroco3 which isn't installed dpkg: warning: ignoring request to remove libcrypt-rc4-perl which isn't installed dpkg: warning: ignoring request to remove libcups2 which isn't installed dpkg: warning: ignoring request to remove libcupsfilters1 which isn't installed dpkg: warning: ignoring request to remove libcupsimage2 which isn't installed dpkg: warning: ignoring request to remove libcurl3 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdata-dumper-simple-perl which isn't installed dpkg: warning: ignoring request to remove libdata-stag-perl which isn't installed dpkg: warning: ignoring request to remove libdate-calc-perl which isn't installed dpkg: warning: ignoring request to remove libdate-calc-xs-perl which isn't installed dpkg: warning: ignoring request to remove libdate-manip-perl which isn't installed dpkg: warning: ignoring request to remove libdatrie1 which isn't installed dpkg: warning: ignoring request to remove libdbd-mysql-perl which isn't installed dpkg: warning: ignoring request to remove libdbd-pg-perl which isn't installed dpkg: warning: ignoring request to remove libdbd-sqlite3-perl which isn't installed dpkg: warning: ignoring request to remove libdbi-perl which isn't installed dpkg: warning: ignoring request to remove libdbus-1-3 which isn't installed dpkg: warning: ignoring request to remove libdconf1 which isn't installed dpkg: warning: ignoring request to remove libdevel-caller-perl which isn't installed dpkg: warning: ignoring request to remove libdevel-globaldestruction-perl which isn't installed dpkg: warning: ignoring request to remove libdevel-lexalias-perl which isn't installed dpkg: warning: ignoring request to remove libdevel-symdump-perl which isn't installed dpkg: warning: ignoring request to remove libdigest-perl-md5-perl which isn't installed Purging configuration files for libdivsufsort3:amd64 (2.0.1-2) ... dpkg: warning: ignoring request to remove libdjvulibre-text which isn't installed dpkg: warning: ignoring request to remove libdjvulibre21 which isn't installed dpkg: warning: ignoring request to remove libdom4j-java which isn't installed dpkg: warning: ignoring request to remove libdpkg-perl which isn't installed dpkg: warning: ignoring request to remove libdrm-amdgpu1 which isn't installed dpkg: warning: ignoring request to remove libdrm-intel1 which isn't installed dpkg: warning: ignoring request to remove libdrm-nouveau2 which isn't installed dpkg: warning: ignoring request to remove libdrm-radeon1 which isn't installed dpkg: warning: ignoring request to remove libdrm2 which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libegl1-mesa which isn't installed dpkg: warning: ignoring request to remove libeigen3-dev which isn't installed dpkg: warning: ignoring request to remove libelf1 which isn't installed dpkg: warning: ignoring request to remove libelk0 which isn't installed dpkg: warning: ignoring request to remove libencode-locale-perl which isn't installed dpkg: warning: ignoring request to remove libepoxy0 which isn't installed dpkg: warning: ignoring request to remove liberror-perl which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libexpat1-dev which isn't installed dpkg: warning: ignoring request to remove libexporter-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libfabric1 which isn't installed Purging configuration files for libfakeroot:amd64 (1.21-3.1) ... dpkg: warning: ignoring request to remove libfcgi-perl which isn't installed dpkg: warning: ignoring request to remove libffi6 which isn't installed dpkg: warning: ignoring request to remove libffindex0 which isn't installed dpkg: warning: ignoring request to remove libfftw3-double3 which isn't installed dpkg: warning: ignoring request to remove libfftw3-single3 which isn't installed dpkg: warning: ignoring request to remove libfile-basedir-perl which isn't installed dpkg: warning: ignoring request to remove libfile-desktopentry-perl which isn't installed dpkg: warning: ignoring request to remove libfile-fcntllock-perl which isn't installed dpkg: warning: ignoring request to remove libfile-homedir-perl which isn't installed dpkg: warning: ignoring request to remove libfile-listing-perl which isn't installed dpkg: warning: ignoring request to remove libfile-mimeinfo-perl which isn't installed dpkg: warning: ignoring request to remove libfile-slurp-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libfile-which-perl which isn't installed dpkg: warning: ignoring request to remove libflac8 which isn't installed dpkg: warning: ignoring request to remove libfont-afm-perl which isn't installed dpkg: warning: ignoring request to remove libfont-ttf-perl which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfontenc1 which isn't installed dpkg: warning: ignoring request to remove libfreecontact0v5 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfreezethaw-perl which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libfuse2 which isn't installed dpkg: warning: ignoring request to remove libg20 which isn't installed dpkg: warning: ignoring request to remove libgail-common which isn't installed dpkg: warning: ignoring request to remove libgail18 which isn't installed dpkg: warning: ignoring request to remove libgbm1 which isn't installed dpkg: warning: ignoring request to remove libgc1c2 which isn't installed dpkg: warning: ignoring request to remove libgcc-6-dev which isn't installed dpkg: warning: ignoring request to remove libgd-graph-perl which isn't installed dpkg: warning: ignoring request to remove libgd-perl which isn't installed dpkg: warning: ignoring request to remove libgd-text-perl which isn't installed dpkg: warning: ignoring request to remove libgd3 which isn't installed dpkg: warning: ignoring request to remove libgdbm3 which isn't installed Purging configuration files for libgdk-pixbuf2.0-0:amd64 (2.36.5-2+deb9u2) ... dpkg: warning: ignoring request to remove libgdk-pixbuf2.0-common which isn't installed dpkg: warning: ignoring request to remove libgetopt-euclid-perl which isn't installed dpkg: warning: ignoring request to remove libgetopt-simple-perl which isn't installed dpkg: warning: ignoring request to remove libgflags2v5 which isn't installed dpkg: warning: ignoring request to remove libgfortran-6-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran3 which isn't installed dpkg: warning: ignoring request to remove libgif7 which isn't installed Purging configuration files for libgl1-mesa-dri:amd64 (13.0.6-1+b2) ... dpkg: warning: ignoring request to remove libgl1-mesa-glx which isn't installed Purging configuration files for libglade2-0:amd64 (1:2.6.4-2) ... dpkg: warning: ignoring request to remove libglapi-mesa which isn't installed Purging configuration files for libglib2.0-0:amd64 (2.50.3-2+deb9u2) ... dpkg: warning: ignoring request to remove libglib2.0-data which isn't installed dpkg: warning: ignoring request to remove libglpk-java which isn't installed dpkg: warning: ignoring request to remove libglpk40 which isn't installed Purging configuration files for libglu1-mesa:amd64 (9.0.0-2.1) ... dpkg: warning: ignoring request to remove libgmp10 which isn't installed dpkg: warning: ignoring request to remove libgnutls30 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgoogle-glog0v5 which isn't installed dpkg: warning: ignoring request to remove libgpm2 which isn't installed dpkg: warning: ignoring request to remove libgraph-perl which isn't installed dpkg: warning: ignoring request to remove libgraphics-colornames-perl which isn't installed dpkg: warning: ignoring request to remove libgraphics-colorobject-perl which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libgraphviz-perl which isn't installed dpkg: warning: ignoring request to remove libgromacs2 which isn't installed dpkg: warning: ignoring request to remove libgs9 which isn't installed dpkg: warning: ignoring request to remove libgs9-common which isn't installed dpkg: warning: ignoring request to remove libgsasl7 which isn't installed dpkg: warning: ignoring request to remove libgsl2 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.15-1+deb9u1) ... dpkg: warning: ignoring request to remove libgtextutils0v5 which isn't installed Purging configuration files for libgtk-3-0:amd64 (3.22.11-1) ... dpkg: warning: ignoring request to remove libgtk-3-bin which isn't installed Purging configuration files for libgtk-3-common (3.22.11-1) ... Purging configuration files for libgtk2.0-0:amd64 (2.24.31-2) ... dpkg: warning: ignoring request to remove libgtk2.0-bin which isn't installed Purging configuration files for libgtk2.0-common (2.24.31-2) ... dpkg: warning: ignoring request to remove libgts-0.7-5 which isn't installed dpkg: warning: ignoring request to remove libgts-bin which isn't installed dpkg: warning: ignoring request to remove libguava-java which isn't installed Purging configuration files for libgvc6 (2.38.0-17) ... dpkg: warning: ignoring request to remove libgvpr2 which isn't installed dpkg: warning: ignoring request to remove libhamcrest-java which isn't installed dpkg: warning: ignoring request to remove libharfbuzz-icu0 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhdf5-100 which isn't installed dpkg: warning: ignoring request to remove libhmsbeagle1v5 which isn't installed dpkg: warning: ignoring request to 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Purging configuration files for libssl1.1:amd64 (1.1.0l-1~deb9u1) ... dpkg: warning: ignoring request to remove libstaden-read11 which isn't installed dpkg: warning: ignoring request to remove libstatistics-basic-perl which isn't installed dpkg: warning: ignoring request to remove libstatistics-descriptive-perl which isn't installed dpkg: warning: ignoring request to remove libstdc++-6-dev which isn't installed dpkg: warning: ignoring request to remove libstrictures-perl which isn't installed dpkg: warning: ignoring request to remove libsub-exporter-progressive-perl which isn't installed dpkg: warning: ignoring request to remove libsub-name-perl which isn't installed dpkg: warning: ignoring request to remove libsuitesparseconfig4 which isn't installed dpkg: warning: ignoring request to remove libsvg-graph-perl which isn't installed dpkg: warning: ignoring request to remove libsvg-perl which isn't installed dpkg: warning: ignoring request to remove libsynctex1 which isn't installed 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warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux2 which isn't installed dpkg: warning: ignoring request to remove libwmf0.2-7 which isn't installed Purging configuration files for libwrap0:amd64 (7.6.q-26) ... dpkg: warning: ignoring request to remove libwsdl4j-java which isn't installed dpkg: warning: ignoring request to remove libwww-perl which isn't installed dpkg: warning: ignoring request to remove libwww-robotrules-perl which isn't installed dpkg: warning: ignoring request to remove libwxbase3.0-0v5 which isn't installed dpkg: warning: ignoring request to remove libwxgtk3.0-0v5 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 libx11-protocol-perl which isn't installed 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to remove libxml-commons-external-java which isn't installed Purging configuration files for libxml-commons-resolver1.1-java (1.2-7) ... dpkg: warning: while removing libxml-commons-resolver1.1-java, directory '/etc/xml' not empty so not removed dpkg: warning: ignoring request to remove libxml-dom-perl which isn't installed dpkg: warning: ignoring request to remove libxml-dom-xpath-perl which isn't installed dpkg: warning: ignoring request to remove libxml-filter-buffertext-perl which isn't installed dpkg: warning: ignoring request to remove libxml-libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-libxslt-perl which isn't installed dpkg: warning: ignoring request to remove libxml-namespacesupport-perl which isn't installed dpkg: warning: ignoring request to remove libxml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libxml-perl which isn't installed dpkg: warning: ignoring request to remove libxml-regexp-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-base-perl which isn't installed dpkg: warning: ignoring request to remove libxml-sax-expat-perl which isn't installed Purging configuration files for libxml-sax-perl (0.99+dfsg-2) ... dpkg: warning: ignoring request to remove libxml-sax-writer-perl which isn't installed dpkg: warning: ignoring request to remove libxml-simple-perl which isn't installed dpkg: warning: ignoring request to remove libxml-twig-perl which isn't installed dpkg: warning: ignoring request to remove libxml-writer-perl which isn't installed dpkg: warning: ignoring request to remove libxml-xpath-perl which isn't installed dpkg: warning: ignoring request to remove libxml-xpathengine-perl which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxmlrpc-lite-perl which isn't installed dpkg: warning: ignoring request to remove libxmu6 which isn't installed dpkg: warning: ignoring request to remove libxmuu1 which isn't installed dpkg: warning: ignoring request to remove libxom-java which isn't installed dpkg: warning: ignoring request to remove libxpm4 which isn't installed dpkg: warning: ignoring request to remove libxpp2-java which isn't installed dpkg: warning: ignoring request to remove libxpp3-java which isn't installed dpkg: warning: ignoring request to remove libxrandr2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxshmfence1 which isn't installed dpkg: warning: ignoring request to remove libxslt1.1 which isn't installed Purging configuration files for libxss1:amd64 (1:1.2.2-1) ... dpkg: warning: ignoring request to remove libxt6 which isn't installed dpkg: warning: ignoring request to remove libxtst6 which isn't installed dpkg: warning: ignoring request to remove libxv1 which isn't installed dpkg: warning: ignoring request to remove libxxf86dga1 which isn't installed dpkg: warning: ignoring request to remove libxxf86vm1 which isn't installed dpkg: warning: ignoring request to remove libxz-java which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed dpkg: warning: ignoring request to remove libyaml-libyaml-perl which isn't installed dpkg: warning: ignoring request to remove libyaml-perl which isn't installed dpkg: warning: ignoring request to remove libyaml-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libzzip-0-13 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed Purging configuration files for lmodern (2.004.5-3) ... dpkg: warning: ignoring request to remove loki which isn't installed dpkg: warning: ignoring request to remove lsb-base which isn't installed Purging configuration files for lua-filesystem:amd64 (1.6.3-1) ... dpkg: warning: ignoring request to remove lua-lpeg which isn't installed Purging configuration files for lua-md5:amd64 (1.2+git+1+8d87fee-1) ... Purging configuration files for lynx (2.8.9dev11-1) ... Purging configuration files for lynx-common (2.8.9dev11-1) ... dpkg: warning: ignoring request to remove macs which isn't installed dpkg: warning: ignoring request to remove mafft which isn't installed dpkg: warning: ignoring request to remove mailutils which isn't installed dpkg: warning: ignoring request to remove mailutils-common which isn't installed dpkg: warning: ignoring request to remove make 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 dpkg: warning: ignoring request to remove mapsembler2 which isn't installed dpkg: warning: ignoring request to remove maq which isn't installed Purging configuration files for mariadb-client-10.1 (10.1.45-0+deb9u1) ... dpkg: warning: ignoring request to remove mariadb-client-core-10.1 which isn't installed Purging configuration files for mariadb-common (10.1.45-0+deb9u1) ... Purging configuration files for med-config (3.0.1) ... dpkg: warning: ignoring request to remove med-tasks which isn't installed dpkg: warning: ignoring request to remove melting which isn't installed Purging configuration files for menu (2.1.47+b1) ... Purging configuration files for mime-support (3.60) ... dpkg: warning: ignoring request to remove minia which isn't installed dpkg: warning: ignoring request to remove mipe which isn't installed dpkg: warning: ignoring request to remove mira-assembler which isn't installed Purging configuration files for mira-rfam-12s-rrna (4.9.6-2) ... dpkg: warning: ignoring request to remove mlv-smile which isn't installed Purging configuration files for mothur (1.38.1.1-1) ... dpkg: warning: ignoring request to remove mpi-default-bin which isn't installed dpkg: warning: ignoring request to remove mrbayes which isn't installed dpkg: warning: ignoring request to remove mummer which isn't installed dpkg: warning: ignoring request to remove muscle which isn't installed dpkg: warning: ignoring request to remove mustang which isn't installed Purging configuration files for mysql-common (5.8+1.0.2) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed dpkg: warning: ignoring request to remove ncbi-blast+-legacy which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-0+deb9u1) ... dpkg: warning: ignoring request to remove ncbi-epcr which isn't installed dpkg: warning: ignoring request to remove ncbi-tools-bin which isn't installed dpkg: warning: ignoring request to remove ncoils which isn't installed dpkg: warning: ignoring request to remove neobio which isn't installed Purging configuration files for netbase (5.4) ... dpkg: warning: ignoring request to remove netpbm which isn't installed Purging configuration files for notification-daemon (3.20.0-1+b1) ... dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which isn't installed dpkg: warning: ignoring request to remove openjdk-8-jre which isn't installed Purging configuration files for openjdk-8-jre-headless:amd64 (8u252-b09-1~deb9u1) ... Purging configuration files for openmpi-bin (2.0.2-2) ... dpkg: warning: ignoring request to remove openmpi-common which isn't installed Purging configuration files for openssl (1.1.0l-1~deb9u1) ... dpkg: warning: ignoring request to remove paraclu which isn't installed Purging configuration files for parallel (20161222-1) ... dpkg: warning: ignoring request to remove parsinsert which isn't installed dpkg: warning: ignoring request to remove patch which isn't installed dpkg: warning: ignoring request to remove pdb2pqr which isn't installed Purging configuration files for perl (5.24.1-3+deb9u7) ... Purging configuration files for perl-doc (5.24.1-3+deb9u7) ... dpkg: warning: ignoring request to remove perl-modules-5.24 which isn't installed dpkg: warning: ignoring request to remove perl-openssl-defaults which isn't installed dpkg: warning: ignoring request to remove perl-tk which isn't installed dpkg: warning: ignoring request to remove perm which isn't installed dpkg: warning: ignoring request to remove phylip which isn't installed dpkg: warning: ignoring request to remove phyml which isn't installed dpkg: warning: ignoring request to remove phyutility which isn't installed dpkg: warning: ignoring request to remove picard-tools which isn't installed dpkg: warning: ignoring request to remove pinentry-curses which isn't installed Purging configuration files for pkg-config (0.29-4+b1) ... dpkg: warning: ignoring request to remove plink which isn't installed dpkg: warning: ignoring request to remove poa which isn't installed Purging configuration files for poppler-data (0.4.7-8) ... dpkg: warning: ignoring request to remove prank which isn't installed Purging configuration files for preview-latex-style (11.90-1) ... dpkg: warning: ignoring request to remove prime-phylo which isn't installed Purging configuration files for primer3 (2.3.7-3) ... Purging configuration files for probabel (0.4.5-3+b1) ... dpkg: warning: ignoring request to remove probalign which isn't installed dpkg: warning: ignoring request to remove probcons which isn't installed Purging configuration files for procps (2:3.3.12-3+deb9u1) ... dpkg: warning: ignoring request to remove proda which isn't installed dpkg: warning: ignoring request to remove prodigal which isn't installed Purging configuration files for prosper (1.00.4+cvs.2007.05.01-4.1) ... dpkg: warning: ignoring request to remove ps2eps which isn't installed Purging configuration files for psmisc (22.21-2.1+b2) ... dpkg: warning: ignoring request to remove publicsuffix which isn't installed dpkg: warning: ignoring request to remove pynast which isn't installed Purging configuration files for python (2.7.13-2) ... dpkg: warning: ignoring request to remove python-backports-shutil-get-terminal-size which isn't installed dpkg: warning: ignoring request to remove python-biopython which isn't installed dpkg: warning: ignoring request to remove python-biopython-doc which isn't installed dpkg: warning: ignoring request to remove python-cairo which isn't installed dpkg: warning: ignoring request to remove python-chardet which isn't installed dpkg: warning: ignoring request to remove python-cogent which isn't installed dpkg: warning: ignoring request to remove python-cycler which isn't installed dpkg: warning: ignoring request to remove python-dateutil which isn't installed dpkg: warning: ignoring request to remove python-decorator which isn't installed dpkg: warning: ignoring request to remove python-dev which isn't installed dpkg: warning: ignoring request to remove python-enum34 which isn't installed dpkg: warning: ignoring request to remove python-functools32 which isn't installed dpkg: warning: ignoring request to remove python-glade2 which isn't installed dpkg: warning: ignoring request to remove python-gmpy which isn't installed dpkg: warning: ignoring request to remove python-gobject-2 which isn't installed dpkg: warning: ignoring request to remove python-gtk2 which isn't installed dpkg: warning: ignoring request to remove python-htseq which isn't installed dpkg: warning: ignoring request to remove python-imaging which isn't installed dpkg: warning: ignoring request to remove python-ipython which isn't installed dpkg: warning: ignoring request to remove python-ipython-genutils which isn't installed dpkg: warning: ignoring request to remove python-matplotlib which isn't installed Purging configuration files for python-matplotlib-data (2.0.0+dfsg1-2) ... dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-mpi4py which isn't installed dpkg: warning: ignoring request to remove python-mpmath which isn't installed dpkg: warning: ignoring request to remove python-networkx which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-pathlib2 which isn't installed dpkg: warning: ignoring request to remove python-pexpect which isn't installed dpkg: warning: ignoring request to remove python-pickleshare 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-prompt-toolkit which isn't installed dpkg: warning: ignoring request to remove python-ptyprocess which isn't installed dpkg: warning: ignoring request to remove python-pyglet which isn't installed Purging configuration files for python-pygments (2.2.0+dfsg-1) ... dpkg: warning: ignoring request to remove python-pygraphviz which isn't installed dpkg: warning: ignoring request to remove python-pyparsing which isn't installed dpkg: warning: ignoring request to remove python-pysam 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 python-scipy which isn't installed dpkg: warning: ignoring request to remove python-simplegeneric which isn't installed dpkg: warning: ignoring request to remove python-six which isn't installed dpkg: warning: ignoring request to remove python-subprocess32 which isn't installed Purging configuration files for python-sympy (1.0-3) ... dpkg: warning: ignoring request to remove python-sympy-doc which isn't installed dpkg: warning: ignoring request to remove python-tk which isn't installed dpkg: warning: ignoring request to remove python-traitlets which isn't installed dpkg: warning: ignoring request to remove python-tz which isn't installed dpkg: warning: ignoring request to remove python-wcwidth which isn't installed dpkg: warning: ignoring request to remove python-wxgtk3.0 which isn't installed dpkg: warning: ignoring request to remove python-wxversion which isn't installed dpkg: warning: ignoring request to remove python-yaml which isn't installed dpkg: warning: ignoring request to remove python2.7 which isn't installed dpkg: warning: ignoring request to remove python2.7-dev which isn't installed Purging configuration files for python2.7-minimal (2.7.13-2+deb9u3) ... Purging configuration files for python3 (3.5.3-1) ... dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-pil 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 python3.5 which isn't installed Purging configuration files for python3.5-minimal (3.5.3-1+deb9u1) ... dpkg: warning: ignoring request to remove qdbus which isn't installed dpkg: warning: ignoring request to remove qt-at-spi which isn't installed dpkg: warning: ignoring request to remove qtchooser which isn't installed dpkg: warning: ignoring request to remove qtcore4-l10n which isn't installed Purging configuration files for r-base-core (3.3.3-1) ... dpkg: warning: ignoring request to remove r-base-dev which isn't installed dpkg: warning: ignoring request to remove r-bioc-edger which isn't installed dpkg: warning: ignoring request to remove r-bioc-hilbertvis which isn't installed dpkg: warning: ignoring request to remove r-bioc-limma which isn't installed dpkg: warning: ignoring request to remove r-cran-boot which isn't installed dpkg: warning: ignoring request to remove r-cran-class which isn't installed dpkg: warning: ignoring request to remove r-cran-cluster which isn't installed dpkg: warning: ignoring request to remove r-cran-codetools which isn't installed dpkg: warning: ignoring request to remove r-cran-foreign which isn't installed dpkg: warning: ignoring request to remove r-cran-g.data which isn't installed dpkg: warning: ignoring request to remove r-cran-kernsmooth which isn't installed dpkg: warning: ignoring request to remove r-cran-lattice which isn't installed dpkg: warning: ignoring request to remove r-cran-mass which isn't installed dpkg: warning: ignoring request to remove r-cran-matrix which isn't installed dpkg: warning: ignoring request to remove r-cran-mgcv which isn't installed dpkg: warning: ignoring request to remove r-cran-multicore which isn't installed dpkg: warning: ignoring request to remove r-cran-nlme which isn't installed dpkg: warning: ignoring request to remove r-cran-nnet which isn't installed dpkg: warning: ignoring request to remove r-cran-permute which isn't installed dpkg: warning: ignoring request to remove r-cran-pvclust which isn't installed dpkg: warning: ignoring request to remove r-cran-qtl which isn't installed dpkg: warning: ignoring request to remove r-cran-rpart which isn't installed dpkg: warning: ignoring request to remove r-cran-spatial which isn't installed dpkg: warning: ignoring request to remove r-cran-survival which isn't installed dpkg: warning: ignoring request to remove r-cran-vegan which isn't installed dpkg: warning: ignoring request to remove r-doc-html which isn't installed dpkg: warning: ignoring request to remove r-other-mott-happy.hbrem which isn't installed dpkg: warning: ignoring request to remove r-recommended which isn't installed dpkg: warning: ignoring request to remove rake which isn't installed dpkg: warning: ignoring request to remove raster3d which isn't installed dpkg: warning: ignoring request to remove raxml which isn't installed Purging configuration files for readline-common (7.0-3) ... dpkg: warning: ignoring request to remove readseq which isn't installed dpkg: warning: ignoring request to remove rename which isn't installed dpkg: warning: ignoring request to remove rnahybrid which isn't installed dpkg: warning: ignoring request to remove rtax which isn't installed dpkg: warning: ignoring request to remove ruby which isn't installed dpkg: warning: ignoring request to remove ruby-did-you-mean which isn't installed dpkg: warning: ignoring request to remove ruby-minitest which isn't installed dpkg: warning: ignoring request to remove ruby-net-telnet which isn't installed dpkg: warning: ignoring request to remove ruby-power-assert which isn't installed dpkg: warning: ignoring request to remove ruby-test-unit which isn't installed dpkg: warning: ignoring request to remove ruby2.3 which isn't installed dpkg: warning: ignoring request to remove rubygems-integration which isn't installed dpkg: warning: ignoring request to remove samtools which isn't installed dpkg: warning: ignoring request to remove seqan-apps which isn't installed Purging configuration files for sgml-base (1.29) ... Purging configuration files for shared-mime-info (1.8-1+deb9u1) ... dpkg: warning: ignoring request to remove sibsim4 which isn't installed dpkg: warning: ignoring request to remove sigma-align which isn't installed dpkg: warning: ignoring request to remove sim4 which isn't installed dpkg: warning: ignoring request to remove smalt which isn't installed dpkg: warning: ignoring request to remove snap which isn't installed dpkg: warning: ignoring request to remove soapdenovo which isn't installed dpkg: warning: ignoring request to remove soapdenovo2 which isn't installed dpkg: warning: ignoring request to remove squizz which isn't installed Purging configuration files for sra-toolkit (2.8.1-2+dfsg-2) ... dpkg: warning: ignoring request to remove ssake which isn't installed dpkg: warning: ignoring request to remove staden-io-lib-utils which isn't installed Purging configuration files for sysstat (11.4.3-2) ... dpkg: warning: ignoring request to remove t-coffee which isn't installed dpkg: warning: ignoring request to remove t1utils which isn't installed dpkg: warning: ignoring request to remove tabix which isn't installed Purging configuration files for tasksel (3.39) ... dpkg: warning: ignoring request to remove tasksel-data which isn't installed dpkg: warning: ignoring request to remove tcl which isn't installed Purging configuration files for tcl8.6 (8.6.6+dfsg-1+b1) ... dpkg: warning: ignoring request to remove tcpd which isn't installed Purging configuration files for tex-common (6.06) ... Purging configuration files for tex-gyre (20160520-1) ... Purging configuration files for texlive-base (2016.20170123-5) ... dpkg: warning: ignoring request to remove texlive-binaries which isn't installed Purging configuration files for texlive-extra-utils (2016.20170123-5) ... Purging configuration files for texlive-font-utils (2016.20170123-5) ... Purging configuration files for texlive-fonts-extra (2016.20170123-5) ... Purging configuration files for texlive-fonts-extra-doc (2016.20170123-5) ... Purging configuration files for texlive-fonts-recommended (2016.20170123-5) ... Purging configuration files for texlive-fonts-recommended-doc (2016.20170123-5) ... Purging configuration files for texlive-generic-extra (2016.20170123-5) ... Purging configuration files for texlive-generic-recommended (2016.20170123-5) ... Purging configuration files for texlive-latex-base (2016.20170123-5) ... Purging configuration files for texlive-latex-base-doc (2016.20170123-5) ... Purging configuration files for texlive-latex-extra (2016.20170123-5) ... Purging configuration files for texlive-latex-extra-doc (2016.20170123-5) ... Purging configuration files for texlive-latex-recommended (2016.20170123-5) ... Purging configuration files for texlive-latex-recommended-doc (2016.20170123-5) ... Purging configuration files for texlive-pictures (2016.20170123-5) ... Purging configuration files for texlive-pictures-doc (2016.20170123-5) ... Purging configuration files for texlive-pstricks (2016.20170123-5) ... Purging configuration files for texlive-pstricks-doc (2016.20170123-5) ... dpkg: warning: ignoring request to remove theseus which isn't installed dpkg: warning: ignoring request to remove tigr-glimmer which isn't installed Purging configuration files for tipa (2:1.3-20) ... dpkg: warning: ignoring request to remove tk which isn't installed Purging configuration files for tk8.6 (8.6.6-1+b1) ... dpkg: warning: ignoring request to remove tk8.6-blt2.5 which isn't installed dpkg: warning: ignoring request to remove tm-align which isn't installed dpkg: warning: ignoring request to remove tophat which isn't installed Purging configuration files for tree-puzzle (5.2-8+b3) ... dpkg: warning: ignoring request to remove tree-puzzle-doc which isn't installed dpkg: warning: ignoring request to remove ttf-adf-accanthis which isn't installed dpkg: warning: ignoring request to remove ttf-adf-gillius which isn't installed dpkg: warning: ignoring request to remove ttf-adf-universalis which isn't installed dpkg: warning: ignoring request to remove ttf-bitstream-vera which isn't installed Purging configuration files for tzdata (2020a-0+deb9u1) ... Purging configuration files for ucf (3.0036) ... Purging configuration files for unzip (6.0-21+deb9u2) ... dpkg: warning: ignoring request to remove vcftools which isn't installed dpkg: warning: ignoring request to remove velvet which isn't installed dpkg: warning: ignoring request to remove wise which isn't installed dpkg: warning: ignoring request to remove wise-data which isn't installed Purging configuration files for x11-common (1:7.7+19) ... Purging configuration files for x11-utils (7.7+3+b1) ... Purging configuration files for x11-xserver-utils (7.7+7+b1) ... dpkg: warning: ignoring request to remove xauth which isn't installed dpkg: warning: ignoring request to remove xbitmaps which isn't installed Purging configuration files for xdg-user-dirs (0.15-2+b1) ... dpkg: warning: ignoring request to remove xdg-utils which isn't installed dpkg: warning: ignoring request to remove xkb-data which isn't installed Purging configuration files for xml-core (0.17) ... Purging configuration files for xterm (327-2) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed dpkg: warning: ignoring request to remove zalign which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed dpkg: warning: ignoring request to remove zlib1g-dev which isn't installed 9m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--purge', 'abyss', 'acedb-other', 'adwaita-icon-theme', 'aevol', 'alien-hunter', 'altree', 'amap-align', 'ampliconnoise', 'anfo', 'ant', 'ant-contrib', 'ant-optional', 'apache2-bin', 'aragorn', 'arden', 'at-spi2-core', 'autodock', 'autodock-vina', 'autogrid', 'autotools-dev', 'bamtools', 'bc', 'bedtools', 'beignet-opencl-icd:amd64', 'binutils', 'biomaj', 'bioperl', 'bioperl-run', 'biosquid', 'blast2', 'blends-common', 'blt', 'bowtie', 'bowtie2', 'boxshade', 'build-essential', 'bwa', 'bzip2', 'bzip2-doc', 'ca-certificates', 'ca-certificates-java', 'cain', 'cain-examples', 'cain-solvers', 'cassiopee', 'cd-hit', 'cdbfasta', 'cdbs', 'circos', 'circos-tools', 'clearcut', 'clonalframe', 'clustalo', 'clustalw', 'concavity', 'conservation-code', 'cpp', 'cpp-6', 'cron', 'cython', 'datamash', 'dbus', 'dconf-gsettings-backend:amd64', 'dconf-service', 'default-jre', 'default-jre-headless', 'default-mysql-client', 'dh-python', 'dialign', 'dialign-tx', 'dialign-tx-data', 'dirmngr', 'discosnp', 'disulfinder', 'disulfinder-data', 'dmidecode', 'dnaclust', 'dpkg-dev', 'dssp', 'dvipng', 'embassy-domainatrix', 'embassy-domalign', 'embassy-domsearch', 'emboss', 'emboss-data', 'emboss-lib', 'exim4', 'exim4-base', 'exim4-config', 'exim4-daemon-light', 'exonerate', 'fakeroot', 'fastdnaml', 'fastlink', 'fastqc', 'fasttree', 'fastx-toolkit', 'ffindex', 'file', 'filo', 'fitgcp', 'flexbar', 'fontconfig', 'fontconfig-config', 'fonts-cabin', 'fonts-circos-symbols', 'fonts-cmu', 'fonts-comfortaa', 'fonts-croscore', 'fonts-crosextra-caladea', 'fonts-crosextra-carlito', 'fonts-dejavu-core', 'fonts-dejavu-extra', 'fonts-droid-fallback', 'fonts-ebgaramond', 'fonts-ebgaramond-extra', 'fonts-font-awesome', 'fonts-freefont-otf', 'fonts-freefont-ttf', 'fonts-gfs-artemisia', 'fonts-gfs-complutum', 'fonts-gfs-didot', 'fonts-gfs-neohellenic', 'fonts-gfs-olga', 'fonts-gfs-solomos', 'fonts-junicode', 'fonts-lato', 'fonts-liberation', 'fonts-linuxlibertine', 'fonts-lmodern', 'fonts-lobster', 'fonts-lobstertwo', 'fonts-lyx', 'fonts-noto-hinted', 'fonts-noto-mono', 'fonts-oflb-asana-math', 'fonts-roboto-hinted', 'fonts-sil-gentium', 'fonts-sil-gentium-basic', 'fonts-sil-gentiumplus', 'fonts-sil-gentiumplus-compact', 'fonts-stix', 'fonts-texgyre', 'freecontact', 'fsa', 'g++', 'g++-6', 'gasic', 'gawk', 'gcc', 'gcc-6', 'genometools', 'genometools-common', 'gff2aplot', 'gff2ps', 'gfortran', 'gfortran-6', 'ghostscript', 'giira', 'glam2', 'glib-networking:amd64', 'glib-networking-common', 'glib-networking-services', 'glpk-utils', 'gnome-icon-theme', 'gnupg', 'gnupg-agent', 'gnupg-l10n', 'graphviz', 'grinder', 'gromacs', 'gromacs-data', 'gsettings-desktop-schemas', 'gsfonts', 'gtk-update-icon-cache', 'guile-2.0-libs:amd64', 'hhsuite', 'hhsuite-data', 'hicolor-icon-theme', 'hmmer', 'hyphy-common', 'hyphy-mpi', 'icu-devtools', 'idba', 'imagemagick', 'imagemagick-6-common', 'imagemagick-6.q16', 'infernal', 'ipython', 'isympy', 'isympy-common', 'java-common', 'java-wrappers', 'javascript-common', 'jellyfish', 'junit4', 'kalign', 'kissplice', 'krb5-locales', 'laptop-detect', 'last-align', 'libace-perl', 'libaec0:amd64', 'libaio1:amd64', 'libalgorithm-diff-perl', 'libalgorithm-diff-xs-perl', 'libalgorithm-merge-perl', 'libalgorithm-munkres-perl', 'libamd2:amd64', 'libanfo0', 'libann0', 'libapache-dbi-perl', 'libapache-pom-java', 'libapache2-mod-perl2', 'libapache2-reload-perl', 'libapparmor1:amd64', 'libapr1:amd64', 'libaprutil1:amd64', 'libaprutil1-dbd-sqlite3:amd64', 'libaprutil1-ldap:amd64', 'libargtable2-0', 'libarray-compare-perl', 'libart-2.0-2:amd64', 'libasan3:amd64', 'libasound2:amd64', 'libasound2-data', 'libassuan0:amd64', 'libasyncns0:amd64', 'libatinject-jsr330-api-java', 'libatk-bridge2.0-0:amd64', 'libatk-wrapper-java', 'libatk-wrapper-java-jni:amd64', 'libatk1.0-0:amd64', 'libatk1.0-data', 'libatlas3-base', 'libatomic1:amd64', 'libatspi2.0-0:amd64', 'libaudio2:amd64', 'libauthen-sasl-perl', 'libavahi-client3:amd64', 'libavahi-common-data:amd64', 'libavahi-common3:amd64', 'libaxis-java', 'libbambamc0', 'libbamtools2.4.0', 'libbcprov-java', 'libbio-asn1-entrezgene-perl', 'libbio-perl-perl', 'libbio-perl-run-perl', 'libbiojava-java', 'libbiojava1.7-java', 'libbit-vector-perl', 'libblas-common', 'libblas-dev', 'libblas3', 'libboost-filesystem1.62.0:amd64', 'libboost-iostreams1.62.0:amd64', 'libboost-mpi1.62.0', 'libboost-program-options1.62.0:amd64', 'libboost-regex1.62.0:amd64', 'libboost-serialization1.62.0:amd64', 'libboost-system1.62.0:amd64', 'libboost-thread1.62.0:amd64', 'libbsd-resource-perl', 'libbsd0:amd64', 'libbytecode-java', 'libbz2-dev:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcache-cache-perl', 'libcairo-gobject2:amd64', 'libcairo2:amd64', 'libcap2:amd64', 'libcarp-always-perl', 'libcarp-clan-perl', 'libcassie1v5', 'libcc1-0:amd64', 'libcdt5', 'libcgi-fast-perl', 'libcgi-pm-perl', 'libcgraph6', 'libcilkrts5:amd64', 'libclass-inspector-perl', 'libclass-method-modifiers-perl', 'libclass-xsaccessor-perl', 'libclone-perl', 'libcolamd2:amd64', 'libcolord2:amd64', 'libcommons-cli-java', 'libcommons-codec-java', 'libcommons-collections3-java', 'libcommons-compress-java', 'libcommons-dbcp-java', 'libcommons-discovery-java', 'libcommons-httpclient-java', 'libcommons-jexl2-java', 'libcommons-logging-java', 'libcommons-math3-java', 'libcommons-net-java', 'libcommons-parent-java', 'libcommons-pool-java', 'libconfig-general-perl', 'libconfig-inifiles-perl', 'libconvert-binary-c-perl', 'libconvert-binhex-perl', 'libcroco3:amd64', 'libcrypt-rc4-perl', 'libcups2:amd64', 'libcupsfilters1:amd64', 'libcupsimage2:amd64', 'libcurl3:amd64', 'libcurl3-gnutls:amd64', 'libdata-dumper-simple-perl', 'libdata-stag-perl', 'libdate-calc-perl', 'libdate-calc-xs-perl', 'libdate-manip-perl', 'libdatrie1:amd64', 'libdbd-mysql-perl', 'libdbd-pg-perl', 'libdbd-sqlite3-perl', 'libdbi-perl', 'libdbus-1-3:amd64', 'libdconf1:amd64', 'libdevel-caller-perl', 'libdevel-globaldestruction-perl', 'libdevel-lexalias-perl', 'libdevel-symdump-perl', 'libdigest-perl-md5-perl', 'libdivsufsort3:amd64', 'libdjvulibre-text', 'libdjvulibre21:amd64', 'libdom4j-java', 'libdpkg-perl', 'libdrm-amdgpu1:amd64', 'libdrm-intel1:amd64', 'libdrm-nouveau2:amd64', 'libdrm-radeon1:amd64', 'libdrm2:amd64', 'libedit2:amd64', 'libegl1-mesa:amd64', 'libeigen3-dev', 'libelf1:amd64', 'libelk0', 'libencode-locale-perl', 'libepoxy0:amd64', 'liberror-perl', 'libexpat1:amd64', 'libexpat1-dev:amd64', 'libexporter-tiny-perl', 'libfabric1', 'libfakeroot:amd64', 'libfcgi-perl', 'libffi6:amd64', 'libffindex0', 'libfftw3-double3:amd64', 'libfftw3-single3:amd64', 'libfile-basedir-perl', 'libfile-desktopentry-perl', 'libfile-fcntllock-perl', 'libfile-homedir-perl', 'libfile-listing-perl', 'libfile-mimeinfo-perl', 'libfile-slurp-tiny-perl', 'libfile-which-perl', 'libflac8:amd64', 'libfont-afm-perl', 'libfont-ttf-perl', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreecontact0v5:amd64', 'libfreetype6:amd64', 'libfreezethaw-perl', 'libfribidi0:amd64', 'libfuse2:amd64', 'libg20', 'libgail-common:amd64', 'libgail18:amd64', 'libgbm1:amd64', 'libgc1c2:amd64', 'libgcc-6-dev:amd64', 'libgd-graph-perl', 'libgd-perl', 'libgd-text-perl', 'libgd3:amd64', 'libgdbm3:amd64', 'libgdk-pixbuf2.0-0:amd64', 'libgdk-pixbuf2.0-common', 'libgetopt-euclid-perl', 'libgetopt-simple-perl', 'libgflags2v5', 'libgfortran-6-dev:amd64', 'libgfortran3:amd64', 'libgif7:amd64', 'libgl1-mesa-dri:amd64', 'libgl1-mesa-glx:amd64', 'libglade2-0:amd64', 'libglapi-mesa:amd64', 'libglib2.0-0:amd64', 'libglib2.0-data', 'libglpk-java', 'libglpk40:amd64', 'libglu1-mesa:amd64', 'libgmp10:amd64', 'libgnutls30:amd64', 'libgomp1:amd64', 'libgoogle-glog0v5', 'libgpm2:amd64', 'libgraph-perl', 'libgraphics-colornames-perl', 'libgraphics-colorobject-perl', 'libgraphite2-3:amd64', 'libgraphviz-perl', 'libgromacs2', 'libgs9:amd64', 'libgs9-common', 'libgsasl7', 'libgsl2:amd64', 'libgssapi-krb5-2:amd64', 'libgtextutils0v5:amd64', 'libgtk-3-0:amd64', 'libgtk-3-bin', 'libgtk-3-common', 'libgtk2.0-0:amd64', 'libgtk2.0-bin', 'libgtk2.0-common', 'libgts-0.7-5:amd64', 'libgts-bin', 'libguava-java', 'libgvc6', 'libgvpr2', 'libhamcrest-java', 'libharfbuzz-icu0:amd64', 'libharfbuzz0b:amd64', 'libhdf5-100:amd64', 'libhmsbeagle1v5', 'libhogweed4:amd64', 'libhpdf-2.2.1', 'libhsqldb-java', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tableextract-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhts1:amd64', 'libhtsjdk-java', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-plugins', 'libhwloc5:amd64', 'libibverbs1', 'libice6:amd64', 'libicu-dev', 'libicu57:amd64', 'libidn11:amd64', 'libidn2-0:amd64', 'libijs-0.35:amd64', 'libilmbase12:amd64', 'libimport-into-perl', 'libio-all-perl', 'libio-html-perl', 'libio-pty-perl', 'libio-sessiondata-perl', 'libio-socket-ssl-perl', 'libio-string-perl', 'libio-stringy-perl', 'libipc-run-perl', 'libipc-sharelite-perl', 'libipc-system-simple-perl', 'libisl15:amd64', 'libisorelax-java', 'libitm1:amd64', 'libjava-xmlbuilder-java', 'libjaxen-java', 'libjbig0:amd64', 'libjbig2dec0:amd64', 'libjbzip2-java', 'libjcode-pm-perl', 'libjcommon-java', 'libjdom1-java', 'libjellyfish-2.0-2', 'libjemalloc1', 'libjets3t-java', 'libjgoodies-common-java', 'libjgoodies-forms-java', 'libjpeg-dev', 'libjpeg62-turbo:amd64', 'libjpeg62-turbo-dev:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-underscore', 'libjsch-java', 'libjson-glib-1.0-0:amd64', 'libjson-glib-1.0-common', 'libjsoncpp1:amd64', 'libjsr305-java', 'libjxr-tools', 'libjxr0:amd64', 'libjzlib-java', 'libk5crypto3:amd64', 'libkdf5-2', 'libkeyutils1:amd64', 'libkpathsea6:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libksba8:amd64', 'libkyotocabinet16v5:amd64', 'liblapack-dev', 'liblapack3', 'liblcms2-2:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'liblist-allutils-perl', 'liblist-moreutils-perl', 'liblist-someutils-perl', 'liblist-utilsby-perl', 'libllvm3.9:amd64', 'liblocale-gettext-perl', 'liblog4j1.2-java', 'liblqr-1-0:amd64', 'liblsan0:amd64', 'libltdl7:amd64', 'liblua5.1-0:amd64', 'liblua5.2-0:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'liblzma-dev:amd64', 'liblzo2-2:amd64', 'libmagic-mgc', 'libmagic1:amd64', 'libmagickcore-6.q16-3:amd64', 'libmagickcore-6.q16-3-extra:amd64', 'libmagickwand-6.q16-3:amd64', 'libmail-java', 'libmailtools-perl', 'libmailutils5:amd64', 'libmariadbclient18:amd64', 'libmath-bezier-perl', 'libmath-derivative-perl', 'libmath-random-mt-perl', 'libmath-round-perl', 'libmath-spline-perl', 'libmath-tamuanova-perl', 'libmath-vec-perl', 'libmath-vecstat-perl', 'libmbedcrypto0:amd64', 'libmbedtls-dev:amd64', 'libmbedtls10:amd64', 'libmbedx509-0:amd64', 'libmime-tools-perl', 'libmldbm-perl', 'libmng1:amd64', 'libmodule-implementation-perl', 'libmodule-runtime-perl', 'libmoo-perl', 'libmpc3:amd64', 'libmpdec2:amd64', 'libmpfr4:amd64', 'libmpx2:amd64', 'libmsv-java', 'libmysql-java', 'libncbi-vdb2', 'libncbi-wvdb2', 'libncbi6:amd64', 'libncurses5:amd64', 'libncurses5-dev:amd64', 'libnet-dbus-perl', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnetpbm10', 'libnettle6:amd64', 'libnghttp2-14:amd64', 'libngs-java', 'libngs-sdk-dev', 'libngs-sdk1', 'libnl-3-200:amd64', 'libnl-route-3-200:amd64', 'libnotify4:amd64', 'libnpth0:amd64', 'libnspr4:amd64', 'libnss3:amd64', 'libntlm0:amd64', 'libnuma1:amd64', 'libnumber-format-perl', 'libogg0:amd64', 'libole-storage-lite-perl', 'libopenexr22:amd64', 'libopenjp2-7:amd64', 'libopenmpi2:amd64', 'liboro-java', 'libossp-uuid-perl', 'libossp-uuid16:amd64', 'libp11-kit0:amd64', 'libpadwalker-perl', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libparams-classify-perl', 'libparams-validate-perl', 'libparse-recdescent-perl', 'libpathplan4', 'libpciaccess0:amd64', 'libpcre16-3:amd64', 'libpcre3-dev:amd64', 'libpcre32-3:amd64', 'libpcrecpp0v5:amd64', 'libpcsclite1:amd64', 'libperl4-corelibs-perl', 'libperl5.24:amd64', 'libperlio-gzip-perl', 'libpicard-java', 'libpixman-1-0:amd64', 'libpng-dev:amd64', 'libpng-tools', 'libpng16-16:amd64', 'libpod-coverage-perl', 'libpoppler64:amd64', 'libpopt0:amd64', 'libpostscript-perl', 'libpotrace0', 'libpq5:amd64', 'libprocps6:amd64', 'libprotobuf10:amd64', 'libproxy1v5:amd64', 'libpsl5:amd64', 'libpsm-infinipath1', 'libptexenc1:amd64', 'libpth20:amd64', 'libpulse0:amd64', 'libpython-dev:amd64', 'libpython-stdlib:amd64', 'libpython2.7:amd64', 'libpython2.7-dev:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libpython3-stdlib:amd64', 'libpython3.5-minimal:amd64', 'libpython3.5-stdlib:amd64', 'libqt4-dbus:amd64', 'libqt4-xml:amd64', 'libqtcore4:amd64', 'libqtdbus4:amd64', 'libqtgui4:amd64', 'libquadmath0:amd64', 'librdmacm1', 'libreadline-dev:amd64', 'libreadline5:amd64', 'libreadline7:amd64', 'libreadonly-perl', 'libregexp-common-perl', 'libregexp-java', 'librelaxng-datatype-java', 'librest-0.7-0:amd64', 'librole-tiny-perl', 'librsvg2-2:amd64', 'librsvg2-common:amd64', 'librtmp1:amd64', 'libruby2.3:amd64', 'libsasl2-2:amd64', 'libsasl2-modules:amd64', 'libsasl2-modules-db:amd64', 'libsaxonhe-java', 'libscalar-list-utils-perl', 'libsensors4:amd64', 'libservlet3.1-java', 'libset-intspan-perl', 'libset-scalar-perl', 'libsigsegv2:amd64', 'libsm6:amd64', 'libsnappy-java', 'libsnappy-jni', 'libsnappy1v5:amd64', 'libsndfile1:amd64', 'libsoap-lite-perl', 'libsort-naturally-perl', 'libsoup-gnome2.4-1:amd64', 'libsoup2.4-1:amd64', 'libspiffy-perl', 'libspreadsheet-parseexcel-perl', 'libspreadsheet-writeexcel-perl', 'libsprng2', 'libsqlite3-0:amd64', 'libsquizz', 'libssh2-1:amd64', 'libssl1.0.2:amd64', 'libssl1.1:amd64', 'libstaden-read11:amd64', 'libstatistics-basic-perl', 'libstatistics-descriptive-perl', 'libstdc++-6-dev:amd64', 'libstrictures-perl', 'libsub-exporter-progressive-perl', 'libsub-name-perl', 'libsuitesparseconfig4:amd64', 'libsvg-graph-perl', 'libsvg-perl', 'libsynctex1:amd64', 'libsz2:amd64', 'libtamuanova-0.2', 'libtask-weaken-perl', 'libtasn1-6:amd64', 'libtbb2:amd64', 'libtcl8.6:amd64', 'libterm-readkey-perl', 'libtest-pod-perl', 'libtexlua52:amd64', 'libtexluajit2:amd64', 'libtext-format-perl', 'libtext-iconv-perl', 'libthai-data', 'libthai0:amd64', 'libtie-ixhash-perl', 'libtiff5:amd64', 'libtimedate-perl', 'libtinfo-dev:amd64', 'libtk8.6:amd64', 'libtre5:amd64', 'libtree-dagnode-perl', 'libtry-tiny-perl', 'libtsan0:amd64', 'libtxc-dxtn-s2tc:amd64', 'libtype-tiny-perl', 'libtype-tiny-xs-perl', 'libubsan0:amd64', 'libunicode-map-perl', 'libunistring0:amd64', 'libunwind8', 'liburi-perl', 'libutempter0:amd64', 'libvorbis0a:amd64', 'libvorbisenc2:amd64', 'libwayland-client0:amd64', 'libwayland-cursor0:amd64', 'libwayland-egl1-mesa:amd64', 'libwayland-server0:amd64', 'libwebp6:amd64', 'libwebpdemux2:amd64', 'libwebpmux2:amd64', 'libwmf0.2-7:amd64', 'libwrap0:amd64', 'libwsdl4j-java', 'libwww-perl', 'libwww-robotrules-perl', 'libwxbase3.0-0v5:amd64', 'libwxgtk3.0-0v5:amd64', 'libx11-6:amd64', 'libx11-data', 'libx11-protocol-perl', 'libx11-xcb1:amd64', 'libxau6:amd64', 'libxaw7:amd64', 'libxcb-dri2-0:amd64', 'libxcb-dri3-0:amd64', 'libxcb-glx0:amd64', 'libxcb-present0:amd64', 'libxcb-render0:amd64', 'libxcb-shape0:amd64', 'libxcb-shm0:amd64', 'libxcb-sync1:amd64', 'libxcb-xfixes0:amd64', 'libxcb1:amd64', 'libxcomposite1:amd64', 'libxcursor1:amd64', 'libxdamage1:amd64', 'libxdmcp6:amd64', 'libxdot4', 'libxerces-c3.1:amd64', 'libxerces2-java', 'libxext6:amd64', 'libxfixes3:amd64', 'libxft2:amd64', 'libxi6:amd64', 'libxinerama1:amd64', 'libxkbcommon0:amd64', 'libxml-commons-external-java', 'libxml-commons-resolver1.1-java', 'libxml-dom-perl', 'libxml-dom-xpath-perl', 'libxml-filter-buffertext-perl', 'libxml-libxml-perl', 'libxml-libxslt-perl', 'libxml-namespacesupport-perl', 'libxml-parser-perl', 'libxml-perl', 'libxml-regexp-perl', 'libxml-sax-base-perl', 'libxml-sax-expat-perl', 'libxml-sax-perl', 'libxml-sax-writer-perl', 'libxml-simple-perl', 'libxml-twig-perl', 'libxml-writer-perl', 'libxml-xpath-perl', 'libxml-xpathengine-perl', 'libxml2:amd64', 'libxmlrpc-lite-perl', 'libxmu6:amd64', 'libxmuu1:amd64', 'libxom-java', 'libxpm4:amd64', 'libxpp2-java', 'libxpp3-java', 'libxrandr2:amd64', 'libxrender1:amd64', 'libxshmfence1:amd64', 'libxslt1.1:amd64', 'libxss1:amd64', 'libxt6:amd64', 'libxtst6:amd64', 'libxv1:amd64', 'libxxf86dga1:amd64', 'libxxf86vm1:amd64', 'libxz-java', 'libyaml-0-2:amd64', 'libyaml-libyaml-perl', 'libyaml-perl', 'libyaml-tiny-perl', 'libzzip-0-13:amd64', 'linux-libc-dev:amd64', 'lmodern', 'loki', 'lsb-base', 'lua-filesystem:amd64', 'lua-lpeg:amd64', 'lua-md5:amd64', 'lynx', 'lynx-common', 'macs', 'mafft', 'mailutils', 'mailutils-common', 'make', 'manpages', 'manpages-dev', 'mapsembler2', 'maq', 'mariadb-client-10.1', 'mariadb-client-core-10.1', 'mariadb-common', 'med-config', 'med-tasks', 'melting', 'menu', 'mime-support', 'minia', 'mipe', 'mira-assembler', 'mira-rfam-12s-rrna', 'mlv-smile', 'mothur', 'mpi-default-bin', 'mrbayes', 'mummer', 'muscle', 'mustang', 'mysql-common', 'ncbi-blast+', 'ncbi-blast+-legacy', 'ncbi-data', 'ncbi-epcr', 'ncbi-tools-bin', 'ncoils', 'neobio', 'netbase', 'netpbm', 'notification-daemon', 'ocl-icd-libopencl1:amd64', 'openjdk-8-jre:amd64', 'openjdk-8-jre-headless:amd64', 'openmpi-bin', 'openmpi-common', 'openssl', 'paraclu', 'parallel', 'parsinsert', 'patch', 'pdb2pqr', 'perl', 'perl-doc', 'perl-modules-5.24', 'perl-openssl-defaults:amd64', 'perl-tk', 'perm', 'phylip', 'phyml', 'phyutility', 'picard-tools', 'pinentry-curses', 'pkg-config', 'plink', 'poa', 'poppler-data', 'prank', 'preview-latex-style', 'prime-phylo', 'primer3', 'probabel', 'probalign', 'probcons', 'procps', 'proda', 'prodigal', 'prosper', 'ps2eps', 'psmisc', 'publicsuffix', 'pynast', 'python', 'python-backports-shutil-get-terminal-size', 'python-biopython', 'python-biopython-doc', 'python-cairo', 'python-chardet', 'python-cogent', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-dev', 'python-enum34', 'python-functools32', 'python-glade2', 'python-gmpy', 'python-gobject-2', 'python-gtk2', 'python-htseq', 'python-imaging', 'python-ipython', 'python-ipython-genutils', 'python-matplotlib', 'python-matplotlib-data', 'python-minimal', 'python-mpi4py', 'python-mpmath', 'python-networkx', 'python-numpy', 'python-pathlib2', 'python-pexpect', 'python-pickleshare', 'python-pil:amd64', 'python-pkg-resources', 'python-prompt-toolkit', 'python-ptyprocess', 'python-pyglet', 'python-pygments', 'python-pygraphviz', 'python-pyparsing', 'python-pysam', 'python-renderpm:amd64', 'python-reportlab', 'python-reportlab-accel:amd64', 'python-scipy', 'python-simplegeneric', 'python-six', 'python-subprocess32', 'python-sympy', 'python-sympy-doc', 'python-tk', 'python-traitlets', 'python-tz', 'python-wcwidth', 'python-wxgtk3.0', 'python-wxversion', 'python-yaml', 'python2.7', 'python2.7-dev', 'python2.7-minimal', 'python3', 'python3-biopython', 'python3-minimal', 'python3-numpy', 'python3-pil:amd64', 'python3-renderpm:amd64', 'python3-reportlab', 'python3-reportlab-accel:amd64', 'python3.5', 'python3.5-minimal', 'qdbus', 'qt-at-spi:amd64', 'qtchooser', 'qtcore4-l10n', 'r-base-core', 'r-base-dev', 'r-bioc-edger', 'r-bioc-hilbertvis', 'r-bioc-limma', 'r-cran-boot', 'r-cran-class', 'r-cran-cluster', 'r-cran-codetools', 'r-cran-foreign', 'r-cran-g.data', 'r-cran-kernsmooth', 'r-cran-lattice', 'r-cran-mass', 'r-cran-matrix', 'r-cran-mgcv', 'r-cran-multicore', 'r-cran-nlme', 'r-cran-nnet', 'r-cran-permute', 'r-cran-pvclust', 'r-cran-qtl', 'r-cran-rpart', 'r-cran-spatial', 'r-cran-survival', 'r-cran-vegan', 'r-doc-html', 'r-other-mott-happy.hbrem', 'r-recommended', 'rake', 'raster3d', 'raxml', 'readline-common', 'readseq', 'rename', 'rnahybrid', 'rtax', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby2.3', 'rubygems-integration', 'samtools', 'seqan-apps', 'sgml-base', 'shared-mime-info', 'sibsim4', 'sigma-align', 'sim4', 'smalt', 'snap', 'soapdenovo', 'soapdenovo2', 'squizz', 'sra-toolkit', 'ssake', 'staden-io-lib-utils', 'sysstat', 't-coffee', 't1utils', 'tabix', 'tasksel', 'tasksel-data', 'tcl', 'tcl8.6', 'tcpd', 'tex-common', 'tex-gyre', 'texlive-base', 'texlive-binaries', 'texlive-extra-utils', 'texlive-font-utils', 'texlive-fonts-extra', 'texlive-fonts-extra-doc', 'texlive-fonts-recommended', 'texlive-fonts-recommended-doc', 'texlive-generic-extra', 'texlive-generic-recommended', 'texlive-latex-base', 'texlive-latex-base-doc', 'texlive-latex-extra', 'texlive-latex-extra-doc', 'texlive-latex-recommended', 'texlive-latex-recommended-doc', 'texlive-pictures', 'texlive-pictures-doc', 'texlive-pstricks', 'texlive-pstricks-doc', 'theseus', 'tigr-glimmer', 'tipa', 'tk', 'tk8.6', 'tk8.6-blt2.5', 'tm-align', 'tophat', 'tree-puzzle', 'tree-puzzle-doc', 'ttf-adf-accanthis', 'ttf-adf-gillius', 'ttf-adf-universalis', 'ttf-bitstream-vera', 'tzdata', 'ucf', 'unzip', 'vcftools', 'velvet', 'wise', 'wise-data', 'x11-common', 'x11-utils', 'x11-xserver-utils', 'xauth', 'xbitmaps', 'xdg-user-dirs', 'xdg-utils', 'xkb-data', 'xml-core', 'xterm', 'xz-utils', 'zalign', 'zip', 'zlib1g-dev:amd64'] 9m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--purge', 'med-cloud'] 9m42.9s DUMP: dpkg: warning: ignoring request to remove med-cloud which isn't installed 9m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--purge', 'med-cloud'] 9m42.9s INFO: Running scripts post_purge 9m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_purge_exceptions'] 9m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_purge_exceptions'] 9m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--purge', '--pending'] 9m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--purge', '--pending'] 9m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--remove', '--pending'] 9m42.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg', '--remove', '--pending'] 9m42.9s INFO: Running scripts post_test 9m42.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_test_exceptions'] 9m43.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'tmp/scripts/post_test_exceptions'] 9m43.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 9m43.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 9m43.7s DEBUG: No broken symlinks as far as we can find. 9m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-divert', '--list'] 9m43.7s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 9m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'dpkg-divert', '--list'] 9m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'clean'] 9m44.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7', 'apt-get', 'clean'] 9m44.0s DEBUG: Recording chroot state 9m44.5s INFO: PASS: Installation and purging test. 9m44.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/shm'] 9m44.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/shm'] 9m44.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/console'] 9m44.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/console'] 9m44.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/ptmx'] 9m44.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/ptmx'] 9m44.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/pts'] 9m44.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/dev/pts'] 9m44.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/proc'] 9m44.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7/proc'] 9m44.8s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 9m44.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp1fn2z1k7'] 9m44.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp1fn2z1k7 9m44.9s INFO: PASS: All tests. 9m44.9s INFO: piuparts run ends. ret=0 End: 2023-04-20 11:15:45 GMT