Start: 2022-11-19 12:07:31 GMT [stretch] Package: pynast Version: 1.2.2-2 Installed-Size: 308 Maintainer: Debian Med Packaging Team Architecture: all Replaces: python-pynast Provides: python-pynast Depends: python (<< 2.8), python (>= 2.7), python:any (>= 2.6.6-7~), libjs-jquery, libjs-underscore Recommends: blast2, clustalw, mafft, muscle, python-mpi4py Suggests: uclust Conflicts: python-pynast Description: alignment of short DNA sequences Homepage: http://pynast.sourceforge.net/ Description-md5: f1947c7dd3400e1226d490b83db3a814 Section: python Priority: extra Filename: pool/main/p/pynast/pynast_1.2.2-2_all.deb Size: 83450 MD5sum: f9aa3e84b50a9248c2e19d2439b7c88f SHA256: 87ab9020049fe1af4e590fc70c98a6f5ea5af51f8672cffe5a6a0b464520e5ca [buster] Package: pynast Version: 1.2.2-4 Installed-Size: 302 Maintainer: Debian Med Packaging Team Architecture: all Replaces: python-pynast Provides: python-pynast Depends: python (<< 2.8), python (>= 2.7), python:any (>= 2.6.6-7~), libjs-jquery, libjs-underscore Recommends: blast2, clustalw, mafft, muscle, python-mpi4py Suggests: uclust Conflicts: python-pynast Description: alignment of short DNA sequences Homepage: https://github.com/biocore/pynast Description-md5: f1947c7dd3400e1226d490b83db3a814 Section: python Priority: optional Filename: pool/main/p/pynast/pynast_1.2.2-4_all.deb Size: 81624 MD5sum: ce474a6ceede3236c4ae8e8b21d52bdf SHA256: 8c80bb18b0d1b2014351fbd4ef438c285d647a9cabea56ba2f511916a10f07f9 Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --install-recommends --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2buster-rcmd/reference-chroot-metadata.dat --apt pynast=1.2.2-4 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.5 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --install-recommends --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz -d stretch -d buster -B /srv/piuparts.debian.org/slave/refchroot/stretch2buster-rcmd/reference-chroot-metadata.dat --apt pynast=1.2.2-4 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-19-amd64 #1 SMP Debian 5.10.149-2 (2022-10-21) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpl_kt_17o 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpl_kt_17o 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m2.0s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/stretch_amd64.tar.gz'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/proc'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/proc'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/pts'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/pts'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/ptmx'] 0m2.0s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/ptmx'] 0m2.0s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/console'] 0m2.0s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/console'] 0m2.0s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/shm'] 0m2.0s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/shm'] 0m2.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ stretch main 0m2.0s DEBUG: Created policy-rc.d and chmodded it. 0m2.0s DEBUG: Created resolv.conf. 0m2.0s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpl_kt_17o/tmp/scripts/ 0m2.0s INFO: Running scripts post_chroot_unpack 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'update'] 0m2.8s DUMP: Ign:1 http://deb.debian.org/debian stretch InRelease Hit:2 http://deb.debian.org/debian stretch Release Reading package lists... 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'update'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-yf', 'dist-upgrade'] 0m3.0s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-yf', 'dist-upgrade'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.3s DUMP: 660e5103244a20b75ca08c3f8741e16e - 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.3s INFO: Running scripts post_setup 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_dummy_users'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_dummy_users'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_forbid_home'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' '/bin/sync' -> 'true' 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_force-unsafe-io'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_minimize'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_squeeze-backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_setup_zz_backports'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.1s 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 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m4.1s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stretch2buster-rcmd/reference-chroot-metadata.dat 0m4.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m4.4s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m4.4s INFO: Running scripts is_testable 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/is_testable_uninstallable'] 0m4.4s INFO: Running scripts pre_test 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_test_exceptions'] 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_test_exceptions'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_test_root_password'] 0m4.5s DUMP: Enter new UNIX password: Retype new UNIX password: passwd: password updated successfully 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_test_root_password'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'show', '--no-all-versions', 'pynast'] 0m4.6s DUMP: Package: pynast Version: 1.2.2-2 Installed-Size: 308 Maintainer: Debian Med Packaging Team Architecture: all Replaces: python-pynast Provides: python-pynast Depends: python (<< 2.8), python (>= 2.7), python:any (>= 2.6.6-7~), libjs-jquery, libjs-underscore Recommends: blast2, clustalw, mafft, muscle, python-mpi4py Suggests: uclust Conflicts: python-pynast Description-en: alignment of short DNA sequences The package provices a reimplementation of the Nearest Alignment Space Termination tool in Python. It was prepared for next generation sequencers. . Given a set of sequences and a template alignment, PyNAST will align the input sequences against the template alignment, and return a multiple sequence alignment which contains the same number of positions (or columns) as the template alignment. This facilitates the analysis of new sequences in the context of existing alignments, and additional data derived from existing alignments such as phylogenetic trees. Because any protein or nucleic acid sequences and template alignments can be provided, PyNAST is not limited to the analysis of 16s rDNA sequences. Description-md5: f1947c7dd3400e1226d490b83db3a814 Homepage: http://pynast.sourceforge.net/ Section: python Priority: extra Filename: pool/main/p/pynast/pynast_1.2.2-2_all.deb Size: 83450 MD5sum: f9aa3e84b50a9248c2e19d2439b7c88f SHA256: 87ab9020049fe1af4e590fc70c98a6f5ea5af51f8672cffe5a6a0b464520e5ca 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'show', '--no-all-versions', 'pynast'] 0m4.6s INFO: apt-cache knows about the following packages: pynast 0m4.6s INFO: Running scripts pre_install 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_database-server'] 0m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_database-server'] 0m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_exceptions'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_exceptions'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_extras'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_extras'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy'] 0m4.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian stretch/main amd64 Packages release v=9.13,o=Debian,a=oldoldstable,n=stretch,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy', 'pynast'] 0m4.8s DUMP: pynast: Installed: (none) Candidate: 1.2.2-2 Version table: 1.2.2-2 500 500 http://deb.debian.org/debian stretch/main amd64 Packages 0m4.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy', 'pynast'] 0m4.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-y', 'install', 'pynast'] 0m17.3s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: blast2 bzip2 ca-certificates clustalw file fonts-lato javascript-common libauthen-sasl-perl libbsd0 libencode-locale-perl libexpat1 libfabric1 libffi6 libfile-listing-perl libfont-afm-perl libgdbm3 libgfortran3 libgmp10 libgnutls30 libgomp1 libgpm2 libhogweed4 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhwloc-plugins libhwloc5 libibverbs1 libicu57 libidn11 libio-html-perl libio-socket-ssl-perl libjs-jquery libjs-underscore libltdl7 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmailtools-perl libncurses5 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnettle6 libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi2 libp11-kit0 libpciaccess0 libperl5.24 libpsm-infinipath1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 librdmacm1 libreadline7 libruby2.3 libsqlite3-0 libssl1.0.2 libssl1.1 libtasn1-6 libtimedate-perl liburi-perl libwww-perl libwww-robotrules-perl libxml2 libyaml-0-2 lynx lynx-common mafft mime-support mpi-default-bin muscle ncbi-blast+ ncbi-blast+-legacy ncbi-data netbase ocl-icd-libopencl1 openmpi-bin openmpi-common openssl perl perl-modules-5.24 perl-openssl-defaults python python-minimal python-mpi4py python2.7 python2.7-minimal rake readline-common rename ruby ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert ruby-test-unit ruby2.3 rubygems-integration sgml-base unzip xml-core xz-utils zip Suggested packages: bzip2-doc clustalx seaview apache2 | lighttpd | httpd libdigest-hmac-perl libgssapi-perl gnutls-bin gpm libdata-dump-perl libhwloc-contrib-plugins libcrypt-ssleay-perl pciutils libauthen-ntlm-perl opencl-icd gfortran perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make uclust python-doc python-tk python-numpy python2.7-doc binutils binfmt-support readline-doc ri ruby-dev bundler sgml-base-doc debhelper The following NEW packages will be installed: blast2 bzip2 ca-certificates clustalw file fonts-lato javascript-common libauthen-sasl-perl libbsd0 libencode-locale-perl libexpat1 libfabric1 libffi6 libfile-listing-perl libfont-afm-perl libgdbm3 libgfortran3 libgmp10 libgnutls30 libgomp1 libgpm2 libhogweed4 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhwloc-plugins libhwloc5 libibverbs1 libicu57 libidn11 libio-html-perl libio-socket-ssl-perl libjs-jquery libjs-underscore libltdl7 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmailtools-perl libncurses5 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnettle6 libnl-3-200 libnl-route-3-200 libnuma1 libopenmpi2 libp11-kit0 libpciaccess0 libperl5.24 libpsm-infinipath1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 librdmacm1 libreadline7 libruby2.3 libsqlite3-0 libssl1.0.2 libssl1.1 libtasn1-6 libtimedate-perl liburi-perl libwww-perl libwww-robotrules-perl libxml2 libyaml-0-2 lynx lynx-common mafft mime-support mpi-default-bin muscle ncbi-blast+ ncbi-blast+-legacy ncbi-data netbase ocl-icd-libopencl1 openmpi-bin openmpi-common openssl perl perl-modules-5.24 perl-openssl-defaults pynast python python-minimal python-mpi4py python2.7 python2.7-minimal rake readline-common rename ruby ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert ruby-test-unit ruby2.3 rubygems-integration sgml-base unzip xml-core xz-utils zip 0 upgraded, 116 newly installed, 0 to remove and 0 not upgraded. Need to get 55.9 MB of archives. After this operation, 245 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian stretch/main amd64 perl-modules-5.24 all 5.24.1-3+deb9u7 [2723 kB] Get:2 http://deb.debian.org/debian stretch/main amd64 libgdbm3 amd64 1.8.3-14 [30.0 kB] Get:3 http://deb.debian.org/debian stretch/main amd64 libperl5.24 amd64 5.24.1-3+deb9u7 [3527 kB] Get:4 http://deb.debian.org/debian stretch/main amd64 perl amd64 5.24.1-3+deb9u7 [218 kB] Get:5 http://deb.debian.org/debian stretch/main amd64 libpython2.7-minimal amd64 2.7.13-2+deb9u3 [389 kB] Get:6 http://deb.debian.org/debian stretch/main amd64 python2.7-minimal amd64 2.7.13-2+deb9u3 [1382 kB] Get:7 http://deb.debian.org/debian stretch/main amd64 python-minimal amd64 2.7.13-2 [40.5 kB] Get:8 http://deb.debian.org/debian stretch/main amd64 mime-support all 3.60 [36.7 kB] Get:9 http://deb.debian.org/debian stretch/main amd64 libexpat1 amd64 2.2.0-2+deb9u3 [83.7 kB] Get:10 http://deb.debian.org/debian stretch/main amd64 libffi6 amd64 3.2.1-6 [20.4 kB] Get:11 http://deb.debian.org/debian stretch/main amd64 readline-common all 7.0-3 [70.4 kB] Get:12 http://deb.debian.org/debian stretch/main amd64 libreadline7 amd64 7.0-3 [151 kB] Get:13 http://deb.debian.org/debian stretch/main amd64 libsqlite3-0 amd64 3.16.2-5+deb9u1 [572 kB] Get:14 http://deb.debian.org/debian stretch/main amd64 libssl1.1 amd64 1.1.0l-1~deb9u1 [1358 kB] Get:15 http://deb.debian.org/debian stretch/main amd64 libpython2.7-stdlib amd64 2.7.13-2+deb9u3 [1897 kB] Get:16 http://deb.debian.org/debian stretch/main amd64 python2.7 amd64 2.7.13-2+deb9u3 [285 kB] Get:17 http://deb.debian.org/debian stretch/main amd64 libpython-stdlib amd64 2.7.13-2 [20.0 kB] Get:18 http://deb.debian.org/debian stretch/main amd64 python amd64 2.7.13-2 [154 kB] Get:19 http://deb.debian.org/debian stretch/main amd64 fonts-lato all 2.0-1 [2684 kB] Get:20 http://deb.debian.org/debian stretch/main amd64 sgml-base all 1.29 [14.8 kB] Get:21 http://deb.debian.org/debian stretch/main amd64 libssl1.0.2 amd64 1.0.2u-1~deb9u1 [1304 kB] Get:22 http://deb.debian.org/debian stretch/main amd64 netbase all 5.4 [19.1 kB] Get:23 http://deb.debian.org/debian stretch/main amd64 bzip2 amd64 1.0.6-8.1 [47.5 kB] Get:24 http://deb.debian.org/debian stretch/main amd64 libmagic-mgc amd64 1:5.30-1+deb9u3 [222 kB] Get:25 http://deb.debian.org/debian stretch/main amd64 libmagic1 amd64 1:5.30-1+deb9u3 [111 kB] Get:26 http://deb.debian.org/debian stretch/main amd64 file amd64 1:5.30-1+deb9u3 [64.2 kB] Get:27 http://deb.debian.org/debian stretch/main amd64 libgmp10 amd64 2:6.1.2+dfsg-1 [253 kB] Get:28 http://deb.debian.org/debian stretch/main amd64 libnettle6 amd64 3.3-1+b2 [192 kB] Get:29 http://deb.debian.org/debian stretch/main amd64 libhogweed4 amd64 3.3-1+b2 [136 kB] Get:30 http://deb.debian.org/debian stretch/main amd64 libidn11 amd64 1.33-1+deb9u1 [115 kB] Get:31 http://deb.debian.org/debian stretch/main amd64 libp11-kit0 amd64 0.23.3-2 [111 kB] Get:32 http://deb.debian.org/debian stretch/main amd64 libtasn1-6 amd64 4.10-1.1+deb9u1 [50.6 kB] Get:33 http://deb.debian.org/debian stretch/main amd64 libgnutls30 amd64 3.5.8-5+deb9u5 [896 kB] Get:34 http://deb.debian.org/debian stretch/main amd64 libgpm2 amd64 1.20.4-6.2+b1 [34.2 kB] Get:35 http://deb.debian.org/debian stretch/main amd64 libicu57 amd64 57.1-6+deb9u4 [7699 kB] Get:36 http://deb.debian.org/debian stretch/main amd64 libxml2 amd64 2.9.4+dfsg1-2.2+deb9u2 [920 kB] Get:37 http://deb.debian.org/debian stretch/main amd64 xz-utils amd64 5.2.2-1.2+b1 [266 kB] Get:38 http://deb.debian.org/debian stretch/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb9u1 [3555 kB] Get:39 http://deb.debian.org/debian stretch/main amd64 libgomp1 amd64 6.3.0-18+deb9u1 [73.3 kB] Get:40 http://deb.debian.org/debian stretch/main amd64 ncbi-blast+ amd64 2.6.0-1 [9591 kB] Get:41 http://deb.debian.org/debian stretch/main amd64 ncbi-blast+-legacy all 2.6.0-1 [9604 B] Get:42 http://deb.debian.org/debian stretch/main amd64 blast2 all 1:2.6.0-1 [9084 B] Get:43 http://deb.debian.org/debian stretch/main amd64 openssl amd64 1.1.0l-1~deb9u1 [749 kB] Get:44 http://deb.debian.org/debian stretch/main amd64 ca-certificates all 20200601~deb9u1 [160 kB] Get:45 http://deb.debian.org/debian stretch/main amd64 clustalw amd64 2.1+lgpl-5 [286 kB] Get:46 http://deb.debian.org/debian stretch/main amd64 javascript-common all 11 [6120 B] Get:47 http://deb.debian.org/debian stretch/main amd64 libauthen-sasl-perl all 2.1600-1 [50.8 kB] Get:48 http://deb.debian.org/debian stretch/main amd64 libbsd0 amd64 0.8.3-1 [83.0 kB] Get:49 http://deb.debian.org/debian stretch/main amd64 libencode-locale-perl all 1.05-1 [13.7 kB] Get:50 http://deb.debian.org/debian stretch/main amd64 libnl-3-200 amd64 3.2.27-2 [61.5 kB] Get:51 http://deb.debian.org/debian stretch/main amd64 libnl-route-3-200 amd64 3.2.27-2 [136 kB] Get:52 http://deb.debian.org/debian stretch/main amd64 libibverbs1 amd64 1.2.1-2 [39.3 kB] Get:53 http://deb.debian.org/debian stretch/main amd64 libpsm-infinipath1 amd64 3.3+19.g67c0807.open-3 [169 kB] Get:54 http://deb.debian.org/debian stretch/main amd64 librdmacm1 amd64 1.1.0-2 [49.4 kB] Get:55 http://deb.debian.org/debian stretch/main amd64 libfabric1 amd64 1.4.0-1 [259 kB] Get:56 http://deb.debian.org/debian stretch/main amd64 libtimedate-perl all 2.3000-2+deb9u1 [37.9 kB] Get:57 http://deb.debian.org/debian stretch/main amd64 libhttp-date-perl all 6.02-1 [10.7 kB] Get:58 http://deb.debian.org/debian stretch/main amd64 libfile-listing-perl all 6.04-1 [10.3 kB] Get:59 http://deb.debian.org/debian stretch/main amd64 libfont-afm-perl all 1.20-2 [13.6 kB] Get:60 http://deb.debian.org/debian stretch/main amd64 libquadmath0 amd64 6.3.0-18+deb9u1 [131 kB] Get:61 http://deb.debian.org/debian stretch/main amd64 libgfortran3 amd64 6.3.0-18+deb9u1 [265 kB] Get:62 http://deb.debian.org/debian stretch/main amd64 libhtml-tagset-perl all 3.20-3 [12.7 kB] Get:63 http://deb.debian.org/debian stretch/main amd64 liburi-perl all 1.71-1 [88.6 kB] Get:64 http://deb.debian.org/debian stretch/main amd64 libhtml-parser-perl amd64 3.72-3 [104 kB] Get:65 http://deb.debian.org/debian stretch/main amd64 libio-html-perl all 1.001-1 [17.6 kB] Get:66 http://deb.debian.org/debian stretch/main amd64 liblwp-mediatypes-perl all 6.02-1 [22.1 kB] Get:67 http://deb.debian.org/debian stretch/main amd64 libhttp-message-perl all 6.11-1 [75.9 kB] Get:68 http://deb.debian.org/debian stretch/main amd64 libhtml-form-perl all 6.03-1 [23.9 kB] Get:69 http://deb.debian.org/debian stretch/main amd64 libhtml-tree-perl all 5.03-2 [210 kB] Get:70 http://deb.debian.org/debian stretch/main amd64 libhtml-format-perl all 2.12-1 [43.5 kB] Get:71 http://deb.debian.org/debian stretch/main amd64 libhttp-cookies-perl all 6.01-1 [17.4 kB] Get:72 http://deb.debian.org/debian stretch/main amd64 libhttp-daemon-perl all 6.01-1 [17.3 kB] Get:73 http://deb.debian.org/debian stretch/main amd64 libhttp-negotiate-perl all 6.00-2 [13.6 kB] Get:74 http://deb.debian.org/debian stretch/main amd64 perl-openssl-defaults amd64 3 [6782 B] Get:75 http://deb.debian.org/debian stretch/main amd64 libnet-ssleay-perl amd64 1.80-1 [285 kB] Get:76 http://deb.debian.org/debian stretch/main amd64 libio-socket-ssl-perl all 2.044-1 [195 kB] Get:77 http://deb.debian.org/debian stretch/main amd64 libjs-jquery all 3.1.1-2+deb9u1 [154 kB] Get:78 http://deb.debian.org/debian stretch/main amd64 libjs-underscore all 1.8.3~dfsg-1 [63.8 kB] Get:79 http://deb.debian.org/debian stretch/main amd64 libltdl7 amd64 2.4.6-2 [389 kB] Get:80 http://deb.debian.org/debian stretch/main amd64 libnet-http-perl all 6.12-1 [23.8 kB] Get:81 http://deb.debian.org/debian stretch/main amd64 libwww-robotrules-perl all 6.01-1 [14.3 kB] Get:82 http://deb.debian.org/debian stretch/main amd64 libwww-perl all 6.15-1 [195 kB] Get:83 http://deb.debian.org/debian stretch/main amd64 liblwp-protocol-https-perl all 6.06-2 [9582 B] Get:84 http://deb.debian.org/debian stretch/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:85 http://deb.debian.org/debian stretch/main amd64 libmailtools-perl all 2.18-1 [88.5 kB] Get:86 http://deb.debian.org/debian stretch/main amd64 libncurses5 amd64 6.0+20161126-1+deb9u2 [93.4 kB] Get:87 http://deb.debian.org/debian stretch/main amd64 libnuma1 amd64 2.0.11-2.1 [33.3 kB] Get:88 http://deb.debian.org/debian stretch/main amd64 libpciaccess0 amd64 0.13.4-1+b2 [50.0 kB] Get:89 http://deb.debian.org/debian stretch/main amd64 libyaml-0-2 amd64 0.1.7-2 [47.6 kB] Get:90 http://deb.debian.org/debian stretch/main amd64 lynx-common all 2.8.9dev11-1 [1098 kB] Get:91 http://deb.debian.org/debian stretch/main amd64 mafft amd64 7.307-1 [889 kB] Get:92 http://deb.debian.org/debian stretch/main amd64 muscle amd64 1:3.8.31+dfsg-2 [151 kB] Get:93 http://deb.debian.org/debian stretch/main amd64 rubygems-integration all 1.11 [4994 B] Get:94 http://deb.debian.org/debian stretch/main amd64 ruby-did-you-mean all 1.0.0-2 [11.2 kB] Get:95 http://deb.debian.org/debian stretch/main amd64 ruby-minitest all 5.9.0-1 [51.1 kB] Get:96 http://deb.debian.org/debian stretch/main amd64 ruby-net-telnet all 0.1.1-2 [12.5 kB] Get:97 http://deb.debian.org/debian stretch/main amd64 ruby-power-assert all 0.3.0-1 [7902 B] Get:98 http://deb.debian.org/debian stretch/main amd64 ruby-test-unit all 3.1.7-2 [69.6 kB] Get:99 http://deb.debian.org/debian stretch/main amd64 libruby2.3 amd64 2.3.3-1+deb9u8 [3108 kB] Get:100 http://deb.debian.org/debian stretch/main amd64 ruby2.3 amd64 2.3.3-1+deb9u8 [189 kB] Get:101 http://deb.debian.org/debian stretch/main amd64 ruby amd64 1:2.3.3 [10.8 kB] Get:102 http://deb.debian.org/debian stretch/main amd64 rake all 10.5.0-2+deb9u1 [49.7 kB] Get:103 http://deb.debian.org/debian stretch/main amd64 rename all 0.20-4 [12.5 kB] Get:104 http://deb.debian.org/debian stretch/main amd64 unzip amd64 6.0-21+deb9u2 [172 kB] Get:105 http://deb.debian.org/debian stretch/main amd64 xml-core all 0.17 [23.2 kB] Get:106 http://deb.debian.org/debian stretch/main amd64 zip amd64 3.0-11+b1 [234 kB] Get:107 http://deb.debian.org/debian stretch/main amd64 ocl-icd-libopencl1 amd64 2.2.11-1 [36.8 kB] Get:108 http://deb.debian.org/debian stretch/main amd64 libhwloc5 amd64 1.11.5-1 [105 kB] Get:109 http://deb.debian.org/debian stretch/main amd64 libhwloc-plugins amd64 1.11.5-1 [16.1 kB] Get:110 http://deb.debian.org/debian stretch/main amd64 libopenmpi2 amd64 2.0.2-2 [2008 kB] Get:111 http://deb.debian.org/debian stretch/main amd64 lynx amd64 2.8.9dev11-1 [632 kB] Get:112 http://deb.debian.org/debian stretch/main amd64 openmpi-common all 2.0.2-2 [149 kB] Get:113 http://deb.debian.org/debian stretch/main amd64 openmpi-bin amd64 2.0.2-2 [186 kB] Get:114 http://deb.debian.org/debian stretch/main amd64 mpi-default-bin amd64 1.8 [4050 B] Get:115 http://deb.debian.org/debian stretch/main amd64 pynast all 1.2.2-2 [83.5 kB] Get:116 http://deb.debian.org/debian stretch/main amd64 python-mpi4py amd64 2.0.0-2.1+deb9u1 [425 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 55.9 MB in 0s (83.9 MB/s) Selecting previously unselected package perl-modules-5.24. (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 ... 4411 files and directories currently installed.) Preparing to unpack .../00-perl-modules-5.24_5.24.1-3+deb9u7_all.deb ... Unpacking perl-modules-5.24 (5.24.1-3+deb9u7) ... Selecting previously unselected package libgdbm3:amd64. Preparing to unpack .../01-libgdbm3_1.8.3-14_amd64.deb ... Unpacking libgdbm3:amd64 (1.8.3-14) ... Selecting previously unselected package libperl5.24:amd64. 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Unpacking python-mpi4py (2.0.0-2.1+deb9u1) ... Setting up libquadmath0:amd64 (6.3.0-18+deb9u1) ... Setting up libncurses5:amd64 (6.0+20161126-1+deb9u2) ... Setting up libgomp1:amd64 (6.3.0-18+deb9u1) ... Setting up libjs-jquery (3.1.1-2+deb9u1) ... Setting up readline-common (7.0-3) ... Setting up perl-modules-5.24 (5.24.1-3+deb9u7) ... Setting up libgdbm3:amd64 (1.8.3-14) ... Setting up libperl5.24:amd64 (5.24.1-3+deb9u7) ... Setting up libnettle6:amd64 (3.3-1+b2) ... Setting up libexpat1:amd64 (2.2.0-2+deb9u3) ... Setting up libjs-underscore (1.8.3~dfsg-1) ... Setting up mime-support (3.60) ... Setting up libgpm2:amd64 (1.20.4-6.2+b1) ... Setting up libreadline7:amd64 (7.0-3) ... Setting up libnuma1:amd64 (2.0.11-2.1) ... Setting up libgfortran3:amd64 (6.3.0-18+deb9u1) ... Setting up unzip (6.0-21+deb9u2) ... Setting up sgml-base (1.29) ... Setting up libicu57:amd64 (57.1-6+deb9u4) ... Setting up libbsd0:amd64 (0.8.3-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-2.2+deb9u2) ... Setting up zip (3.0-11+b1) ... Setting up libtasn1-6:amd64 (4.10-1.1+deb9u1) ... Setting up libmagic-mgc (1:5.30-1+deb9u3) ... Setting up bzip2 (1.0.6-8.1) ... Setting up libmagic1:amd64 (1:5.30-1+deb9u3) ... Setting up fonts-lato (2.0-1) ... Setting up libpsm-infinipath1 (3.3+19.g67c0807.open-3) ... Setting up perl (5.24.1-3+deb9u7) ... update-alternatives: using /usr/bin/prename to provide /usr/bin/rename (rename) in auto mode Setting up libssl1.0.2:amd64 (1.0.2u-1~deb9u1) ... Setting up ruby-did-you-mean (1.0.0-2) ... Setting up libyaml-0-2:amd64 (0.1.7-2) ... Setting up libgmp10:amd64 (2:6.1.2+dfsg-1) ... Setting up ncbi-data (6.1.20170106+dfsg1-0+deb9u1) ... Setting up liblwp-mediatypes-perl (6.02-1) ... Setting up openmpi-common (2.0.2-2) ... Processing triggers for libc-bin (2.24-11+deb9u4) ... Setting up liburi-perl (1.71-1) ... Setting up libssl1.1:amd64 (1.1.0l-1~deb9u1) ... Setting up xz-utils (5.2.2-1.2+b1) ... update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode Setting up libltdl7:amd64 (2.4.6-2) ... Setting up openssl (1.1.0l-1~deb9u1) ... Setting up ruby-net-telnet (0.1.1-2) ... Setting up libsqlite3-0:amd64 (3.16.2-5+deb9u1) ... Setting up libpciaccess0:amd64 (0.13.4-1+b2) ... Setting up libnet-http-perl (6.12-1) ... Setting up muscle (1:3.8.31+dfsg-2) ... Setting up libffi6:amd64 (3.2.1-6) ... Setting up xml-core (0.17) ... Setting up javascript-common (11) ... Setting up ocl-icd-libopencl1:amd64 (2.2.11-1) ... Setting up libnl-3-200:amd64 (3.2.27-2) ... Setting up ruby-minitest (5.9.0-1) ... Setting up lynx-common (2.8.9dev11-1) ... Setting up clustalw (2.1+lgpl-5) ... Setting up ca-certificates (20200601~deb9u1) ... Updating certificates in /etc/ssl/certs... 126 added, 0 removed; done. Setting up libwww-robotrules-perl (6.01-1) ... Setting up libauthen-sasl-perl (2.1600-1) ... Setting up libpython2.7-stdlib:amd64 (2.7.13-2+deb9u3) ... Setting up libidn11:amd64 (1.33-1+deb9u1) ... Setting up ruby-power-assert (0.3.0-1) ... Setting up netbase (5.4) ... Setting up libhtml-tagset-perl (3.20-3) ... Setting up mafft (7.307-1) ... Setting up libfont-afm-perl (1.20-2) ... Setting up libencode-locale-perl (1.05-1) ... Setting up ruby-test-unit (3.1.7-2) ... Setting up libtimedate-perl (2.3000-2+deb9u1) ... Setting up rename (0.20-4) ... update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode Setting up perl-openssl-defaults:amd64 (3) ... Setting up libio-html-perl (1.001-1) ... Setting up python2.7 (2.7.13-2+deb9u3) ... Setting up libnl-route-3-200:amd64 (3.2.27-2) ... Setting up file (1:5.30-1+deb9u3) ... Setting up libhwloc5:amd64 (1.11.5-1) ... Setting up libhogweed4:amd64 (3.3-1+b2) ... Setting up libpython-stdlib:amd64 (2.7.13-2) ... Setting up libhwloc-plugins (1.11.5-1) ... Setting up libp11-kit0:amd64 (0.23.3-2) ... Setting up libhtml-parser-perl (3.72-3) ... Setting up rubygems-integration (1.11) ... Setting up python (2.7.13-2) ... Setting up libibverbs1 (1.2.1-2) ... Setting up libhttp-date-perl (6.02-1) ... Setting up pynast (1.2.2-2) ... Setting up libnet-ssleay-perl (1.80-1) ... Setting up libgnutls30:amd64 (3.5.8-5+deb9u5) ... Setting up librdmacm1 (1.1.0-2) ... Setting up libio-socket-ssl-perl (2.044-1) ... Setting up libhtml-tree-perl (5.03-2) ... Setting up libfile-listing-perl (6.04-1) ... Setting up libhttp-message-perl (6.11-1) ... Setting up libhttp-negotiate-perl (6.00-2) ... 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 libnet-smtp-ssl-perl (1.04-1) ... Setting up libhtml-format-perl (2.12-1) ... Setting up libhttp-cookies-perl (6.01-1) ... Setting up libfabric1 (1.4.0-1) ... Setting up ncbi-blast+ (2.6.0-1) ... Setting up libhttp-daemon-perl (6.01-1) ... Setting up libhtml-form-perl (6.03-1) ... Setting up libopenmpi2:amd64 (2.0.2-2) ... Setting up ncbi-blast+-legacy (2.6.0-1) ... Setting up libmailtools-perl (2.18-1) ... Setting up blast2 (1:2.6.0-1) ... 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 mpi-default-bin (1.8) ... Setting up python-mpi4py (2.0.0-2.1+deb9u1) ... Setting up libwww-perl (6.15-1) ... Setting up rake (10.5.0-2+deb9u1) ... Setting up liblwp-protocol-https-perl (6.06-2) ... Setting up libruby2.3:amd64 (2.3.3-1+deb9u8) ... Setting up ruby2.3 (2.3.3-1+deb9u8) ... Setting up ruby (1:2.3.3) ... 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. 0m17.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-y', 'install', 'pynast'] 0m17.3s INFO: Running scripts post_install 0m17.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_install_exceptions'] 0m17.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_install_exceptions'] 0m17.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m17.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m17.8s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpl_kt_17o to buster 0m17.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m17.8s INFO: Running scripts pre_distupgrade 0m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_exceptions'] 0m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_exceptions'] 0m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'update'] 0m21.7s DUMP: Get:1 http://deb.debian.org/debian buster InRelease [122 kB] Get:2 http://deb.debian.org/debian buster/main amd64 Packages [7909 kB] Get:3 http://deb.debian.org/debian buster/main Translation-en [5969 kB] Fetched 14.0 MB in 2s (4940 kB/s) Reading package lists... 0m21.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'update'] 0m21.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-yf', 'dist-upgrade'] 0m52.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libgdbm3 libgfortran3 libicu57 libopenmpi2 libperl5.24 libruby2.3 libssl1.0.2 rename ruby2.3 sgml-base xml-core Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: autoconf automake autotools-dev binutils binutils-common binutils-x86-64-linux-gnu cpp cpp-8 e2fsprogs-l10n fdisk gcc gcc-8 gcc-8-base gfortran gfortran-8 ibverbs-providers krb5-locales libasan5 libatomic1 libbinutils libc-dev-bin libc6-dev libcaf-openmpi-3 libcc1-0 libcoarrays-dev libcoarrays-openmpi-dev libcom-err2 libdata-dump-perl libedit2 libevent-2.1-6 libevent-core-2.1-6 libevent-pthreads-2.1-6 libext2fs2 libgcc-8-dev libgdbm-compat4 libgdbm6 libgfortran-8-dev libgfortran5 libgpg-error-l10n libgssapi-krb5-2 libhwloc-dev libibverbs-dev libicu63 libidn2-0 libisl19 libitm1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblmdb0 liblsan0 libltdl-dev libmbedcrypto3 libmbedtls12 libmbedx509-0 libmpc3 libmpfr6 libmpx2 libncurses6 libncursesw6 libnl-3-dev libnl-route-3-dev libnuma-dev libopenmpi-dev libopenmpi3 libperl5.28 libpmix2 libpsm2-2 libpython2-stdlib libruby2.5 libseccomp2 libsigsegv2 libtinfo6 libtool libtry-tiny-perl libtsan0 libubsan1 libunistring2 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxmuu1 libzstd1 linux-libc-dev m4 manpages manpages-dev openssh-client perl-modules-5.28 python2 python2-minimal ruby-xmlrpc ruby2.5 xauth The following packages will be upgraded: adduser apt base-files base-passwd bash blast2 bsdutils bzip2 ca-certificates clustalw coreutils dash debconf debian-archive-keyring debianutils diffutils dpkg e2fslibs e2fsprogs file findutils fonts-lato gpgv grep gzip hostname init-system-helpers libacl1 libapt-pkg5.0 libattr1 libaudit-common libaudit1 libblkid1 libbsd0 libbz2-1.0 libc-bin libc6 libcap-ng0 libcomerr2 libdb5.3 libdebconfclient0 libexpat1 libfabric1 libfdisk1 libffi6 libgcc1 libgcrypt20 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgpm2 libhogweed4 libhtml-parser-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-message-perl libhttp-negotiate-perl libhwloc-plugins libhwloc5 libibverbs1 libidn11 libio-socket-ssl-perl libjs-jquery libjs-underscore libltdl7 liblwp-protocol-https-perl liblz4-1 liblzma5 libmagic-mgc libmagic1 libmount1 libncurses5 libncursesw5 libnet-http-perl libnet-ssleay-perl libnettle6 libnl-3-200 libnl-route-3-200 libnuma1 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpciaccess0 libpcre3 libpsm-infinipath1 libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 librdmacm1 libreadline7 libselinux1 libsemanage-common libsemanage1 libsepol1 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++6 libsystemd0 libtasn1-6 libtimedate-perl libtinfo5 libudev1 liburi-perl libuuid1 libwww-perl libwww-robotrules-perl libxml2 libyaml-0-2 login lynx lynx-common mafft mime-support mount mpi-default-bin multiarch-support muscle ncbi-blast+ ncbi-blast+-legacy ncbi-data ncurses-base ncurses-bin netbase ocl-icd-libopencl1 openmpi-bin openmpi-common openssl passwd perl perl-base pynast python python-minimal python-mpi4py python2.7 python2.7-minimal rake readline-common rename ruby ruby-did-you-mean ruby-minitest ruby-power-assert ruby-test-unit rubygems-integration sed sensible-utils sysvinit-utils tar unzip util-linux xml-core xz-utils zlib1g 161 upgraded, 98 newly installed, 0 to remove and 0 not upgraded. Need to get 144 MB of archives. After this operation, 331 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 base-files amd64 10.3+deb10u13 [69.9 kB] Get:2 http://deb.debian.org/debian buster/main amd64 libc6 amd64 2.28-10+deb10u1 [2863 kB] Get:3 http://deb.debian.org/debian buster/main amd64 libc-bin amd64 2.28-10+deb10u1 [795 kB] Get:4 http://deb.debian.org/debian buster/main amd64 gcc-8-base amd64 8.3.0-6 [191 kB] Get:5 http://deb.debian.org/debian buster/main amd64 libgcc1 amd64 1:8.3.0-6 [40.6 kB] Get:6 http://deb.debian.org/debian buster/main amd64 libtinfo6 amd64 6.1+20181013-2+deb10u2 [325 kB] Get:7 http://deb.debian.org/debian buster/main amd64 debianutils amd64 4.8.6.1 [100 kB] Get:8 http://deb.debian.org/debian buster/main amd64 bash amd64 5.0-4 [1378 kB] Get:9 http://deb.debian.org/debian buster/main amd64 bsdutils amd64 1:2.33.1-0.1 [121 kB] Get:10 http://deb.debian.org/debian buster/main amd64 coreutils amd64 8.30-3 [2708 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libzstd1 amd64 1.3.8+dfsg-3+deb10u2 [237 kB] Get:12 http://deb.debian.org/debian buster/main amd64 libnettle6 amd64 3.4.1-1+deb10u1 [215 kB] Get:13 http://deb.debian.org/debian buster/main amd64 libhogweed4 amd64 3.4.1-1+deb10u1 [141 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libgmp10 amd64 2:6.1.2+dfsg-4+deb10u1 [251 kB] Get:15 http://deb.debian.org/debian buster/main amd64 libunistring2 amd64 0.9.10-1 [381 kB] Get:16 http://deb.debian.org/debian buster/main amd64 libidn2-0 amd64 2.0.5-1+deb10u1 [76.7 kB] Get:17 http://deb.debian.org/debian buster/main amd64 libffi6 amd64 3.2.1-9 [20.8 kB] Get:18 http://deb.debian.org/debian buster/main amd64 libp11-kit0 amd64 0.23.15-2+deb10u1 [316 kB] Get:19 http://deb.debian.org/debian buster/main amd64 libtasn1-6 amd64 4.13-3 [51.9 kB] Get:20 http://deb.debian.org/debian buster/main amd64 libgnutls30 amd64 3.6.7-4+deb10u8 [1126 kB] Get:21 http://deb.debian.org/debian buster/main amd64 libseccomp2 amd64 2.3.3-4 [41.4 kB] Get:22 http://deb.debian.org/debian buster/main amd64 debian-archive-keyring all 2019.1+deb10u1 [93.5 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libaudit-common all 1:2.8.4-3 [22.4 kB] Get:24 http://deb.debian.org/debian buster/main amd64 libcap-ng0 amd64 0.7.9-2 [14.3 kB] Get:25 http://deb.debian.org/debian buster/main amd64 libaudit1 amd64 1:2.8.4-3 [57.3 kB] Get:26 http://deb.debian.org/debian buster/main amd64 debconf all 1.5.71+deb10u1 [145 kB] Get:27 http://deb.debian.org/debian buster/main amd64 libpam0g amd64 1.3.1-5 [126 kB] Get:28 http://deb.debian.org/debian buster/main amd64 libpcre3 amd64 2:8.39-12 [341 kB] Get:29 http://deb.debian.org/debian buster/main amd64 libselinux1 amd64 2.8-1+b1 [86.9 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libsepol1 amd64 2.8-1 [263 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libsemanage-common all 2.8-2 [17.7 kB] Get:32 http://deb.debian.org/debian buster/main amd64 libsemanage1 amd64 2.8-2 [96.5 kB] Get:33 http://deb.debian.org/debian buster/main amd64 bzip2 amd64 1.0.6-9.2~deb10u1 [48.4 kB] Get:34 http://deb.debian.org/debian buster/main amd64 libbz2-1.0 amd64 1.0.6-9.2~deb10u1 [45.3 kB] Get:35 http://deb.debian.org/debian buster/main amd64 libpam-modules-bin amd64 1.3.1-5 [107 kB] Get:36 http://deb.debian.org/debian buster/main amd64 libpam-modules amd64 1.3.1-5 [309 kB] Get:37 http://deb.debian.org/debian buster/main amd64 passwd amd64 1:4.5-1.1 [1005 kB] Get:38 http://deb.debian.org/debian buster/main amd64 adduser all 3.118 [240 kB] Get:39 http://deb.debian.org/debian buster/main amd64 libgpg-error0 amd64 1.35-1 [71.1 kB] Get:40 http://deb.debian.org/debian buster/main amd64 libgcrypt20 amd64 1.8.4-5+deb10u1 [556 kB] Get:41 http://deb.debian.org/debian buster/main amd64 zlib1g amd64 1:1.2.11.dfsg-1+deb10u1 [90.8 kB] Get:42 http://deb.debian.org/debian buster/main amd64 gpgv amd64 2.2.12-1+deb10u2 [584 kB] Get:43 http://deb.debian.org/debian buster/main amd64 libstdc++6 amd64 8.3.0-6 [395 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libapt-pkg5.0 amd64 1.8.2.3 [967 kB] Get:45 http://deb.debian.org/debian buster/main amd64 apt amd64 1.8.2.3 [1418 kB] Get:46 http://deb.debian.org/debian buster/main amd64 liblz4-1 amd64 1.8.3-1+deb10u1 [53.3 kB] Get:47 http://deb.debian.org/debian buster/main amd64 liblzma5 amd64 5.2.4-1+deb10u1 [153 kB] Get:48 http://deb.debian.org/debian buster/main amd64 libsystemd0 amd64 241-7~deb10u8 [331 kB] Get:49 http://deb.debian.org/debian buster/main amd64 libudev1 amd64 241-7~deb10u8 [151 kB] Get:50 http://deb.debian.org/debian buster/main amd64 tar amd64 1.30+dfsg-6 [780 kB] Get:51 http://deb.debian.org/debian buster/main amd64 dpkg amd64 1.19.8 [2210 kB] Get:52 http://deb.debian.org/debian buster/main amd64 dash amd64 0.5.10.2-5 [112 kB] Get:53 http://deb.debian.org/debian buster/main amd64 diffutils amd64 1:3.7-3 [371 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libcom-err2 amd64 1.44.5-1+deb10u3 [68.4 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libcomerr2 amd64 1.44.5-1+deb10u3 [64.2 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libext2fs2 amd64 1.44.5-1+deb10u3 [221 kB] Get:57 http://deb.debian.org/debian buster/main amd64 e2fslibs amd64 1.44.5-1+deb10u3 [64.2 kB] Get:58 http://deb.debian.org/debian buster/main amd64 e2fsprogs amd64 1.44.5-1+deb10u3 [576 kB] Get:59 http://deb.debian.org/debian buster/main amd64 findutils amd64 4.6.0+git+20190209-2 [684 kB] Get:60 http://deb.debian.org/debian buster/main amd64 grep amd64 3.3-1 [373 kB] Get:61 http://deb.debian.org/debian buster/main amd64 gzip amd64 1.9-3+deb10u1 [128 kB] Get:62 http://deb.debian.org/debian buster/main amd64 hostname amd64 3.21 [14.8 kB] Get:63 http://deb.debian.org/debian buster/main amd64 libuuid1 amd64 2.33.1-0.1 [78.3 kB] Get:64 http://deb.debian.org/debian buster/main amd64 libblkid1 amd64 2.33.1-0.1 [195 kB] Get:65 http://deb.debian.org/debian buster/main amd64 libsmartcols1 amd64 2.33.1-0.1 [150 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libfdisk1 amd64 2.33.1-0.1 [234 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libncursesw6 amd64 6.1+20181013-2+deb10u2 [132 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libmount1 amd64 2.33.1-0.1 [207 kB] Get:69 http://deb.debian.org/debian buster/main amd64 fdisk amd64 2.33.1-0.1 [179 kB] Get:70 http://deb.debian.org/debian buster/main amd64 login amd64 1:4.5-1.1 [751 kB] Get:71 http://deb.debian.org/debian buster/main amd64 util-linux amd64 2.33.1-0.1 [1062 kB] Get:72 http://deb.debian.org/debian buster/main amd64 mount amd64 2.33.1-0.1 [174 kB] Get:73 http://deb.debian.org/debian buster/main amd64 ncurses-bin amd64 6.1+20181013-2+deb10u2 [406 kB] Get:74 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:75 http://deb.debian.org/debian buster/main amd64 libnet-ssleay-perl amd64 1.85-2+deb10u1 [308 kB] Get:76 http://deb.debian.org/debian buster/main amd64 libhtml-parser-perl amd64 3.72-3+b3 [105 kB] Get:77 http://deb.debian.org/debian buster/main amd64 perl-modules-5.28 all 5.28.1-6+deb10u1 [2873 kB] Get:78 http://deb.debian.org/debian buster/main amd64 libgdbm6 amd64 1.18.1-4 [64.7 kB] Get:79 http://deb.debian.org/debian buster/main amd64 libgdbm-compat4 amd64 1.18.1-4 [44.1 kB] Get:80 http://deb.debian.org/debian buster/main amd64 libperl5.28 amd64 5.28.1-6+deb10u1 [3894 kB] Get:81 http://deb.debian.org/debian buster/main amd64 perl amd64 5.28.1-6+deb10u1 [204 kB] Get:82 http://deb.debian.org/debian buster/main amd64 perl-base amd64 5.28.1-6+deb10u1 [1514 kB] Get:83 http://deb.debian.org/debian buster/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.5 [683 kB] Get:84 http://deb.debian.org/debian buster/main amd64 liburi-perl all 1.76-1 [89.9 kB] Get:85 http://deb.debian.org/debian buster/main amd64 sed amd64 4.7-1 [310 kB] Get:86 http://deb.debian.org/debian buster/main amd64 libdebconfclient0 amd64 0.249 [49.1 kB] Get:87 http://deb.debian.org/debian buster/main amd64 base-passwd amd64 3.5.46 [56.7 kB] Get:88 http://deb.debian.org/debian buster/main amd64 init-system-helpers all 1.56+nmu1 [46.8 kB] Get:89 http://deb.debian.org/debian buster/main amd64 libncurses5 amd64 6.1+20181013-2+deb10u2 [96.2 kB] Get:90 http://deb.debian.org/debian buster/main amd64 libtinfo5 amd64 6.1+20181013-2+deb10u2 [321 kB] Get:91 http://deb.debian.org/debian buster/main amd64 libncursesw5 amd64 6.1+20181013-2+deb10u2 [118 kB] Get:92 http://deb.debian.org/debian buster/main amd64 ncurses-base all 6.1+20181013-2+deb10u2 [258 kB] Get:93 http://deb.debian.org/debian buster/main amd64 sysvinit-utils amd64 2.93-8 [78.4 kB] Get:94 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get:95 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get:96 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u4 [108 kB] Get:97 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get:98 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:99 http://deb.debian.org/debian buster/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u1 [641 kB] Get:100 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get:101 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get:102 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get:103 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get:104 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get:105 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get:106 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get:107 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get:108 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get:109 http://deb.debian.org/debian buster/main amd64 fonts-lato all 2.0-2 [2698 kB] Get:110 http://deb.debian.org/debian buster/main amd64 libpam-runtime all 1.3.1-5 [211 kB] Get:111 http://deb.debian.org/debian buster/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:112 http://deb.debian.org/debian buster/main amd64 libattr1 amd64 1:2.4.48-4 [21.3 kB] Get:113 http://deb.debian.org/debian buster/main amd64 libacl1 amd64 2.2.53-4 [30.4 kB] Get:114 http://deb.debian.org/debian buster/main amd64 libss2 amd64 1.44.5-1+deb10u3 [72.9 kB] Get:115 http://deb.debian.org/debian buster/main amd64 netbase all 5.6 [19.4 kB] Get:116 http://deb.debian.org/debian buster/main amd64 file amd64 1:5.35-4+deb10u2 [66.4 kB] Get:117 http://deb.debian.org/debian buster/main amd64 libmagic1 amd64 1:5.35-4+deb10u2 [118 kB] Get:118 http://deb.debian.org/debian buster/main amd64 libmagic-mgc amd64 1:5.35-4+deb10u2 [242 kB] Get:119 http://deb.debian.org/debian buster/main amd64 krb5-locales all 1.17-3+deb10u4 [95.6 kB] Get:120 http://deb.debian.org/debian buster/main amd64 manpages all 4.16-2 [1295 kB] Get:121 http://deb.debian.org/debian buster/main amd64 libbsd0 amd64 0.9.1-2+deb10u1 [99.5 kB] Get:122 http://deb.debian.org/debian buster/main amd64 libedit2 amd64 3.1-20181209-1 [94.0 kB] Get:123 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:124 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u4 [65.9 kB] Get:125 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u4 [122 kB] Get:126 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u4 [369 kB] Get:127 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u4 [158 kB] Get:128 http://deb.debian.org/debian buster/main amd64 openssh-client amd64 1:7.9p1-10+deb10u2 [782 kB] Get:129 http://deb.debian.org/debian buster/main amd64 xz-utils amd64 5.2.4-1+deb10u1 [183 kB] Get:130 http://deb.debian.org/debian buster/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:131 http://deb.debian.org/debian buster/main amd64 m4 amd64 1.4.18-2 [203 kB] Get:132 http://deb.debian.org/debian buster/main amd64 autoconf all 2.69-11 [341 kB] Get:133 http://deb.debian.org/debian buster/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:134 http://deb.debian.org/debian buster/main amd64 automake all 1:1.16.1-4 [771 kB] Get:135 http://deb.debian.org/debian buster/main amd64 binutils-common amd64 2.31.1-16 [2073 kB] Get:136 http://deb.debian.org/debian buster/main amd64 libbinutils amd64 2.31.1-16 [478 kB] Get:137 http://deb.debian.org/debian buster/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-16 [1823 kB] Get:138 http://deb.debian.org/debian buster/main amd64 binutils amd64 2.31.1-16 [56.8 kB] Get:139 http://deb.debian.org/debian buster/main amd64 ncbi-data all 6.1.20170106+dfsg1-0+deb10u2 [3552 kB] Get:140 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:141 http://deb.debian.org/debian buster/main amd64 liblmdb0 amd64 0.9.22-1 [45.0 kB] Get:142 http://deb.debian.org/debian buster/main amd64 libmbedcrypto3 amd64 2.16.0-1 [209 kB] Get:143 http://deb.debian.org/debian buster/main amd64 libmbedx509-0 amd64 2.16.0-1 [91.4 kB] Get:144 http://deb.debian.org/debian buster/main amd64 libmbedtls12 amd64 2.16.0-1 [130 kB] Get:145 http://deb.debian.org/debian buster/main amd64 ncbi-blast+ amd64 2.8.1-1+deb10u1 [10.9 MB] Get:146 http://deb.debian.org/debian buster/main amd64 ncbi-blast+-legacy all 2.8.1-1+deb10u1 [10.6 kB] Get:147 http://deb.debian.org/debian buster/main amd64 blast2 all 1:2.8.1-1+deb10u1 [10.1 kB] Get:148 http://deb.debian.org/debian buster/main amd64 openssl amd64 1.1.1n-0+deb10u3 [855 kB] Get:149 http://deb.debian.org/debian buster/main amd64 ca-certificates all 20200601~deb10u2 [166 kB] Get:150 http://deb.debian.org/debian buster/main amd64 clustalw amd64 2.1+lgpl-6 [282 kB] Get:151 http://deb.debian.org/debian buster/main amd64 libisl19 amd64 0.20-2 [587 kB] Get:152 http://deb.debian.org/debian buster/main amd64 libmpfr6 amd64 4.0.2-1 [775 kB] Get:153 http://deb.debian.org/debian buster/main amd64 libmpc3 amd64 1.1.0-1 [41.3 kB] Get:154 http://deb.debian.org/debian buster/main amd64 cpp-8 amd64 8.3.0-6 [8914 kB] Get:155 http://deb.debian.org/debian buster/main amd64 cpp amd64 4:8.3.0-1 [19.4 kB] Get:156 http://deb.debian.org/debian buster/main amd64 e2fsprogs-l10n all 1.44.5-1+deb10u3 [504 kB] Get:157 http://deb.debian.org/debian buster/main amd64 libcc1-0 amd64 8.3.0-6 [46.6 kB] Get:158 http://deb.debian.org/debian buster/main amd64 libitm1 amd64 8.3.0-6 [27.7 kB] Get:159 http://deb.debian.org/debian buster/main amd64 libatomic1 amd64 8.3.0-6 [9032 B] Get:160 http://deb.debian.org/debian buster/main amd64 libasan5 amd64 8.3.0-6 [362 kB] Get:161 http://deb.debian.org/debian buster/main amd64 liblsan0 amd64 8.3.0-6 [131 kB] Get:162 http://deb.debian.org/debian buster/main amd64 libtsan0 amd64 8.3.0-6 [283 kB] Get:163 http://deb.debian.org/debian buster/main amd64 libubsan1 amd64 8.3.0-6 [120 kB] Get:164 http://deb.debian.org/debian buster/main amd64 libmpx2 amd64 8.3.0-6 [11.4 kB] Get:165 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:166 http://deb.debian.org/debian buster/main amd64 libgcc-8-dev amd64 8.3.0-6 [2298 kB] Get:167 http://deb.debian.org/debian buster/main amd64 gcc-8 amd64 8.3.0-6 [9452 kB] Get:168 http://deb.debian.org/debian buster/main amd64 gcc amd64 4:8.3.0-1 [5196 B] Get:169 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:170 http://deb.debian.org/debian buster/main amd64 libgfortran-8-dev amd64 8.3.0-6 [616 kB] Get:171 http://deb.debian.org/debian buster/main amd64 libc-dev-bin amd64 2.28-10+deb10u1 [276 kB] Get:172 http://deb.debian.org/debian buster/main amd64 linux-libc-dev amd64 4.19.249-2 [1530 kB] Get:173 http://deb.debian.org/debian buster/main amd64 libc6-dev amd64 2.28-10+deb10u1 [2692 kB] Get:174 http://deb.debian.org/debian buster/main amd64 gfortran-8 amd64 8.3.0-6 [9375 kB] Get:175 http://deb.debian.org/debian buster/main amd64 gfortran amd64 4:8.3.0-1 [1432 B] Get:176 http://deb.debian.org/debian buster/main amd64 libnl-route-3-200 amd64 3.4.0-1 [162 kB] Get:177 http://deb.debian.org/debian buster/main amd64 libnl-3-200 amd64 3.4.0-1 [63.0 kB] Get:178 http://deb.debian.org/debian buster/main amd64 libibverbs1 amd64 22.1-1 [51.2 kB] Get:179 http://deb.debian.org/debian buster/main amd64 ibverbs-providers amd64 22.1-1 [187 kB] Get:180 http://deb.debian.org/debian buster/main amd64 libevent-2.1-6 amd64 2.1.8-stable-4 [177 kB] Get:181 http://deb.debian.org/debian buster/main amd64 libevent-core-2.1-6 amd64 2.1.8-stable-4 [129 kB] Get:182 http://deb.debian.org/debian buster/main amd64 libevent-pthreads-2.1-6 amd64 2.1.8-stable-4 [47.9 kB] Get:183 http://deb.debian.org/debian buster/main amd64 libpsm-infinipath1 amd64 3.3+20.604758e7-6 [168 kB] Get:184 http://deb.debian.org/debian buster/main amd64 libnuma1 amd64 2.0.12-1 [26.2 kB] Get:185 http://deb.debian.org/debian buster/main amd64 libpsm2-2 amd64 11.2.78-1 [177 kB] Get:186 http://deb.debian.org/debian buster/main amd64 librdmacm1 amd64 22.1-1 [65.3 kB] Get:187 http://deb.debian.org/debian buster/main amd64 libfabric1 amd64 1.6.2-3 [396 kB] Get:188 http://deb.debian.org/debian buster/main amd64 libltdl7 amd64 2.4.6-9 [390 kB] Get:189 http://deb.debian.org/debian buster/main amd64 libhwloc5 amd64 1.11.12-3 [111 kB] Get:190 http://deb.debian.org/debian buster/main amd64 libpciaccess0 amd64 0.14-1 [53.5 kB] Get:191 http://deb.debian.org/debian buster/main amd64 libicu63 amd64 63.1-6+deb10u3 [8293 kB] Get:192 http://deb.debian.org/debian buster/main amd64 libxml2 amd64 2.9.4+dfsg1-7+deb10u4 [689 kB] Get:193 http://deb.debian.org/debian buster/main amd64 ocl-icd-libopencl1 amd64 2.2.12-2 [37.5 kB] Get:194 http://deb.debian.org/debian buster/main amd64 libhwloc-plugins amd64 1.11.12-3 [17.4 kB] Get:195 http://deb.debian.org/debian buster/main amd64 libpmix2 amd64 3.1.2-3 [498 kB] Get:196 http://deb.debian.org/debian buster/main amd64 libopenmpi3 amd64 3.1.3-11 [2191 kB] Get:197 http://deb.debian.org/debian buster/main amd64 libcaf-openmpi-3 amd64 2.4.0-2 [35.6 kB] Get:198 http://deb.debian.org/debian buster/main amd64 libcoarrays-dev amd64 2.4.0-2 [29.1 kB] Get:199 http://deb.debian.org/debian buster/main amd64 openmpi-bin amd64 3.1.3-11 [200 kB] Get:200 http://deb.debian.org/debian buster/main amd64 openmpi-common all 3.1.3-11 [165 kB] Get:201 http://deb.debian.org/debian buster/main amd64 libcoarrays-openmpi-dev amd64 2.4.0-2 [35.2 kB] Get:202 http://deb.debian.org/debian buster/main amd64 libdata-dump-perl all 1.23-1 [29.5 kB] Get:203 http://deb.debian.org/debian buster/main amd64 libgpg-error-l10n all 1.35-1 [97.6 kB] Get:204 http://deb.debian.org/debian buster/main amd64 libgpm2 amd64 1.20.7-5 [35.1 kB] Get:205 http://deb.debian.org/debian buster/main amd64 libhtml-tree-perl all 5.07-2 [213 kB] Get:206 http://deb.debian.org/debian buster/main amd64 libhttp-message-perl all 6.18-1 [77.8 kB] Get:207 http://deb.debian.org/debian buster/main amd64 libhttp-cookies-perl all 6.04-1 [17.8 kB] Get:208 http://deb.debian.org/debian buster/main amd64 libhttp-daemon-perl all 6.01-3 [16.6 kB] Get:209 http://deb.debian.org/debian buster/main amd64 libhttp-negotiate-perl all 6.01-1 [12.8 kB] Get:210 http://deb.debian.org/debian buster/main amd64 libnuma-dev amd64 2.0.12-1 [39.2 kB] Get:211 http://deb.debian.org/debian buster/main amd64 libltdl-dev amd64 2.4.6-9 [162 kB] Get:212 http://deb.debian.org/debian buster/main amd64 libhwloc-dev amd64 1.11.12-3 [175 kB] Get:213 http://deb.debian.org/debian buster/main amd64 libnl-3-dev amd64 3.4.0-1 [102 kB] Get:214 http://deb.debian.org/debian buster/main amd64 libnl-route-3-dev amd64 3.4.0-1 [177 kB] Get:215 http://deb.debian.org/debian buster/main amd64 libibverbs-dev amd64 22.1-1 [362 kB] Get:216 http://deb.debian.org/debian buster/main amd64 libidn11 amd64 1.33-2.2 [116 kB] Get:217 http://deb.debian.org/debian buster/main amd64 libio-socket-ssl-perl all 2.060-3 [207 kB] Get:218 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get:219 http://deb.debian.org/debian buster/main amd64 libjs-underscore all 1.9.1~dfsg-1+deb10u1 [100.0 kB] Get:220 http://deb.debian.org/debian buster/main amd64 libnet-http-perl all 6.18-1 [24.5 kB] Get:221 http://deb.debian.org/debian buster/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:222 http://deb.debian.org/debian buster/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:223 http://deb.debian.org/debian buster/main amd64 liblwp-protocol-https-perl all 6.07-2 [9242 B] Get:224 http://deb.debian.org/debian buster/main amd64 libwww-perl all 6.36-2 [188 kB] Get:225 http://deb.debian.org/debian buster/main amd64 libncurses6 amd64 6.1+20181013-2+deb10u2 [102 kB] Get:226 http://deb.debian.org/debian buster/main amd64 libopenmpi-dev amd64 3.1.3-11 [974 kB] Get:227 http://deb.debian.org/debian buster/main amd64 rubygems-integration all 1.11+deb10u1 [5212 B] Get:228 http://deb.debian.org/debian buster/main amd64 ruby2.5 amd64 2.5.5-3+deb10u4 [400 kB] Get:229 http://deb.debian.org/debian buster/main amd64 ruby amd64 1:2.5.1 [11.3 kB] Get:230 http://deb.debian.org/debian buster/main amd64 rake all 12.3.1-3+deb10u1 [67.1 kB] Get:231 http://deb.debian.org/debian buster/main amd64 ruby-did-you-mean all 1.2.1-1 [14.4 kB] Get:232 http://deb.debian.org/debian buster/main amd64 ruby-minitest all 5.11.3-1 [54.8 kB] Get:233 http://deb.debian.org/debian buster/main amd64 ruby-power-assert all 1.1.1-1 [10.9 kB] Get:234 http://deb.debian.org/debian buster/main amd64 ruby-test-unit all 3.2.8-1 [72.4 kB] Get:235 http://deb.debian.org/debian buster/main amd64 ruby-xmlrpc all 0.3.0-2 [23.7 kB] Get:236 http://deb.debian.org/debian buster/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get:237 http://deb.debian.org/debian buster/main amd64 libruby2.5 amd64 2.5.5-3+deb10u4 [3442 kB] Get:238 http://deb.debian.org/debian buster/main amd64 libtimedate-perl all 2.3000-2+deb10u1 [38.1 kB] Get:239 http://deb.debian.org/debian buster/main amd64 libtool all 2.4.6-9 [547 kB] Get:240 http://deb.debian.org/debian buster/main amd64 libxau6 amd64 1:1.0.8-1+b2 [19.9 kB] Get:241 http://deb.debian.org/debian buster/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:242 http://deb.debian.org/debian buster/main amd64 libxcb1 amd64 1.13.1-2 [137 kB] Get:243 http://deb.debian.org/debian buster/main amd64 libx11-data all 2:1.6.7-1+deb10u2 [299 kB] Get:244 http://deb.debian.org/debian buster/main amd64 libx11-6 amd64 2:1.6.7-1+deb10u2 [757 kB] Get:245 http://deb.debian.org/debian buster/main amd64 libxext6 amd64 2:1.3.3-1+b2 [52.5 kB] Get:246 http://deb.debian.org/debian buster/main amd64 libxmuu1 amd64 2:1.1.2-2+b3 [23.9 kB] Get:247 http://deb.debian.org/debian buster/main amd64 lynx-common all 2.8.9rel.1-3+deb10u1 [1212 kB] Get:248 http://deb.debian.org/debian buster/main amd64 lynx amd64 2.8.9rel.1-3+deb10u1 [642 kB] Get:249 http://deb.debian.org/debian buster/main amd64 mafft amd64 7.407-2 [999 kB] Get:250 http://deb.debian.org/debian buster/main amd64 manpages-dev all 4.16-2 [2232 kB] Get:251 http://deb.debian.org/debian buster/main amd64 mpi-default-bin amd64 1.13 [4672 B] Get:252 http://deb.debian.org/debian buster/main amd64 multiarch-support amd64 2.28-10+deb10u1 [216 kB] Get:253 http://deb.debian.org/debian buster/main amd64 muscle amd64 1:3.8.1551-2 [245 kB] Get:254 http://deb.debian.org/debian buster/main amd64 pynast all 1.2.2-4 [81.6 kB] Get:255 http://deb.debian.org/debian buster/main amd64 python-mpi4py amd64 2.0.0-3+b3 [424 kB] Get:256 http://deb.debian.org/debian buster/main amd64 rename all 1.10-1 [17.2 kB] Get:257 http://deb.debian.org/debian buster/main amd64 unzip amd64 6.0-23+deb10u2 [172 kB] Get:258 http://deb.debian.org/debian buster/main amd64 xauth amd64 1:1.0.10-1 [40.3 kB] Get:259 http://deb.debian.org/debian buster/main amd64 xml-core all 0.18+nmu1 [23.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 144 MB in 1s (121 MB/s) (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10783 files and directories currently installed.) Preparing to unpack .../debian-archive-keyring_2019.1+deb10u1_all.deb ... Unpacking debian-archive-keyring (2019.1+deb10u1) over (2017.5+deb9u1) ... Setting up debian-archive-keyring (2019.1+deb10u1) ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-buster-stable.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-security-automatic.gpg ... Installing new version of config file /etc/apt/trusted.gpg.d/debian-archive-stretch-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-jessie-stable.gpg ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10792 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-2) over (0.7.7-3+b1) ... Setting up libcap-ng0:amd64 (0.7.9-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10791 files and directories currently installed.) Preparing to unpack .../debconf_1.5.71+deb10u1_all.deb ... Unpacking debconf (1.5.71+deb10u1) over (1.5.61) ... Setting up debconf (1.5.71+deb10u1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10774 files and directories currently installed.) Preparing to unpack .../libpam0g_1.3.1-5_amd64.deb ... Unpacking libpam0g:amd64 (1.3.1-5) over (1.1.8-3.6) ... Setting up libpam0g:amd64 (1.3.1-5) ... Checking for services that may need to be restarted...Checking init scripts... Nothing to restart. (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10779 files and directories currently installed.) Preparing to unpack .../libsystemd0_241-7~deb10u8_amd64.deb ... Unpacking libsystemd0:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libsystemd0:amd64 (241-7~deb10u8) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10779 files and directories currently installed.) Preparing to unpack .../libudev1_241-7~deb10u8_amd64.deb ... Unpacking libudev1:amd64 (241-7~deb10u8) over (232-25+deb9u12) ... Setting up libudev1:amd64 (241-7~deb10u8) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10779 files and directories currently installed.) Preparing to unpack .../tar_1.30+dfsg-6_amd64.deb ... Unpacking tar (1.30+dfsg-6) over (1.29b-1.1) ... Setting up tar (1.30+dfsg-6) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10777 files and directories currently installed.) Preparing to unpack .../archives/dpkg_1.19.8_amd64.deb ... Unpacking dpkg (1.19.8) over (1.18.25) ... Setting up dpkg (1.19.8) ... Installing new version of config file /etc/alternatives/README ... Installing new version of config file /etc/cron.daily/dpkg ... Installing new version of config file /etc/logrotate.d/dpkg ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10775 files and directories currently installed.) Preparing to unpack .../dash_0.5.10.2-5_amd64.deb ... Unpacking dash (0.5.10.2-5) over (0.5.8-2.4) ... Setting up dash (0.5.10.2-5) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10781 files and directories currently installed.) Preparing to unpack .../e2fslibs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fslibs:amd64 (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Selecting previously unselected package libext2fs2:amd64. Preparing to unpack .../libext2fs2_1.44.5-1+deb10u3_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.5-1+deb10u3) ... Setting up libext2fs2:amd64 (1.44.5-1+deb10u3) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10784 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.44.5-1+deb10u3_amd64.deb ... Unpacking e2fsprogs (1.44.5-1+deb10u3) over (1.43.4-2+deb9u1) ... Setting up e2fsprogs (1.44.5-1+deb10u3) ... Installing new version of config file /etc/mke2fs.conf ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10767 files and directories currently installed.) Preparing to unpack .../findutils_4.6.0+git+20190209-2_amd64.deb ... Unpacking findutils (4.6.0+git+20190209-2) over (4.6.0+git+20161106-2) ... Setting up findutils (4.6.0+git+20190209-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10769 files and directories currently installed.) Preparing to unpack .../archives/grep_3.3-1_amd64.deb ... Unpacking grep (3.3-1) over (2.27-2) ... Setting up grep (3.3-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10769 files and directories currently installed.) Preparing to unpack .../gzip_1.9-3+deb10u1_amd64.deb ... Unpacking gzip (1.9-3+deb10u1) over (1.6-5+b1) ... Setting up gzip (1.9-3+deb10u1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10768 files and directories currently installed.) Preparing to unpack .../hostname_3.21_amd64.deb ... Unpacking hostname (3.21) over (3.18+b1) ... Setting up hostname (3.21) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10767 files and directories currently installed.) Preparing to unpack .../libuuid1_2.33.1-0.1_amd64.deb ... Unpacking libuuid1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libuuid1:amd64 (2.33.1-0.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10767 files and directories currently installed.) Preparing to unpack .../libblkid1_2.33.1-0.1_amd64.deb ... Unpacking libblkid1:amd64 (2.33.1-0.1) over (2.29.2-1+deb9u1) ... Setting up libblkid1:amd64 (2.33.1-0.1) ... (Reading database ... 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Setting up apt (1.8.2.3) ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt-compat ... Setting up fonts-lato (2.0-2) ... Setting up libgpm2:amd64 (1.20.7-5) ... Setting up mime-support (3.62) ... Installing new version of config file /etc/mime.types ... Setting up e2fslibs:amd64 (1.44.5-1+deb10u3) ... Setting up ruby-power-assert (1.1.1-1) ... Setting up libmagic-mgc (1:5.35-4+deb10u2) ... Setting up e2fsprogs-l10n (1.44.5-1+deb10u3) ... Setting up libyaml-0-2:amd64 (0.2.1-1) ... Setting up manpages (4.16-2) ... Setting up libssl1.1:amd64 (1.1.1n-0+deb10u3) ... Setting up unzip (6.0-23+deb10u2) ... Setting up libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Setting up binutils-common:amd64 (2.31.1-16) ... Setting up libmagic1:amd64 (1:5.35-4+deb10u2) ... Setting up linux-libc-dev:amd64 (4.19.249-2) ... Setting up krb5-locales (1.17-3+deb10u4) ... Setting up file (1:5.35-4+deb10u2) ... Setting up libgomp1:amd64 (8.3.0-6) ... Setting up muscle (1:3.8.1551-2) ... Setting up bzip2 (1.0.6-9.2~deb10u1) ... Setting up libncurses5:amd64 (6.1+20181013-2+deb10u2) ... Setting up libicu63:amd64 (63.1-6+deb10u3) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u4) ... Setting up ruby-minitest (5.11.3-1) ... Setting up libasan5:amd64 (8.3.0-6) ... Setting up autotools-dev (20180224.1) ... Setting up multiarch-support (2.28-10+deb10u1) ... Setting up ruby-test-unit (3.2.8-1) ... Setting up libx11-data (2:1.6.7-1+deb10u2) ... Setting up libmpfr6:amd64 (4.0.2-1) ... Setting up libidn11:amd64 (1.33-2.2) ... Setting up libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up xz-utils (5.2.4-1+deb10u1) ... Setting up libquadmath0:amd64 (8.3.0-6) ... Setting up libmpc3:amd64 (1.1.0-1) ... Setting up libatomic1:amd64 (8.3.0-6) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u4) ... Setting up lynx-common (2.8.9rel.1-3+deb10u1) ... Installing new version of config file /etc/lynx/lynx.cfg ... Setting up libltdl7:amd64 (2.4.6-9) ... Setting up libevent-core-2.1-6:amd64 (2.1.8-stable-4) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up libevent-2.1-6:amd64 (2.1.8-stable-4) ... Setting up libmpx2:amd64 (8.3.0-6) ... Setting up libubsan1:amd64 (8.3.0-6) ... Setting up libnuma1:amd64 (2.0.12-1) ... Setting up libisl19:amd64 (0.20-2) ... Setting up mount (2.33.1-0.1) ... Setting up libcomerr2:amd64 (1.44.5-1+deb10u3) ... Setting up ocl-icd-libopencl1:amd64 (2.2.12-2) ... Setting up xml-core (0.18+nmu1) ... Setting up libnl-3-200:amd64 (3.4.0-1) ... Setting up libpsm2-2 (11.2.78-1) ... Setting up openmpi-common (3.1.3-11) ... Setting up clustalw (2.1+lgpl-6) ... Setting up libmbedcrypto3:amd64 (2.16.0-1) ... Setting up netbase (5.6) ... Installing new version of config file /etc/services ... Setting up libkrb5-3:amd64 (1.17-3+deb10u4) ... Setting up libpsm-infinipath1 (3.3+20.604758e7-6) ... update-alternatives: using /usr/lib/libpsm1/libpsm_infinipath.so.1.16 to provide /usr/lib/x86_64-linux-gnu/libpsm_infinipath.so.1 (libpsm_infinipath.so.1) in auto mode Setting up libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Setting up ruby-did-you-mean (1.2.1-1) ... Setting up libbinutils:amd64 (2.31.1-16) ... Setting up cpp-8 (8.3.0-6) ... Setting up libc-dev-bin (2.28-10+deb10u1) ... Setting up openssl (1.1.1n-0+deb10u3) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up libbsd0:amd64 (0.9.1-2+deb10u1) ... Setting up libgpg-error-l10n (1.35-1) ... Setting up readline-common (7.0-5) ... Setting up ruby-xmlrpc (0.3.0-2) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Setting up libcc1-0:amd64 (8.3.0-6) ... Setting up liblsan0:amd64 (8.3.0-6) ... Setting up libitm1:amd64 (8.3.0-6) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libgdbm6:amd64 (1.18.1-4) ... Setting up libjs-underscore (1.9.1~dfsg-1+deb10u1) ... Setting up binutils-x86-64-linux-gnu (2.31.1-16) ... Setting up libtsan0:amd64 (8.3.0-6) ... Setting up libevent-pthreads-2.1-6:amd64 (2.1.8-stable-4) ... Setting up manpages-dev (4.16-2) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libmbedx509-0:amd64 (2.16.0-1) ... Setting up libhwloc5:amd64 (1.11.12-3) ... Setting up libedit2:amd64 (3.1-20181209-1) ... Setting up libmbedtls12:amd64 (2.16.0-1) ... Setting up m4 (1.4.18-2) ... Setting up binutils (2.31.1-16) ... Setting up libhwloc-plugins:amd64 (1.11.12-3) ... Setting up libnl-route-3-200:amd64 (3.4.0-1) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 11 added, 0 removed; done. Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Setting up libgdbm-compat4:amd64 (1.18.1-4) ... Setting up libgcc-8-dev:amd64 (8.3.0-6) ... Setting up libperl5.28:amd64 (5.28.1-6+deb10u1) ... Setting up libnl-3-dev:amd64 (3.4.0-1) ... Setting up cpp (4:8.3.0-1) ... Setting up libc6-dev:amd64 (2.28-10+deb10u1) ... Setting up libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Setting up lynx (2.8.9rel.1-3+deb10u1) ... Setting up libxmuu1:amd64 (2:1.1.2-2+b3) ... Setting up libgfortran-8-dev:amd64 (8.3.0-6) ... Setting up libibverbs1:amd64 (22.1-1) ... Setting up gcc-8 (8.3.0-6) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpmix2:amd64 (3.1.2-3) ... Setting up ibverbs-providers:amd64 (22.1-1) ... Setting up libtool (2.4.6-9) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up openssh-client (1:7.9p1-10+deb10u2) ... Setting up gfortran-8 (8.3.0-6) ... Setting up libxext6:amd64 (2:1.3.3-1+b2) ... Setting up rubygems-integration (1.11+deb10u1) ... Setting up python2 (2.7.16-1) ... Setting up gcc (4:8.3.0-1) ... Setting up libnuma-dev:amd64 (2.0.12-1) ... Setting up libnl-route-3-dev:amd64 (3.4.0-1) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up perl (5.28.1-6+deb10u1) ... Removing obsolete conffile /etc/perl/sitecustomize.pl ... Setting up libdata-dump-perl (1.23-1) ... Setting up autoconf (2.69-11) ... Setting up libtimedate-perl (2.3000-2+deb10u1) ... Setting up xauth (1:1.0.10-1) ... Setting up python (2.7.16-1) ... Setting up liburi-perl (1.76-1) ... Setting up libhttp-message-perl (6.18-1) ... Setting up libnet-ssleay-perl (1.85-2+deb10u1) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up librdmacm1:amd64 (22.1-1) ... Setting up libhttp-negotiate-perl (6.01-1) ... Setting up libhttp-cookies-perl (6.04-1) ... Setting up mafft (7.407-2) ... Setting up pynast (1.2.2-4) ... Setting up libtry-tiny-perl (0.30-1) ... Setting up libnet-http-perl (6.18-1) ... Setting up rename (1.10-1) ... Setting up libibverbs-dev:amd64 (22.1-1) ... Setting up gfortran (4:8.3.0-1) ... 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 ncbi-blast+ (2.8.1-1+deb10u1) ... Setting up libltdl-dev:amd64 (2.4.6-9) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libhttp-daemon-perl (6.01-3) ... Setting up libhtml-parser-perl (3.72-3+b3) ... Setting up libhwloc-dev:amd64 (1.11.12-3) ... Setting up libio-socket-ssl-perl (2.060-3) ... Setting up ncbi-blast+-legacy (2.8.1-1+deb10u1) ... Setting up libfabric1 (1.6.2-3) ... Setting up libcoarrays-dev:amd64 (2.4.0-2) ... Setting up libhtml-tree-perl (5.07-2) ... Setting up libopenmpi3:amd64 (3.1.3-11) ... Setting up libcaf-openmpi-3:amd64 (2.4.0-2) ... Setting up blast2 (1:2.8.1-1+deb10u1) ... Setting up openmpi-bin (3.1.3-11) ... Installing new version of config file /etc/openmpi/openmpi-mca-params.conf ... update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up mpi-default-bin (1.13) ... Setting up libcoarrays-openmpi-dev:amd64 (2.4.0-2) ... Setting up python-mpi4py (2.0.0-3+b3) ... Setting up libopenmpi-dev:amd64 (3.1.3-11) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up rake (12.3.1-3+deb10u1) ... Setting up liblwp-protocol-https-perl (6.07-2) ... Setting up libwww-perl (6.36-2) ... Setting up libruby2.5:amd64 (2.5.5-3+deb10u4) ... Setting up ruby2.5 (2.5.5-3+deb10u4) ... Setting up ruby (1:2.5.1) ... Processing triggers for sgml-base (1.29) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... Processing triggers for ca-certificates (20200601~deb10u2) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m52.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-yf', 'dist-upgrade'] 0m52.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m54.0s DUMP: f6fc0f2636004ef589309651dfd778f4 - 0m54.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m54.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'show', '--no-all-versions', 'pynast'] 0m54.1s DUMP: Package: pynast Version: 1.2.2-4 Installed-Size: 302 Maintainer: Debian Med Packaging Team Architecture: all Replaces: python-pynast Provides: python-pynast Depends: python (<< 2.8), python (>= 2.7), python:any (>= 2.6.6-7~), libjs-jquery, libjs-underscore Recommends: blast2, clustalw, mafft, muscle, python-mpi4py Suggests: uclust Conflicts: python-pynast Description-en: alignment of short DNA sequences The package provices a reimplementation of the Nearest Alignment Space Termination tool in Python. It was prepared for next generation sequencers. . Given a set of sequences and a template alignment, PyNAST will align the input sequences against the template alignment, and return a multiple sequence alignment which contains the same number of positions (or columns) as the template alignment. This facilitates the analysis of new sequences in the context of existing alignments, and additional data derived from existing alignments such as phylogenetic trees. Because any protein or nucleic acid sequences and template alignments can be provided, PyNAST is not limited to the analysis of 16s rDNA sequences. Description-md5: f1947c7dd3400e1226d490b83db3a814 Homepage: https://github.com/biocore/pynast Section: python Priority: optional Filename: pool/main/p/pynast/pynast_1.2.2-4_all.deb Size: 81624 MD5sum: ce474a6ceede3236c4ae8e8b21d52bdf SHA256: 8c80bb18b0d1b2014351fbd4ef438c285d647a9cabea56ba2f511916a10f07f9 0m54.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'show', '--no-all-versions', 'pynast'] 0m54.1s INFO: apt-cache knows about the following packages: pynast 0m54.1s INFO: Running scripts pre_install 0m54.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_database-server'] 0m54.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_database-server'] 0m54.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_exceptions'] 0m54.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_exceptions'] 0m54.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_extras'] 0m54.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_extras'] 0m54.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture'] 0m54.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture'] 0m54.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m54.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m54.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy'] 0m54.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m54.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy'] 0m54.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy', 'pynast'] 0m54.3s DUMP: pynast: Installed: 1.2.2-4 Candidate: 1.2.2-4 Version table: *** 1.2.2-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 0m54.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy', 'pynast'] 0m54.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-y', 'install', 'pynast'] 0m54.5s DUMP: Reading package lists... Building dependency tree... Reading state information... pynast is already the newest version (1.2.2-4). The following packages were automatically installed and are no longer required: libgdbm3 libgfortran3 libicu57 libncurses5 libopenmpi2 libperl5.24 libruby2.3 libssl1.0.2 rename ruby2.3 sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m54.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-y', 'install', 'pynast'] 0m54.5s INFO: Running scripts post_install 0m54.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_install_exceptions'] 0m54.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_install_exceptions'] 0m54.5s INFO: Running scripts post_distupgrade 0m54.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m54.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m54.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_exceptions'] 0m54.5s DUMP: Normalized /etc/ca-certificates.conf 0m54.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_exceptions'] 0m54.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m54.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m54.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m54.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m54.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_zz_backports'] 0m54.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_distupgrade_zz_backports'] 0m54.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m55.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m55.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m56.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m56.5s INFO: Running scripts pre_install 0m56.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_database-server'] 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_database-server'] 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_exceptions'] 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_exceptions'] 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_extras'] 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_extras'] 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture'] 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture'] 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy'] 0m56.6s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy'] 0m56.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy', 'pynast'] 0m56.6s DUMP: pynast: Installed: 1.2.2-4 Candidate: 1.2.2-4 Version table: *** 1.2.2-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 0m56.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-cache', 'policy', 'pynast'] 0m56.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-y', 'install', 'pynast=1.2.2-4'] 0m56.9s DUMP: Reading package lists... Building dependency tree... Reading state information... pynast is already the newest version (1.2.2-4). The following packages were automatically installed and are no longer required: libgdbm3 libgfortran3 libicu57 libncurses5 libopenmpi2 libperl5.24 libruby2.3 libssl1.0.2 rename ruby2.3 sgml-base xml-core Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m56.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', '-y', 'install', 'pynast=1.2.2-4'] 0m56.9s INFO: Running scripts post_install 0m56.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_install_exceptions'] 0m56.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_install_exceptions'] 0m57.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 0m58.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 1m0.0s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', '-ac', '--ignore-obsolete'] 1m2.1s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', '-ac', '--ignore-obsolete'] 1m2.1s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m2.1s DUMP: 0.15.6 1m2.1s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 1m2.1s INFO: Running adequate version 0.15.6 now. 1m2.1s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'pynast'] 1m2.2s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'pynast'] 1m2.2s INFO: Running scripts pre_remove 1m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 1m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 1m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m7.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 1m7.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 1m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m7.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 1m7.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_exceptions'] 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/pre_remove_exceptions'] 1m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m7.5s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed autoconf autoconf 2.69-11 install ok installed automake automake 1:1.16.1-4 install ok installed autotools-dev autotools-dev 20180224.1 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed binutils binutils 2.31.1-16 install ok installed binutils-common:amd64 binutils-common 2.31.1-16 install ok installed binutils-x86-64-linux-gnu binutils-x86-64-linux-gnu 2.31.1-16 install ok installed blast2 blast2 1:2.8.1-1+deb10u1 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed bzip2 bzip2 1.0.6-9.2~deb10u1 install ok installed ca-certificates ca-certificates 20200601~deb10u2 install ok installed clustalw clustalw 2.1+lgpl-6 install ok installed coreutils coreutils 8.30-3 install ok installed cpp cpp 4:8.3.0-1 install ok installed cpp-8 cpp-8 8.3.0-6 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fslibs:amd64 e2fslibs 1.44.5-1+deb10u3 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed e2fsprogs-l10n e2fsprogs-l10n 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed file file 1:5.35-4+deb10u2 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed fonts-lato fonts-lato 2.0-2 install ok installed gcc gcc 4:8.3.0-1 install ok installed gcc-6-base:amd64 gcc-6-base 6.3.0-18+deb9u1 install ok installed gcc-8 gcc-8 8.3.0-6 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gfortran gfortran 4:8.3.0-1 install ok installed gfortran-8 gfortran-8 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed ibverbs-providers:amd64 ibverbs-providers 22.1-1 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed javascript-common javascript-common 11 install ok installed krb5-locales krb5-locales 1.17-3+deb10u4 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libasan5:amd64 libasan5 8.3.0-6 install ok installed libatomic1:amd64 libatomic1 8.3.0-6 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libauthen-sasl-perl libauthen-sasl-perl 2.1600-1 install ok installed libbinutils:amd64 libbinutils 2.31.1-16 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbsd0:amd64 libbsd0 0.9.1-2+deb10u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc-dev-bin libc-dev-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libc6-dev:amd64 libc6-dev 2.28-10+deb10u1 install ok installed libcaf-openmpi-3:amd64 libcaf-openmpi-3 2.4.0-2 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcc1-0:amd64 libcc1-0 8.3.0-6 install ok installed libcoarrays-dev:amd64 libcoarrays-dev 2.4.0-2 install ok installed libcoarrays-openmpi-dev:amd64 libcoarrays-openmpi-dev 2.4.0-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libcomerr2:amd64 libcomerr2 1.44.5-1+deb10u3 install ok installed libdata-dump-perl libdata-dump-perl 1.23-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libedit2:amd64 libedit2 3.1-20181209-1 install ok installed libencode-locale-perl libencode-locale-perl 1.05-1 install ok installed libevent-2.1-6:amd64 libevent-2.1-6 2.1.8-stable-4 install ok installed libevent-core-2.1-6:amd64 libevent-core-2.1-6 2.1.8-stable-4 install ok installed libevent-pthreads-2.1-6:amd64 libevent-pthreads-2.1-6 2.1.8-stable-4 install ok installed libexpat1:amd64 libexpat1 2.2.6-2+deb10u4 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfabric1 libfabric1 1.6.2-3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libfile-listing-perl libfile-listing-perl 6.04-1 install ok installed libfont-afm-perl libfont-afm-perl 1.20-2 install ok installed libgcc-8-dev:amd64 libgcc-8-dev 8.3.0-6 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.18.1-4 install ok installed libgdbm3:amd64 libgdbm3 1.8.3-14 install ok installed libgdbm6:amd64 libgdbm6 1.18.1-4 install ok installed libgfortran-8-dev:amd64 libgfortran-8-dev 8.3.0-6 install ok installed libgfortran3:amd64 libgfortran3 6.3.0-18+deb9u1 install ok installed libgfortran5:amd64 libgfortran5 8.3.0-6 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgomp1:amd64 libgomp1 8.3.0-6 install ok installed libgpg-error-l10n libgpg-error-l10n 1.35-1 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libgpm2:amd64 libgpm2 1.20.7-5 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.17-3+deb10u4 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 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+b3 install ok installed libhtml-tagset-perl libhtml-tagset-perl 3.20-3 install ok installed libhtml-tree-perl libhtml-tree-perl 5.07-2 install ok installed libhttp-cookies-perl libhttp-cookies-perl 6.04-1 install ok installed libhttp-daemon-perl libhttp-daemon-perl 6.01-3 install ok installed libhttp-date-perl libhttp-date-perl 6.02-1 install ok installed libhttp-message-perl libhttp-message-perl 6.18-1 install ok installed libhttp-negotiate-perl libhttp-negotiate-perl 6.01-1 install ok installed libhwloc-dev:amd64 libhwloc-dev 1.11.12-3 install ok installed libhwloc-plugins:amd64 libhwloc-plugins 1.11.12-3 install ok installed libhwloc5:amd64 libhwloc5 1.11.12-3 install ok installed libibverbs-dev:amd64 libibverbs-dev 22.1-1 install ok installed libibverbs1:amd64 libibverbs1 22.1-1 install ok installed libicu57:amd64 libicu57 57.1-6+deb9u4 install ok installed libicu63:amd64 libicu63 63.1-6+deb10u3 install ok installed libidn11:amd64 libidn11 1.33-2.2 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed libio-html-perl libio-html-perl 1.001-1 install ok installed libio-socket-ssl-perl libio-socket-ssl-perl 2.060-3 install ok installed libisl19:amd64 libisl19 0.20-2 install ok installed libitm1:amd64 libitm1 8.3.0-6 install ok installed libjs-jquery libjs-jquery 3.3.1~dfsg-3+deb10u1 install ok installed libjs-underscore libjs-underscore 1.9.1~dfsg-1+deb10u1 install ok installed libk5crypto3:amd64 libk5crypto3 1.17-3+deb10u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6-6 install ok installed libkrb5-3:amd64 libkrb5-3 1.17-3+deb10u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.17-3+deb10u4 install ok installed liblmdb0:amd64 liblmdb0 0.9.22-1 install ok installed liblsan0:amd64 liblsan0 8.3.0-6 install ok installed libltdl-dev:amd64 libltdl-dev 2.4.6-9 install ok installed libltdl7:amd64 libltdl7 2.4.6-9 install ok installed liblwp-mediatypes-perl liblwp-mediatypes-perl 6.02-1 install ok installed liblwp-protocol-https-perl liblwp-protocol-https-perl 6.07-2 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmagic-mgc libmagic-mgc 1:5.35-4+deb10u2 install ok installed libmagic1:amd64 libmagic1 1:5.35-4+deb10u2 install ok installed libmailtools-perl libmailtools-perl 2.18-1 install ok installed libmbedcrypto3:amd64 libmbedcrypto3 2.16.0-1 install ok installed libmbedtls12:amd64 libmbedtls12 2.16.0-1 install ok installed libmbedx509-0:amd64 libmbedx509-0 2.16.0-1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libmpc3:amd64 libmpc3 1.1.0-1 install ok installed libmpfr6:amd64 libmpfr6 4.0.2-1 install ok installed libmpx2:amd64 libmpx2 8.3.0-6 install ok installed libncurses5:amd64 libncurses5 6.1+20181013-2+deb10u2 install ok installed libncurses6:amd64 libncurses6 6.1+20181013-2+deb10u2 install ok installed libncursesw5:amd64 libncursesw5 6.1+20181013-2+deb10u2 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnet-http-perl libnet-http-perl 6.18-1 install ok installed libnet-smtp-ssl-perl libnet-smtp-ssl-perl 1.04-1 install ok installed libnet-ssleay-perl libnet-ssleay-perl 1.85-2+deb10u1 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libnl-3-200:amd64 libnl-3-200 3.4.0-1 install ok installed libnl-3-dev:amd64 libnl-3-dev 3.4.0-1 install ok installed libnl-route-3-200:amd64 libnl-route-3-200 3.4.0-1 install ok installed libnl-route-3-dev:amd64 libnl-route-3-dev 3.4.0-1 install ok installed libnuma-dev:amd64 libnuma-dev 2.0.12-1 install ok installed libnuma1:amd64 libnuma1 2.0.12-1 install ok installed libopenmpi-dev:amd64 libopenmpi-dev 3.1.3-11 install ok installed libopenmpi2:amd64 libopenmpi2 2.0.2-2 install ok installed libopenmpi3:amd64 libopenmpi3 3.1.3-11 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpciaccess0:amd64 libpciaccess0 0.14-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libperl5.24:amd64 libperl5.24 5.24.1-3+deb9u7 install ok installed libperl5.28:amd64 libperl5.28 5.28.1-6+deb10u1 install ok installed libpmix2:amd64 libpmix2 3.1.2-3 install ok installed libpsm-infinipath1 libpsm-infinipath1 3.3+20.604758e7-6 install ok installed libpsm2-2 libpsm2-2 11.2.78-1 install ok installed libpython-stdlib:amd64 libpython-stdlib 2.7.16-1 install ok installed libpython2-stdlib:amd64 libpython2-stdlib 2.7.16-1 install ok installed libpython2.7-minimal:amd64 libpython2.7-minimal 2.7.16-2+deb10u1 install ok installed libpython2.7-stdlib:amd64 libpython2.7-stdlib 2.7.16-2+deb10u1 install ok installed libquadmath0:amd64 libquadmath0 8.3.0-6 install ok installed librdmacm1:amd64 librdmacm1 22.1-1 install ok installed libreadline7:amd64 libreadline7 7.0-5 install ok installed libruby2.3:amd64 libruby2.3 2.3.3-1+deb9u8 install ok installed libruby2.5:amd64 libruby2.5 2.5.5-3+deb10u4 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsigsegv2:amd64 libsigsegv2 2.12-2 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.27.2-3+deb10u1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libssl1.0.2:amd64 libssl1.0.2 1.0.2u-1~deb9u1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1n-0+deb10u3 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtimedate-perl libtimedate-perl 2.3000-2+deb10u1 install ok installed libtinfo5:amd64 libtinfo5 6.1+20181013-2+deb10u2 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libtool libtool 2.4.6-9 install ok installed libtry-tiny-perl libtry-tiny-perl 0.30-1 install ok installed libtsan0:amd64 libtsan0 8.3.0-6 install ok installed libubsan1:amd64 libubsan1 8.3.0-6 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed liburi-perl liburi-perl 1.76-1 install ok installed libustr-1.0-1:amd64 libustr-1.0-1 1.0.4-6 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libwww-perl libwww-perl 6.36-2 install ok installed libwww-robotrules-perl libwww-robotrules-perl 6.02-1 install ok installed libx11-6:amd64 libx11-6 2:1.6.7-1+deb10u2 install ok installed libx11-data libx11-data 2:1.6.7-1+deb10u2 install ok installed libxau6:amd64 libxau6 1:1.0.8-1+b2 install ok installed libxcb1:amd64 libxcb1 1.13.1-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3 install ok installed libxext6:amd64 libxext6 2:1.3.3-1+b2 install ok installed libxml2:amd64 libxml2 2.9.4+dfsg1-7+deb10u4 install ok installed libxmuu1:amd64 libxmuu1 2:1.1.2-2+b3 install ok installed libyaml-0-2:amd64 libyaml-0-2 0.2.1-1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed linux-libc-dev:amd64 linux-libc-dev 4.19.249-2 install ok installed login login 1:4.5-1.1 install ok installed lynx lynx 2.8.9rel.1-3+deb10u1 install ok installed lynx-common lynx-common 2.8.9rel.1-3+deb10u1 install ok installed m4 m4 1.4.18-2 install ok installed mafft mafft 7.407-2 install ok installed manpages manpages 4.16-2 install ok installed manpages-dev manpages-dev 4.16-2 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mime-support mime-support 3.62 install ok installed mount mount 2.33.1-0.1 install ok installed mpi-default-bin mpi-default-bin 1.13 install ok installed multiarch-support multiarch-support 2.28-10+deb10u1 install ok installed muscle muscle 1:3.8.1551-2 install ok installed ncbi-blast+ ncbi-blast+ 2.8.1-1+deb10u1 install ok installed ncbi-blast+-legacy ncbi-blast+-legacy 2.8.1-1+deb10u1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-0+deb10u2 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed netbase netbase 5.6 install ok installed ocl-icd-libopencl1:amd64 ocl-icd-libopencl1 2.2.12-2 install ok installed openmpi-bin openmpi-bin 3.1.3-11 install ok installed openmpi-common openmpi-common 3.1.3-11 install ok installed openssh-client openssh-client 1:7.9p1-10+deb10u2 install ok installed openssl openssl 1.1.1n-0+deb10u3 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl perl 5.28.1-6+deb10u1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed perl-modules-5.24 perl-modules-5.24 5.24.1-3+deb9u7 install ok installed perl-modules-5.28 perl-modules-5.28 5.28.1-6+deb10u1 install ok installed perl-openssl-defaults:amd64 perl-openssl-defaults 3 install ok installed pynast pynast 1.2.2-4 install ok installed python python 2.7.16-1 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-mpi4py python-mpi4py 2.0.0-3+b3 install ok installed python2 python2 2.7.16-1 install ok installed python2-minimal python2-minimal 2.7.16-1 install ok installed python2.7 python2.7 2.7.16-2+deb10u1 install ok installed python2.7-minimal python2.7-minimal 2.7.16-2+deb10u1 install ok installed rake rake 12.3.1-3+deb10u1 install ok installed readline-common readline-common 7.0-5 install ok installed rename rename 1.10-1 install ok installed ruby ruby 1:2.5.1 install ok installed ruby-did-you-mean ruby-did-you-mean 1.2.1-1 install ok installed ruby-minitest ruby-minitest 5.11.3-1 install ok installed ruby-net-telnet ruby-net-telnet 0.1.1-2 install ok installed ruby-power-assert ruby-power-assert 1.1.1-1 install ok installed ruby-test-unit ruby-test-unit 3.2.8-1 install ok installed ruby-xmlrpc ruby-xmlrpc 0.3.0-2 install ok installed ruby2.3 ruby2.3 2.3.3-1+deb9u8 install ok installed ruby2.5 ruby2.5 2.5.5-3+deb10u4 install ok installed rubygems-integration rubygems-integration 1.11+deb10u1 install ok installed sed sed 4.7-1 install ok installed sensible-utils sensible-utils 0.0.12 install ok installed sgml-base sgml-base 1.29 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed unzip unzip 6.0-23+deb10u2 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed xauth xauth 1:1.0.10-1 install ok installed xml-core xml-core 0.18+nmu1 install ok installed xz-utils xz-utils 5.2.4-1+deb10u1 install ok installed zip zip 3.0-11+b1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 1m7.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 1m7.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'remove', 'autoconf', 'automake', 'autotools-dev', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blast2', 'bzip2', 'clustalw', 'cpp', 'cpp-8', 'file', 'fonts-lato', 'gcc', 'gcc-8', 'gfortran', 'gfortran-8', 'ibverbs-providers:amd64', 'javascript-common', 'krb5-locales', 'libasan5:amd64', 'libatomic1:amd64', 'libauthen-sasl-perl', 'libbinutils:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcaf-openmpi-3:amd64', 'libcc1-0:amd64', 'libcoarrays-dev:amd64', 'libcoarrays-openmpi-dev:amd64', 'libdata-dump-perl', 'libedit2:amd64', 'libencode-locale-perl', 'libevent-2.1-6:amd64', 'libevent-core-2.1-6:amd64', 'libevent-pthreads-2.1-6:amd64', 'libexpat1:amd64', 'libfabric1', 'libfile-listing-perl', 'libfont-afm-perl', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-dev:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libibverbs-dev:amd64', 'libibverbs1:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-socket-ssl-perl', 'libisl19:amd64', 'libitm1:amd64', 'libjs-jquery', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl-dev:amd64', 'libltdl7:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnl-3-200:amd64', 'libnl-3-dev:amd64', 'libnl-route-3-200:amd64', 'libnl-route-3-dev:amd64', 'libnuma-dev:amd64', 'libnuma1:amd64', 'libopenmpi-dev:amd64', 'libopenmpi2:amd64', 'libopenmpi3:amd64', 'libpciaccess0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpmix2:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'librdmacm1:amd64', 'libreadline7:amd64', 'libruby2.3:amd64', 'libruby2.5:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssl1.0.2:amd64', 'libtimedate-perl', 'libtool', 'libtry-tiny-perl', 'libtsan0:amd64', 'libubsan1:amd64', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxmuu1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lynx', 'lynx-common', 'm4', 'mafft', 'manpages', 'manpages-dev', 'mime-support', 'mpi-default-bin', 'muscle', 'ncbi-blast+-', 'ncbi-blast+-legacy', 'ncbi-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'perl-openssl-defaults:amd64', 'python', 'python-minimal', 'python-mpi4py', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'rake', 'readline-common', 'rename', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby-xmlrpc', 'ruby2.3', 'ruby2.5', 'rubygems-integration', 'sgml-base', 'unzip', 'xauth', 'xml-core', 'xz-utils', 'zip', 'pynast'] 1m9.1s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: autoconf automake autotools-dev binutils binutils-common binutils-x86-64-linux-gnu blast2 bzip2 clustalw cpp cpp-8 file fonts-lato gcc gcc-8 gfortran gfortran-8 ibverbs-providers javascript-common krb5-locales libasan5 libatomic1 libauthen-sasl-perl libbinutils libbsd0 libc-dev-bin libc6-dev libcaf-openmpi-3 libcc1-0 libcoarrays-dev libcoarrays-openmpi-dev libdata-dump-perl libedit2 libencode-locale-perl libevent-2.1-6 libevent-core-2.1-6 libevent-pthreads-2.1-6 libexpat1 libfabric1 libfile-listing-perl libfont-afm-perl libgcc-8-dev libgdbm-compat4 libgdbm3 libgdbm6 libgfortran-8-dev libgfortran3 libgfortran5 libgomp1 libgssapi-krb5-2 libhtml-form-perl libhtml-format-perl libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhwloc-dev libhwloc-plugins libhwloc5 libibverbs-dev libibverbs1 libicu57 libicu63 libidn11 libio-html-perl libio-socket-ssl-perl libisl19 libitm1 libjs-jquery libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblmdb0 liblsan0 libltdl-dev libltdl7 liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1 libmailtools-perl libmbedcrypto3 libmbedtls12 libmbedx509-0 libmpc3 libmpfr6 libmpx2 libncurses5 libncurses6 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libnuma-dev libnuma1 libopenmpi-dev libopenmpi2 libopenmpi3 libpciaccess0 libperl5.24 libperl5.28 libpmix2 libpsm-infinipath1 libpsm2-2 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 librdmacm1 libreadline7 libruby2.3 libruby2.5 libsigsegv2 libsqlite3-0 libssl1.0.2 libtimedate-perl libtool libtry-tiny-perl libtsan0 libubsan1 liburi-perl libwww-perl libwww-robotrules-perl libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxml2 libxmuu1 libyaml-0-2 linux-libc-dev lynx lynx-common m4 mafft manpages manpages-dev mime-support mpi-default-bin muscle ncbi-blast+ ncbi-blast+-legacy ncbi-data netbase ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client perl perl-modules-5.24 perl-modules-5.28 perl-openssl-defaults pynast python python-minimal python-mpi4py python2 python2-minimal python2.7 python2.7-minimal rake readline-common rename ruby ruby-did-you-mean ruby-minitest ruby-net-telnet ruby-power-assert ruby-test-unit ruby-xmlrpc ruby2.3 ruby2.5 rubygems-integration sgml-base unzip xauth xml-core xz-utils zip 0 upgraded, 0 newly installed, 191 to remove and 0 not upgraded. After this operation, 550 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 ... 20776 files and directories currently installed.) Removing libopenmpi-dev:amd64 (3.1.3-11) ... Removing libhwloc-dev:amd64 (1.11.12-3) ... Removing libltdl-dev:amd64 (2.4.6-9) ... Removing automake (1:1.16.1-4) ... Removing autoconf (2.69-11) ... Removing libtool (2.4.6-9) ... Removing autotools-dev (20180224.1) ... Removing libcoarrays-openmpi-dev:amd64 (2.4.0-2) ... Removing libcoarrays-dev:amd64 (2.4.0-2) ... Removing gfortran (4:8.3.0-1) ... Removing gcc (4:8.3.0-1) ... Removing gfortran-8 (8.3.0-6) ... Removing gcc-8 (8.3.0-6) ... Removing binutils (2.31.1-16) ... Removing binutils-x86-64-linux-gnu (2.31.1-16) ... Removing libbinutils:amd64 (2.31.1-16) ... Removing binutils-common:amd64 (2.31.1-16) ... Removing blast2 (1:2.8.1-1+deb10u1) ... Removing bzip2 (1.0.6-9.2~deb10u1) ... Removing clustalw (2.1+lgpl-6) ... Removing cpp (4:8.3.0-1) ... Removing cpp-8 (8.3.0-6) ... Removing file (1:5.35-4+deb10u2) ... Removing fonts-lato (2.0-2) ... Removing libibverbs-dev:amd64 (22.1-1) ... Removing ibverbs-providers:amd64 (22.1-1) ... Removing javascript-common (11) ... Removing krb5-locales (1.17-3+deb10u4) ... Removing libgfortran-8-dev:amd64 (8.3.0-6) ... Removing libgcc-8-dev:amd64 (8.3.0-6) ... Removing libasan5:amd64 (8.3.0-6) ... Removing libatomic1:amd64 (8.3.0-6) ... Removing libauthen-sasl-perl (2.1600-1) ... Removing lynx (2.8.9rel.1-3+deb10u1) ... Removing xauth (1:1.0.10-1) ... Removing libnuma-dev:amd64 (2.0.12-1) ... Removing libc6-dev:amd64 (2.28-10+deb10u1) ... Removing libc-dev-bin (2.28-10+deb10u1) ... Removing libcaf-openmpi-3:amd64 (2.4.0-2) ... Removing libcc1-0:amd64 (8.3.0-6) ... Removing libdata-dump-perl (1.23-1) ... Removing python-mpi4py (2.0.0-3+b3) ... Removing mpi-default-bin (1.13) ... Removing openmpi-bin (3.1.3-11) ... Removing openssh-client (1:7.9p1-10+deb10u2) ... Removing libedit2:amd64 (3.1-20181209-1) ... Removing libopenmpi3:amd64 (3.1.3-11) ... Removing libpmix2:amd64 (3.1.2-3) ... Removing libevent-2.1-6:amd64 (2.1.8-stable-4) ... Removing libevent-pthreads-2.1-6:amd64 (2.1.8-stable-4) ... Removing libevent-core-2.1-6:amd64 (2.1.8-stable-4) ... Removing pynast (1.2.2-4) ... Removing ncbi-blast+-legacy (2.8.1-1+deb10u1) ... Removing ncbi-blast+ (2.8.1-1+deb10u1) ... Removing python (2.7.16-1) ... Removing python2 (2.7.16-1) ... Removing python2.7 (2.7.16-2+deb10u1) ... Removing libpython-stdlib:amd64 (2.7.16-1) ... Removing libopenmpi2:amd64 (2.0.2-2) ... Removing libfabric1 (1.6.2-3) ... Removing libhtml-format-perl (2.12-1) ... Removing libfont-afm-perl (1.20-2) ... Removing rename (1.10-1) ... Removing libmailtools-perl (2.18-1) ... Removing mafft (7.407-2) ... Removing ruby2.3 (2.3.3-1+deb9u8) ... Removing libruby2.3:amd64 (2.3.3-1+deb9u8) ... Removing libperl5.24:amd64 (5.24.1-3+deb9u7) ... Removing libgdbm3:amd64 (1.8.3-14) ... Removing libgfortran3:amd64 (6.3.0-18+deb9u1) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Removing libhtml-form-perl (6.03-1) ... Removing libhttp-daemon-perl (6.01-3) ... Removing libhwloc-plugins:amd64 (1.11.12-3) ... Removing libhwloc5:amd64 (1.11.12-3) ... Removing librdmacm1:amd64 (22.1-1) ... Removing libibverbs1:amd64 (22.1-1) ... Removing libicu57:amd64 (57.1-6+deb9u4) ... Removing libxml2:amd64 (2.9.4+dfsg1-7+deb10u4) ... Removing libicu63:amd64 (63.1-6+deb10u3) ... Removing libidn11:amd64 (1.33-2.2) ... Removing libnet-smtp-ssl-perl (1.04-1) ... Removing libisl19:amd64 (0.20-2) ... Removing libitm1:amd64 (8.3.0-6) ... Removing libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Removing libjs-underscore (1.9.1~dfsg-1+deb10u1) ... Removing libkrb5-3:amd64 (1.17-3+deb10u4) ... Removing libk5crypto3:amd64 (1.17-3+deb10u4) ... Removing libkrb5support0:amd64 (1.17-3+deb10u4) ... Removing libkeyutils1:amd64 (1.6-6) ... Removing liblmdb0:amd64 (0.9.22-1) ... Removing liblsan0:amd64 (8.3.0-6) ... Removing libltdl7:amd64 (2.4.6-9) ... Removing libmagic1:amd64 (1:5.35-4+deb10u2) ... Removing libmagic-mgc (1:5.35-4+deb10u2) ... Removing libmbedtls12:amd64 (2.16.0-1) ... Removing libmbedx509-0:amd64 (2.16.0-1) ... Removing libmbedcrypto3:amd64 (2.16.0-1) ... Removing libmpc3:amd64 (1.1.0-1) ... Removing libmpfr6:amd64 (4.0.2-1) ... Removing libmpx2:amd64 (8.3.0-6) ... Removing libncurses5:amd64 (6.1+20181013-2+deb10u2) ... Removing libnl-route-3-dev:amd64 (3.4.0-1) ... Removing libnl-route-3-200:amd64 (3.4.0-1) ... Removing libnl-3-dev:amd64 (3.4.0-1) ... Removing libnl-3-200:amd64 (3.4.0-1) ... Removing libpsm2-2 (11.2.78-1) ... Removing libnuma1:amd64 (2.0.12-1) ... Removing libpciaccess0:amd64 (0.14-1) ... Removing libpsm-infinipath1 (3.3+20.604758e7-6) ... update-alternatives: warning: alternative /usr/lib/libpsm1/libpsm_infinipath.so.1.16 (part of link group libpsm_infinipath.so.1) doesn't exist; removing from list of alternatives update-alternatives: warning: /etc/alternatives/libpsm_infinipath.so.1 is dangling; it will be updated with best choice Removing libpython2-stdlib:amd64 (2.7.16-1) ... Removing python-minimal (2.7.16-1) ... Removing python2-minimal (2.7.16-1) ... Removing python2.7-minimal (2.7.16-2+deb10u1) ... Removing libquadmath0:amd64 (8.3.0-6) ... Removing m4 (1.4.18-2) ... Removing libsigsegv2:amd64 (2.12-2) ... Removing libssl1.0.2:amd64 (1.0.2u-1~deb9u1) ... Removing libtsan0:amd64 (8.3.0-6) ... Removing libubsan1:amd64 (8.3.0-6) ... Removing libxext6:amd64 (2:1.3.3-1+b2) ... Removing libxmuu1:amd64 (2:1.1.2-2+b3) ... Removing linux-libc-dev:amd64 (4.19.249-2) ... Removing lynx-common (2.8.9rel.1-3+deb10u1) ... Removing manpages-dev (4.16-2) ... Removing manpages (4.16-2) ... Removing muscle (1:3.8.1551-2) ... Removing ncbi-data (6.1.20170106+dfsg1-0+deb10u2) ... Removing ocl-icd-libopencl1:amd64 (2.2.12-2) ... Removing openmpi-common (3.1.3-11) ... Removing perl-modules-5.24 (5.24.1-3+deb9u7) ... Removing xml-core (0.18+nmu1) ... Removing sgml-base (1.29) ... Removing unzip (6.0-23+deb10u2) ... Removing xz-utils (5.2.4-1+deb10u1) ... Removing zip (3.0-11+b1) ... Removing libx11-6:amd64 (2:1.6.7-1+deb10u2) ... Removing libxcb1:amd64 (1.13.1-2) ... Removing libxdmcp6:amd64 (1:1.1.2-3) ... Removing libbsd0:amd64 (0.9.1-2+deb10u1) ... Removing libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Removing libexpat1:amd64 (2.2.6-2+deb10u4) ... Removing libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... find: '/usr/lib/python2.7': No such file or directory Removing libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Removing libx11-data (2:1.6.7-1+deb10u2) ... Removing libxau6:amd64 (1:1.0.8-1+b2) ... Removing mime-support (3.62) ... Removing libwww-perl (6.36-2) ... Removing liblwp-protocol-https-perl (6.07-2) ... Removing libhttp-negotiate-perl (6.01-1) ... Removing libfile-listing-perl (6.04-1) ... Removing libwww-robotrules-perl (6.02-1) ... Removing rake (12.3.1-3+deb10u1) ... Removing ruby (1:2.5.1) ... Removing ruby2.5 (2.5.5-3+deb10u4) ... Removing libruby2.5:amd64 (2.5.5-3+deb10u4) ... Removing libhtml-tree-perl (5.07-2) ... Removing libhtml-parser-perl (3.72-3+b3) ... Removing libhtml-tagset-perl (3.20-3) ... Removing libhttp-cookies-perl (6.04-1) ... Removing libio-socket-ssl-perl (2.060-3) ... Removing libncurses6:amd64 (6.1+20181013-2+deb10u2) ... Removing libnet-http-perl (6.18-1) ... Removing libnet-ssleay-perl (1.85-2+deb10u1) ... Removing libreadline7:amd64 (7.0-5) ... Removing libtry-tiny-perl (0.30-1) ... Removing libyaml-0-2:amd64 (0.2.1-1) ... Removing netbase (5.6) ... Removing perl-openssl-defaults:amd64 (3) ... Removing readline-common (7.0-5) ... Removing ruby-did-you-mean (1.2.1-1) ... Removing ruby-minitest (5.11.3-1) ... Removing ruby-net-telnet (0.1.1-2) ... Removing ruby-test-unit (3.2.8-1) ... Removing ruby-power-assert (1.1.1-1) ... Removing ruby-xmlrpc (0.3.0-2) ... Removing rubygems-integration (1.11+deb10u1) ... Removing libhttp-message-perl (6.18-1) ... Removing libencode-locale-perl (1.05-1) ... Removing libhttp-date-perl (6.02-1) ... Removing libio-html-perl (1.001-1) ... Removing liblwp-mediatypes-perl (6.02-1) ... Removing libtimedate-perl (2.3000-2+deb10u1) ... Removing liburi-perl (1.76-1) ... Removing perl (5.28.1-6+deb10u1) ... Removing libperl5.28:amd64 (5.28.1-6+deb10u1) ... Removing libgdbm-compat4:amd64 (1.18.1-4) ... Removing libgdbm6:amd64 (1.18.1-4) ... Removing perl-modules-5.28 (5.28.1-6+deb10u1) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 1m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'remove', 'autoconf', 'automake', 'autotools-dev', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blast2', 'bzip2', 'clustalw', 'cpp', 'cpp-8', 'file', 'fonts-lato', 'gcc', 'gcc-8', 'gfortran', 'gfortran-8', 'ibverbs-providers:amd64', 'javascript-common', 'krb5-locales', 'libasan5:amd64', 'libatomic1:amd64', 'libauthen-sasl-perl', 'libbinutils:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcaf-openmpi-3:amd64', 'libcc1-0:amd64', 'libcoarrays-dev:amd64', 'libcoarrays-openmpi-dev:amd64', 'libdata-dump-perl', 'libedit2:amd64', 'libencode-locale-perl', 'libevent-2.1-6:amd64', 'libevent-core-2.1-6:amd64', 'libevent-pthreads-2.1-6:amd64', 'libexpat1:amd64', 'libfabric1', 'libfile-listing-perl', 'libfont-afm-perl', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-dev:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libibverbs-dev:amd64', 'libibverbs1:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-socket-ssl-perl', 'libisl19:amd64', 'libitm1:amd64', 'libjs-jquery', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl-dev:amd64', 'libltdl7:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnl-3-200:amd64', 'libnl-3-dev:amd64', 'libnl-route-3-200:amd64', 'libnl-route-3-dev:amd64', 'libnuma-dev:amd64', 'libnuma1:amd64', 'libopenmpi-dev:amd64', 'libopenmpi2:amd64', 'libopenmpi3:amd64', 'libpciaccess0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpmix2:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'librdmacm1:amd64', 'libreadline7:amd64', 'libruby2.3:amd64', 'libruby2.5:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssl1.0.2:amd64', 'libtimedate-perl', 'libtool', 'libtry-tiny-perl', 'libtsan0:amd64', 'libubsan1:amd64', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxmuu1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lynx', 'lynx-common', 'm4', 'mafft', 'manpages', 'manpages-dev', 'mime-support', 'mpi-default-bin', 'muscle', 'ncbi-blast+-', 'ncbi-blast+-legacy', 'ncbi-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'perl-openssl-defaults:amd64', 'python', 'python-minimal', 'python-mpi4py', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'rake', 'readline-common', 'rename', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby-xmlrpc', 'ruby2.3', 'ruby2.5', 'rubygems-integration', 'sgml-base', 'unzip', 'xauth', 'xml-core', 'xz-utils', 'zip', 'pynast'] 1m9.1s INFO: Running scripts post_remove 1m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_remove_exceptions'] 1m9.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_remove_exceptions'] 1m9.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--purge', 'autoconf', 'automake', 'autotools-dev', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blast2', 'bzip2', 'clustalw', 'cpp', 'cpp-8', 'file', 'fonts-lato', 'gcc', 'gcc-8', 'gfortran', 'gfortran-8', 'ibverbs-providers:amd64', 'javascript-common', 'krb5-locales', 'libasan5:amd64', 'libatomic1:amd64', 'libauthen-sasl-perl', 'libbinutils:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcaf-openmpi-3:amd64', 'libcc1-0:amd64', 'libcoarrays-dev:amd64', 'libcoarrays-openmpi-dev:amd64', 'libdata-dump-perl', 'libedit2:amd64', 'libencode-locale-perl', 'libevent-2.1-6:amd64', 'libevent-core-2.1-6:amd64', 'libevent-pthreads-2.1-6:amd64', 'libexpat1:amd64', 'libfabric1', 'libfile-listing-perl', 'libfont-afm-perl', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-dev:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libibverbs-dev:amd64', 'libibverbs1:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-socket-ssl-perl', 'libisl19:amd64', 'libitm1:amd64', 'libjs-jquery', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl-dev:amd64', 'libltdl7:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnl-3-200:amd64', 'libnl-3-dev:amd64', 'libnl-route-3-200:amd64', 'libnl-route-3-dev:amd64', 'libnuma-dev:amd64', 'libnuma1:amd64', 'libopenmpi-dev:amd64', 'libopenmpi2:amd64', 'libopenmpi3:amd64', 'libpciaccess0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpmix2:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'librdmacm1:amd64', 'libreadline7:amd64', 'libruby2.3:amd64', 'libruby2.5:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssl1.0.2:amd64', 'libtimedate-perl', 'libtool', 'libtry-tiny-perl', 'libtsan0:amd64', 'libubsan1:amd64', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxmuu1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lynx', 'lynx-common', 'm4', 'mafft', 'manpages', 'manpages-dev', 'mime-support', 'mpi-default-bin', 'muscle', 'ncbi-blast+', 'ncbi-blast+-legacy', 'ncbi-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'perl-openssl-defaults:amd64', 'python', 'python-minimal', 'python-mpi4py', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'rake', 'readline-common', 'rename', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby-xmlrpc', 'ruby2.3', 'ruby2.5', 'rubygems-integration', 'sgml-base', 'unzip', 'xauth', 'xml-core', 'xz-utils', 'zip'] 1m9.3s DUMP: (Reading database ... 5061 files and directories currently installed.) Purging configuration files for autoconf (2.69-11) ... dpkg: warning: ignoring request to remove automake which isn't installed dpkg: warning: ignoring request to remove autotools-dev which isn't installed dpkg: warning: ignoring request to remove binutils which isn't installed dpkg: warning: ignoring request to remove binutils-common which isn't installed dpkg: warning: ignoring request to remove binutils-x86-64-linux-gnu which isn't installed dpkg: warning: ignoring request to remove blast2 which isn't installed dpkg: warning: ignoring request to remove bzip2 which isn't installed Purging configuration files for clustalw (2.1+lgpl-6) ... dpkg: warning: ignoring request to remove cpp which isn't installed dpkg: warning: ignoring request to remove cpp-8 which isn't installed dpkg: warning: ignoring request to remove file which isn't installed dpkg: warning: ignoring request to remove fonts-lato which isn't installed dpkg: warning: ignoring request to remove gcc which isn't installed dpkg: warning: ignoring request to remove gcc-8 which isn't installed dpkg: warning: ignoring request to remove gfortran which isn't installed dpkg: warning: ignoring request to remove gfortran-8 which isn't installed Purging configuration files for ibverbs-providers:amd64 (22.1-1) ... Purging configuration files for javascript-common (11) ... dpkg: warning: ignoring request to remove krb5-locales which isn't installed dpkg: warning: ignoring request to remove libasan5 which isn't installed dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libauthen-sasl-perl which isn't installed dpkg: warning: ignoring request to remove libbinutils which isn't installed dpkg: warning: ignoring request to remove libbsd0 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcaf-openmpi-3 which isn't installed dpkg: warning: ignoring request to remove libcc1-0 which isn't installed Purging configuration files for libcoarrays-dev:amd64 (2.4.0-2) ... dpkg: warning: ignoring request to remove libcoarrays-openmpi-dev which isn't installed dpkg: warning: ignoring request to remove libdata-dump-perl which isn't installed dpkg: warning: ignoring request to remove libedit2 which isn't installed dpkg: warning: ignoring request to remove libencode-locale-perl which isn't installed dpkg: warning: ignoring request to remove libevent-2.1-6 which isn't installed dpkg: warning: ignoring request to remove libevent-core-2.1-6 which isn't installed dpkg: warning: ignoring request to remove libevent-pthreads-2.1-6 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfabric1 which isn't installed dpkg: warning: ignoring request to remove libfile-listing-perl which isn't installed dpkg: warning: ignoring request to remove libfont-afm-perl which isn't installed dpkg: warning: ignoring request to remove libgcc-8-dev which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm3 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran-8-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran3 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... dpkg: warning: ignoring request to remove libhtml-form-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-format-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-parser-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tagset-perl which isn't installed dpkg: warning: ignoring request to remove libhtml-tree-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-cookies-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-daemon-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-date-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-message-perl which isn't installed dpkg: warning: ignoring request to remove libhttp-negotiate-perl which isn't installed dpkg: warning: ignoring request to remove libhwloc-dev which isn't installed dpkg: warning: ignoring request to remove libhwloc-plugins which isn't installed dpkg: warning: ignoring request to remove libhwloc5 which isn't installed dpkg: warning: ignoring request to remove libibverbs-dev which isn't installed dpkg: warning: ignoring request to remove libibverbs1 which isn't installed dpkg: warning: ignoring request to remove libicu57 which isn't installed dpkg: warning: ignoring request to remove libicu63 which isn't installed dpkg: warning: ignoring request to remove libidn11 which isn't installed dpkg: warning: ignoring request to remove libio-html-perl which isn't installed dpkg: warning: ignoring request to remove libio-socket-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libisl19 which isn't installed dpkg: warning: ignoring request to remove libitm1 which isn't installed dpkg: warning: ignoring request to remove libjs-jquery which isn't installed dpkg: warning: ignoring request to remove libjs-underscore which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblmdb0 which isn't installed dpkg: warning: ignoring request to remove liblsan0 which isn't installed dpkg: warning: ignoring request to remove libltdl-dev which isn't installed dpkg: warning: ignoring request to remove libltdl7 which isn't installed dpkg: warning: ignoring request to remove liblwp-mediatypes-perl which isn't installed dpkg: warning: ignoring request to remove liblwp-protocol-https-perl which isn't installed dpkg: warning: ignoring request to remove libmagic-mgc which isn't installed Purging configuration files for libmagic1:amd64 (1:5.35-4+deb10u2) ... dpkg: warning: ignoring request to remove libmailtools-perl which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto3 which isn't installed dpkg: warning: ignoring request to remove libmbedtls12 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-0 which isn't installed dpkg: warning: ignoring request to remove libmpc3 which isn't installed dpkg: warning: ignoring request to remove libmpfr6 which isn't installed dpkg: warning: ignoring request to remove libmpx2 which isn't installed dpkg: warning: ignoring request to remove libncurses5 which isn't installed dpkg: warning: ignoring request to remove libncurses6 which isn't installed dpkg: warning: ignoring request to remove libnet-http-perl which isn't installed dpkg: warning: ignoring request to remove libnet-smtp-ssl-perl which isn't installed dpkg: warning: ignoring request to remove libnet-ssleay-perl which isn't installed Purging configuration files for libnl-3-200:amd64 (3.4.0-1) ... dpkg: warning: ignoring request to remove libnl-3-dev which isn't installed dpkg: warning: ignoring request to remove libnl-route-3-200 which isn't installed dpkg: warning: ignoring request to remove libnl-route-3-dev which isn't installed dpkg: warning: ignoring request to remove libnuma-dev which isn't installed dpkg: warning: ignoring request to remove libnuma1 which isn't installed Purging configuration files for libopenmpi-dev:amd64 (3.1.3-11) ... dpkg: warning: ignoring request to remove libopenmpi2 which isn't installed dpkg: warning: ignoring request to remove libopenmpi3 which isn't installed dpkg: warning: ignoring request to remove libpciaccess0 which isn't installed dpkg: warning: ignoring request to remove libperl5.24 which isn't installed dpkg: warning: ignoring request to remove libperl5.28 which isn't installed dpkg: warning: ignoring request to remove libpmix2 which isn't installed Purging configuration files for libpsm-infinipath1 (3.3+20.604758e7-6) ... dpkg: warning: ignoring request to remove libpsm2-2 which isn't installed dpkg: warning: ignoring request to remove libpython-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython2-stdlib which isn't installed Purging configuration files for libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... dpkg: warning: ignoring request to remove libpython2.7-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove librdmacm1 which isn't installed dpkg: warning: ignoring request to remove libreadline7 which isn't installed dpkg: warning: ignoring request to remove libruby2.3 which isn't installed dpkg: warning: ignoring request to remove libruby2.5 which isn't installed dpkg: warning: ignoring request to remove libsigsegv2 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed Purging configuration files for libssl1.0.2:amd64 (1.0.2u-1~deb9u1) ... dpkg: warning: ignoring request to remove libtimedate-perl which isn't installed dpkg: warning: ignoring request to remove libtool which isn't installed dpkg: warning: ignoring request to remove libtry-tiny-perl which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove liburi-perl 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 libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxml2 which isn't installed dpkg: warning: ignoring request to remove libxmuu1 which isn't installed dpkg: warning: ignoring request to remove libyaml-0-2 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed Purging configuration files for lynx (2.8.9rel.1-3+deb10u1) ... Purging configuration files for lynx-common (2.8.9rel.1-3+deb10u1) ... dpkg: warning: ignoring request to remove m4 which isn't installed dpkg: warning: ignoring request to remove mafft which isn't installed dpkg: warning: ignoring request to remove manpages which isn't installed dpkg: warning: ignoring request to remove manpages-dev which isn't installed Purging configuration files for mime-support (3.62) ... dpkg: warning: ignoring request to remove mpi-default-bin which isn't installed dpkg: warning: ignoring request to remove muscle which isn't installed 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+deb10u2) ... Purging configuration files for netbase (5.6) ... dpkg: warning: ignoring request to remove ocl-icd-libopencl1 which isn't installed Purging configuration files for openmpi-bin (3.1.3-11) ... dpkg: warning: ignoring request to remove openmpi-common which isn't installed Purging configuration files for openssh-client (1:7.9p1-10+deb10u2) ... Purging configuration files for perl (5.28.1-6+deb10u1) ... dpkg: warning: ignoring request to remove perl-modules-5.24 which isn't installed dpkg: warning: ignoring request to remove perl-modules-5.28 which isn't installed dpkg: warning: ignoring request to remove perl-openssl-defaults which isn't installed Purging configuration files for python (2.7.16-1) ... 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 python2 which isn't installed dpkg: warning: ignoring request to remove python2-minimal which isn't installed dpkg: warning: ignoring request to remove python2.7 which isn't installed Purging configuration files for python2.7-minimal (2.7.16-2+deb10u1) ... dpkg: warning: ignoring request to remove rake which isn't installed Purging configuration files for readline-common (7.0-5) ... dpkg: warning: ignoring request to remove rename which isn't installed dpkg: warning: ignoring request to remove 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 ruby-xmlrpc which isn't installed dpkg: warning: ignoring request to remove ruby2.3 which isn't installed dpkg: warning: ignoring request to remove ruby2.5 which isn't installed dpkg: warning: ignoring request to remove rubygems-integration which isn't installed Purging configuration files for sgml-base (1.29) ... Purging configuration files for unzip (6.0-23+deb10u2) ... dpkg: warning: ignoring request to remove xauth which isn't installed Purging configuration files for xml-core (0.18+nmu1) ... dpkg: warning: ignoring request to remove xz-utils which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed 1m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--purge', 'autoconf', 'automake', 'autotools-dev', 'binutils', 'binutils-common:amd64', 'binutils-x86-64-linux-gnu', 'blast2', 'bzip2', 'clustalw', 'cpp', 'cpp-8', 'file', 'fonts-lato', 'gcc', 'gcc-8', 'gfortran', 'gfortran-8', 'ibverbs-providers:amd64', 'javascript-common', 'krb5-locales', 'libasan5:amd64', 'libatomic1:amd64', 'libauthen-sasl-perl', 'libbinutils:amd64', 'libbsd0:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcaf-openmpi-3:amd64', 'libcc1-0:amd64', 'libcoarrays-dev:amd64', 'libcoarrays-openmpi-dev:amd64', 'libdata-dump-perl', 'libedit2:amd64', 'libencode-locale-perl', 'libevent-2.1-6:amd64', 'libevent-core-2.1-6:amd64', 'libevent-pthreads-2.1-6:amd64', 'libexpat1:amd64', 'libfabric1', 'libfile-listing-perl', 'libfont-afm-perl', 'libgcc-8-dev:amd64', 'libgdbm-compat4:amd64', 'libgdbm3:amd64', 'libgdbm6:amd64', 'libgfortran-8-dev:amd64', 'libgfortran3:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhtml-form-perl', 'libhtml-format-perl', 'libhtml-parser-perl', 'libhtml-tagset-perl', 'libhtml-tree-perl', 'libhttp-cookies-perl', 'libhttp-daemon-perl', 'libhttp-date-perl', 'libhttp-message-perl', 'libhttp-negotiate-perl', 'libhwloc-dev:amd64', 'libhwloc-plugins:amd64', 'libhwloc5:amd64', 'libibverbs-dev:amd64', 'libibverbs1:amd64', 'libicu57:amd64', 'libicu63:amd64', 'libidn11:amd64', 'libio-html-perl', 'libio-socket-ssl-perl', 'libisl19:amd64', 'libitm1:amd64', 'libjs-jquery', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblmdb0:amd64', 'liblsan0:amd64', 'libltdl-dev:amd64', 'libltdl7:amd64', 'liblwp-mediatypes-perl', 'liblwp-protocol-https-perl', 'libmagic-mgc', 'libmagic1:amd64', 'libmailtools-perl', 'libmbedcrypto3:amd64', 'libmbedtls12:amd64', 'libmbedx509-0:amd64', 'libmpc3:amd64', 'libmpfr6:amd64', 'libmpx2:amd64', 'libncurses5:amd64', 'libncurses6:amd64', 'libnet-http-perl', 'libnet-smtp-ssl-perl', 'libnet-ssleay-perl', 'libnl-3-200:amd64', 'libnl-3-dev:amd64', 'libnl-route-3-200:amd64', 'libnl-route-3-dev:amd64', 'libnuma-dev:amd64', 'libnuma1:amd64', 'libopenmpi-dev:amd64', 'libopenmpi2:amd64', 'libopenmpi3:amd64', 'libpciaccess0:amd64', 'libperl5.24:amd64', 'libperl5.28:amd64', 'libpmix2:amd64', 'libpsm-infinipath1', 'libpsm2-2', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'librdmacm1:amd64', 'libreadline7:amd64', 'libruby2.3:amd64', 'libruby2.5:amd64', 'libsigsegv2:amd64', 'libsqlite3-0:amd64', 'libssl1.0.2:amd64', 'libtimedate-perl', 'libtool', 'libtry-tiny-perl', 'libtsan0:amd64', 'libubsan1:amd64', 'liburi-perl', 'libwww-perl', 'libwww-robotrules-perl', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxml2:amd64', 'libxmuu1:amd64', 'libyaml-0-2:amd64', 'linux-libc-dev:amd64', 'lynx', 'lynx-common', 'm4', 'mafft', 'manpages', 'manpages-dev', 'mime-support', 'mpi-default-bin', 'muscle', 'ncbi-blast+', 'ncbi-blast+-legacy', 'ncbi-data', 'netbase', 'ocl-icd-libopencl1:amd64', 'openmpi-bin', 'openmpi-common', 'openssh-client', 'perl', 'perl-modules-5.24', 'perl-modules-5.28', 'perl-openssl-defaults:amd64', 'python', 'python-minimal', 'python-mpi4py', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'rake', 'readline-common', 'rename', 'ruby', 'ruby-did-you-mean', 'ruby-minitest', 'ruby-net-telnet', 'ruby-power-assert', 'ruby-test-unit', 'ruby-xmlrpc', 'ruby2.3', 'ruby2.5', 'rubygems-integration', 'sgml-base', 'unzip', 'xauth', 'xml-core', 'xz-utils', 'zip'] 1m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--purge', 'pynast'] 1m9.3s DUMP: dpkg: warning: ignoring request to remove pynast which isn't installed 1m9.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--purge', 'pynast'] 1m9.3s INFO: Running scripts post_purge 1m9.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_purge_exceptions'] 1m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_purge_exceptions'] 1m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--purge', '--pending'] 1m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--purge', '--pending'] 1m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--remove', '--pending'] 1m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg', '--remove', '--pending'] 1m9.4s INFO: Running scripts post_test 1m9.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_test_exceptions'] 1m9.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'tmp/scripts/post_test_exceptions'] 1m9.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 1m9.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg-divert', '--list'] 1m9.8s DUMP: local diversion of /bin/sync to /bin/sync.distrib diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash local diversion of /home to /home.distrib diversion of /bin/sh to /bin/sh.distrib by dash 1m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'dpkg-divert', '--list'] 1m9.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'clean'] 1m9.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o', 'apt-get', 'clean'] 1m9.8s DEBUG: Recording chroot state 1m10.4s INFO: Warning: Package purging left files on system: /etc/ca-certificates.conf.dpkg-old not owned 1m10.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/shm'] 1m10.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/shm'] 1m10.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/console'] 1m10.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/console'] 1m10.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/ptmx'] 1m10.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/ptmx'] 1m10.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/pts'] 1m10.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/dev/pts'] 1m10.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/proc'] 1m10.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o/proc'] 1m10.8s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 1m10.9s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpl_kt_17o'] 1m10.9s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpl_kt_17o 1m10.9s INFO: PASS: Upgrading between Debian distributions. 1m10.9s INFO: PASS: All tests. 1m10.9s INFO: piuparts run ends. ret=0 End: 2022-11-19 12:08:42 GMT