Start: 2023-07-25 11:47:07 GMT [buster] Package: hinge Version: 0.5.0-4 Installed-Size: 2790 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.27), libgcc1 (>= 1:3.0), libgomp1 (>= 4.2.1), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), python, daligner, dazzdb, dascrubber, python-numpy, python-ujson, python-configparser, python-colormap, python-pbcore, python-networkx, python-matplotlib Description: long read genome assembler based on hinging Homepage: https://github.com/HingeAssembler/HINGE Description-md5: 796f6bb30e0dd11acb73bb5eeeaf4c08 Section: science Priority: optional Filename: pool/main/h/hinge/hinge_0.5.0-4_amd64.deb Size: 431864 MD5sum: ddba14e9f35733843d3388583c1c0f45 SHA256: 9fc2d7452bacf1b616d777eaac6f3f274584289a0e950f9e8fbbf17e3cd877ec [buster-next] Package: hinge Version: 0.5.0-4 Installed-Size: 2790 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.27), libgcc1 (>= 1:3.0), libgomp1 (>= 4.2.1), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), python, daligner, dazzdb, dascrubber, python-numpy, python-ujson, python-configparser, python-colormap, python-pbcore, python-networkx, python-matplotlib Description: long read genome assembler based on hinging Homepage: https://github.com/HingeAssembler/HINGE Description-md5: 796f6bb30e0dd11acb73bb5eeeaf4c08 Section: science Priority: optional Filename: pool/main/h/hinge/hinge_0.5.0-4_amd64.deb Size: 431864 MD5sum: ddba14e9f35733843d3388583c1c0f45 SHA256: 9fc2d7452bacf1b616d777eaac6f3f274584289a0e950f9e8fbbf17e3cd877ec Executing: sudo env PYTHONPATH=/srv/piuparts.debian.org/lib/python3/dist-packages timeout -s INT -k 5m 80m /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster_amd64.tar.gz -d buster -d buster-next -B /srv/piuparts.debian.org/slave/refchroot/buster2next/reference-chroot-metadata.dat --apt hinge=0.5.0-4 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 1.1.8~202306121314~1.1.7-9-g57dfbde6 starting up. 0m0.0s INFO: Command line arguments: /srv/piuparts.debian.org/sbin/piuparts --scriptsdir /etc/piuparts/scripts --no-eatmydata --allow-database --warn-on-leftovers-after-purge --warn-on-debsums-errors --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/buster_amd64.tar.gz -d buster -d buster-next -B /srv/piuparts.debian.org/slave/refchroot/buster2next/reference-chroot-metadata.dat --apt hinge=0.5.0-4 0m0.0s INFO: Running on: Linux piu-slave-ubc-01 5.10.0-23-amd64 #1 SMP Debian 5.10.179-2 (2023-07-14) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmpwa2f1lt3 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/buster_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpwa2f1lt3 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster_amd64.tar.gz'] 0m1.9s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/buster_amd64.tar.gz'] 0m1.9s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/proc'] 0m1.9s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/proc'] 0m1.9s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/pts'] 0m1.9s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/pts'] 0m1.9s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/ptmx'] 0m1.9s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/ptmx'] 0m1.9s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/console'] 0m1.9s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/console'] 0m1.9s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/shm'] 0m1.9s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/shm'] 0m1.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main 0m1.9s DEBUG: Created policy-rc.d and chmodded it. 0m1.9s DEBUG: Created resolv.conf. 0m1.9s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmpwa2f1lt3/tmp/scripts/ 0m1.9s INFO: Running scripts post_chroot_unpack 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'update'] 0m3.3s DUMP: Hit:1 http://deb.debian.org/debian buster InRelease Reading package lists... 0m3.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'update'] 0m3.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-yf', 'dist-upgrade'] 0m3.7s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m3.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-yf', 'dist-upgrade'] 0m3.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.9s DUMP: f6fc0f2636004ef589309651dfd778f4 - 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m3.9s INFO: Running scripts post_setup 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_dummy_users'] 0m5.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_dummy_users'] 0m5.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_forbid_home'] 0m5.3s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_forbid_home'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.3s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /bin/sync to /bin/sync.distrib' dpkg-divert: warning: diverting file '/bin/sync' from an Essential package with rename is dangerous, use --no-rename '/bin/sync' -> 'true' 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_force-unsafe-io'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_minimize'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_minimize'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_squeeze-backports'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_zz_backports'] 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_setup_zz_backports'] 0m5.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.3s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed coreutils coreutils 8.30-3 install ok installed dash dash 0.5.10.2-5 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u1 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u1 install ok installed libc-bin libc-bin 2.28-10+deb10u1 install ok installed libc6:amd64 libc6 2.28-10+deb10u1 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed libgmp10:amd64 libgmp10 2:6.1.2+dfsg-4+deb10u1 install ok installed libgnutls30:amd64 libgnutls30 3.6.7-4+deb10u8 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u2 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u8 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u2 install ok installed libudev1:amd64 libudev1 241-7~deb10u8 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mount mount 2.33.1-0.1 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u2 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u2 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed tzdata tzdata 2021a-0+deb10u6 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u1 0m5.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m5.3s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/buster2next/reference-chroot-metadata.dat 0m5.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m5.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m5.7s INFO: Running scripts is_testable 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/is_testable_uninstallable'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/is_testable_uninstallable'] 0m5.7s INFO: Running scripts pre_test 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_test_exceptions'] 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_test_exceptions'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_test_root_password'] 0m5.7s DUMP: New password: Retype new password: passwd: password updated successfully 0m5.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_test_root_password'] 0m5.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'show', '--no-all-versions', 'hinge'] 0m6.0s DUMP: Package: hinge Version: 0.5.0-4 Installed-Size: 2790 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.27), libgcc1 (>= 1:3.0), libgomp1 (>= 4.2.1), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), python, daligner, dazzdb, dascrubber, python-numpy, python-ujson, python-configparser, python-colormap, python-pbcore, python-networkx, python-matplotlib Description-en: long read genome assembler based on hinging HINGE is a genome assembler that seeks to achieve optimal repeat resolution by distinguishing repeats that can be resolved given the data from those that cannot. This is accomplished by adding ??hinges?? to reads for constructing an overlap graph where only unresolvable repeats are merged. As a result, HINGE combines the error resilience of overlap-based assemblers with repeat-resolution capabilities of de Bruijn graph assemblers. Description-md5: 796f6bb30e0dd11acb73bb5eeeaf4c08 Homepage: https://github.com/HingeAssembler/HINGE Section: science Priority: optional Filename: pool/main/h/hinge/hinge_0.5.0-4_amd64.deb Size: 431864 MD5sum: ddba14e9f35733843d3388583c1c0f45 SHA256: 9fc2d7452bacf1b616d777eaac6f3f274584289a0e950f9e8fbbf17e3cd877ec 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'show', '--no-all-versions', 'hinge'] 0m6.0s INFO: apt-cache knows about the following packages: hinge 0m6.0s INFO: Running scripts pre_install 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_database-server'] 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_database-server'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_exceptions'] 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_exceptions'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_extras'] 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_extras'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m6.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy'] 0m6.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldoldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy', 'hinge'] 0m6.1s DUMP: hinge: Installed: (none) Candidate: 0.5.0-4 Version table: 0.5.0-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy', 'hinge'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-y', 'install', 'hinge'] 0m28.4s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: daligner dascrubber dazzdb fonts-lyx libblas3 libcurl3-gnutls libdeflate0 libexpat1 libfreetype6 libgfortran5 libgomp1 libgssapi-krb5-2 libhts2 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common libnghttp2-14 libpng16-16 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 mime-support python python-appdirs python-backports.functools-lru-cache python-colorama python-colorlog python-colormap python-configparser python-cycler python-dateutil python-decorator python-easydev python-kiwisolver python-matplotlib python-matplotlib2-data python-minimal python-networkx python-numpy python-pbcore python-pexpect python-pkg-resources python-ptyprocess python-pyparsing python-pysam python-six python-subprocess32 python-tz python-ujson python2 python2-minimal python2.7 python2.7-minimal readline-common ttf-bitstream-vera Suggested packages: krb5-doc krb5-user libjs-jquery-ui-docs python-doc python-tk python-cycler-doc dvipng ffmpeg gir1.2-gtk-3.0 ghostscript inkscape ipython librsvg2-common python-cairocffi python-configobj python-excelerator python-gi python-gobject-2 python-matplotlib2-doc python-nose python-qt4 python-scipy python-sip python-tornado python-traits python-wxgtk3.0 texlive-extra-utils texlive-latex-extra ttf-staypuft python-networkx-doc gcc gfortran python-dev python-pytest python-numpy-dbg python-numpy-doc python-pbcore-doc python-pexpect-doc python-setuptools python-pyparsing-doc python2-doc python2.7-doc binutils binfmt-support readline-doc Recommended packages: ca-certificates javascript-common krb5-locales publicsuffix libsasl2-modules bzip2 file xz-utils python-pil python-tk python-gdal python-pygraphviz | python-pydot python-scipy python-yaml python-h5py The following NEW packages will be installed: daligner dascrubber dazzdb fonts-lyx hinge libblas3 libcurl3-gnutls libdeflate0 libexpat1 libfreetype6 libgfortran5 libgomp1 libgssapi-krb5-2 libhts2 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common libnghttp2-14 libpng16-16 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 mime-support python python-appdirs python-backports.functools-lru-cache python-colorama python-colorlog python-colormap python-configparser python-cycler python-dateutil python-decorator python-easydev python-kiwisolver python-matplotlib python-matplotlib2-data python-minimal python-networkx python-numpy python-pbcore python-pexpect python-pkg-resources python-ptyprocess python-pyparsing python-pysam python-six python-subprocess32 python-tz python-ujson python2 python2-minimal python2.7 python2.7-minimal readline-common ttf-bitstream-vera 0 upgraded, 74 newly installed, 0 to remove and 0 not upgraded. Need to get 38.8 MB of archives. After this operation, 119 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian buster/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u1 [395 kB] Get:2 http://deb.debian.org/debian buster/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u1 [1369 kB] Get:3 http://deb.debian.org/debian buster/main amd64 python2-minimal amd64 2.7.16-1 [41.4 kB] Get:4 http://deb.debian.org/debian buster/main amd64 python-minimal amd64 2.7.16-1 [21.0 kB] Get:5 http://deb.debian.org/debian buster/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u3 [1551 kB] Get:6 http://deb.debian.org/debian buster/main amd64 mime-support all 3.62 [37.2 kB] Get:7 http://deb.debian.org/debian buster/main amd64 libexpat1 amd64 2.2.6-2+deb10u4 [108 kB] Get:8 http://deb.debian.org/debian buster/main amd64 readline-common all 7.0-5 [70.6 kB] Get:9 http://deb.debian.org/debian buster/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:10 http://deb.debian.org/debian buster/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u1 [641 kB] Get:11 http://deb.debian.org/debian buster/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u1 [1912 kB] Get:12 http://deb.debian.org/debian buster/main amd64 python2.7 amd64 2.7.16-2+deb10u1 [305 kB] Get:13 http://deb.debian.org/debian buster/main amd64 libpython2-stdlib amd64 2.7.16-1 [20.8 kB] Get:14 http://deb.debian.org/debian buster/main amd64 libpython-stdlib amd64 2.7.16-1 [20.8 kB] Get:15 http://deb.debian.org/debian buster/main amd64 python2 amd64 2.7.16-1 [41.6 kB] Get:16 http://deb.debian.org/debian buster/main amd64 python amd64 2.7.16-1 [22.8 kB] Get:17 http://deb.debian.org/debian buster/main amd64 daligner amd64 1.0+git20180524.fd21879-1 [181 kB] Get:18 http://deb.debian.org/debian buster/main amd64 dascrubber amd64 1.1-1 [168 kB] Get:19 http://deb.debian.org/debian buster/main amd64 dazzdb amd64 1.0+git20180908.0bd5e07-1 [172 kB] Get:20 http://deb.debian.org/debian buster/main amd64 fonts-lyx all 2.3.2-1 [199 kB] Get:21 http://deb.debian.org/debian buster/main amd64 libgomp1 amd64 8.3.0-6 [75.8 kB] Get:22 http://deb.debian.org/debian buster/main amd64 libquadmath0 amd64 8.3.0-6 [133 kB] Get:23 http://deb.debian.org/debian buster/main amd64 libgfortran5 amd64 8.3.0-6 [581 kB] Get:24 http://deb.debian.org/debian buster/main amd64 libblas3 amd64 3.8.0-2 [148 kB] Get:25 http://deb.debian.org/debian buster/main amd64 liblapack3 amd64 3.8.0-2 [2110 kB] Get:26 http://deb.debian.org/debian buster/main amd64 python-pkg-resources all 40.8.0-1 [182 kB] Get:27 http://deb.debian.org/debian buster/main amd64 python-numpy amd64 1:1.16.2-1 [2101 kB] Get:28 http://deb.debian.org/debian buster/main amd64 python-ujson amd64 1.35-3 [23.4 kB] Get:29 http://deb.debian.org/debian buster/main amd64 libjs-jquery all 3.3.1~dfsg-3+deb10u1 [332 kB] Get:30 http://deb.debian.org/debian buster/main amd64 libjs-underscore all 1.9.1~dfsg-1+deb10u1 [100.0 kB] Get:31 http://deb.debian.org/debian buster/main amd64 libjs-sphinxdoc all 1.8.4-1 [95.9 kB] Get:32 http://deb.debian.org/debian buster/main amd64 python-configparser all 3.5.0b2-1 [59.2 kB] Get:33 http://deb.debian.org/debian buster/main amd64 python-backports.functools-lru-cache all 1.5-3 [6704 B] Get:34 http://deb.debian.org/debian buster/main amd64 python-six all 1.12.0-1 [15.7 kB] Get:35 http://deb.debian.org/debian buster/main amd64 python-dateutil all 2.7.3-3 [76.8 kB] Get:36 http://deb.debian.org/debian buster/main amd64 ttf-bitstream-vera all 1.10-8 [352 kB] Get:37 http://deb.debian.org/debian buster/main amd64 python-matplotlib2-data all 2.2.3-6 [4124 kB] Get:38 http://deb.debian.org/debian buster/main amd64 python-pyparsing all 2.2.0+dfsg1-2 [89.5 kB] Get:39 http://deb.debian.org/debian buster/main amd64 python-tz all 2019.1-1 [33.6 kB] Get:40 http://deb.debian.org/debian buster/main amd64 libjs-jquery-ui all 1.12.1+dfsg-5 [232 kB] Get:41 http://deb.debian.org/debian buster/main amd64 python-cycler all 0.10.0-1 [7448 B] Get:42 http://deb.debian.org/debian buster/main amd64 python-kiwisolver amd64 1.0.1-2+b1 [67.3 kB] Get:43 http://deb.debian.org/debian buster/main amd64 python-subprocess32 amd64 3.5.3-1 [29.9 kB] Get:44 http://deb.debian.org/debian buster/main amd64 libpng16-16 amd64 1.6.36-6 [292 kB] Get:45 http://deb.debian.org/debian buster/main amd64 libfreetype6 amd64 2.9.1-3+deb10u3 [380 kB] Get:46 http://deb.debian.org/debian buster/main amd64 python-matplotlib amd64 2.2.3-6 [5073 kB] Get:47 http://deb.debian.org/debian buster/main amd64 python-colorama all 0.3.7-1 [25.7 kB] Get:48 http://deb.debian.org/debian buster/main amd64 python-colorlog all 4.0.1-1 [26.1 kB] Get:49 http://deb.debian.org/debian buster/main amd64 python-ptyprocess all 0.6.0-1 [13.1 kB] Get:50 http://deb.debian.org/debian buster/main amd64 python-pexpect all 4.6.0-1 [51.6 kB] Get:51 http://deb.debian.org/debian buster/main amd64 python-appdirs all 1.4.3-1 [12.0 kB] Get:52 http://deb.debian.org/debian buster/main amd64 python-easydev all 0.9.37-1 [39.8 kB] Get:53 http://deb.debian.org/debian buster/main amd64 python-colormap all 1.0.2-1 [14.8 kB] Get:54 http://deb.debian.org/debian buster/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:55 http://deb.debian.org/debian buster/main amd64 libkrb5support0 amd64 1.17-3+deb10u4 [65.9 kB] Get:56 http://deb.debian.org/debian buster/main amd64 libk5crypto3 amd64 1.17-3+deb10u4 [122 kB] Get:57 http://deb.debian.org/debian buster/main amd64 libkrb5-3 amd64 1.17-3+deb10u4 [369 kB] Get:58 http://deb.debian.org/debian buster/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u4 [158 kB] Get:59 http://deb.debian.org/debian buster/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1+deb10u2 [69.2 kB] Get:60 http://deb.debian.org/debian buster/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1+deb10u2 [106 kB] Get:61 http://deb.debian.org/debian buster/main amd64 libldap-common all 2.4.47+dfsg-3+deb10u7 [90.1 kB] Get:62 http://deb.debian.org/debian buster/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3+deb10u7 [224 kB] Get:63 http://deb.debian.org/debian buster/main amd64 libnghttp2-14 amd64 1.36.0-2+deb10u1 [85.0 kB] Get:64 http://deb.debian.org/debian buster/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:65 http://deb.debian.org/debian buster/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get:66 http://deb.debian.org/debian buster/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:67 http://deb.debian.org/debian buster/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u2 [330 kB] Get:68 http://deb.debian.org/debian buster/main amd64 libdeflate0 amd64 1.2-1 [55.4 kB] Get:69 http://deb.debian.org/debian buster/main amd64 libhts2 amd64 1.9-12~deb10u1 [305 kB] Get:70 http://deb.debian.org/debian buster/main amd64 python-pysam amd64 0.15.2+ds-2 [1629 kB] Get:71 http://deb.debian.org/debian buster/main amd64 python-pbcore all 1.6.5+dfsg-1 [9100 kB] Get:72 http://deb.debian.org/debian buster/main amd64 python-decorator all 4.3.0-1.1 [14.4 kB] Get:73 http://deb.debian.org/debian buster/main amd64 python-networkx all 2.2-1 [1020 kB] Get:74 http://deb.debian.org/debian buster/main amd64 hinge amd64 0.5.0-4 [432 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 38.8 MB in 8s (5130 kB/s) Selecting previously unselected package libpython2.7-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6462 files and directories currently installed.) Preparing to unpack .../00-libpython2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Selecting previously unselected package python2.7-minimal. Preparing to unpack .../01-python2.7-minimal_2.7.16-2+deb10u1_amd64.deb ... Unpacking python2.7-minimal (2.7.16-2+deb10u1) ... Selecting previously unselected package python2-minimal. 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Unpacking libpython-stdlib:amd64 (2.7.16-1) ... Setting up libpython2.7-minimal:amd64 (2.7.16-2+deb10u1) ... Setting up python2.7-minimal (2.7.16-2+deb10u1) ... Setting up python2-minimal (2.7.16-1) ... Selecting previously unselected package python2. (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 ... 7299 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_amd64.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... 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Selecting previously unselected package ttf-bitstream-vera. Preparing to unpack .../20-ttf-bitstream-vera_1.10-8_all.deb ... Unpacking ttf-bitstream-vera (1.10-8) ... Selecting previously unselected package python-matplotlib2-data. Preparing to unpack .../21-python-matplotlib2-data_2.2.3-6_all.deb ... Unpacking python-matplotlib2-data (2.2.3-6) ... Selecting previously unselected package python-pyparsing. Preparing to unpack .../22-python-pyparsing_2.2.0+dfsg1-2_all.deb ... Unpacking python-pyparsing (2.2.0+dfsg1-2) ... Selecting previously unselected package python-tz. Preparing to unpack .../23-python-tz_2019.1-1_all.deb ... Unpacking python-tz (2019.1-1) ... Selecting previously unselected package libjs-jquery-ui. Preparing to unpack .../24-libjs-jquery-ui_1.12.1+dfsg-5_all.deb ... Unpacking libjs-jquery-ui (1.12.1+dfsg-5) ... Selecting previously unselected package python-cycler. Preparing to unpack .../25-python-cycler_0.10.0-1_all.deb ... Unpacking python-cycler (0.10.0-1) ... 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Selecting previously unselected package python-pysam. Preparing to unpack .../54-python-pysam_0.15.2+ds-2_amd64.deb ... Unpacking python-pysam (0.15.2+ds-2) ... Selecting previously unselected package python-pbcore. Preparing to unpack .../55-python-pbcore_1.6.5+dfsg-1_all.deb ... Unpacking python-pbcore (1.6.5+dfsg-1) ... Selecting previously unselected package python-decorator. Preparing to unpack .../56-python-decorator_4.3.0-1.1_all.deb ... Unpacking python-decorator (4.3.0-1.1) ... Selecting previously unselected package python-networkx. Preparing to unpack .../57-python-networkx_2.2-1_all.deb ... Unpacking python-networkx (2.2-1) ... Selecting previously unselected package hinge. Preparing to unpack .../58-hinge_0.5.0-4_amd64.deb ... Unpacking hinge (0.5.0-4) ... Setting up libexpat1:amd64 (2.2.6-2+deb10u4) ... Setting up libkeyutils1:amd64 (1.6-6) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up ttf-bitstream-vera (1.10-8) ... Setting up mime-support (3.62) ... Setting up dascrubber (1.1-1) ... Setting up libssl1.1:amd64 (1.1.1n-0+deb10u3) ... Setting up fonts-lyx (2.3.2-1) ... Setting up libsqlite3-0:amd64 (3.27.2-3+deb10u1) ... Setting up libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Setting up libdeflate0:amd64 (1.2-1) ... Setting up libgomp1:amd64 (8.3.0-6) ... Setting up libldap-common (2.4.47+dfsg-3+deb10u7) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u4) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up dazzdb (1.0+git20180908.0bd5e07-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libquadmath0:amd64 (8.3.0-6) ... Setting up libpng16-16:amd64 (1.6.36-6) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u4) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Setting up libgfortran5:amd64 (8.3.0-6) ... Setting up python-matplotlib2-data (2.2.3-6) ... Setting up daligner (1.0+git20180524.fd21879-1) ... Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up libkrb5-3:amd64 (1.17-3+deb10u4) ... Setting up libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Setting up readline-common (7.0-5) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libjs-underscore (1.9.1~dfsg-1+deb10u1) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u1) ... Setting up libblas3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode Setting up libjs-jquery-ui (1.12.1+dfsg-5) ... Setting up libfreetype6:amd64 (2.9.1-3+deb10u3) ... Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u4) ... Setting up libjs-sphinxdoc (1.8.4-1) ... Setting up liblapack3:amd64 (3.8.0-2) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:amd64 (2.7.16-1) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u2) ... Setting up python2 (2.7.16-1) ... Setting up libpython-stdlib:amd64 (2.7.16-1) ... Setting up python (2.7.16-1) ... Setting up python-colorama (0.3.7-1) ... Setting up libhts2:amd64 (1.9-12~deb10u1) ... Setting up python-pkg-resources (40.8.0-1) ... Setting up python-colorlog (4.0.1-1) ... Setting up python-appdirs (1.4.3-1) ... Setting up python-decorator (4.3.0-1.1) ... Setting up python-six (1.12.0-1) ... Setting up python-pyparsing (2.2.0+dfsg1-2) ... Setting up python-networkx (2.2-1) ... Setting up python-dateutil (2.7.3-3) ... Setting up python-configparser (3.5.0b2-1) ... Setting up python-subprocess32 (3.5.3-1) ... Setting up python-backports.functools-lru-cache (1.5-3) ... Setting up python-tz (2019.1-1) ... Setting up python-kiwisolver (1.0.1-2+b1) ... Setting up python-ujson (1.35-3) ... Setting up python-ptyprocess (0.6.0-1) ... Setting up python-pexpect (4.6.0-1) ... Setting up python-pysam (0.15.2+ds-2) ... Setting up python-numpy (1:1.16.2-1) ... Setting up python-cycler (0.10.0-1) ... Setting up python-easydev (0.9.37-1) ... Setting up python-pbcore (1.6.5+dfsg-1) ... Setting up python-matplotlib (2.2.3-6) ... Setting up python-colormap (1.0.2-1) ... Setting up hinge (0.5.0-4) ... Processing triggers for libc-bin (2.28-10+deb10u1) ... 0m28.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-y', 'install', 'hinge'] 0m28.4s INFO: Running scripts post_install 0m28.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_install_exceptions'] 0m28.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_install_exceptions'] 0m28.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m29.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m29.0s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpwa2f1lt3 to buster-next 0m29.0s DEBUG: sources.list: deb http://deb.debian.org/debian/ buster main deb http://security.debian.org buster/updates main deb http://deb.debian.org/debian/ buster-updates main deb http://deb.debian.org/debian/ buster-proposed-updates main 0m29.0s INFO: Running scripts pre_distupgrade 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_exceptions'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_exceptions'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m29.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m29.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'update'] 0m31.0s DUMP: Hit:1 http://deb.debian.org/debian buster InRelease Get:2 http://deb.debian.org/debian buster-updates InRelease [56.6 kB] Get:3 http://deb.debian.org/debian buster-proposed-updates InRelease [59.2 kB] Get:4 http://security.debian.org buster/updates InRelease [34.8 kB] Get:5 http://deb.debian.org/debian buster-updates/main amd64 Packages [8788 B] Get:6 http://deb.debian.org/debian buster-updates/main Translation-en [6915 B] Get:7 http://security.debian.org buster/updates/main amd64 Packages [541 kB] Get:8 http://security.debian.org buster/updates/main Translation-en [292 kB] Get:9 http://deb.debian.org/debian buster-proposed-updates/main amd64 Packages [728 B] Get:10 http://deb.debian.org/debian buster-proposed-updates/main Translation-en [859 B] Fetched 1002 kB in 1s (1039 kB/s) Reading package lists... 0m31.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'update'] 0m31.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-yf', 'dist-upgrade'] 0m38.2s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: debian-archive-keyring libbz2-1.0 libc-bin libc6 libcurl3-gnutls libexpat1 libgnutls30 libgssapi-krb5-2 libjs-jquery-ui libk5crypto3 libkrb5-3 libkrb5support0 libncursesw6 libpython2.7-minimal libpython2.7-stdlib libsqlite3-0 libssl1.1 libsystemd0 libtasn1-6 libtinfo6 libudev1 ncurses-base ncurses-bin python2.7 python2.7-minimal tzdata zlib1g 27 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 14.5 MB of archives. After this operation, 58.4 kB of additional disk space will be used. Get:1 http://security.debian.org buster/updates/main amd64 ncurses-bin amd64 6.1+20181013-2+deb10u3 [407 kB] Get:2 http://security.debian.org buster/updates/main amd64 libc6 amd64 2.28-10+deb10u2 [2869 kB] Get:3 http://security.debian.org buster/updates/main amd64 libc-bin amd64 2.28-10+deb10u2 [793 kB] Get:4 http://security.debian.org buster/updates/main amd64 ncurses-base all 6.1+20181013-2+deb10u3 [259 kB] Get:5 http://security.debian.org buster/updates/main amd64 libsystemd0 amd64 241-7~deb10u10 [332 kB] Get:6 http://security.debian.org buster/updates/main amd64 python2.7 amd64 2.7.16-2+deb10u2 [306 kB] Get:7 http://security.debian.org buster/updates/main amd64 libssl1.1 amd64 1.1.1n-0+deb10u5 [1551 kB] Get:8 http://security.debian.org buster/updates/main amd64 libbz2-1.0 amd64 1.0.6-9.2~deb10u2 [45.4 kB] Get:9 http://security.debian.org buster/updates/main amd64 libexpat1 amd64 2.2.6-2+deb10u6 [108 kB] Get:10 http://security.debian.org buster/updates/main amd64 libtinfo6 amd64 6.1+20181013-2+deb10u3 [326 kB] Get:11 http://security.debian.org buster/updates/main amd64 libncursesw6 amd64 6.1+20181013-2+deb10u3 [132 kB] Get:12 http://security.debian.org buster/updates/main amd64 libsqlite3-0 amd64 3.27.2-3+deb10u2 [641 kB] Get:13 http://security.debian.org buster/updates/main amd64 libpython2.7-stdlib amd64 2.7.16-2+deb10u2 [1911 kB] Get:14 http://security.debian.org buster/updates/main amd64 python2.7-minimal amd64 2.7.16-2+deb10u2 [1367 kB] Get:15 http://security.debian.org buster/updates/main amd64 libpython2.7-minimal amd64 2.7.16-2+deb10u2 [396 kB] Get:16 http://security.debian.org buster/updates/main amd64 zlib1g amd64 1:1.2.11.dfsg-1+deb10u2 [90.9 kB] Get:17 http://security.debian.org buster/updates/main amd64 debian-archive-keyring all 2019.1+deb10u2 [110 kB] Get:18 http://security.debian.org buster/updates/main amd64 libudev1 amd64 241-7~deb10u10 [151 kB] Get:19 http://security.debian.org buster/updates/main amd64 libtasn1-6 amd64 4.13-3+deb10u1 [52.0 kB] Get:20 http://security.debian.org buster/updates/main amd64 libgnutls30 amd64 3.6.7-4+deb10u10 [1126 kB] Get:21 http://security.debian.org buster/updates/main amd64 tzdata all 2021a-0+deb10u11 [267 kB] Get:22 http://security.debian.org buster/updates/main amd64 libgssapi-krb5-2 amd64 1.17-3+deb10u5 [159 kB] Get:23 http://security.debian.org buster/updates/main amd64 libkrb5-3 amd64 1.17-3+deb10u5 [369 kB] Get:24 http://security.debian.org buster/updates/main amd64 libkrb5support0 amd64 1.17-3+deb10u5 [66.0 kB] Get:25 http://security.debian.org buster/updates/main amd64 libk5crypto3 amd64 1.17-3+deb10u5 [122 kB] Get:26 http://security.debian.org buster/updates/main amd64 libcurl3-gnutls amd64 7.64.0-4+deb10u6 [333 kB] Get:27 http://security.debian.org buster/updates/main amd64 libjs-jquery-ui all 1.12.1+dfsg-5+deb10u1 [232 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 14.5 MB in 0s (60.3 MB/s) (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 ... 10536 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.1+20181013-2+deb10u3_amd64.deb ... Unpacking ncurses-bin (6.1+20181013-2+deb10u3) over (6.1+20181013-2+deb10u2) ... Setting up ncurses-bin (6.1+20181013-2+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 ... 10536 files and directories currently installed.) Preparing to unpack .../libc6_2.28-10+deb10u2_amd64.deb ... Unpacking libc6:amd64 (2.28-10+deb10u2) over (2.28-10+deb10u1) ... Setting up libc6:amd64 (2.28-10+deb10u2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10536 files and directories currently installed.) Preparing to unpack .../libc-bin_2.28-10+deb10u2_amd64.deb ... Unpacking libc-bin (2.28-10+deb10u2) over (2.28-10+deb10u1) ... Setting up libc-bin (2.28-10+deb10u2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10536 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.1+20181013-2+deb10u3_all.deb ... Unpacking ncurses-base (6.1+20181013-2+deb10u3) over (6.1+20181013-2+deb10u2) ... Setting up ncurses-base (6.1+20181013-2+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 ... 10536 files and directories currently installed.) Preparing to unpack .../libsystemd0_241-7~deb10u10_amd64.deb ... Unpacking libsystemd0:amd64 (241-7~deb10u10) over (241-7~deb10u8) ... Setting up libsystemd0:amd64 (241-7~deb10u10) ... (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 ... 10536 files and directories currently installed.) Preparing to unpack .../python2.7_2.7.16-2+deb10u2_amd64.deb ... Unpacking python2.7 (2.7.16-2+deb10u2) over (2.7.16-2+deb10u1) ... Preparing to unpack .../libssl1.1_1.1.1n-0+deb10u5_amd64.deb ... Unpacking libssl1.1:amd64 (1.1.1n-0+deb10u5) over (1.1.1n-0+deb10u3) ... Preparing to unpack .../libbz2-1.0_1.0.6-9.2~deb10u2_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.6-9.2~deb10u2) over (1.0.6-9.2~deb10u1) ... Setting up libbz2-1.0:amd64 (1.0.6-9.2~deb10u2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10536 files and directories currently installed.) Preparing to unpack .../libexpat1_2.2.6-2+deb10u6_amd64.deb ... Unpacking libexpat1:amd64 (2.2.6-2+deb10u6) over (2.2.6-2+deb10u4) ... Preparing to unpack .../libtinfo6_6.1+20181013-2+deb10u3_amd64.deb ... Unpacking libtinfo6:amd64 (6.1+20181013-2+deb10u3) over (6.1+20181013-2+deb10u2) ... Setting up libtinfo6:amd64 (6.1+20181013-2+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 ... 10536 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.1+20181013-2+deb10u3_amd64.deb ... Unpacking libncursesw6:amd64 (6.1+20181013-2+deb10u3) over (6.1+20181013-2+deb10u2) ... Setting up libncursesw6:amd64 (6.1+20181013-2+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 ... 10536 files and directories currently installed.) Preparing to unpack .../libsqlite3-0_3.27.2-3+deb10u2_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.27.2-3+deb10u2) over (3.27.2-3+deb10u1) ... Preparing to unpack .../libpython2.7-stdlib_2.7.16-2+deb10u2_amd64.deb ... Unpacking libpython2.7-stdlib:amd64 (2.7.16-2+deb10u2) over (2.7.16-2+deb10u1) ... Preparing to unpack .../python2.7-minimal_2.7.16-2+deb10u2_amd64.deb ... Unpacking python2.7-minimal (2.7.16-2+deb10u2) over (2.7.16-2+deb10u1) ... Preparing to unpack .../libpython2.7-minimal_2.7.16-2+deb10u2_amd64.deb ... Unpacking libpython2.7-minimal:amd64 (2.7.16-2+deb10u2) over (2.7.16-2+deb10u1) ... Preparing to unpack .../zlib1g_1%3a1.2.11.dfsg-1+deb10u2_amd64.deb ... Unpacking zlib1g:amd64 (1:1.2.11.dfsg-1+deb10u2) over (1:1.2.11.dfsg-1+deb10u1) ... Setting up zlib1g:amd64 (1:1.2.11.dfsg-1+deb10u2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10536 files and directories currently installed.) Preparing to unpack .../debian-archive-keyring_2019.1+deb10u2_all.deb ... Unpacking debian-archive-keyring (2019.1+deb10u2) over (2019.1+deb10u1) ... Setting up debian-archive-keyring (2019.1+deb10u2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10542 files and directories currently installed.) Preparing to unpack .../libudev1_241-7~deb10u10_amd64.deb ... Unpacking libudev1:amd64 (241-7~deb10u10) over (241-7~deb10u8) ... Setting up libudev1:amd64 (241-7~deb10u10) ... (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 ... 10542 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.13-3+deb10u1_amd64.deb ... Unpacking libtasn1-6:amd64 (4.13-3+deb10u1) over (4.13-3) ... Setting up libtasn1-6:amd64 (4.13-3+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 ... 10542 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.6.7-4+deb10u10_amd64.deb ... Unpacking libgnutls30:amd64 (3.6.7-4+deb10u10) over (3.6.7-4+deb10u8) ... Setting up libgnutls30:amd64 (3.6.7-4+deb10u10) ... (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 ... 10542 files and directories currently installed.) Preparing to unpack .../0-tzdata_2021a-0+deb10u11_all.deb ... Unpacking tzdata (2021a-0+deb10u11) over (2021a-0+deb10u6) ... Preparing to unpack .../1-libgssapi-krb5-2_1.17-3+deb10u5_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-3+deb10u5) over (1.17-3+deb10u4) ... Preparing to unpack .../2-libkrb5-3_1.17-3+deb10u5_amd64.deb ... Unpacking libkrb5-3:amd64 (1.17-3+deb10u5) over (1.17-3+deb10u4) ... Preparing to unpack .../3-libkrb5support0_1.17-3+deb10u5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-3+deb10u5) over (1.17-3+deb10u4) ... Preparing to unpack .../4-libk5crypto3_1.17-3+deb10u5_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-3+deb10u5) over (1.17-3+deb10u4) ... Preparing to unpack .../5-libcurl3-gnutls_7.64.0-4+deb10u6_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.64.0-4+deb10u6) over (7.64.0-4+deb10u2) ... Preparing to unpack .../6-libjs-jquery-ui_1.12.1+dfsg-5+deb10u1_all.deb ... Unpacking libjs-jquery-ui (1.12.1+dfsg-5+deb10u1) over (1.12.1+dfsg-5) ... Setting up libexpat1:amd64 (2.2.6-2+deb10u6) ... Setting up libssl1.1:amd64 (1.1.1n-0+deb10u5) ... Setting up libsqlite3-0:amd64 (3.27.2-3+deb10u2) ... Setting up libkrb5support0:amd64 (1.17-3+deb10u5) ... Setting up tzdata (2021a-0+deb10u11) ... Current default time zone: 'Etc/UTC' Local time is now: Tue Jul 25 11:47:44 UTC 2023. Universal Time is now: Tue Jul 25 11:47:44 UTC 2023. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpython2.7-minimal:amd64 (2.7.16-2+deb10u2) ... Setting up libjs-jquery-ui (1.12.1+dfsg-5+deb10u1) ... Setting up python2.7-minimal (2.7.16-2+deb10u2) ... Setting up libk5crypto3:amd64 (1.17-3+deb10u5) ... Setting up libkrb5-3:amd64 (1.17-3+deb10u5) ... Setting up libpython2.7-stdlib:amd64 (2.7.16-2+deb10u2) ... Setting up libgssapi-krb5-2:amd64 (1.17-3+deb10u5) ... Setting up python2.7 (2.7.16-2+deb10u2) ... Setting up libcurl3-gnutls:amd64 (7.64.0-4+deb10u6) ... Processing triggers for libc-bin (2.28-10+deb10u2) ... Processing triggers for mime-support (3.62) ... 0m38.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-yf', 'dist-upgrade'] 0m38.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.5s DUMP: 834ce0b5a72d85386740dfb10ed0d761 - 0m38.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m38.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'show', '--no-all-versions', 'hinge'] 0m38.7s DUMP: Package: hinge Version: 0.5.0-4 Installed-Size: 2790 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.27), libgcc1 (>= 1:3.0), libgomp1 (>= 4.2.1), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), python, daligner, dazzdb, dascrubber, python-numpy, python-ujson, python-configparser, python-colormap, python-pbcore, python-networkx, python-matplotlib Description-en: long read genome assembler based on hinging HINGE is a genome assembler that seeks to achieve optimal repeat resolution by distinguishing repeats that can be resolved given the data from those that cannot. This is accomplished by adding ??hinges?? to reads for constructing an overlap graph where only unresolvable repeats are merged. As a result, HINGE combines the error resilience of overlap-based assemblers with repeat-resolution capabilities of de Bruijn graph assemblers. Description-md5: 796f6bb30e0dd11acb73bb5eeeaf4c08 Homepage: https://github.com/HingeAssembler/HINGE Section: science Priority: optional Filename: pool/main/h/hinge/hinge_0.5.0-4_amd64.deb Size: 431864 MD5sum: ddba14e9f35733843d3388583c1c0f45 SHA256: 9fc2d7452bacf1b616d777eaac6f3f274584289a0e950f9e8fbbf17e3cd877ec 0m38.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'show', '--no-all-versions', 'hinge'] 0m38.7s INFO: apt-cache knows about the following packages: hinge 0m38.7s INFO: Running scripts pre_install 0m38.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_database-server'] 0m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_database-server'] 0m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_exceptions'] 0m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_exceptions'] 0m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_extras'] 0m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_extras'] 0m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture'] 0m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture'] 0m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy'] 0m38.8s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster-proposed-updates/main amd64 Packages release v=10-updates,o=Debian,a=oldoldstable-proposed-updates,n=buster-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian buster-updates/main amd64 Packages release o=Debian,a=oldoldstable-updates,n=buster-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org buster/updates/main amd64 Packages release v=10,o=Debian,a=oldoldstable,n=buster,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldoldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m38.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy'] 0m38.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy', 'hinge'] 0m38.9s DUMP: hinge: Installed: 0.5.0-4 Candidate: 0.5.0-4 Version table: *** 0.5.0-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 0m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy', 'hinge'] 0m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-y', 'install', 'hinge'] 0m39.3s DUMP: Reading package lists... Building dependency tree... Reading state information... hinge is already the newest version (0.5.0-4). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-y', 'install', 'hinge'] 0m39.3s INFO: Running scripts post_install 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_install_exceptions'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_install_exceptions'] 0m39.3s INFO: Running scripts post_distupgrade 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_exceptions'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_exceptions'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m39.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m39.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m39.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m39.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_zz_backports'] 0m39.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_distupgrade_zz_backports'] 0m39.4s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m39.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m39.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m40.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m40.3s INFO: Running scripts pre_install 0m40.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_database-server'] 0m40.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_database-server'] 0m40.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_exceptions'] 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_exceptions'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_extras'] 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_extras'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture'] 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy'] 0m40.4s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian buster-proposed-updates/main amd64 Packages release v=10-updates,o=Debian,a=oldoldstable-proposed-updates,n=buster-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian buster-updates/main amd64 Packages release o=Debian,a=oldoldstable-updates,n=buster-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org buster/updates/main amd64 Packages release v=10,o=Debian,a=oldoldstable,n=buster,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian buster/main amd64 Packages release v=10.13,o=Debian,a=oldoldstable,n=buster,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m40.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy'] 0m40.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy', 'hinge'] 0m40.5s DUMP: hinge: Installed: 0.5.0-4 Candidate: 0.5.0-4 Version table: *** 0.5.0-4 500 500 http://deb.debian.org/debian buster/main amd64 Packages 100 /var/lib/dpkg/status 0m40.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-cache', 'policy', 'hinge'] 0m40.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-y', 'install', 'hinge=0.5.0-4'] 0m41.0s DUMP: Reading package lists... Building dependency tree... Reading state information... hinge is already the newest version (0.5.0-4). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m41.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', '-y', 'install', 'hinge=0.5.0-4'] 0m41.0s INFO: Running scripts post_install 0m41.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_install_exceptions'] 0m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_install_exceptions'] 0m41.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m41.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m42.3s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', '-ac', '--ignore-obsolete'] 0m43.5s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', '-ac', '--ignore-obsolete'] 0m43.5s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m43.5s DUMP: 0.15.6 0m43.5s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m43.5s INFO: Running adequate version 0.15.6 now. 0m43.5s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'hinge'] 0m43.7s DUMP: hinge: py-file-not-bytecompiled /usr/lib/hinge/add_groundtruth_json.py hinge: py-file-not-bytecompiled /usr/lib/hinge/clip_ends.py hinge: py-file-not-bytecompiled /usr/lib/hinge/compute_n50_from_draft.py hinge: py-file-not-bytecompiled /usr/lib/hinge/create_hgraph_nogt.py hinge: py-file-not-bytecompiled /usr/lib/hinge/download_NCTC_pipeline.py hinge: py-file-not-bytecompiled /usr/lib/hinge/get_NCTC_json.py hinge: py-file-not-bytecompiled /usr/lib/hinge/get_single_strand.py 0m43.7s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'hinge'] 0m43.7s ERROR: WARN: Inadequate results from running adequate! hinge: py-file-not-bytecompiled /usr/lib/hinge/add_groundtruth_json.py hinge: py-file-not-bytecompiled /usr/lib/hinge/clip_ends.py hinge: py-file-not-bytecompiled /usr/lib/hinge/compute_n50_from_draft.py hinge: py-file-not-bytecompiled /usr/lib/hinge/create_hgraph_nogt.py hinge: py-file-not-bytecompiled /usr/lib/hinge/download_NCTC_pipeline.py hinge: py-file-not-bytecompiled /usr/lib/hinge/get_NCTC_json.py hinge: py-file-not-bytecompiled /usr/lib/hinge/get_single_strand.py 0m43.7s ERROR: WARN: Running adequate resulted in inadequate tags found: py-file-not-bytecompiled 0m43.7s INFO: Running scripts pre_remove 0m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m43.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m43.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m46.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m46.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m46.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_exceptions'] 0m46.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/pre_remove_exceptions'] 0m46.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m46.2s DUMP: install ok installed adduser adduser 3.118 install ok installed apt apt 1.8.2.3 install ok installed base-files base-files 10.3+deb10u13 install ok installed base-passwd base-passwd 3.5.46 install ok installed bash bash 5.0-4 install ok installed bsdutils bsdutils 1:2.33.1-0.1 install ok installed coreutils coreutils 8.30-3 install ok installed daligner daligner 1.0+git20180524.fd21879-1 install ok installed dascrubber dascrubber 1.1-1 install ok installed dash dash 0.5.10.2-5 install ok installed dazzdb dazzdb 1.0+git20180908.0bd5e07-1 install ok installed debconf debconf 1.5.71+deb10u1 install ok installed debian-archive-keyring debian-archive-keyring 2019.1+deb10u2 install ok installed debianutils debianutils 4.8.6.1 install ok installed diffutils diffutils 1:3.7-3 install ok installed dpkg dpkg 1.19.8 install ok installed e2fsprogs e2fsprogs 1.44.5-1+deb10u3 install ok installed fdisk fdisk 2.33.1-0.1 install ok installed findutils findutils 4.6.0+git+20190209-2 install ok installed fonts-lyx fonts-lyx 2.3.2-1 install ok installed gcc-8-base:amd64 gcc-8-base 8.3.0-6 install ok installed gpgv gpgv 2.2.12-1+deb10u2 install ok installed grep grep 3.3-1 install ok installed gzip gzip 1.9-3+deb10u1 install ok installed hinge hinge 0.5.0-4 install ok installed hostname hostname 3.21 install ok installed init-system-helpers init-system-helpers 1.56+nmu1 install ok installed libacl1:amd64 libacl1 2.2.53-4 install ok installed libapt-pkg5.0:amd64 libapt-pkg5.0 1.8.2.3 install ok installed libattr1:amd64 libattr1 1:2.4.48-4 install ok installed libaudit-common libaudit-common 1:2.8.4-3 install ok installed libaudit1:amd64 libaudit1 1:2.8.4-3 install ok installed libblas3:amd64 libblas3 3.8.0-2 install ok installed libblkid1:amd64 libblkid1 2.33.1-0.1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.6-9.2~deb10u2 install ok installed libc-bin libc-bin 2.28-10+deb10u2 install ok installed libc6:amd64 libc6 2.28-10+deb10u2 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2 install ok installed libcom-err2:amd64 libcom-err2 1.44.5-1+deb10u3 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 7.64.0-4+deb10u6 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.5 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.249 install ok installed libdeflate0:amd64 libdeflate0 1.2-1 install ok installed libexpat1:amd64 libexpat1 2.2.6-2+deb10u6 install ok installed libext2fs2:amd64 libext2fs2 1.44.5-1+deb10u3 install ok installed libfdisk1:amd64 libfdisk1 2.33.1-0.1 install ok installed libffi6:amd64 libffi6 3.2.1-9 install ok installed libfreetype6:amd64 libfreetype6 2.9.1-3+deb10u3 install ok installed libgcc1:amd64 libgcc1 1:8.3.0-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.4-5+deb10u1 install ok installed 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+deb10u10 install ok installed libgomp1:amd64 libgomp1 8.3.0-6 install ok installed libgpg-error0:amd64 libgpg-error0 1.35-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.17-3+deb10u5 install ok installed libhogweed4:amd64 libhogweed4 3.4.1-1+deb10u1 install ok installed libhts2:amd64 libhts2 1.9-12~deb10u1 install ok installed libidn2-0:amd64 libidn2-0 2.0.5-1+deb10u1 install ok installed libjs-jquery libjs-jquery 3.3.1~dfsg-3+deb10u1 install ok installed libjs-jquery-ui libjs-jquery-ui 1.12.1+dfsg-5+deb10u1 install ok installed libjs-sphinxdoc libjs-sphinxdoc 1.8.4-1 install ok installed libjs-underscore libjs-underscore 1.9.1~dfsg-1+deb10u1 install ok installed libk5crypto3:amd64 libk5crypto3 1.17-3+deb10u5 install ok installed libkeyutils1:amd64 libkeyutils1 1.6-6 install ok installed libkrb5-3:amd64 libkrb5-3 1.17-3+deb10u5 install ok installed libkrb5support0:amd64 libkrb5support0 1.17-3+deb10u5 install ok installed liblapack3:amd64 liblapack3 3.8.0-2 install ok installed libldap-2.4-2:amd64 libldap-2.4-2 2.4.47+dfsg-3+deb10u7 install ok installed libldap-common libldap-common 2.4.47+dfsg-3+deb10u7 install ok installed liblz4-1:amd64 liblz4-1 1.8.3-1+deb10u1 install ok installed liblzma5:amd64 liblzma5 5.2.4-1+deb10u1 install ok installed libmount1:amd64 libmount1 2.33.1-0.1 install ok installed libncursesw6:amd64 libncursesw6 6.1+20181013-2+deb10u3 install ok installed libnettle6:amd64 libnettle6 3.4.1-1+deb10u1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.36.0-2+deb10u1 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.15-2+deb10u1 install ok installed libpam-modules:amd64 libpam-modules 1.3.1-5 install ok installed libpam-modules-bin libpam-modules-bin 1.3.1-5 install ok installed libpam-runtime libpam-runtime 1.3.1-5 install ok installed libpam0g:amd64 libpam0g 1.3.1-5 install ok installed libpcre3:amd64 libpcre3 2:8.39-12 install ok installed libpng16-16:amd64 libpng16-16 1.6.36-6 install ok installed libpsl5:amd64 libpsl5 0.20.2-2 install ok installed libpython-stdlib:amd64 libpython-stdlib 2.7.16-1 install ok installed libpython2-stdlib:amd64 libpython2-stdlib 2.7.16-1 install ok installed libpython2.7-minimal:amd64 libpython2.7-minimal 2.7.16-2+deb10u2 install ok installed libpython2.7-stdlib:amd64 libpython2.7-stdlib 2.7.16-2+deb10u2 install ok installed libquadmath0:amd64 libquadmath0 8.3.0-6 install ok installed libreadline7:amd64 libreadline7 7.0-5 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.27+dfsg-1+deb10u2 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.27+dfsg-1+deb10u2 install ok installed libseccomp2:amd64 libseccomp2 2.3.3-4 install ok installed libselinux1:amd64 libselinux1 2.8-1+b1 install ok installed libsemanage-common libsemanage-common 2.8-2 install ok installed libsemanage1:amd64 libsemanage1 2.8-2 install ok installed libsepol1:amd64 libsepol1 2.8-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.33.1-0.1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.27.2-3+deb10u2 install ok installed libss2:amd64 libss2 1.44.5-1+deb10u3 install ok installed libssh2-1:amd64 libssh2-1 1.8.0-2.1 install ok installed libssl1.1:amd64 libssl1.1 1.1.1n-0+deb10u5 install ok installed libstdc++6:amd64 libstdc++6 8.3.0-6 install ok installed libsystemd0:amd64 libsystemd0 241-7~deb10u10 install ok installed libtasn1-6:amd64 libtasn1-6 4.13-3+deb10u1 install ok installed libtinfo6:amd64 libtinfo6 6.1+20181013-2+deb10u3 install ok installed libudev1:amd64 libudev1 241-7~deb10u10 install ok installed libunistring2:amd64 libunistring2 0.9.10-1 install ok installed libuuid1:amd64 libuuid1 2.33.1-0.1 install ok installed libzstd1:amd64 libzstd1 1.3.8+dfsg-3+deb10u2 install ok installed login login 1:4.5-1.1 install ok installed mawk mawk 1.3.3-17+b3 install ok installed mime-support mime-support 3.62 install ok installed mount mount 2.33.1-0.1 install ok installed ncurses-base ncurses-base 6.1+20181013-2+deb10u3 install ok installed ncurses-bin ncurses-bin 6.1+20181013-2+deb10u3 install ok installed passwd passwd 1:4.5-1.1 install ok installed perl-base perl-base 5.28.1-6+deb10u1 install ok installed python python 2.7.16-1 install ok installed python-appdirs python-appdirs 1.4.3-1 install ok installed python-backports.functools-lru-cache python-backports.functools-lru-cache 1.5-3 install ok installed python-colorama python-colorama 0.3.7-1 install ok installed python-colorlog python-colorlog 4.0.1-1 install ok installed python-colormap python-colormap 1.0.2-1 install ok installed python-configparser python-configparser 3.5.0b2-1 install ok installed python-cycler python-cycler 0.10.0-1 install ok installed python-dateutil python-dateutil 2.7.3-3 install ok installed python-decorator python-decorator 4.3.0-1.1 install ok installed python-easydev python-easydev 0.9.37-1 install ok installed python-kiwisolver python-kiwisolver 1.0.1-2+b1 install ok installed python-matplotlib python-matplotlib 2.2.3-6 install ok installed python-matplotlib2-data python-matplotlib2-data 2.2.3-6 install ok installed python-minimal python-minimal 2.7.16-1 install ok installed python-networkx python-networkx 2.2-1 install ok installed python-numpy python-numpy 1:1.16.2-1 install ok installed python-pbcore python-pbcore 1.6.5+dfsg-1 install ok installed python-pexpect python-pexpect 4.6.0-1 install ok installed python-pkg-resources python-pkg-resources 40.8.0-1 install ok installed python-ptyprocess python-ptyprocess 0.6.0-1 install ok installed python-pyparsing python-pyparsing 2.2.0+dfsg1-2 install ok installed python-pysam python-pysam 0.15.2+ds-2 install ok installed python-six python-six 1.12.0-1 install ok installed python-subprocess32 python-subprocess32 3.5.3-1 install ok installed python-tz python-tz 2019.1-1 install ok installed python-ujson python-ujson 1.35-3 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+deb10u2 install ok installed python2.7-minimal python2.7-minimal 2.7.16-2+deb10u2 install ok installed readline-common readline-common 7.0-5 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.93-8 install ok installed tar tar 1.30+dfsg-6 install ok installed ttf-bitstream-vera ttf-bitstream-vera 1.10-8 install ok installed tzdata tzdata 2021a-0+deb10u11 install ok installed util-linux util-linux 2.33.1-0.1 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-1+deb10u2 0m46.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m46.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'remove', 'daligner', 'dascrubber', 'dazzdb', 'fonts-lyx', 'libblas3:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts2:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'libnghttp2-14:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'mime-support', 'python', 'python-appdirs', 'python-backports.functools-lru-cache', 'python-colorama', 'python-colorlog', 'python-colormap', 'python-configparser', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-easydev', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib2-data', 'python-minimal', 'python-networkx', 'python-numpy', 'python-pbcore', 'python-pexpect', 'python-pkg-resources', 'python-ptyprocess', 'python-pyparsing', 'python-pysam', 'python-six', 'python-subprocess32', 'python-tz', 'python-ujson', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'ttf-bitstream-vera', 'hinge'] 0m49.7s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: daligner dascrubber dazzdb fonts-lyx hinge libblas3 libcurl3-gnutls libdeflate0 libexpat1 libfreetype6 libgfortran5 libgomp1 libgssapi-krb5-2 libhts2 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.4-2 libldap-common libnghttp2-14 libpng16-16 libpsl5 libpython-stdlib libpython2-stdlib libpython2.7-minimal libpython2.7-stdlib libquadmath0 libreadline7 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl1.1 mime-support python python-appdirs python-backports.functools-lru-cache python-colorama python-colorlog python-colormap python-configparser python-cycler python-dateutil python-decorator python-easydev python-kiwisolver python-matplotlib python-matplotlib2-data python-minimal python-networkx python-numpy python-pbcore python-pexpect python-pkg-resources python-ptyprocess python-pyparsing python-pysam python-six python-subprocess32 python-tz python-ujson python2 python2-minimal python2.7 python2.7-minimal readline-common ttf-bitstream-vera 0 upgraded, 0 newly installed, 74 to remove and 0 not upgraded. After this operation, 119 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 ... 10545 files and directories currently installed.) Removing hinge (0.5.0-4) ... Removing daligner (1.0+git20180524.fd21879-1) ... Removing dascrubber (1.1-1) ... Removing dazzdb (1.0+git20180908.0bd5e07-1) ... Removing python-colormap (1.0.2-1) ... Removing python-matplotlib (2.2.3-6) ... Removing python-matplotlib2-data (2.2.3-6) ... Removing fonts-lyx (2.3.2-1) ... Removing python-pbcore (1.6.5+dfsg-1) ... Removing python-numpy (1:1.16.2-1) ... Removing liblapack3:amd64 (3.8.0-2) ... Removing libblas3:amd64 (3.8.0-2) ... Removing python-pysam (0.15.2+ds-2) ... Removing libhts2:amd64 (1.9-12~deb10u1) ... Removing libcurl3-gnutls:amd64 (7.64.0-4+deb10u6) ... Removing libdeflate0:amd64 (1.2-1) ... Removing python-ujson (1.35-3) ... Removing python-dateutil (2.7.3-3) ... Removing python-cycler (0.10.0-1) ... Removing python-six (1.12.0-1) ... Removing python-subprocess32 (3.5.3-1) ... Removing python-tz (2019.1-1) ... Removing libfreetype6:amd64 (2.9.1-3+deb10u3) ... Removing libgfortran5:amd64 (8.3.0-6) ... Removing libgomp1:amd64 (8.3.0-6) ... Removing libgssapi-krb5-2:amd64 (1.17-3+deb10u5) ... Removing libjs-jquery-ui (1.12.1+dfsg-5+deb10u1) ... Removing python-configparser (3.5.0b2-1) ... Removing libjs-sphinxdoc (1.8.4-1) ... Removing libjs-jquery (3.3.1~dfsg-3+deb10u1) ... Removing libjs-underscore (1.9.1~dfsg-1+deb10u1) ... Removing libkrb5-3:amd64 (1.17-3+deb10u5) ... Removing libk5crypto3:amd64 (1.17-3+deb10u5) ... Removing libkrb5support0:amd64 (1.17-3+deb10u5) ... Removing libkeyutils1:amd64 (1.6-6) ... Removing libldap-2.4-2:amd64 (2.4.47+dfsg-3+deb10u7) ... Removing libldap-common (2.4.47+dfsg-3+deb10u7) ... Removing libnghttp2-14:amd64 (1.36.0-2+deb10u1) ... Removing libpng16-16:amd64 (1.6.36-6) ... Removing libpsl5:amd64 (0.20.2-2) ... Removing libquadmath0:amd64 (8.3.0-6) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Removing libsasl2-2:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libsasl2-modules-db:amd64 (2.1.27+dfsg-1+deb10u2) ... Removing libssh2-1:amd64 (1.8.0-2.1) ... Removing python-easydev (0.9.37-1) ... Removing python-appdirs (1.4.3-1) ... Removing python-backports.functools-lru-cache (1.5-3) ... E: namespace:121: cannot remove /usr/lib/python2.7/dist-packages/backports/__init__.py Removing python-colorama (0.3.7-1) ... Removing python-colorlog (4.0.1-1) ... Removing python-networkx (2.2-1) ... Removing python-decorator (4.3.0-1.1) ... Removing python-kiwisolver (1.0.1-2+b1) ... Removing python-pexpect (4.6.0-1) ... Removing python-pkg-resources (40.8.0-1) ... Removing python-ptyprocess (0.6.0-1) ... Removing python-pyparsing (2.2.0+dfsg1-2) ... Removing ttf-bitstream-vera (1.10-8) ... Removing python (2.7.16-1) ... Removing python2 (2.7.16-1) ... Removing python2.7 (2.7.16-2+deb10u2) ... Removing libpython-stdlib:amd64 (2.7.16-1) ... Removing libpython2-stdlib:amd64 (2.7.16-1) ... Removing python-minimal (2.7.16-1) ... Removing python2-minimal (2.7.16-1) ... Removing python2.7-minimal (2.7.16-2+deb10u2) ... Removing libpython2.7-stdlib:amd64 (2.7.16-2+deb10u2) ... Removing libexpat1:amd64 (2.2.6-2+deb10u6) ... Removing libpython2.7-minimal:amd64 (2.7.16-2+deb10u2) ... find: '/usr/lib/python2.7': No such file or directory Removing libreadline7:amd64 (7.0-5) ... Removing libsqlite3-0:amd64 (3.27.2-3+deb10u2) ... Removing libssl1.1:amd64 (1.1.1n-0+deb10u5) ... Removing mime-support (3.62) ... Removing readline-common (7.0-5) ... Processing triggers for libc-bin (2.28-10+deb10u2) ... 0m49.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'remove', 'daligner', 'dascrubber', 'dazzdb', 'fonts-lyx', 'libblas3:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts2:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'libnghttp2-14:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'mime-support', 'python', 'python-appdirs', 'python-backports.functools-lru-cache', 'python-colorama', 'python-colorlog', 'python-colormap', 'python-configparser', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-easydev', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib2-data', 'python-minimal', 'python-networkx', 'python-numpy', 'python-pbcore', 'python-pexpect', 'python-pkg-resources', 'python-ptyprocess', 'python-pyparsing', 'python-pysam', 'python-six', 'python-subprocess32', 'python-tz', 'python-ujson', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'ttf-bitstream-vera', 'hinge'] 0m49.7s INFO: Running scripts post_remove 0m49.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_remove_exceptions'] 0m49.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_remove_exceptions'] 0m49.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--purge', 'daligner', 'dascrubber', 'dazzdb', 'fonts-lyx', 'libblas3:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts2:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'libnghttp2-14:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'mime-support', 'python', 'python-appdirs', 'python-backports.functools-lru-cache', 'python-colorama', 'python-colorlog', 'python-colormap', 'python-configparser', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-easydev', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib2-data', 'python-minimal', 'python-networkx', 'python-numpy', 'python-pbcore', 'python-pexpect', 'python-pkg-resources', 'python-ptyprocess', 'python-pyparsing', 'python-pysam', 'python-six', 'python-subprocess32', 'python-tz', 'python-ujson', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'ttf-bitstream-vera'] 0m49.9s DUMP: dpkg: warning: ignoring request to remove daligner which isn't installed dpkg: warning: ignoring request to remove dascrubber which isn't installed dpkg: warning: ignoring request to remove dazzdb which isn't installed dpkg: warning: ignoring request to remove fonts-lyx which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libcurl3-gnutls which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed (Reading database ... 6478 files and directories currently installed.) Purging configuration files for libgssapi-krb5-2:amd64 (1.17-3+deb10u5) ... dpkg: warning: ignoring request to remove libhts2 which isn't installed dpkg: warning: ignoring request to remove libjs-jquery which isn't installed Purging configuration files for libjs-jquery-ui (1.12.1+dfsg-5+deb10u1) ... dpkg: warning: ignoring request to remove libjs-sphinxdoc which isn't installed dpkg: warning: ignoring request to remove libjs-underscore which isn't installed dpkg: warning: ignoring request to remove 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 liblapack3 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 which isn't installed Purging configuration files for libldap-common (2.4.47+dfsg-3+deb10u7) ... dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython2-stdlib which isn't installed Purging configuration files for libpython2.7-minimal:amd64 (2.7.16-2+deb10u2) ... 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 libreadline7 which isn't installed dpkg: warning: ignoring request to remove librtmp1 which isn't installed dpkg: warning: ignoring request to remove libsasl2-2 which isn't installed dpkg: warning: ignoring request to remove libsasl2-modules-db which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1 which isn't installed Purging configuration files for libssl1.1:amd64 (1.1.1n-0+deb10u5) ... Purging configuration files for mime-support (3.62) ... Purging configuration files for python (2.7.16-1) ... dpkg: warning: ignoring request to remove python-appdirs which isn't installed dpkg: warning: ignoring request to remove python-backports.functools-lru-cache which isn't installed dpkg: warning: ignoring request to remove python-colorama which isn't installed dpkg: warning: ignoring request to remove python-colorlog which isn't installed dpkg: warning: ignoring request to remove python-colormap which isn't installed dpkg: warning: ignoring request to remove python-configparser which isn't installed dpkg: warning: ignoring request to remove python-cycler which isn't installed dpkg: warning: ignoring request to remove python-dateutil which isn't installed dpkg: warning: ignoring request to remove python-decorator which isn't installed dpkg: warning: ignoring request to remove python-easydev which isn't installed dpkg: warning: ignoring request to remove python-kiwisolver which isn't installed dpkg: warning: ignoring request to remove python-matplotlib which isn't installed Purging configuration files for python-matplotlib2-data (2.2.3-6) ... dpkg: warning: ignoring request to remove python-minimal which isn't installed dpkg: warning: ignoring request to remove python-networkx which isn't installed dpkg: warning: ignoring request to remove python-numpy which isn't installed dpkg: warning: ignoring request to remove python-pbcore which isn't installed dpkg: warning: ignoring request to remove python-pexpect which isn't installed dpkg: warning: ignoring request to remove python-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python-ptyprocess which isn't installed dpkg: warning: ignoring request to remove python-pyparsing which isn't installed dpkg: warning: ignoring request to remove python-pysam which isn't installed dpkg: warning: ignoring request to remove python-six which isn't installed dpkg: warning: ignoring request to remove python-subprocess32 which isn't installed dpkg: warning: ignoring request to remove python-tz which isn't installed dpkg: warning: ignoring request to remove python-ujson 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+deb10u2) ... Purging configuration files for readline-common (7.0-5) ... dpkg: warning: ignoring request to remove ttf-bitstream-vera which isn't installed 0m49.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--purge', 'daligner', 'dascrubber', 'dazzdb', 'fonts-lyx', 'libblas3:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfreetype6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libhts2:amd64', 'libjs-jquery', 'libjs-jquery-ui', 'libjs-sphinxdoc', 'libjs-underscore', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-common', 'libnghttp2-14:amd64', 'libpng16-16:amd64', 'libpsl5:amd64', 'libpython-stdlib:amd64', 'libpython2-stdlib:amd64', 'libpython2.7-minimal:amd64', 'libpython2.7-stdlib:amd64', 'libquadmath0:amd64', 'libreadline7:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl1.1:amd64', 'mime-support', 'python', 'python-appdirs', 'python-backports.functools-lru-cache', 'python-colorama', 'python-colorlog', 'python-colormap', 'python-configparser', 'python-cycler', 'python-dateutil', 'python-decorator', 'python-easydev', 'python-kiwisolver', 'python-matplotlib', 'python-matplotlib2-data', 'python-minimal', 'python-networkx', 'python-numpy', 'python-pbcore', 'python-pexpect', 'python-pkg-resources', 'python-ptyprocess', 'python-pyparsing', 'python-pysam', 'python-six', 'python-subprocess32', 'python-tz', 'python-ujson', 'python2', 'python2-minimal', 'python2.7', 'python2.7-minimal', 'readline-common', 'ttf-bitstream-vera'] 0m49.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--purge', 'hinge'] 0m49.9s DUMP: dpkg: warning: ignoring request to remove hinge which isn't installed 0m49.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--purge', 'hinge'] 0m49.9s INFO: Running scripts post_purge 0m49.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_purge_exceptions'] 0m49.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_purge_exceptions'] 0m49.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--purge', '--pending'] 0m49.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--purge', '--pending'] 0m49.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--remove', '--pending'] 0m49.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg', '--remove', '--pending'] 0m49.9s INFO: Running scripts post_test 0m49.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_test_exceptions'] 0m49.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'tmp/scripts/post_test_exceptions'] 0m49.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m50.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m50.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg-divert', '--list'] 0m50.3s 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 0m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'dpkg-divert', '--list'] 0m50.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'clean'] 0m50.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3', 'apt-get', 'clean'] 0m50.3s DEBUG: Recording chroot state 0m51.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/shm'] 0m51.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/shm'] 0m51.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/console'] 0m51.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/console'] 0m51.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/ptmx'] 0m51.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/ptmx'] 0m51.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/pts'] 0m51.2s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/dev/pts'] 0m51.2s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/proc'] 0m51.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3/proc'] 0m51.3s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m51.4s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpwa2f1lt3'] 0m51.4s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpwa2f1lt3 0m51.4s INFO: PASS: Upgrading between Debian distributions. 0m51.4s INFO: PASS: All tests. 0m51.4s INFO: piuparts run ends. ret=0 End: 2023-07-25 11:47:59 GMT