Start: 2024-08-23 09:48:59 GMT [bookworm] Package: shasta Source: shasta (0.11.1-1) Version: 0.11.1-1+b1 Installed-Size: 2639 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libboost-chrono1.74.0 (>= 1.74.0), libboost-program-options1.74.0 (>= 1.74.0), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 11), python3-shasta (= 0.11.1-1+b1) Description: nanopore whole genome assembly (binaries and scripts) Homepage: https://github.com/chanzuckerberg/shasta Description-md5: 7bb8ac3039d8e82623b175abb8ab2e67 Section: science Priority: optional Filename: pool/main/s/shasta/shasta_0.11.1-1+b1_amd64.deb Size: 622960 MD5sum: 7411379de895f282b3a7e46efa55a077 SHA256: 0f828413cc96d41949a9352f0d335cff082110dd52aa54b8077d410ac054ab77 [bookworm-next] Package: shasta Source: shasta (0.11.1-1) Version: 0.11.1-1+b1 Installed-Size: 2639 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libboost-chrono1.74.0 (>= 1.74.0), libboost-program-options1.74.0 (>= 1.74.0), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 11), python3-shasta (= 0.11.1-1+b1) Description: nanopore whole genome assembly (binaries and scripts) Homepage: https://github.com/chanzuckerberg/shasta Description-md5: 7bb8ac3039d8e82623b175abb8ab2e67 Section: science Priority: optional Filename: pool/main/s/shasta/shasta_0.11.1-1+b1_amd64.deb Size: 622960 MD5sum: 7411379de895f282b3a7e46efa55a077 SHA256: 0f828413cc96d41949a9352f0d335cff082110dd52aa54b8077d410ac054ab77 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-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d bookworm -d bookworm-next -B /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat --apt shasta=0.11.1-1+b1 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 1.4.4~202408201642~1.4.3-11-g36a88c35 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-usr-move fail --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz -d bookworm -d bookworm-next -B /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat --apt shasta=0.11.1-1+b1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-32-amd64 #1 SMP Debian 5.10.223-1 (2024-08-10) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp7psl6qdk 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp7psl6qdk 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/proc'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/proc'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/pts'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/pts'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/ptmx'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/ptmx'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/7', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/console'] 0m0.4s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/7', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/console'] 0m0.4s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/shm'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/shm'] 0m0.4s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m0.4s DEBUG: Created policy-rc.d and chmodded it. 0m0.4s DEBUG: Created resolv.conf. 0m0.4s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp7psl6qdk/tmp/scripts/ 0m0.4s INFO: Running scripts post_chroot_unpack 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'update'] 0m1.2s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'update'] 0m1.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-yf', 'dist-upgrade'] 0m1.6s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-yf', 'dist-upgrade'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.0s DUMP: 913e17be84ed63a3110ce3137c1d003a - 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.0s INFO: Running scripts post_setup 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_dummy_users'] 0m3.0s DUMP: useradd warning: dummy1000's uid 1000 is greater than SYS_UID_MAX 999 useradd warning: dummy1001's uid 1001 is greater than SYS_UID_MAX 999 useradd warning: dummy1002's uid 1002 is greater than SYS_UID_MAX 999 useradd warning: dummy1003's uid 1003 is greater than SYS_UID_MAX 999 useradd warning: dummy1004's uid 1004 is greater than SYS_UID_MAX 999 useradd warning: dummy1005's uid 1005 is greater than SYS_UID_MAX 999 useradd warning: dummy1006's uid 1006 is greater than SYS_UID_MAX 999 useradd warning: dummy1007's uid 1007 is greater than SYS_UID_MAX 999 useradd warning: dummy1008's uid 1008 is greater than SYS_UID_MAX 999 useradd warning: dummy1009's uid 1009 is greater than SYS_UID_MAX 999 useradd warning: dummy1010's uid 1010 is greater than SYS_UID_MAX 999 0m3.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_dummy_users'] 0m3.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_forbid_home'] 0m3.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_forbid_home'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.1s DUMP: Enabling dpkg --force-unsafe-io. Adding 'local diversion of /usr/bin/sync to /usr/bin/sync.distrib' Adding 'local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged' '/bin/sync' -> 'true' 0m3.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_minimize'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_minimize'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_zz_backports'] 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_setup_zz_backports'] 0m3.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.2s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u6 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u7 install ok installed libc6:amd64 libc6 2.36-9+deb12u7 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.26-1~deb12u2 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libudev1:amd64 libudev1 252.26-1~deb12u2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m3.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.2s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/bookworm2next/reference-chroot-metadata.dat 0m3.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m3.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m3.8s INFO: Running scripts is_testable 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/is_testable_uninstallable'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/is_testable_uninstallable'] 0m3.8s INFO: Running scripts pre_test 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_test_exceptions'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_test_exceptions'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_test_root_password'] 0m3.8s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_test_root_password'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'show', '--no-all-versions', 'shasta'] 0m4.0s DUMP: Package: shasta Source: shasta (0.11.1-1) Version: 0.11.1-1+b1 Installed-Size: 2639 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libboost-chrono1.74.0 (>= 1.74.0), libboost-program-options1.74.0 (>= 1.74.0), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 11), python3-shasta (= 0.11.1-1+b1) Description-en: nanopore whole genome assembly (binaries and scripts) De novo assembly from Oxford Nanopore reads. The goal of the Shasta long read assembler is to rapidly produce accurate assembled sequence using as input DNA reads generated by Oxford Nanopore flow cells. . Computational methods used by the Shasta assembler include: . * Using a run-length representation of the read sequence. This makes the assembly process more resilient to errors in homopolymer repeat counts, which are the most common type of errors in Oxford Nanopore reads. . * Using in some phases of the computation a representation of the read sequence based on markers, a fixed subset of short k-mers (k ?? 10). . Shasta assembly quality is comparable or better than assembly quality achieved by other long read assemblers. . This package contains the executable binaries (tools) and accommodating scripts. Description-md5: 7bb8ac3039d8e82623b175abb8ab2e67 Homepage: https://github.com/chanzuckerberg/shasta Section: science Priority: optional Filename: pool/main/s/shasta/shasta_0.11.1-1+b1_amd64.deb Size: 622960 MD5sum: 7411379de895f282b3a7e46efa55a077 SHA256: 0f828413cc96d41949a9352f0d335cff082110dd52aa54b8077d410ac054ab77 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'show', '--no-all-versions', 'shasta'] 0m4.0s INFO: apt-cache knows about the following packages: shasta 0m4.0s INFO: Running scripts pre_install 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_database-server'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_database-server'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_exceptions'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_exceptions'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_extras'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_extras'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy'] 0m4.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy', 'shasta'] 0m4.2s DUMP: shasta: Installed: (none) Candidate: 0.11.1-1+b1 Version table: 0.11.1-1+b1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m4.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy', 'shasta'] 0m4.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-y', 'install', 'shasta'] 0m12.2s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: libblas3 libboost-chrono1.74.0 libboost-program-options1.74.0 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libpcre3 libperl5.36 libpng16-16 libpython3-stdlib libpython3.11 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 libspoa7.0.0 libsqlite3-0 libssl3 libtirpc-common libtirpc3 media-types ncbi-blast+ ncbi-data perl perl-modules-5.36 python3 python3-minimal python3-shasta python3.11 python3.11-minimal readline-common Suggested packages: gdbm-l10n krb5-doc krb5-user sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv python3.11-venv python3.11-doc binutils binfmt-support readline-doc Recommended packages: krb5-locales libgpm2 netbase ca-certificates The following NEW packages will be installed: libblas3 libboost-chrono1.74.0 libboost-program-options1.74.0 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libpcre3 libperl5.36 libpng16-16 libpython3-stdlib libpython3.11 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 libspoa7.0.0 libsqlite3-0 libssl3 libtirpc-common libtirpc3 media-types ncbi-blast+ ncbi-data perl perl-modules-5.36 python3 python3-minimal python3-shasta python3.11 python3.11-minimal readline-common shasta 0 upgraded, 46 newly installed, 0 to remove and 0 not upgraded. Need to get 42.3 MB of archives. After this operation, 196 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-7+deb12u1 [2815 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-7+deb12u1 [4218 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-7+deb12u1 [239 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.13-1~deb12u1 [2022 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6+deb12u2 [814 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6+deb12u2 [2067 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.4-4 [134 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:16 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6+deb12u2 [1799 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6+deb12u2 [573 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get:27 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 libboost-chrono1.74.0 amd64 1.74.0+ds1-21 [228 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 libboost-program-options1.74.0 amd64 1.74.0+ds1-21 [329 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 liblmdb0 amd64 0.9.24-1 [45.0 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libmbedcrypto7 amd64 2.28.3-1 [277 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 libmbedx509-1 amd64 2.28.3-1 [128 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libmbedtls14 amd64 2.28.3-1 [163 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libpcre3 amd64 2:8.39-15 [341 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 libpython3.11 amd64 3.11.2-6+deb12u2 [1987 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libspoa7.0.0 amd64 4.0.8-1 [68.4 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 ncbi-data all 6.1.20170106+dfsg1-10 [3557 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 ncbi-blast+ amd64 2.12.0+ds-3+b1 [11.9 MB] Get:45 http://deb.debian.org/debian bookworm/main amd64 python3-shasta amd64 0.11.1-1+b1 [2009 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 shasta amd64 0.11.1-1+b1 [623 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 42.3 MB in 1s (79.8 MB/s) Selecting previously unselected package perl-modules-5.36. (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 ... 6093 files and directories currently installed.) Preparing to unpack .../0-perl-modules-5.36_5.36.0-7+deb12u1_all.deb ... Unpacking perl-modules-5.36 (5.36.0-7+deb12u1) ... Selecting previously unselected package libgdbm6:amd64. Preparing to unpack .../1-libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. 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Selecting previously unselected package libpython3.11:amd64. Preparing to unpack .../14-libpython3.11_3.11.2-6+deb12u2_amd64.deb ... Unpacking libpython3.11:amd64 (3.11.2-6+deb12u2) ... Selecting previously unselected package libspoa7.0.0:amd64. Preparing to unpack .../15-libspoa7.0.0_4.0.8-1_amd64.deb ... Unpacking libspoa7.0.0:amd64 (4.0.8-1) ... Selecting previously unselected package ncbi-data. Preparing to unpack .../16-ncbi-data_6.1.20170106+dfsg1-10_all.deb ... Unpacking ncbi-data (6.1.20170106+dfsg1-10) ... Selecting previously unselected package ncbi-blast+. Preparing to unpack .../17-ncbi-blast+_2.12.0+ds-3+b1_amd64.deb ... Unpacking ncbi-blast+ (2.12.0+ds-3+b1) ... Selecting previously unselected package python3-shasta. Preparing to unpack .../18-python3-shasta_0.11.1-1+b1_amd64.deb ... Unpacking python3-shasta (0.11.1-1+b1) ... Selecting previously unselected package shasta. Preparing to unpack .../19-shasta_0.11.1-1+b1_amd64.deb ... Unpacking shasta (0.11.1-1+b1) ... Setting up libboost-chrono1.74.0:amd64 (1.74.0+ds1-21) ... Setting up media-types (10.0.0) ... Setting up liblmdb0:amd64 (0.9.24-1) ... Setting up ncbi-data (6.1.20170106+dfsg1-10) ... Setting up libkeyutils1:amd64 (1.6.3-2) ... Setting up libboost-program-options1.74.0:amd64 (1.74.0+ds1-21) ... Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up libgomp1:amd64 (12.2.0-14) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Setting up libpcre3:amd64 (2:8.39-15) ... Setting up perl-modules-5.36 (5.36.0-7+deb12u1) ... Setting up libblas3:amd64 (3.11.0-2) ... 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 libmbedcrypto7:amd64 (2.28.3-1) ... Setting up libquadmath0:amd64 (12.2.0-14) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libspoa7.0.0:amd64 (4.0.8-1) ... Setting up libncursesw6:amd64 (6.4-4) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Setting up libgfortran5:amd64 (12.2.0-14) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Setting up readline-common (8.2-1.3) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up liblapack3:amd64 (3.11.0-2) ... 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 libmbedx509-1:amd64 (2.28.3-1) ... Setting up libmbedtls14:amd64 (2.28.3-1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u1) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up perl (5.36.0-7+deb12u1) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6+deb12u2) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6+deb12u2) ... Setting up libpython3.11:amd64 (3.11.2-6+deb12u2) ... Setting up python3 (3.11.2-1+b1) ... Setting up ncbi-blast+ (2.12.0+ds-3+b1) ... Setting up python3-shasta (0.11.1-1+b1) ... Setting up shasta (0.11.1-1+b1) ... Processing triggers for libc-bin (2.36-9+deb12u7) ... 0m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-y', 'install', 'shasta'] 0m12.2s INFO: Running scripts post_install 0m12.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_install_exceptions'] 0m12.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_install_exceptions'] 0m12.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m12.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m12.9s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp7psl6qdk to bookworm-next 0m12.9s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main deb http://security.debian.org bookworm-security main deb http://deb.debian.org/debian/ bookworm-updates main deb http://deb.debian.org/debian/ bookworm-proposed-updates main 0m12.9s INFO: Running scripts pre_distupgrade 0m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_exceptions'] 0m12.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_exceptions'] 0m12.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m13.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m13.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'update'] 0m14.7s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Get:2 http://security.debian.org bookworm-security InRelease [48.0 kB] Get:3 http://deb.debian.org/debian bookworm-updates InRelease [55.4 kB] Get:4 http://deb.debian.org/debian bookworm-proposed-updates InRelease [59.5 kB] Get:5 http://security.debian.org bookworm-security/main amd64 Packages [176 kB] Get:6 http://security.debian.org bookworm-security/main Translation-en [106 kB] Get:7 http://deb.debian.org/debian bookworm-updates/main amd64 Packages [13.8 kB] Get:8 http://deb.debian.org/debian bookworm-updates/main Translation-en [16.0 kB] Get:9 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages [111 kB] Get:10 http://deb.debian.org/debian bookworm-proposed-updates/main Translation-en [64.5 kB] Fetched 650 kB in 1s (799 kB/s) Reading package lists... 0m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'update'] 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-yf', 'dist-upgrade'] 0m17.3s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libc-bin libc6 libgssapi-krb5-2 libk5crypto3 libkrb5-3 libkrb5support0 libssl3 libsystemd0 libudev1 9 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 6404 kB of archives. After this operation, 18.4 kB of additional disk space will be used. Get:1 http://security.debian.org bookworm-security/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u2 [135 kB] Get:2 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libc6 amd64 2.36-9+deb12u8 [2754 kB] Get:3 http://security.debian.org bookworm-security/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u2 [332 kB] Get:4 http://security.debian.org bookworm-security/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u2 [32.6 kB] Get:5 http://security.debian.org bookworm-security/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u2 [78.7 kB] Get:6 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libc-bin amd64 2.36-9+deb12u8 [608 kB] Get:7 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libsystemd0 amd64 252.29-1~deb12u1 [332 kB] Get:8 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libudev1 amd64 252.29-1~deb12u1 [108 kB] Get:9 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 libssl3 amd64 3.0.14-1~deb12u1 [2024 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6404 kB in 0s (70.0 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 ... 9466 files and directories currently installed.) Preparing to unpack .../libc6_2.36-9+deb12u8_amd64.deb ... Unpacking libc6:amd64 (2.36-9+deb12u8) over (2.36-9+deb12u7) ... Setting up libc6:amd64 (2.36-9+deb12u8) ... (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 ... 9466 files and directories currently installed.) Preparing to unpack .../libc-bin_2.36-9+deb12u8_amd64.deb ... Unpacking libc-bin (2.36-9+deb12u8) over (2.36-9+deb12u7) ... Setting up libc-bin (2.36-9+deb12u8) ... (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 ... 9466 files and directories currently installed.) Preparing to unpack .../libsystemd0_252.29-1~deb12u1_amd64.deb ... Unpacking libsystemd0:amd64 (252.29-1~deb12u1) over (252.26-1~deb12u2) ... Setting up libsystemd0:amd64 (252.29-1~deb12u1) ... (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 ... 9466 files and directories currently installed.) Preparing to unpack .../libudev1_252.29-1~deb12u1_amd64.deb ... Unpacking libudev1:amd64 (252.29-1~deb12u1) over (252.26-1~deb12u2) ... Setting up libudev1:amd64 (252.29-1~deb12u1) ... (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 ... 9466 files and directories currently installed.) Preparing to unpack .../libgssapi-krb5-2_1.20.1-2+deb12u2_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libkrb5-3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5-3:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libkrb5support0_1.20.1-2+deb12u2_amd64.deb ... Unpacking libkrb5support0:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libk5crypto3_1.20.1-2+deb12u2_amd64.deb ... Unpacking libk5crypto3:amd64 (1.20.1-2+deb12u2) over (1.20.1-2+deb12u1) ... Preparing to unpack .../libssl3_3.0.14-1~deb12u1_amd64.deb ... Unpacking libssl3:amd64 (3.0.14-1~deb12u1) over (3.0.13-1~deb12u1) ... Setting up libssl3:amd64 (3.0.14-1~deb12u1) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 0m17.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-yf', 'dist-upgrade'] 0m17.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m17.7s DUMP: a7383adc5fdea12f93db4552c396e73a - 0m17.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m17.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'show', '--no-all-versions', 'shasta'] 0m18.0s DUMP: Package: shasta Source: shasta (0.11.1-1) Version: 0.11.1-1+b1 Installed-Size: 2639 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libboost-chrono1.74.0 (>= 1.74.0), libboost-program-options1.74.0 (>= 1.74.0), libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 11), python3-shasta (= 0.11.1-1+b1) Description-en: nanopore whole genome assembly (binaries and scripts) De novo assembly from Oxford Nanopore reads. The goal of the Shasta long read assembler is to rapidly produce accurate assembled sequence using as input DNA reads generated by Oxford Nanopore flow cells. . Computational methods used by the Shasta assembler include: . * Using a run-length representation of the read sequence. This makes the assembly process more resilient to errors in homopolymer repeat counts, which are the most common type of errors in Oxford Nanopore reads. . * Using in some phases of the computation a representation of the read sequence based on markers, a fixed subset of short k-mers (k ?? 10). . Shasta assembly quality is comparable or better than assembly quality achieved by other long read assemblers. . This package contains the executable binaries (tools) and accommodating scripts. Description-md5: 7bb8ac3039d8e82623b175abb8ab2e67 Homepage: https://github.com/chanzuckerberg/shasta Section: science Priority: optional Filename: pool/main/s/shasta/shasta_0.11.1-1+b1_amd64.deb Size: 622960 MD5sum: 7411379de895f282b3a7e46efa55a077 SHA256: 0f828413cc96d41949a9352f0d335cff082110dd52aa54b8077d410ac054ab77 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'show', '--no-all-versions', 'shasta'] 0m18.0s INFO: apt-cache knows about the following packages: shasta 0m18.0s INFO: Running scripts pre_install 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_database-server'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_database-server'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_exceptions'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_exceptions'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_extras'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_extras'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m18.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m18.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy'] 0m18.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages release v=12-updates,o=Debian,a=proposed-updates,n=bookworm-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bookworm-updates/main amd64 Packages release v=12-updates,o=Debian,a=stable-updates,n=bookworm-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bookworm-security/main amd64 Packages release v=12,o=Debian,a=stable-security,n=bookworm-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m18.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy'] 0m18.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy', 'shasta'] 0m18.2s DUMP: shasta: Installed: 0.11.1-1+b1 Candidate: 0.11.1-1+b1 Version table: *** 0.11.1-1+b1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 0m18.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy', 'shasta'] 0m18.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-y', 'install', 'shasta'] 0m18.8s DUMP: Reading package lists... Building dependency tree... Reading state information... shasta is already the newest version (0.11.1-1+b1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-y', 'install', 'shasta'] 0m18.8s INFO: Running scripts post_install 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_install_exceptions'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_install_exceptions'] 0m18.8s INFO: Running scripts post_distupgrade 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_exceptions'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m18.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m18.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_distupgrade_zz_backports'] 0m18.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m19.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m19.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m20.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m20.0s INFO: Running scripts pre_install 0m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_database-server'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_database-server'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_exceptions'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_exceptions'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_extras'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_extras'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy'] 0m20.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm-proposed-updates/main amd64 Packages release v=12-updates,o=Debian,a=proposed-updates,n=bookworm-proposed-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://deb.debian.org/debian bookworm-updates/main amd64 Packages release v=12-updates,o=Debian,a=stable-updates,n=bookworm-updates,l=Debian,c=main,b=amd64 origin deb.debian.org 500 http://security.debian.org bookworm-security/main amd64 Packages release v=12,o=Debian,a=stable-security,n=bookworm-security,l=Debian-Security,c=main,b=amd64 origin security.debian.org 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy'] 0m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy', 'shasta'] 0m20.2s DUMP: shasta: Installed: 0.11.1-1+b1 Candidate: 0.11.1-1+b1 Version table: *** 0.11.1-1+b1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 0m20.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-cache', 'policy', 'shasta'] 0m20.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-y', 'install', 'shasta=0.11.1-1+b1'] 0m20.5s DUMP: Reading package lists... Building dependency tree... Reading state information... shasta is already the newest version (0.11.1-1+b1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', '-y', 'install', 'shasta=0.11.1-1+b1'] 0m20.5s INFO: Running scripts post_install 0m20.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_install_exceptions'] 0m20.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_install_exceptions'] 0m20.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m21.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m21.1s DEBUG: No file moved between /{bin|sbin|lib*} and /usr/{bin|sbin|lib*}. 0m21.1s INFO: /bin converted to /usr/bin by /usr merge 0m21.1s INFO: /lib converted to /usr/lib by /usr merge 0m21.1s INFO: /lib/init converted to /usr/lib/init by /usr merge 0m21.1s INFO: /lib/lsb converted to /usr/lib/lsb by /usr merge 0m21.1s INFO: /lib/lsb/init-functions.d converted to /usr/lib/lsb/init-functions.d by /usr merge 0m21.1s INFO: /lib/systemd converted to /usr/lib/systemd by /usr merge 0m21.1s INFO: /lib/systemd/system converted to /usr/lib/systemd/system by /usr merge 0m21.1s INFO: /lib/terminfo converted to /usr/lib/terminfo by /usr merge 0m21.1s INFO: /lib/terminfo/E converted to /usr/lib/terminfo/E by /usr merge 0m21.1s INFO: /lib/terminfo/a converted to /usr/lib/terminfo/a by /usr merge 0m21.1s INFO: /lib/terminfo/c converted to /usr/lib/terminfo/c by /usr merge 0m21.1s INFO: /lib/terminfo/d converted to /usr/lib/terminfo/d by /usr merge 0m21.1s INFO: /lib/terminfo/h converted to /usr/lib/terminfo/h by /usr merge 0m21.1s INFO: /lib/terminfo/l converted to /usr/lib/terminfo/l by /usr merge 0m21.1s INFO: /lib/terminfo/m converted to /usr/lib/terminfo/m by /usr merge 0m21.1s INFO: /lib/terminfo/p converted to /usr/lib/terminfo/p by /usr merge 0m21.1s INFO: /lib/terminfo/r converted to /usr/lib/terminfo/r by /usr merge 0m21.1s INFO: /lib/terminfo/s converted to /usr/lib/terminfo/s by /usr merge 0m21.1s INFO: /lib/terminfo/t converted to /usr/lib/terminfo/t by /usr merge 0m21.1s INFO: /lib/terminfo/v converted to /usr/lib/terminfo/v by /usr merge 0m21.1s INFO: /lib/terminfo/w converted to /usr/lib/terminfo/w by /usr merge 0m21.1s INFO: /lib/terminfo/x converted to /usr/lib/terminfo/x by /usr merge 0m21.1s INFO: /lib/udev converted to /usr/lib/udev by /usr merge 0m21.1s INFO: /lib/udev/rules.d converted to /usr/lib/udev/rules.d by /usr merge 0m21.1s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 0m21.1s INFO: /lib/x86_64-linux-gnu/security converted to /usr/lib/x86_64-linux-gnu/security by /usr merge 0m21.1s INFO: /lib64 converted to /usr/lib64 by /usr merge 0m21.1s INFO: /sbin converted to /usr/sbin by /usr merge 0m21.6s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', '-ac', '--ignore-obsolete'] 0m22.7s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', '-ac', '--ignore-obsolete'] 0m22.7s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m22.7s DUMP: 0.15.6 0m22.7s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m22.7s INFO: Running adequate version 0.15.6 now. 0m22.7s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'shasta'] 0m22.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'shasta'] 0m22.8s INFO: Running scripts pre_remove 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m22.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m24.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m24.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m24.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m24.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_exceptions'] 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/pre_remove_exceptions'] 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m24.4s DUMP: install ok installed adduser adduser 3.134 install ok installed apt apt 2.6.1 install ok installed base-files base-files 12.4+deb12u6 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b7 install ok installed bsdutils bsdutils 1:2.38.1-5+deb12u1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-2 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.3+deb12u1 install ok installed debianutils debianutils 5.7-0.5~deb12u1 install ok installed diffutils diffutils 1:3.8-4 install ok installed dpkg dpkg 1.21.22 install ok installed e2fsprogs e2fsprogs 1.47.0-2 install ok installed findutils findutils 4.9.0-4 install ok installed gcc-12-base:amd64 gcc-12-base 12.2.0-14 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.8-5 install ok installed gzip gzip 1.12-1 install ok installed hostname hostname 3.23+nmu1 install ok installed init-system-helpers init-system-helpers 1.65.2 install ok installed libacl1:amd64 libacl1 2.3.1-3 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.6.1 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.0.9-1 install ok installed libaudit1:amd64 libaudit1 1:3.0.9-1 install ok installed libblas3:amd64 libblas3 3.11.0-2 install ok installed libblkid1:amd64 libblkid1 2.38.1-5+deb12u1 install ok installed libboost-chrono1.74.0:amd64 libboost-chrono1.74.0 1.74.0+ds1-21 install ok installed libboost-program-options1.74.0:amd64 libboost-program-options1.74.0 1.74.0+ds1-21 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.36-9+deb12u8 install ok installed libc6:amd64 libc6 2.36-9+deb12u8 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.3-1+b3 install ok installed libcap2:amd64 libcap2 1:2.66-4 install ok installed libcom-err2:amd64 libcom-err2 1.47.0-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.33-2 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-1 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libexpat1:amd64 libexpat1 2.5.0-1 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libgcc-s1:amd64 libgcc-s1 12.2.0-14 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.1-3 install ok installed libgdbm-compat4:amd64 libgdbm-compat4 1.23-3 install ok installed libgdbm6:amd64 libgdbm6 1.23-3 install ok installed libgfortran5:amd64 libgfortran5 12.2.0-14 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg1-1.1 install ok installed libgnutls30:amd64 libgnutls30 3.7.9-2+deb12u3 install ok installed libgomp1:amd64 libgomp1 12.2.0-14 install ok installed libgpg-error0:amd64 libgpg-error0 1.46-1 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-2+deb12u2 install ok installed libhogweed6:amd64 libhogweed6 3.8.1-2 install ok installed libidn2-0:amd64 libidn2-0 2.3.3-1+b1 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-2+deb12u2 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-2+deb12u2 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-2+deb12u2 install ok installed liblapack3:amd64 liblapack3 3.11.0-2 install ok installed liblmdb0:amd64 liblmdb0 0.9.24-1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-1 install ok installed liblzma5:amd64 liblzma5 5.4.1-0.2 install ok installed libmbedcrypto7:amd64 libmbedcrypto7 2.28.3-1 install ok installed libmbedtls14:amd64 libmbedtls14 2.28.3-1 install ok installed libmbedx509-1:amd64 libmbedx509-1 2.28.3-1 install ok installed libmd0:amd64 libmd0 1.0.4-2 install ok installed libmount1:amd64 libmount1 2.38.1-5+deb12u1 install ok installed libncursesw6:amd64 libncursesw6 6.4-4 install ok installed libnettle8:amd64 libnettle8 3.8.1-2 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.24.1-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-6+deb12u1 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6+deb12u1 install ok installed libpam-runtime libpam-runtime 1.5.2-6+deb12u1 install ok installed libpam0g:amd64 libpam0g 1.5.2-6+deb12u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libpcre3:amd64 libpcre3 2:8.39-15 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u1 install ok installed libpng16-16:amd64 libpng16-16 1.6.39-2 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.11.2-1+b1 install ok installed libpython3.11:amd64 libpython3.11 3.11.2-6+deb12u2 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.2-6+deb12u2 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.2-6+deb12u2 install ok installed libquadmath0:amd64 libquadmath0 12.2.0-14 install ok installed libreadline8:amd64 libreadline8 8.2-1.3 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+deb12u1 install ok installed libselinux1:amd64 libselinux1 3.4-1+b6 install ok installed libsemanage-common libsemanage-common 3.4-1 install ok installed libsemanage2:amd64 libsemanage2 3.4-1+b5 install ok installed libsepol2:amd64 libsepol2 3.4-2.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.38.1-5+deb12u1 install ok installed libspoa7.0.0:amd64 libspoa7.0.0 4.0.8-1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.40.1-2 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libssl3:amd64 libssl3 3.0.14-1~deb12u1 install ok installed libstdc++6:amd64 libstdc++6 12.2.0-14 install ok installed libsystemd0:amd64 libsystemd0 252.29-1~deb12u1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-2 install ok installed libtinfo6:amd64 libtinfo6 6.4-4 install ok installed libtirpc-common libtirpc-common 1.3.3+ds-1 install ok installed libtirpc3:amd64 libtirpc3 1.3.3+ds-1 install ok installed libudev1:amd64 libudev1 252.29-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+deb12u1 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.4+dfsg2-5 install ok installed login login 1:4.13+dfsg1-1+b1 install ok installed logsave logsave 1.47.0-2 install ok installed mawk mawk 1.3.4.20200120-3.1 install ok installed media-types media-types 10.0.0 install ok installed mount mount 2.38.1-5+deb12u1 install ok installed ncbi-blast+ ncbi-blast+ 2.12.0+ds-3+b1 install ok installed ncbi-data ncbi-data 6.1.20170106+dfsg1-10 install ok installed ncurses-base ncurses-base 6.4-4 install ok installed ncurses-bin ncurses-bin 6.4-4 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl perl 5.36.0-7+deb12u1 install ok installed perl-base perl-base 5.36.0-7+deb12u1 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u1 install ok installed python3 python3 3.11.2-1+b1 install ok installed python3-minimal python3-minimal 3.11.2-1+b1 install ok installed python3-shasta python3-shasta 0.11.1-1+b1 install ok installed python3.11 python3.11 3.11.2-6+deb12u2 install ok installed python3.11-minimal python3.11-minimal 3.11.2-6+deb12u2 install ok installed readline-common readline-common 8.2-1.3 install ok installed sed sed 4.9-1 install ok installed shasta shasta 0.11.1-1+b1 install ok installed sysvinit-utils sysvinit-utils 3.06-4 install ok installed tar tar 1.34+dfsg-1.2+deb12u1 install ok installed tzdata tzdata 2024a-0+deb12u1 install ok installed usr-is-merged usr-is-merged 37~deb12u1 install ok installed util-linux util-linux 2.38.1-5+deb12u1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+deb12u1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m24.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m24.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'remove', 'libblas3:amd64', 'libboost-chrono1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'perl', 'perl-modules-5.36', 'python3', 'python3-minimal', 'python3-shasta', 'python3.11', 'python3.11-minimal', 'readline-common', 'shasta'] 0m25.6s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: libblas3 libboost-chrono1.74.0 libboost-program-options1.74.0 libexpat1 libgdbm-compat4 libgdbm6 libgfortran5 libgomp1 libgssapi-krb5-2 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblmdb0 libmbedcrypto7 libmbedtls14 libmbedx509-1 libncursesw6 libnsl2 libpcre3 libperl5.36 libpng16-16 libpython3-stdlib libpython3.11 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libreadline8 libspoa7.0.0 libsqlite3-0 libssl3 libtirpc-common libtirpc3 media-types ncbi-blast+ ncbi-data perl perl-modules-5.36 python3 python3-minimal python3-shasta python3.11 python3.11-minimal readline-common shasta 0 upgraded, 0 newly installed, 46 to remove and 0 not upgraded. After this operation, 196 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 ... 9466 files and directories currently installed.) Removing shasta (0.11.1-1+b1) ... Removing python3-shasta (0.11.1-1+b1) ... Removing liblapack3:amd64 (3.11.0-2) ... Removing libblas3:amd64 (3.11.0-2) ... Removing libboost-chrono1.74.0:amd64 (1.74.0+ds1-21) ... Removing libboost-program-options1.74.0:amd64 (1.74.0+ds1-21) ... Removing ncbi-blast+ (2.12.0+ds-3+b1) ... Removing python3 (3.11.2-1+b1) ... Removing python3.11 (3.11.2-6+deb12u2) ... Removing python3-minimal (3.11.2-1+b1) ... Removing python3.11-minimal (3.11.2-6+deb12u2) ... Removing libpython3.11:amd64 (3.11.2-6+deb12u2) ... Removing libexpat1:amd64 (2.5.0-1) ... Removing perl (5.36.0-7+deb12u1) ... Removing libperl5.36:amd64 (5.36.0-7+deb12u1) ... Removing libgdbm-compat4:amd64 (1.23-3) ... Removing libgdbm6:amd64 (1.23-3) ... Removing libgfortran5:amd64 (12.2.0-14) ... Removing libgomp1:amd64 (12.2.0-14) ... Removing libpython3-stdlib:amd64 (3.11.2-1+b1) ... Removing libpython3.11-stdlib:amd64 (3.11.2-6+deb12u2) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-2) ... Removing libtirpc3:amd64 (1.3.3+ds-1) ... Removing libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... Removing libkrb5-3:amd64 (1.20.1-2+deb12u2) ... Removing libk5crypto3:amd64 (1.20.1-2+deb12u2) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-2+deb12u2) ... Removing liblmdb0:amd64 (0.9.24-1) ... Removing libmbedtls14:amd64 (2.28.3-1) ... Removing libmbedx509-1:amd64 (2.28.3-1) ... Removing libmbedcrypto7:amd64 (2.28.3-1) ... Removing libncursesw6:amd64 (6.4-4) ... Removing libpcre3:amd64 (2:8.39-15) ... Removing libpng16-16:amd64 (1.6.39-2) ... Removing libpython3.11-minimal:amd64 (3.11.2-6+deb12u2) ... find: '/usr/lib/python3': No such file or directory Removing libquadmath0:amd64 (12.2.0-14) ... Removing libreadline8:amd64 (8.2-1.3) ... Removing libspoa7.0.0:amd64 (4.0.8-1) ... Removing libsqlite3-0:amd64 (3.40.1-2) ... Removing libssl3:amd64 (3.0.14-1~deb12u1) ... Removing libtirpc-common (1.3.3+ds-1) ... Removing media-types (10.0.0) ... Removing ncbi-data (6.1.20170106+dfsg1-10) ... Removing perl-modules-5.36 (5.36.0-7+deb12u1) ... Removing readline-common (8.2-1.3) ... Processing triggers for libc-bin (2.36-9+deb12u8) ... 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'remove', 'libblas3:amd64', 'libboost-chrono1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'media-types', 'ncbi-blast+-', 'ncbi-data', 'perl', 'perl-modules-5.36', 'python3', 'python3-minimal', 'python3-shasta', 'python3.11', 'python3.11-minimal', 'readline-common', 'shasta'] 0m25.6s INFO: Running scripts post_remove 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_remove_exceptions'] 0m25.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_remove_exceptions'] 0m25.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--purge', 'libblas3:amd64', 'libboost-chrono1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'media-types', 'ncbi-blast+', 'ncbi-data', 'perl', 'perl-modules-5.36', 'python3', 'python3-minimal', 'python3-shasta', 'python3.11', 'python3.11-minimal', 'readline-common'] 0m25.7s DUMP: dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libboost-chrono1.74.0 which isn't installed dpkg: warning: ignoring request to remove libboost-program-options1.74.0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4 which isn't installed dpkg: warning: ignoring request to remove libgdbm6 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed dpkg: warning: ignoring request to remove libgomp1 which isn't installed (Reading database ... 6103 files and directories currently installed.) Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-2+deb12u2) ... 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 liblmdb0 which isn't installed dpkg: warning: ignoring request to remove libmbedcrypto7 which isn't installed dpkg: warning: ignoring request to remove libmbedtls14 which isn't installed dpkg: warning: ignoring request to remove libmbedx509-1 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libpcre3 which isn't installed dpkg: warning: ignoring request to remove libperl5.36 which isn't installed dpkg: warning: ignoring request to remove libpng16-16 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed dpkg: warning: ignoring request to remove libpython3.11 which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.2-6+deb12u2) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libreadline8 which isn't installed dpkg: warning: ignoring request to remove libspoa7.0.0 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssl3 which isn't installed Purging configuration files for libtirpc-common (1.3.3+ds-1) ... dpkg: warning: ignoring request to remove libtirpc3 which isn't installed Purging configuration files for media-types (10.0.0) ... dpkg: warning: ignoring request to remove ncbi-blast+ which isn't installed Purging configuration files for ncbi-data (6.1.20170106+dfsg1-10) ... Purging configuration files for perl (5.36.0-7+deb12u1) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed Purging configuration files for python3 (3.11.2-1+b1) ... dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-shasta which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed Purging configuration files for python3.11-minimal (3.11.2-6+deb12u2) ... Purging configuration files for readline-common (8.2-1.3) ... 0m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--purge', 'libblas3:amd64', 'libboost-chrono1.74.0:amd64', 'libboost-program-options1.74.0:amd64', 'libexpat1:amd64', 'libgdbm-compat4:amd64', 'libgdbm6:amd64', 'libgfortran5:amd64', 'libgomp1:amd64', 'libgssapi-krb5-2:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblmdb0:amd64', 'libmbedcrypto7:amd64', 'libmbedtls14:amd64', 'libmbedx509-1:amd64', 'libncursesw6:amd64', 'libnsl2:amd64', 'libpcre3:amd64', 'libperl5.36:amd64', 'libpng16-16:amd64', 'libpython3-stdlib:amd64', 'libpython3.11:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libquadmath0:amd64', 'libreadline8:amd64', 'libspoa7.0.0:amd64', 'libsqlite3-0:amd64', 'libssl3:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'media-types', 'ncbi-blast+', 'ncbi-data', 'perl', 'perl-modules-5.36', 'python3', 'python3-minimal', 'python3-shasta', 'python3.11', 'python3.11-minimal', 'readline-common'] 0m25.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--purge', 'shasta'] 0m25.7s DUMP: dpkg: warning: ignoring request to remove shasta which isn't installed 0m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--purge', 'shasta'] 0m25.7s INFO: Running scripts post_purge 0m25.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_purge_exceptions'] 0m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_purge_exceptions'] 0m25.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--purge', '--pending'] 0m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--purge', '--pending'] 0m25.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--remove', '--pending'] 0m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg', '--remove', '--pending'] 0m25.7s INFO: Running scripts post_test 0m25.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_test_exceptions'] 0m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'tmp/scripts/post_test_exceptions'] 0m25.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m26.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg-divert', '--list'] 0m26.0s DUMP: local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged 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 local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /bin/sh to /bin/sh.distrib by dash 0m26.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'dpkg-divert', '--list'] 0m26.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'clean'] 0m26.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk', 'apt-get', 'clean'] 0m26.0s DEBUG: Recording chroot state 0m27.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/shm'] 0m27.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/shm'] 0m27.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/console'] 0m27.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/console'] 0m27.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/ptmx'] 0m27.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/ptmx'] 0m27.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/pts'] 0m27.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/dev/pts'] 0m27.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/proc'] 0m27.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk/proc'] 0m27.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m27.2s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp7psl6qdk'] 0m27.2s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp7psl6qdk 0m27.2s INFO: PASS: Upgrading between Debian distributions. 0m27.2s INFO: PASS: All tests. 0m27.2s INFO: piuparts run ends. ret=0 End: 2024-08-23 09:49:27 GMT