Start: 2023-08-21 16:12:26 GMT [testing] Package: freebayes Version: 1.3.6-2 Installed-Size: 3976 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libseqlib2 (>= 1.2.0), libstdc++6 (>= 11), libtabixpp0 (>= 1.0.0), libvcflib1 (>= 1.0.3+dfsg), zlib1g (>= 1:1.1.4), python3 Recommends: parallel Description: Bayesian haplotype-based polymorphism discovery and genotyping Homepage: https://github.com/ekg/freebayes Description-md5: b7e8ee9cfe0c2093be3d78a8098290de Section: science Priority: optional Filename: pool/main/f/freebayes/freebayes_1.3.6-2_amd64.deb Size: 1476088 MD5sum: 375a98718815bf9e20588516ddaab2ee SHA256: d604184d7374d144aca0f45e29d9b1a661592524f09289a2dcc0a554677db809 [sid] Package: freebayes Version: 1.3.7-1 Installed-Size: 4024 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libseqlib2 (>= 1.2.0), libstdc++6 (>= 13.1), libtabixpp0 (>= 1.0.0), libvcflib2 (>= 1.0.9+dfsg1), zlib1g (>= 1:1.1.4), python3 Recommends: parallel Description: Bayesian haplotype-based polymorphism discovery and genotyping Homepage: https://github.com/ekg/freebayes Description-md5: b7e8ee9cfe0c2093be3d78a8098290de Section: science Priority: optional Filename: pool/main/f/freebayes/freebayes_1.3.7-1_amd64.deb Size: 1487584 MD5sum: 15320f802b0f3723a2050cd10956e3e5 SHA256: d91a85bfe190bf34e62fdec58ed76d2b5b50570db00029eeb96b269f4828f4e0 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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt freebayes=1.3.7-1 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: To quickly glance what went wrong, scroll down to the bottom of this logfile. 0m0.0s INFO: FAQ available at https://wiki.debian.org/piuparts/FAQ 0m0.0s INFO: The FAQ also explains how to contact us in case you think piuparts is wrong. 0m0.0s INFO: ------------------------------------------------------------------------------ 0m0.0s INFO: piuparts version 1.1.8~202306121314~1.1.7-9-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 --mirror 'http://deb.debian.org/debian/ main' --tmpdir /srv/piuparts.debian.org/tmp --arch amd64 -b /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat --apt freebayes=1.3.7-1 0m0.0s INFO: Running on: Linux piu-slave-conova-01 5.10.0-25-amd64 #1 SMP Debian 5.10.191-1 (2023-08-16) x86_64 0m0.0s DEBUG: Created temporary directory /srv/piuparts.debian.org/tmp/tmp1emp8ia9 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp1emp8ia9 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.5s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', '-zxf', '/srv/piuparts.debian.org/slave/basetgz/bookworm_amd64.tar.gz'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/proc'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/proc'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/pts'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'devpts', '-o', 'newinstance,noexec,nosuid,gid=5,mode=0620,ptmxmode=0666', 'devpts', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/pts'] 0m2.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/ptmx'] 0m2.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/ptmx'] 0m2.5s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/console'] 0m2.5s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/2', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/console'] 0m2.5s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/shm'] 0m2.5s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/shm'] 0m2.5s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m2.6s DEBUG: Created policy-rc.d and chmodded it. 0m2.6s DEBUG: Created resolv.conf. 0m2.6s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp1emp8ia9/tmp/scripts/ 0m2.6s INFO: Running scripts post_chroot_unpack 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m2.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'update'] 0m3.8s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'update'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-yf', 'dist-upgrade'] 0m4.4s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-yf', 'dist-upgrade'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.9s DUMP: 06167fd988d2fa1ed9015ed386bb0220 - 0m4.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m4.9s INFO: Running scripts post_setup 0m4.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_dummy_users'] 0m6.1s 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 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_dummy_users'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_forbid_home'] 0m6.1s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_forbid_home'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.1s 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' 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_force-unsafe-io'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_minimize'] 0m6.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_minimize'] 0m6.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_squeeze-backports'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_zz_backports'] 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_setup_zz_backports'] 0m6.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.2s 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+deb12u1 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b2 install ok installed bsdutils bsdutils 1:2.38.1-5+b1 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 install ok installed debianutils debianutils 5.7-0.4 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+b1 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+deb12u1 install ok installed libc6:amd64 libc6 2.36-9+deb12u1 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 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+b1 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 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-6 install ok installed libpam-runtime libpam-runtime 1.5.2-6 install ok installed libpam0g:amd64 libpam0g 1.5.2-6 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-1 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b3 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+b1 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 252.12-1~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 libudev1:amd64 libudev1 252.12-1~deb12u1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.38.1-5+b1 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+b1 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 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 install ok installed tzdata tzdata 2023c-5 install ok installed usr-is-merged usr-is-merged 35 install ok installed util-linux util-linux 2.38.1-5+b1 install ok installed util-linux-extra util-linux-extra 2.38.1-5+b1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-1 0m6.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m6.2s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/testing2sid/reference-chroot-metadata.dat 0m6.2s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m6.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m6.7s INFO: Running scripts is_testable 0m6.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/is_testable_uninstallable'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/is_testable_uninstallable'] 0m6.8s INFO: Running scripts pre_test 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_test_exceptions'] 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_test_exceptions'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_test_root_password'] 0m6.8s DUMP: New password: Retype new password: passwd: password updated successfully 0m6.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_test_root_password'] 0m6.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'show', '--no-all-versions', 'freebayes'] 0m7.1s DUMP: Package: freebayes Version: 1.3.6-2 Installed-Size: 3976 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libseqlib2 (>= 1.2.0), libstdc++6 (>= 11), libtabixpp0 (>= 1.0.0), libvcflib1 (>= 1.0.3+dfsg), zlib1g (>= 1:1.1.4), python3 Recommends: parallel Description-en: Bayesian haplotype-based polymorphism discovery and genotyping FreeBayes is a Bayesian genetic variant detector designed to find small polymorphisms, specifically SNPs (single-nucleotide polymorphisms), indels (insertions and deletions), MNPs (multi-nucleotide polymorphisms), and complex events (composite insertion and substitution events) smaller than the length of a short-read sequencing alignment. Description-md5: b7e8ee9cfe0c2093be3d78a8098290de Homepage: https://github.com/ekg/freebayes Section: science Priority: optional Filename: pool/main/f/freebayes/freebayes_1.3.6-2_amd64.deb Size: 1476088 MD5sum: 375a98718815bf9e20588516ddaab2ee SHA256: d604184d7374d144aca0f45e29d9b1a661592524f09289a2dcc0a554677db809 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'show', '--no-all-versions', 'freebayes'] 0m7.1s INFO: apt-cache knows about the following packages: freebayes 0m7.1s INFO: Running scripts pre_install 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_database-server'] 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_database-server'] 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_exceptions'] 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_exceptions'] 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_extras'] 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_extras'] 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture'] 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m7.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy'] 0m7.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.1,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy', 'freebayes'] 0m7.2s DUMP: freebayes: Installed: (none) Candidate: 1.3.6-2 Version table: 1.3.6-2 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m7.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy', 'freebayes'] 0m7.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-y', 'install', 'freebayes'] 0m13.9s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: libbrotli1 libcurl3-gnutls libdeflate0 libdisorder0 libexpat1 libfastahack0 libfml0 libgssapi-krb5-2 libhts3 libhtscodecs2 libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libncursesw6 libnghttp2-14 libnsl2 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libseqlib2 libsmithwaterman0 libsqlite3-0 libssh2-1 libssl3 libssw0 libtabixpp0 libtirpc-common libtirpc3 libvcflib1 media-types python3 python3-minimal python3.11 python3.11-minimal readline-common Suggested packages: krb5-doc krb5-user python3-doc python3-tk python3-venv python3.11-venv python3.11-doc binutils binfmt-support readline-doc Recommended packages: parallel ca-certificates krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules The following NEW packages will be installed: freebayes libbrotli1 libcurl3-gnutls libdeflate0 libdisorder0 libexpat1 libfastahack0 libfml0 libgssapi-krb5-2 libhts3 libhtscodecs2 libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libncursesw6 libnghttp2-14 libnsl2 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libseqlib2 libsmithwaterman0 libsqlite3-0 libssh2-1 libssl3 libssw0 libtabixpp0 libtirpc-common libtirpc3 libvcflib1 media-types python3 python3-minimal python3.11 python3.11-minimal readline-common 0 upgraded, 44 newly installed, 0 to remove and 0 not upgraded. Need to get 13.3 MB of archives. After this operation, 43.9 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.9-1 [2016 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-minimal amd64 3.11.2-6 [813 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 python3.11-minimal amd64 3.11.2-6 [2064 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 python3-minimal amd64 3.11.2-1+b1 [26.3 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 media-types all 10.0.0 [26.1 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.4-4 [134 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2 [32.3 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2 [79.0 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:11 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2 [331 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2 [134 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6 [1796 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6 [572 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get:22 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 libfml0 amd64 0.1+git20190320.b499514-1+b1 [71.4 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1 [72.3 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.88.1-10 [381 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.3.0-4 [87.5 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.16+ds-3 [430 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libjsoncpp25 amd64 1.9.5-4 [78.6 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 libssw0 amd64 1.1-13 [19.7 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libseqlib2 amd64 1.2.0+dfsg-9 [162 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libtabixpp0 amd64 1.1.2-1 [9532 B] Get:40 http://deb.debian.org/debian bookworm/main amd64 libdisorder0 amd64 0.0.2+git20130809.8062ee1-4+b1 [4884 B] Get:41 http://deb.debian.org/debian bookworm/main amd64 libfastahack0 amd64 1.0.0+dfsg-10 [25.7 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 libsmithwaterman0 amd64 0.0+git20160702.2610e25-12+b1 [36.5 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 libvcflib1 amd64 1.0.3+dfsg-2 [153 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 freebayes amd64 1.3.6-2 [1476 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 13.3 MB in 0s (53.3 MB/s) Selecting previously unselected package libssl3: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 ... 6100 files and directories currently installed.) Preparing to unpack .../libssl3_3.0.9-1_amd64.deb ... Unpacking libssl3:amd64 (3.0.9-1) ... Selecting previously unselected package libpython3.11-minimal:amd64. Preparing to unpack .../libpython3.11-minimal_3.11.2-6_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.2-6) ... Selecting previously unselected package libexpat1:amd64. 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Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up libsmithwaterman0:amd64 (0.0+git20160702.2610e25-12+b1) ... Setting up libnghttp2-14:amd64 (1.52.0-1) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up libfml0:amd64 (0.1+git20190320.b499514-1+b1) ... Setting up libfastahack0:amd64 (1.0.0+dfsg-10) ... Setting up libkrb5support0:amd64 (1.20.1-2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libjsoncpp25:amd64 (1.9.5-4) ... Setting up libncursesw6:amd64 (6.4-4) ... Setting up libk5crypto3:amd64 (1.20.1-2) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up libkrb5-3:amd64 (1.20.1-2) ... Setting up libssw0:amd64 (1.1-13) ... Setting up readline-common (8.2-1.3) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libcurl3-gnutls:amd64 (7.88.1-10) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up libhts3:amd64 (1.16+ds-3) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6) ... Setting up libtabixpp0:amd64 (1.1.2-1) ... Setting up libseqlib2:amd64 (1.2.0+dfsg-9) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6) ... Setting up python3 (3.11.2-1+b1) ... Setting up libvcflib1:amd64 (1.0.3+dfsg-2) ... Setting up freebayes (1.3.6-2) ... Processing triggers for libc-bin (2.36-9+deb12u1) ... 0m13.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-y', 'install', 'freebayes'] 0m13.9s INFO: Running scripts post_install 0m13.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_install_exceptions'] 0m13.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_install_exceptions'] 0m13.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m14.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m14.7s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp1emp8ia9 to sid 0m14.7s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 0m14.7s INFO: Running scripts pre_distupgrade 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_exceptions'] 0m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_exceptions'] 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m14.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m14.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'update'] 0m19.4s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [210 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9586 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7023 kB] Fetched 16.8 MB in 4s (4800 kB/s) Reading package lists... 0m19.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'update'] 0m19.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-yf', 'dist-upgrade'] 0m35.6s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libvcflib1 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: gcc-13-base libvcflib2 libwfa2-0 The following packages will be upgraded: adduser apt base-files bash bsdutils dash debian-archive-keyring debianutils findutils freebayes gcc-12-base grep libapt-pkg6.0 libaudit-common libaudit1 libblkid1 libc-bin libc6 libcrypt1 libcurl3-gnutls libdb5.3 libdeflate0 libexpat1 libgcc-s1 libgcrypt20 libgmp10 libgnutls30 libgpg-error0 libgssapi-krb5-2 libhogweed6 libhts3 libhtscodecs2 libidn2-0 libjsoncpp25 libk5crypto3 libkrb5-3 libkrb5support0 libmd0 libmount1 libncursesw6 libnettle8 libnghttp2-14 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libsasl2-2 libsasl2-modules-db libselinux1 libsemanage-common libsemanage2 libsepol2 libseqlib2 libsmartcols1 libsqlite3-0 libssh2-1 libssl3 libssw0 libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libudev1 libuuid1 libvcflib1 libzstd1 mawk media-types mount ncurses-base ncurses-bin perl-base python3 python3-minimal python3.11 python3.11-minimal sysvinit-utils tzdata util-linux util-linux-extra zlib1g 86 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 34.3 MB of archives. After this operation, 1478 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 base-files amd64 13 [70.6 kB] Get:2 http://deb.debian.org/debian sid/main amd64 debianutils amd64 5.8-1 [103 kB] Get:3 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.15-2+b4 [1490 kB] Get:4 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.39.2-1 [96.1 kB] Get:5 http://deb.debian.org/debian sid/main amd64 dash amd64 0.5.12-6 [92.1 kB] Get:6 http://deb.debian.org/debian sid/main amd64 findutils amd64 4.9.0-5 [636 kB] Get:7 http://deb.debian.org/debian sid/main amd64 grep amd64 3.11-2 [431 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.37-7 [2754 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.37-7 [600 kB] Get:10 http://deb.debian.org/debian sid/main amd64 gcc-13-base amd64 13.2.0-2 [39.3 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 13.2.0-2 [57.7 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libncursesw6 amd64 6.4+20230625-2 [134 kB] Get:13 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.4+20230625-2 [339 kB] Get:14 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.4+20230625-2 [426 kB] Get:15 http://deb.debian.org/debian sid/main amd64 perl-base amd64 5.36.0-8 [1600 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.39.2-1 [158 kB] Get:17 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.42-3 [261 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.5-1 [73.9 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.39.2-1 [189 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:3.1.1-1 [10.8 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:3.1.1-1 [47.3 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.39.2-1 [116 kB] Get:23 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.39.2-1 [156 kB] Get:24 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.39.2-1 [1224 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 13.2.0-2 [694 kB] Get:26 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.5+dfsg2-1 [293 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.47-2 [77.6 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.10.2-2 [704 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 254.1-2 [355 kB] Get:30 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 254.1-2 [119 kB] Get:31 http://deb.debian.org/debian sid/main amd64 zlib1g amd64 1:1.2.13.dfsg-3 [87.0 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0 amd64 2.7.3 [945 kB] Get:33 http://deb.debian.org/debian sid/main amd64 adduser all 3.137 [140 kB] Get:34 http://deb.debian.org/debian sid/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2 [557 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.0-4 [413 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libnettle8 amd64 3.9.1-2 [295 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libhogweed6 amd64 3.9.1-2 [327 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.4-1 [143 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.19.0-3 [48.3 kB] Get:41 http://deb.debian.org/debian sid/main amd64 libgnutls30 amd64 3.8.1-4 [1416 kB] Get:42 http://deb.debian.org/debian sid/main amd64 apt amd64 2.7.3 [1361 kB] Get:43 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.4+20230625-2 [265 kB] Get:44 http://deb.debian.org/debian sid/main amd64 sysvinit-utils amd64 3.07-1 [31.3 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.36-2 [89.7 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libpam0g amd64 1.5.2-7 [66.7 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libpam-modules-bin amd64 1.5.2-7 [50.7 kB] Get:48 http://deb.debian.org/debian sid/main amd64 libpam-modules amd64 1.5.2-7 [265 kB] Get:49 http://deb.debian.org/debian sid/main amd64 mount amd64 2.39.2-1 [142 kB] Get:50 http://deb.debian.org/debian sid/main amd64 media-types all 10.1.0 [26.9 kB] Get:51 http://deb.debian.org/debian sid/main amd64 python3.11 amd64 3.11.4-1 [579 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libdb5.3 amd64 5.3.28+dfsg2-2 [696 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.42.0-1 [859 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.39.2-1 [29.2 kB] Get:55 http://deb.debian.org/debian sid/main amd64 libpython3.11-stdlib amd64 3.11.4-1 [1803 kB] Get:56 http://deb.debian.org/debian sid/main amd64 libssl3 amd64 3.0.10-1 [2014 kB] Get:57 http://deb.debian.org/debian sid/main amd64 python3.11-minimal amd64 3.11.4-1 [2060 kB] Get:58 http://deb.debian.org/debian sid/main amd64 libpython3.11-minimal amd64 3.11.4-1 [815 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.5.0-2 [99.0 kB] Get:60 http://deb.debian.org/debian sid/main amd64 python3-minimal amd64 3.11.4-5+b1 [26.5 kB] Get:61 http://deb.debian.org/debian sid/main amd64 python3 amd64 3.11.4-5+b1 [26.5 kB] Get:62 http://deb.debian.org/debian sid/main amd64 libpython3-stdlib amd64 3.11.4-5+b1 [9492 B] Get:63 http://deb.debian.org/debian sid/main amd64 libpam-runtime all 1.5.2-7 [136 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libmd0 amd64 1.1.0-1 [35.5 kB] Get:65 http://deb.debian.org/debian sid/main amd64 libsemanage-common all 3.5-1 [9908 B] Get:66 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.5-1 [276 kB] Get:67 http://deb.debian.org/debian sid/main amd64 libsemanage2 amd64 3.5-1 [89.7 kB] Get:68 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20230808-1 [135 kB] Get:69 http://deb.debian.org/debian sid/main amd64 tzdata all 2023c-10 [252 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.20.1-3 [134 kB] Get:71 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.20.1-3 [333 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.20.1-3 [32.3 kB] Get:73 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.20.1-3 [79.1 kB] Get:74 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.55.1-1 [72.8 kB] Get:75 http://deb.debian.org/debian sid/main amd64 libssh2-1 amd64 1.11.0-2 [214 kB] Get:76 http://deb.debian.org/debian sid/main amd64 libcurl3-gnutls amd64 8.2.1-1 [382 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.18-1 [40.9 kB] Get:78 http://deb.debian.org/debian sid/main amd64 libhtscodecs2 amd64 1.5.1-1 [91.5 kB] Get:79 http://deb.debian.org/debian sid/main amd64 libhts3 amd64 1.17+ds-1 [439 kB] Get:80 http://deb.debian.org/debian sid/main amd64 libjsoncpp25 amd64 1.9.5-6 [79.8 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libssw0 amd64 1.1-14 [20.9 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libseqlib2 amd64 1.2.0+dfsg-10 [171 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libwfa2-0 amd64 2.3.3-2 [60.0 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libvcflib2 amd64 1.0.9+dfsg1-2 [188 kB] Get:85 http://deb.debian.org/debian sid/main amd64 freebayes amd64 1.3.7-1 [1488 kB] Get:86 http://deb.debian.org/debian sid/main amd64 gcc-12-base amd64 12.3.0-7 [39.9 kB] Get:87 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-3 [19.3 kB] Get:88 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-3 [56.6 kB] Get:89 http://deb.debian.org/debian sid/main amd64 libvcflib1 amd64 1.0.9+dfsg-1 [183 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 34.3 MB in 0s (94.6 MB/s) (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7180 files and directories currently installed.) Preparing to unpack .../libpam0g_1.5.2-7_amd64.deb ... Unpacking libpam0g:amd64 (1.5.2-7) over (1.5.2-6) ... Setting up libpam0g:amd64 (1.5.2-7) ... (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 ... 7180 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.2-7_amd64.deb ... Unpacking libpam-modules-bin (1.5.2-7) over (1.5.2-6) ... Setting up libpam-modules-bin (1.5.2-7) ... (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 ... 7180 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.2-7_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.2-7) over (1.5.2-6) ... Setting up libpam-modules:amd64 (1.5.2-7) ... (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 ... 7180 files and directories currently installed.) Preparing to unpack .../mount_2.39.2-1_amd64.deb ... Unpacking mount (2.39.2-1) over (2.38.1-5+b1) ... Preparing to unpack .../media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) over (10.0.0) ... Preparing to unpack .../python3.11_3.11.4-1_amd64.deb ... Unpacking python3.11 (3.11.4-1) over (3.11.2-6) ... Preparing to unpack .../libdb5.3_5.3.28+dfsg2-2_amd64.deb ... Unpacking libdb5.3:amd64 (5.3.28+dfsg2-2) over (5.3.28+dfsg2-1) ... Setting up libdb5.3:amd64 (5.3.28+dfsg2-2) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7179 files and directories currently installed.) Preparing to unpack .../libsqlite3-0_3.42.0-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.42.0-1) over (3.40.1-2) ... Preparing to unpack .../libuuid1_2.39.2-1_amd64.deb ... Unpacking libuuid1:amd64 (2.39.2-1) over (2.38.1-5+b1) ... Setting up libuuid1:amd64 (2.39.2-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7178 files and directories currently installed.) Preparing to unpack .../libpython3.11-stdlib_3.11.4-1_amd64.deb ... Unpacking libpython3.11-stdlib:amd64 (3.11.4-1) over (3.11.2-6) ... Preparing to unpack .../libssl3_3.0.10-1_amd64.deb ... Unpacking libssl3:amd64 (3.0.10-1) over (3.0.9-1) ... Preparing to unpack .../python3.11-minimal_3.11.4-1_amd64.deb ... Unpacking python3.11-minimal (3.11.4-1) over (3.11.2-6) ... Preparing to unpack .../libpython3.11-minimal_3.11.4-1_amd64.deb ... Unpacking libpython3.11-minimal:amd64 (3.11.4-1) over (3.11.2-6) ... Preparing to unpack .../libexpat1_2.5.0-2_amd64.deb ... Unpacking libexpat1:amd64 (2.5.0-2) over (2.5.0-1) ... Setting up libssl3:amd64 (3.0.10-1) ... Setting up libpython3.11-minimal:amd64 (3.11.4-1) ... Setting up libexpat1:amd64 (2.5.0-2) ... Setting up python3.11-minimal (3.11.4-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7178 files and directories currently installed.) Preparing to unpack .../python3-minimal_3.11.4-5+b1_amd64.deb ... Unpacking python3-minimal (3.11.4-5+b1) over (3.11.2-1+b1) ... Setting up python3-minimal (3.11.4-5+b1) ... (Reading database ... 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(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 ... 7178 files and directories currently installed.) Preparing to unpack .../libmd0_1.1.0-1_amd64.deb ... Unpacking libmd0:amd64 (1.1.0-1) over (1.0.4-2) ... Setting up libmd0:amd64 (1.1.0-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7178 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.5-1_all.deb ... Unpacking libsemanage-common (3.5-1) over (3.4-1) ... Setting up libsemanage-common (3.5-1) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7178 files and directories currently installed.) Preparing to unpack .../libsemanage2_3.5-1_amd64.deb ... Unpacking libsemanage2:amd64 (3.5-1) over (3.4-1+b5) ... Setting up libsemanage2:amd64 (3.5-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7177 files and directories currently installed.) Preparing to unpack .../00-mawk_1.3.4.20230808-1_amd64.deb ... Unpacking mawk (1.3.4.20230808-1) over (1.3.4.20200120-3.1) ... Preparing to unpack .../01-tzdata_2023c-10_all.deb ... Unpacking tzdata (2023c-10) over (2023c-5) ... Preparing to unpack .../02-libgssapi-krb5-2_1.20.1-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.20.1-3) over (1.20.1-2) ... 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Preparing to unpack .../11-libhts3_1.17+ds-1_amd64.deb ... Unpacking libhts3:amd64 (1.17+ds-1) over (1.16+ds-3) ... Preparing to unpack .../12-libjsoncpp25_1.9.5-6_amd64.deb ... Unpacking libjsoncpp25:amd64 (1.9.5-6) over (1.9.5-4) ... Preparing to unpack .../13-libssw0_1.1-14_amd64.deb ... Unpacking libssw0:amd64 (1.1-14) over (1.1-13) ... Preparing to unpack .../14-libseqlib2_1.2.0+dfsg-10_amd64.deb ... Unpacking libseqlib2:amd64 (1.2.0+dfsg-10) over (1.2.0+dfsg-9) ... Selecting previously unselected package libwfa2-0:amd64. Preparing to unpack .../15-libwfa2-0_2.3.3-2_amd64.deb ... Unpacking libwfa2-0:amd64 (2.3.3-2) ... Selecting previously unselected package libvcflib2:amd64. Preparing to unpack .../16-libvcflib2_1.0.9+dfsg1-2_amd64.deb ... Unpacking libvcflib2:amd64 (1.0.9+dfsg1-2) ... Preparing to unpack .../17-freebayes_1.3.7-1_amd64.deb ... Unpacking freebayes (1.3.7-1) over (1.3.6-2) ... Preparing to unpack .../18-gcc-12-base_12.3.0-7_amd64.deb ... Unpacking gcc-12-base:amd64 (12.3.0-7) over (12.2.0-14) ... Preparing to unpack .../19-libsasl2-modules-db_2.1.28+dfsg1-3_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-3) over (2.1.28+dfsg-10) ... Preparing to unpack .../20-libsasl2-2_2.1.28+dfsg1-3_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-3) over (2.1.28+dfsg-10) ... Preparing to unpack .../21-libvcflib1_1.0.9+dfsg-1_amd64.deb ... Unpacking libvcflib1:amd64 (1.0.9+dfsg-1) over (1.0.3+dfsg-2) ... Setting up libhtscodecs2:amd64 (1.5.1-1) ... Setting up media-types (10.1.0) ... Installing new version of config file /etc/mime.types ... Setting up libwfa2-0:amd64 (2.3.3-2) ... Setting up libsqlite3-0:amd64 (3.42.0-1) ... Setting up libnghttp2-14:amd64 (1.55.1-1) ... Setting up libdeflate0:amd64 (1.18-1) ... Setting up libkrb5support0:amd64 (1.20.1-3) ... Setting up gcc-12-base:amd64 (12.3.0-7) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-3) ... Setting up tzdata (2023c-10) ... Current default time zone: 'Etc/UTC' Local time is now: Mon Aug 21 16:13:00 UTC 2023. Universal Time is now: Mon Aug 21 16:13:00 UTC 2023. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libvcflib2:amd64 (1.0.9+dfsg1-2) ... Setting up libjsoncpp25:amd64 (1.9.5-6) ... Setting up libncursesw6:amd64 (6.4+20230625-2) ... Setting up libk5crypto3:amd64 (1.20.1-3) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-3) ... Setting up libvcflib1:amd64 (1.0.9+dfsg-1) ... Setting up mount (2.39.2-1) ... Setting up libssh2-1:amd64 (1.11.0-2) ... Setting up mawk (1.3.4.20230808-1) ... Setting up libkrb5-3:amd64 (1.20.1-3) ... Setting up libssw0:amd64 (1.1-14) ... Setting up libpython3.11-stdlib:amd64 (3.11.4-1) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-3) ... Setting up libpython3-stdlib:amd64 (3.11.4-5+b1) ... Setting up python3.11 (3.11.4-1) ... Setting up libcurl3-gnutls:amd64 (8.2.1-1) ... Setting up python3 (3.11.4-5+b1) ... Setting up libhts3:amd64 (1.17+ds-1) ... Setting up libseqlib2:amd64 (1.2.0+dfsg-10) ... Setting up freebayes (1.3.7-1) ... Processing triggers for libc-bin (2.37-7) ... Processing triggers for debianutils (5.8-1) ... 0m35.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-yf', 'dist-upgrade'] 0m35.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m36.6s DUMP: 296979a4dcecb65cd5aaee5fbbbe4cd1 - 0m36.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m36.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'show', '--no-all-versions', 'freebayes'] 0m36.8s DUMP: Package: freebayes Version: 1.3.7-1 Installed-Size: 4024 Maintainer: Debian Med Packaging Team Architecture: amd64 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libseqlib2 (>= 1.2.0), libstdc++6 (>= 13.1), libtabixpp0 (>= 1.0.0), libvcflib2 (>= 1.0.9+dfsg1), zlib1g (>= 1:1.1.4), python3 Recommends: parallel Description-en: Bayesian haplotype-based polymorphism discovery and genotyping FreeBayes is a Bayesian genetic variant detector designed to find small polymorphisms, specifically SNPs (single-nucleotide polymorphisms), indels (insertions and deletions), MNPs (multi-nucleotide polymorphisms), and complex events (composite insertion and substitution events) smaller than the length of a short-read sequencing alignment. Description-md5: b7e8ee9cfe0c2093be3d78a8098290de Homepage: https://github.com/ekg/freebayes Section: science Priority: optional Filename: pool/main/f/freebayes/freebayes_1.3.7-1_amd64.deb Size: 1487584 MD5sum: 15320f802b0f3723a2050cd10956e3e5 SHA256: d91a85bfe190bf34e62fdec58ed76d2b5b50570db00029eeb96b269f4828f4e0 0m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'show', '--no-all-versions', 'freebayes'] 0m36.8s INFO: apt-cache knows about the following packages: freebayes 0m36.8s INFO: Running scripts pre_install 0m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_database-server'] 0m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_database-server'] 0m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_exceptions'] 0m36.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_exceptions'] 0m36.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_extras'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_extras'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy'] 0m36.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m36.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy'] 0m36.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy', 'freebayes'] 0m37.0s DUMP: freebayes: Installed: 1.3.7-1 Candidate: 1.3.7-1 Version table: *** 1.3.7-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m37.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy', 'freebayes'] 0m37.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-y', 'install', 'freebayes'] 0m37.6s DUMP: Reading package lists... Building dependency tree... Reading state information... freebayes is already the newest version (1.3.7-1). The following package was automatically installed and is no longer required: libvcflib1 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m37.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-y', 'install', 'freebayes'] 0m37.6s INFO: Running scripts post_install 0m37.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_install_exceptions'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_install_exceptions'] 0m37.7s INFO: Running scripts post_distupgrade 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_base_cleanup'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_exceptions'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_exceptions'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_squeeze-backports'] 0m37.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_zz_backports'] 0m37.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_distupgrade_zz_backports'] 0m37.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m38.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m38.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m39.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m39.1s INFO: Running scripts pre_install 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_database-server'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_database-server'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_exceptions'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_exceptions'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_extras'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_extras'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy'] 0m39.2s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy'] 0m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy', 'freebayes'] 0m39.2s DUMP: freebayes: Installed: 1.3.7-1 Candidate: 1.3.7-1 Version table: *** 1.3.7-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 0m39.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-cache', 'policy', 'freebayes'] 0m39.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-y', 'install', 'freebayes=1.3.7-1'] 0m39.9s DUMP: Reading package lists... Building dependency tree... Reading state information... freebayes is already the newest version (1.3.7-1). The following package was automatically installed and is no longer required: libvcflib1 Use 'sudo apt autoremove' to remove it. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', '-y', 'install', 'freebayes=1.3.7-1'] 0m39.9s INFO: Running scripts post_install 0m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_install_exceptions'] 0m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_install_exceptions'] 0m39.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m40.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m41.2s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', '-ac', '--ignore-obsolete'] 0m42.4s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', '-ac', '--ignore-obsolete'] 0m42.4s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m42.4s DUMP: 0.15.6 0m42.4s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 0m42.4s INFO: Running adequate version 0.15.6 now. 0m42.4s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'freebayes'] 0m42.5s DUMP: freebayes: py-file-not-bytecompiled /usr/share/freebayes/scripts/split_ref_by_bai_datasize.py 0m42.5s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'freebayes'] 0m42.5s ERROR: WARN: Inadequate results from running adequate! freebayes: py-file-not-bytecompiled /usr/share/freebayes/scripts/split_ref_by_bai_datasize.py 0m42.5s ERROR: WARN: Running adequate resulted in inadequate tags found: py-file-not-bytecompiled 0m42.5s INFO: Running scripts pre_remove 0m42.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m42.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 0m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m42.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 0m42.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m44.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 0m44.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m44.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 0m44.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m44.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 0m44.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_exceptions'] 0m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/pre_remove_exceptions'] 0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m44.4s DUMP: install ok installed adduser adduser 3.137 install ok installed apt apt 2.7.3 install ok installed base-files base-files 13 install ok installed base-passwd base-passwd 3.6.1 install ok installed bash bash 5.2.15-2+b4 install ok installed bsdutils bsdutils 1:2.39.2-1 install ok installed coreutils coreutils 9.1-1 install ok installed dash dash 0.5.12-6 install ok installed debconf debconf 1.5.82 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.8-1 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 4.9.0-5 install ok installed freebayes freebayes 1.3.7-1 install ok installed gcc-12-base:amd64 gcc-12-base 12.3.0-7 install ok installed gcc-13-base:amd64 gcc-13-base 13.2.0-2 install ok installed gpgv gpgv 2.2.40-1.1 install ok installed grep grep 3.11-2 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 2.7.3 install ok installed libattr1:amd64 libattr1 1:2.5.1-4 install ok installed libaudit-common libaudit-common 1:3.1.1-1 install ok installed libaudit1:amd64 libaudit1 1:3.1.1-1 install ok installed libblkid1:amd64 libblkid1 2.39.2-1 install ok installed libbrotli1:amd64 libbrotli1 1.0.9-2+b6 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-5+b1 install ok installed libc-bin libc-bin 2.37-7 install ok installed libc6:amd64 libc6 2.37-7 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 1:4.4.36-2 install ok installed libcurl3-gnutls:amd64 libcurl3-gnutls 8.2.1-1 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg2-2 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.270 install ok installed libdeflate0:amd64 libdeflate0 1.18-1 install ok installed libdisorder0:amd64 libdisorder0 0.0.2+git20130809.8062ee1-4+b1 install ok installed libexpat1:amd64 libexpat1 2.5.0-2 install ok installed libext2fs2:amd64 libext2fs2 1.47.0-2 install ok installed libfastahack0:amd64 libfastahack0 1.0.0+dfsg-10 install ok installed libffi8:amd64 libffi8 3.4.4-1 install ok installed libfml0:amd64 libfml0 0.1+git20190320.b499514-1+b1 install ok installed libgcc-s1:amd64 libgcc-s1 13.2.0-2 install ok installed libgcrypt20:amd64 libgcrypt20 1.10.2-2 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2 install ok installed libgnutls30:amd64 libgnutls30 3.8.1-4 install ok installed libgpg-error0:amd64 libgpg-error0 1.47-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.20.1-3 install ok installed libhogweed6:amd64 libhogweed6 3.9.1-2 install ok installed libhts3:amd64 libhts3 1.17+ds-1 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.5.1-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.4-1 install ok installed libjsoncpp25:amd64 libjsoncpp25 1.9.5-6 install ok installed libk5crypto3:amd64 libk5crypto3 1.20.1-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.20.1-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.20.1-3 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.13+dfsg-5 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 1.1.0-1 install ok installed libmount1:amd64 libmount1 2.39.2-1 install ok installed libncursesw6:amd64 libncursesw6 6.4+20230625-2 install ok installed libnettle8:amd64 libnettle8 3.9.1-2 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.55.1-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.0-4 install ok installed libpam-modules:amd64 libpam-modules 1.5.2-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.2-7 install ok installed libpam-runtime libpam-runtime 1.5.2-7 install ok installed libpam0g:amd64 libpam0g 1.5.2-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-3 install ok installed libpsl5:amd64 libpsl5 0.21.2-1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.11.4-5+b1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.4-1 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.4-1 install ok installed libreadline8:amd64 libreadline8 8.2-1.3 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b2 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-3 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-3 install ok installed libseccomp2:amd64 libseccomp2 2.5.4-1+b3 install ok installed libselinux1:amd64 libselinux1 3.5-1 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1 install ok installed libsepol2:amd64 libsepol2 3.5-1 install ok installed libseqlib2:amd64 libseqlib2 1.2.0+dfsg-10 install ok installed libsmartcols1:amd64 libsmartcols1 2.39.2-1 install ok installed libsmithwaterman0:amd64 libsmithwaterman0 0.0+git20160702.2610e25-12+b1 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.42.0-1 install ok installed libss2:amd64 libss2 1.47.0-2 install ok installed libssh2-1:amd64 libssh2-1 1.11.0-2 install ok installed libssl3:amd64 libssl3 3.0.10-1 install ok installed libssw0:amd64 libssw0 1.1-14 install ok installed libstdc++6:amd64 libstdc++6 13.2.0-2 install ok installed libsystemd0:amd64 libsystemd0 254.1-2 install ok installed libtabixpp0:amd64 libtabixpp0 1.1.2-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3 install ok installed libtinfo6:amd64 libtinfo6 6.4+20230625-2 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 254.1-2 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libuuid1:amd64 libuuid1 2.39.2-1 install ok installed libvcflib1:amd64 libvcflib1 1.0.9+dfsg-1 install ok installed libvcflib2:amd64 libvcflib2 1.0.9+dfsg1-2 install ok installed libwfa2-0:amd64 libwfa2-0 2.3.3-2 install ok installed libxxhash0:amd64 libxxhash0 0.8.1-1 install ok installed libzstd1:amd64 libzstd1 1.5.5+dfsg2-1 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 1.3.4.20230808-1 install ok installed media-types media-types 10.1.0 install ok installed mount mount 2.39.2-1 install ok installed ncurses-base ncurses-base 6.4+20230625-2 install ok installed ncurses-bin ncurses-bin 6.4+20230625-2 install ok installed passwd passwd 1:4.13+dfsg1-1+b1 install ok installed perl-base perl-base 5.36.0-8 install ok installed python3 python3 3.11.4-5+b1 install ok installed python3-minimal python3-minimal 3.11.4-5+b1 install ok installed python3.11 python3.11 3.11.4-1 install ok installed python3.11-minimal python3.11-minimal 3.11.4-1 install ok installed readline-common readline-common 8.2-1.3 install ok installed sed sed 4.9-1 install ok installed sysvinit-utils sysvinit-utils 3.07-1 install ok installed tar tar 1.34+dfsg-1.2 install ok installed tzdata tzdata 2023c-10 install ok installed usr-is-merged usr-is-merged 35 install ok installed util-linux util-linux 2.39.2-1 install ok installed util-linux-extra util-linux-extra 2.39.2-1 install ok installed zlib1g:amd64 zlib1g 1:1.2.13.dfsg-3 0m44.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m44.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'remove', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libdisorder0:amd64', 'libexpat1:amd64', 'libfastahack0:amd64', 'libfml0:amd64', 'libgssapi-krb5-2:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libseqlib2:amd64', 'libsmithwaterman0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtabixpp0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvcflib1:amd64', 'libvcflib2:amd64', 'libwfa2-0:amd64', 'media-types', 'python3', 'python3-minimal', 'python3.11', 'python3.11-minimal', 'readline-common', 'freebayes'] 0m46.0s DUMP: Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: freebayes libbrotli1 libcurl3-gnutls libdeflate0 libdisorder0 libexpat1 libfastahack0 libfml0 libgssapi-krb5-2 libhts3 libhtscodecs2 libjsoncpp25 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.5-0 libncursesw6 libnghttp2-14 libnsl2 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libseqlib2 libsmithwaterman0 libsqlite3-0 libssh2-1 libssl3 libssw0 libtabixpp0 libtirpc-common libtirpc3 libvcflib1 libvcflib2 libwfa2-0 media-types python3 python3-minimal python3.11 python3.11-minimal readline-common 0 upgraded, 0 newly installed, 46 to remove and 0 not upgraded. After this operation, 44.8 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 ... 6408 files and directories currently installed.) Removing freebayes (1.3.7-1) ... Removing libvcflib2:amd64 (1.0.9+dfsg1-2) ... Removing libvcflib1:amd64 (1.0.9+dfsg-1) ... Removing libtabixpp0:amd64 (1.1.2-1) ... Removing libseqlib2:amd64 (1.2.0+dfsg-10) ... Removing libhts3:amd64 (1.17+ds-1) ... Removing libcurl3-gnutls:amd64 (8.2.1-1) ... Removing libbrotli1:amd64 (1.0.9-2+b6) ... Removing libdeflate0:amd64 (1.18-1) ... Removing libdisorder0:amd64 (0.0.2+git20130809.8062ee1-4+b1) ... Removing python3 (3.11.4-5+b1) ... Removing python3.11 (3.11.4-1) ... Removing python3-minimal (3.11.4-5+b1) ... Removing python3.11-minimal (3.11.4-1) ... Removing libexpat1:amd64 (2.5.0-2) ... Removing libfastahack0:amd64 (1.0.0+dfsg-10) ... Removing libfml0:amd64 (0.1+git20190320.b499514-1+b1) ... Removing libpython3-stdlib:amd64 (3.11.4-5+b1) ... Removing libpython3.11-stdlib:amd64 (3.11.4-1) ... 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 (1.20.1-3) ... Removing libhtscodecs2:amd64 (1.5.1-1) ... Removing libjsoncpp25:amd64 (1.9.5-6) ... Removing libkrb5-3:amd64 (1.20.1-3) ... Removing libk5crypto3:amd64 (1.20.1-3) ... Removing libkeyutils1:amd64 (1.6.3-2) ... Removing libkrb5support0:amd64 (1.20.1-3) ... Removing libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Removing libncursesw6:amd64 (6.4+20230625-2) ... Removing libnghttp2-14:amd64 (1.55.1-1) ... Removing libpsl5:amd64 (0.21.2-1) ... Removing libpython3.11-minimal:amd64 (3.11.4-1) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8:amd64 (8.2-1.3) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-3) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-3) ... Removing libsmithwaterman0:amd64 (0.0+git20160702.2610e25-12+b1) ... Removing libsqlite3-0:amd64 (3.42.0-1) ... Removing libssh2-1:amd64 (1.11.0-2) ... Removing libssl3:amd64 (3.0.10-1) ... Removing libssw0:amd64 (1.1-14) ... Removing libtirpc-common (1.3.3+ds-1) ... Removing libwfa2-0:amd64 (2.3.3-2) ... Removing media-types (10.1.0) ... Removing readline-common (8.2-1.3) ... Processing triggers for libc-bin (2.37-7) ... 0m46.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'remove', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libdisorder0:amd64', 'libexpat1:amd64', 'libfastahack0:amd64', 'libfml0:amd64', 'libgssapi-krb5-2:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libseqlib2:amd64', 'libsmithwaterman0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtabixpp0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvcflib1:amd64', 'libvcflib2:amd64', 'libwfa2-0:amd64', 'media-types', 'python3', 'python3-minimal', 'python3.11', 'python3.11-minimal', 'readline-common', 'freebayes'] 0m46.0s INFO: Running scripts post_remove 0m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_remove_exceptions'] 0m46.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_remove_exceptions'] 0m46.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--purge', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libdisorder0:amd64', 'libexpat1:amd64', 'libfastahack0:amd64', 'libfml0:amd64', 'libgssapi-krb5-2:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libseqlib2:amd64', 'libsmithwaterman0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtabixpp0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvcflib1:amd64', 'libvcflib2:amd64', 'libwfa2-0:amd64', 'media-types', 'python3', 'python3-minimal', 'python3.11', 'python3.11-minimal', 'readline-common'] 0m46.1s DUMP: dpkg: warning: ignoring request to remove libbrotli1 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 libdisorder0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfastahack0 which isn't installed dpkg: warning: ignoring request to remove libfml0 which isn't installed (Reading database ... 5315 files and directories currently installed.) Purging configuration files for libgssapi-krb5-2:amd64 (1.20.1-3) ... dpkg: warning: ignoring request to remove libhts3 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libjsoncpp25 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 libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove libncursesw6 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libpsl5 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.4-1) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed dpkg: warning: ignoring request to remove libreadline8 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 libseqlib2 which isn't installed dpkg: warning: ignoring request to remove libsmithwaterman0 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 dpkg: warning: ignoring request to remove libssl3 which isn't installed dpkg: warning: ignoring request to remove libssw0 which isn't installed dpkg: warning: ignoring request to remove libtabixpp0 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 dpkg: warning: ignoring request to remove libvcflib1 which isn't installed dpkg: warning: ignoring request to remove libvcflib2 which isn't installed dpkg: warning: ignoring request to remove libwfa2-0 which isn't installed Purging configuration files for media-types (10.1.0) ... Purging configuration files for python3 (3.11.4-5+b1) ... dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed Purging configuration files for python3.11-minimal (3.11.4-1) ... Purging configuration files for readline-common (8.2-1.3) ... 0m46.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--purge', 'libbrotli1:amd64', 'libcurl3-gnutls:amd64', 'libdeflate0:amd64', 'libdisorder0:amd64', 'libexpat1:amd64', 'libfastahack0:amd64', 'libfml0:amd64', 'libgssapi-krb5-2:amd64', 'libhts3:amd64', 'libhtscodecs2:amd64', 'libjsoncpp25:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'libldap-2.5-0:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnsl2:amd64', 'libpsl5:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libreadline8:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libseqlib2:amd64', 'libsmithwaterman0:amd64', 'libsqlite3-0:amd64', 'libssh2-1:amd64', 'libssl3:amd64', 'libssw0:amd64', 'libtabixpp0:amd64', 'libtirpc-common', 'libtirpc3:amd64', 'libvcflib1:amd64', 'libvcflib2:amd64', 'libwfa2-0:amd64', 'media-types', 'python3', 'python3-minimal', 'python3.11', 'python3.11-minimal', 'readline-common'] 0m46.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--purge', 'freebayes'] 0m46.1s DUMP: dpkg: warning: ignoring request to remove freebayes which isn't installed 0m46.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--purge', 'freebayes'] 0m46.1s INFO: Running scripts post_purge 0m46.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_purge_exceptions'] 0m46.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_purge_exceptions'] 0m46.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--purge', '--pending'] 0m46.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--purge', '--pending'] 0m46.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--remove', '--pending'] 0m46.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg', '--remove', '--pending'] 0m46.1s INFO: Running scripts post_test 0m46.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_test_exceptions'] 0m46.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'tmp/scripts/post_test_exceptions'] 0m46.1s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m46.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg-divert', '--list'] 0m46.7s DUMP: local diversion of /bin/sync to /bin/sync.distrib local diversion of /home to /home.distrib 0m46.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'dpkg-divert', '--list'] 0m46.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'clean'] 0m46.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9', 'apt-get', 'clean'] 0m46.8s DEBUG: Recording chroot state 0m48.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/shm'] 0m48.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/shm'] 0m48.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/console'] 0m48.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/console'] 0m48.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/ptmx'] 0m48.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/ptmx'] 0m48.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/pts'] 0m48.3s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/dev/pts'] 0m48.3s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/proc'] 0m48.4s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9/proc'] 0m48.4s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m48.6s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp1emp8ia9'] 0m48.6s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp1emp8ia9 0m48.6s INFO: PASS: Upgrading between Debian distributions. 0m48.6s INFO: PASS: All tests. 0m48.6s INFO: piuparts run ends. ret=0 End: 2023-08-21 16:13:15 GMT