Start: 2024-08-24 00:45:43 GMT [stable] Package: cutesv Version: 2.0.2-1 Installed-Size: 191 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-cigar, python3-numpy, python3-pysam, python3-vcf, python3:any Description: comprehensive discovery of structural variations of genomic sequences Homepage: https://github.com/tjiangHIT/cuteSV Description-md5: 9edbac2d955018599acd19a7f6e81744 Section: science Priority: optional Filename: pool/main/c/cutesv/cutesv_2.0.2-1_all.deb Size: 32972 MD5sum: 3251614f79eb52d81adb0fa32fffa550 SHA256: 38a00fc3794f1080b39c82f59e39046a6ac8f08d155e69d3cee0b5802af3a550 [testing] Package: cutesv Version: 2.1.0-2 Installed-Size: 222 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-cigar, python3-numpy, python3-pysam, python3-scipy, python3-sklearn, python3-vcf, python3:any Description: comprehensive discovery of structural variations of genomic sequences Homepage: https://github.com/tjiangHIT/cuteSV Description-md5: 9edbac2d955018599acd19a7f6e81744 Section: science Priority: optional Filename: pool/main/c/cutesv/cutesv_2.1.0-2_all.deb Size: 36872 MD5sum: 151d9c85cee35c8ad2cc29047ee88d8d SHA256: a2763c15d8db22f795aa5739351fe04959c5045e26cd06bdbb6610558a4c0777 [sid] Package: cutesv Version: 2.1.1-1 Installed-Size: 225 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-cigar, python3-numpy, python3-pysam, python3-scipy, python3-sklearn, python3:any, python3-vcf Description: comprehensive discovery of structural variations of genomic sequences Homepage: https://github.com/tjiangHIT/cuteSV Description-md5: 9edbac2d955018599acd19a7f6e81744 Section: science Priority: optional Filename: pool/main/c/cutesv/cutesv_2.1.1-1_all.deb Size: 37364 MD5sum: c3e5f836522a04d64dbcad4043960d15 SHA256: 2d1784f6e00def897b58760f05e547b53ec3bd1c19a015e166a5d2a2f638458f 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-merged-usr_amd64.tar.gz -d stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt cutesv=2.1.1-1 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 1.4.4~202408201642~1.4.3-11-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 --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 stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt cutesv=2.1.1-1 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/tmpsn0n12f4 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bookworm-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmpsn0n12f4 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', '--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/tmpsn0n12f4', '--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/tmpsn0n12f4/proc'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/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/tmpsn0n12f4/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/tmpsn0n12f4/dev/pts'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/ptmx'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/ptmx'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/console'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/1', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/console'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/shm'] 0m0.4s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/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/tmpsn0n12f4/tmp/scripts/ 0m0.4s INFO: Running scripts post_chroot_unpack 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'update'] 0m1.6s DUMP: Hit:1 http://deb.debian.org/debian bookworm InRelease Reading package lists... 0m1.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'update'] 0m1.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-yf', 'dist-upgrade'] 0m2.0s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m2.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-yf', 'dist-upgrade'] 0m2.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.5s DUMP: 913e17be84ed63a3110ce3137c1d003a - 0m2.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m2.5s INFO: Running scripts post_setup 0m2.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s 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 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_dummy_users'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_forbid_home'] 0m3.4s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_forbid_home'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.4s 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' 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_force-unsafe-io'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_minimize'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_minimize'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_squeeze-backports'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_zz_backports'] 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_setup_zz_backports'] 0m3.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.4s 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 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 0m3.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m3.4s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat 0m3.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 0m4.0s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 0m4.0s INFO: Running scripts is_testable 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/is_testable_uninstallable'] 0m4.0s INFO: Running scripts pre_test 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_test_exceptions'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_test_root_password'] 0m4.1s DUMP: New password: Retype new password: passwd: password updated successfully 0m4.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_test_root_password'] 0m4.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'show', '--no-all-versions', 'cutesv'] 0m4.3s DUMP: Package: cutesv Version: 2.0.2-1 Installed-Size: 191 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-cigar, python3-numpy, python3-pysam, python3-vcf, python3:any Description-en: comprehensive discovery of structural variations of genomic sequences Long-read sequencing enables the comprehensive discovery of structural variations (SVs). However, it is still non-trivial to achieve high sensitivity and performance simultaneously due to the complex SV characteristics implied by noisy long reads. . cuteSV is a sensitive, fast and scalable long-read-based SV detection approach. cuteSV uses tailored methods to collect the signatures of various types of SVs and employs a clustering-and-refinement method to analyze the signatures to implement sensitive SV detection. Benchmarks on real Pacific Biosciences (PacBio) and Oxford Nanopore Technology (ONT) datasets demonstrate that cuteSV has better yields and scalability than state-of-the-art tools. Description-md5: 9edbac2d955018599acd19a7f6e81744 Homepage: https://github.com/tjiangHIT/cuteSV Section: science Priority: optional Filename: pool/main/c/cutesv/cutesv_2.0.2-1_all.deb Size: 32972 MD5sum: 3251614f79eb52d81adb0fa32fffa550 SHA256: 38a00fc3794f1080b39c82f59e39046a6ac8f08d155e69d3cee0b5802af3a550 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'show', '--no-all-versions', 'cutesv'] 0m4.3s INFO: apt-cache knows about the following packages: cutesv 0m4.3s INFO: Running scripts pre_install 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 0m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 0m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m4.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 0m4.5s 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: 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 0m4.5s DUMP: cutesv: Installed: (none) Candidate: 2.0.2-1 Version table: 2.0.2-1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 0m4.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 0m4.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv'] 0m57.9s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: fonts-urw-base35 libblas3 libbrotli1 libbsd0 libcurl3-gnutls libdeflate0 libexpat1 libfontenc1 libfreetype6 libfribidi0 libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3 libhtscodecs2 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 libncursesw6 libnghttp2-14 libnsl2 libopenjp2-7 libperl5.36 libpng16-16 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libquadmath0 libraqm0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl3 libtiff6 libtirpc-common libtirpc3 libwebp7 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 mailcap media-types mime-support perl perl-modules-5.36 python3 python3-biopython python3-cigar python3-minimal python3-numpy python3-pil python3-pkg-resources python3-pysam python3-renderpm python3-reportlab python3-reportlab-accel python3-vcf python3.11 python3.11-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core Suggested packages: fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gdbm-l10n low-memory-monitor krb5-doc krb5-user liblcms2-utils sensible-utils perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl make libtap-harness-archive-perl python3-doc python3-tk python3-venv bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle3 phylip phyml prank probcons python3-mysqldb python3-matplotlib python3-mmtf python3-rdflib python3-psycopg2 python3-scipy raxml samtools t-coffee wise gcc gfortran python3-dev python3-pytest python-pil-doc python3-setuptools pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python3.11-venv python3.11-doc binutils binfmt-support readline-doc sgml-base-doc debhelper Recommended packages: ca-certificates libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libldap-common libgpm2 publicsuffix libsasl2-modules bzip2 file xz-utils netbase python-biopython-doc ncbi-blast+ python3-olefile The following NEW packages will be installed: cutesv fonts-urw-base35 libblas3 libbrotli1 libbsd0 libcurl3-gnutls libdeflate0 libexpat1 libfontenc1 libfreetype6 libfribidi0 libgdbm-compat4 libgdbm6 libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3 libhtscodecs2 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 libncursesw6 libnghttp2-14 libnsl2 libopenjp2-7 libperl5.36 libpng16-16 libpsl5 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libquadmath0 libraqm0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsqlite3-0 libssh2-1 libssl3 libtiff6 libtirpc-common libtirpc3 libwebp7 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 mailcap media-types mime-support perl perl-modules-5.36 python3 python3-biopython python3-cigar python3-minimal python3-numpy python3-pil python3-pkg-resources python3-pysam python3-renderpm python3-reportlab python3-reportlab-accel python3-vcf python3.11 python3.11-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 50.3 MB of archives. After this operation, 186 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 mailcap all 3.70+nmu1 [32.0 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 mime-support all 3.66 [10.9 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libncursesw6 amd64 6.4-4 [134 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:18 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libnsl2 amd64 1.3.0-2 [39.5 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 libsqlite3-0 amd64 3.40.1-2 [837 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 libpython3.11-stdlib amd64 3.11.2-6+deb12u2 [1799 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 python3.11 amd64 3.11.2-6+deb12u2 [573 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 libpython3-stdlib amd64 3.11.2-1+b1 [9312 B] Get:29 http://deb.debian.org/debian bookworm/main amd64 python3 amd64 3.11.2-1+b1 [26.3 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 sgml-base all 1.31 [15.4 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 python3-pkg-resources all 66.1.1-1 [296 kB] Get:32 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 python3-numpy amd64 1:1.24.2-1 [5209 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5+deb12u3 [398 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 libfontenc1 amd64 1:1.1.4-1 [24.3 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 xfonts-encodings all 1:1.0.4-2.2 [577 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 xfonts-utils amd64 1:7.7+6 [93.0 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 fonts-urw-base35 all 20200910-7 [10.8 MB] Get:45 http://deb.debian.org/debian bookworm/main amd64 python3-renderpm amd64 3.6.12-1+b1 [79.2 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab-accel amd64 3.6.12-1+b1 [38.6 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libimagequant0 amd64 2.17.0-1 [32.5 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 liblcms2-2 amd64 2.14-2 [154 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 libopenjp2-7 amd64 2.5.0-2 [189 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2+deb12u3 [1400 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 libraqm0 amd64 0.7.0-4.1 [10.6 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libwebpdemux2 amd64 1.2.4-0.2+deb12u1 [99.4 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libwebpmux3 amd64 1.2.4-0.2+deb12u1 [109 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 python3-pil amd64 9.4.0-1.1+deb12u1 [472 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 python3-reportlab all 3.6.12-1 [564 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 xml-core all 0.18+nmu1 [23.8 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 w3c-sgml-lib all 1.3-3 [273 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 python3-biopython amd64 1.80+dfsg-4+b1 [1593 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 python3-cigar all 0.1.3-2 [5468 B] Get:74 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:78 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libcurl3-gnutls amd64 7.88.1-10+deb12u6 [385 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libhtscodecs2 amd64 1.3.0-4 [87.5 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libhts3 amd64 1.16+ds-3 [430 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 python3-pysam amd64 0.20.0+ds-3+b1 [1681 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 python3-vcf amd64 0.6.8+git20170215.476169c-9+b1 [43.1 kB] Get:86 http://deb.debian.org/debian bookworm/main amd64 cutesv all 2.0.2-1 [33.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 50.3 MB in 0s (166 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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(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 ... 8957 files and directories currently installed.) Preparing to unpack .../00-python3_3.11.2-1+b1_amd64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../01-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../02-python3-pkg-resources_66.1.1-1_all.deb ... 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Unpacking libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../49-libpsl5_0.21.2-1_amd64.deb ... Unpacking libpsl5:amd64 (0.21.2-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../50-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../51-libssh2-1_1.10.0-3+b1_amd64.deb ... Unpacking libssh2-1:amd64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl3-gnutls:amd64. Preparing to unpack .../52-libcurl3-gnutls_7.88.1-10+deb12u6_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.88.1-10+deb12u6) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../53-libhtscodecs2_1.3.0-4_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.3.0-4) ... Selecting previously unselected package libhts3:amd64. 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No schema files found: doing nothing. Setting up libtirpc-common (1.3.3+ds-1) ... Setting up libbrotli1:amd64 (1.0.9-2+b6) ... Setting up libsqlite3-0:amd64 (3.40.1-2) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libnghttp2-14:amd64 (1.52.0-1+deb12u1) ... Setting up libdeflate0:amd64 (1.14-1) ... Setting up libgomp1:amd64 (12.2.0-14) ... Setting up libjbig0:amd64 (2.1-6.1) ... Setting up libkrb5support0:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg-10) ... Setting up libfontenc1:amd64 (1:1.1.4-1) ... 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 libjpeg62-turbo:amd64 (1:2.1.5-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up xfonts-encodings (1:1.0.4-2.2) ... Setting up libfribidi0:amd64 (1.0.8-2.1) ... Setting up libquadmath0:amd64 (12.2.0-14) ... Setting up libimagequant0:amd64 (2.17.0-1) ... Setting up libpng16-16:amd64 (1.6.39-2) ... Setting up libncursesw6:amd64 (6.4-4) ... Setting up libk5crypto3:amd64 (1.20.1-2+deb12u1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg-10) ... Setting up libgfortran5:amd64 (12.2.0-14) ... Setting up libwebp7:amd64 (1.2.4-0.2+deb12u1) ... Setting up libtiff6:amd64 (4.5.0-6+deb12u1) ... Setting up libopenjp2-7:amd64 (2.5.0-2) ... Setting up libssh2-1:amd64 (1.10.0-3+b1) ... Setting up sgml-base (1.31) ... Setting up libkrb5-3:amd64 (1.20.1-2+deb12u1) ... Setting up libwebpmux3:amd64 (1.2.4-0.2+deb12u1) ... Setting up libbsd0:amd64 (0.11.7-2) ... Setting up readline-common (8.2-1.3) ... Setting up libgdbm6:amd64 (1.23-3) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... 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 libxcb1:amd64 (1.15-1) ... Setting up libwebpdemux2:amd64 (1.2.4-0.2+deb12u1) ... Setting up libreadline8:amd64 (8.2-1.3) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-5) ... Setting up libfreetype6:amd64 (2.12.1+dfsg-5+deb12u3) ... Setting up libgssapi-krb5-2:amd64 (1.20.1-2+deb12u1) ... Setting up libgdbm-compat4:amd64 (1.23-3) ... Setting up xml-core (0.18+nmu1) ... Setting up libharfbuzz0b:amd64 (6.0.0+dfsg-3) ... Setting up libperl5.36:amd64 (5.36.0-7+deb12u1) ... Setting up libtirpc3:amd64 (1.3.3+ds-1) ... Setting up libcurl3-gnutls:amd64 (7.88.1-10+deb12u6) ... Setting up xfonts-utils (1:7.7+6) ... Setting up perl (5.36.0-7+deb12u1) ... Setting up libraqm0:amd64 (0.7.0-4.1) ... Setting up libnsl2:amd64 (1.3.0-2) ... Setting up mailcap (3.70+nmu1) ... Setting up libhts3:amd64 (1.16+ds-3) ... Setting up mime-support (3.66) ... Setting up libpython3.11-stdlib:amd64 (3.11.2-6+deb12u2) ... Setting up fonts-urw-base35 (20200910-7) ... Setting up libpython3-stdlib:amd64 (3.11.2-1+b1) ... Setting up python3.11 (3.11.2-6+deb12u2) ... Setting up python3 (3.11.2-1+b1) ... Setting up python3-cigar (0.1.3-2) ... Setting up python3-pil:amd64 (9.4.0-1.1+deb12u1) ... Setting up python3-reportlab-accel:amd64 (3.6.12-1+b1) ... Setting up python3-reportlab (3.6.12-1) ... Setting up python3-pkg-resources (66.1.1-1) ... Setting up python3-pysam (0.20.0+ds-3+b1) ... Setting up python3-renderpm:amd64 (3.6.12-1+b1) ... Setting up python3-vcf (0.6.8+git20170215.476169c-9+b1) ... Setting up python3-numpy (1:1.24.2-1) ... Processing triggers for libc-bin (2.36-9+deb12u7) ... Processing triggers for sgml-base (1.31) ... Setting up w3c-sgml-lib (1.3-3) ... Setting up python3-biopython (1.80+dfsg-4+b1) ... Setting up cutesv (2.0.2-1) ... 0m57.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv'] 0m57.9s INFO: Running scripts post_install 0m57.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 0m57.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 0m57.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 0m58.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 0m58.6s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpsn0n12f4 to testing 0m58.6s DEBUG: sources.list: deb http://deb.debian.org/debian/ trixie main 0m58.6s INFO: Running scripts pre_distupgrade 0m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_exceptions'] 0m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_exceptions'] 0m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m58.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m58.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'update'] 1m1.9s DUMP: Get:1 http://deb.debian.org/debian trixie InRelease [169 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 Packages [9251 kB] Get:3 http://deb.debian.org/debian trixie/main Translation-en [6163 kB] Fetched 15.6 MB in 2s (7104 kB/s) Reading package lists... 1m1.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'update'] 1m1.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-yf', 'dist-upgrade'] 1m37.8s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libnsl2 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libapt-pkg6.0 libcurl3-gnutls libdb5.3 libext2fs2 libgdbm-compat4 libgdbm6 libglib2.0-0 libgnutls30 libhogweed6 libhts3 libnettle8 libpng16-16 libpsl5 libreadline8 libssh2-1 libssl3 libtirpc3 python3-renderpm python3-reportlab-accel The following NEW packages will be installed: fontconfig-config gcc-14-base libapt-pkg6.0t64 libatomic1 libcairo2 libcurl3t64-gnutls libdb5.3t64 libext2fs2t64 libfontconfig1 libgdbm-compat4t64 libgdbm6t64 libglib2.0-0t64 libgnutls30t64 libhogweed6t64 libhts3t64 liblbfgsb0 libnettle8t64 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libperl5.38t64 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libpython3.12-minimal libpython3.12-stdlib libreadline8t64 libsharpyuv0 libssh2-1t64 libssl3t64 libtirpc3t64 libunistring5 libx11-6 libx11-data libxcb-render0 libxcb-shm0 libxext6 libxrender1 netbase perl-modules-5.38 procps python3-cairo python3-chardet python3-decorator python3-freetype python3-joblib python3-rlpycairo python3-scipy python3-sklearn python3-sklearn-lib python3-threadpoolctl python3.12 python3.12-minimal The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils coreutils cutesv dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils fonts-urw-base35 gcc-12-base gpgv grep gzip hostname init-system-helpers libacl1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libbrotli1 libbsd0 libbz2-1.0 libc-bin libc6 libcap-ng0 libcap2 libcom-err2 libcrypt1 libdebconfclient0 libdeflate0 libexpat1 libffi8 libfontenc1 libfreetype6 libfribidi0 libgcc-s1 libgcrypt20 libgfortran5 libgmp10 libgomp1 libgpg-error0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhtscodecs2 libidn2-0 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblcms2-2 libldap-2.5-0 liblerc4 liblz4-1 liblzma5 libmd0 libmount1 libncursesw6 libnghttp2-14 libnsl2 libopenjp2-7 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libpython3-stdlib libquadmath0 libraqm0 librtmp1 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsmartcols1 libsqlite3-0 libss2 libstdc++6 libsystemd0 libtasn1-6 libtiff6 libtinfo6 libtirpc-common libudev1 libuuid1 libwebp7 libwebpdemux2 libwebpmux3 libxau6 libxcb1 libxdmcp6 libxxhash0 libzstd1 login logsave mailcap mawk media-types mount ncurses-base ncurses-bin passwd perl perl-base python3 python3-biopython python3-minimal python3-numpy python3-pil python3-pkg-resources python3-pysam python3-reportlab python3-vcf readline-common sed sysvinit-utils tar tzdata usr-is-merged util-linux util-linux-extra x11-common xml-core zlib1g 142 upgraded, 54 newly installed, 19 to remove and 0 not upgraded. Need to get 111 MB of archives. After this operation, 227 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian trixie/main amd64 base-files amd64 13.5 [72.8 kB] Get:2 http://deb.debian.org/debian trixie/main amd64 libc6 amd64 2.39-7 [2791 kB] Get:3 http://deb.debian.org/debian trixie/main amd64 libc-bin amd64 2.39-7 [610 kB] Get:4 http://deb.debian.org/debian trixie/main amd64 gcc-14-base amd64 14.2.0-1 [45.7 kB] Get:5 http://deb.debian.org/debian trixie/main amd64 libgcc-s1 amd64 14.2.0-1 [72.8 kB] Get:6 http://deb.debian.org/debian trixie/main amd64 debianutils amd64 5.20 [89.5 kB] Get:7 http://deb.debian.org/debian trixie/main amd64 bash amd64 5.2.21-2.1+b1 [1498 kB] Get:8 http://deb.debian.org/debian trixie/main amd64 libcap2 amd64 1:2.66-5 [27.4 kB] Get:9 http://deb.debian.org/debian trixie/main amd64 libsystemd0 amd64 256.5-1 [381 kB] Get:10 http://deb.debian.org/debian trixie/main amd64 bsdutils amd64 1:2.40.2-1 [104 kB] Get:11 http://deb.debian.org/debian trixie/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b1 [559 kB] Get:12 http://deb.debian.org/debian trixie/main amd64 libzstd1 amd64 1.5.6+dfsg-1 [303 kB] Get:13 http://deb.debian.org/debian trixie/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1 [87.9 kB] Get:14 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:15 http://deb.debian.org/debian trixie/main amd64 libgpg-error0 amd64 1.50-3 [81.5 kB] Get:16 http://deb.debian.org/debian trixie/main amd64 libgcrypt20 amd64 1.11.0-6 [843 kB] Get:17 http://deb.debian.org/debian trixie/main amd64 libstdc++6 amd64 14.2.0-1 [713 kB] Get:18 http://deb.debian.org/debian trixie/main amd64 libnettle8t64 amd64 3.10-1 [303 kB] Get:19 http://deb.debian.org/debian trixie/main amd64 libhogweed6t64 amd64 3.10-1 [334 kB] Get:20 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-2 [424 kB] Get:21 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.2-1 [425 kB] Get:22 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.6-2 [1444 kB] Get:23 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.4.0-1 [63.1 kB] Get:24 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.6.0-1 [122 kB] Get:25 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.6.0-1 [19.6 kB] Get:26 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:27 http://deb.debian.org/debian trixie/main amd64 libssl3t64 amd64 3.2.2-1 [2246 kB] Get:28 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:29 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.9.1-2 [470 kB] Get:30 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.20+ds-1 [452 kB] Get:31 http://deb.debian.org/debian trixie/main amd64 libapt-pkg6.0t64 amd64 2.9.8 [1045 kB] Get:32 http://deb.debian.org/debian trixie/main amd64 libbz2-1.0 amd64 1.0.8-6 [37.9 kB] Get:33 http://deb.debian.org/debian trixie/main amd64 libxxhash0 amd64 0.8.2-2+b1 [26.6 kB] Get:34 http://deb.debian.org/debian trixie/main amd64 liblz4-1 amd64 1.9.4-3 [59.4 kB] Get:35 http://deb.debian.org/debian trixie/main amd64 liblzma5 amd64 5.6.2-2 [254 kB] Get:36 http://deb.debian.org/debian trixie/main amd64 libudev1 amd64 256.5-1 [144 kB] Get:37 http://deb.debian.org/debian trixie/main amd64 libdebconfclient0 amd64 0.272 [10.0 kB] Get:38 http://deb.debian.org/debian trixie/main amd64 libpcre2-8-0 amd64 10.42-4+b1 [262 kB] Get:39 http://deb.debian.org/debian trixie/main amd64 libselinux1 amd64 3.5-2+b4 [75.1 kB] Get:40 http://deb.debian.org/debian trixie/main amd64 base-passwd amd64 3.6.4 [50.9 kB] Get:41 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-7 [19.6 kB] Get:42 http://deb.debian.org/debian trixie/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-7 [697 kB] Get:43 http://deb.debian.org/debian trixie/main amd64 libaudit-common all 1:3.1.2-4 [11.5 kB] Get:44 http://deb.debian.org/debian trixie/main amd64 libcap-ng0 amd64 0.8.5-2 [17.2 kB] Get:45 http://deb.debian.org/debian trixie/main amd64 libaudit1 amd64 1:3.1.2-4+b1 [49.0 kB] Get:46 http://deb.debian.org/debian trixie/main amd64 libcrypt1 amd64 1:4.4.36-5 [89.8 kB] Get:47 http://deb.debian.org/debian trixie/main amd64 perl-modules-5.38 all 5.38.2-5 [2905 kB] Get:48 http://deb.debian.org/debian trixie/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:49 http://deb.debian.org/debian trixie/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:50 http://deb.debian.org/debian trixie/main amd64 libperl5.38t64 amd64 5.38.2-5 [4275 kB] Get:51 http://deb.debian.org/debian trixie/main amd64 perl amd64 5.38.2-5 [236 kB] Get:52 http://deb.debian.org/debian trixie/main amd64 perl-base amd64 5.38.2-5 [1643 kB] Get:53 http://deb.debian.org/debian trixie/main amd64 debconf all 1.5.87 [119 kB] Get:54 http://deb.debian.org/debian trixie/main amd64 libpam0g amd64 1.5.3-7 [67.7 kB] Get:55 http://deb.debian.org/debian trixie/main amd64 libpam-modules-bin amd64 1.5.3-7 [54.4 kB] Get:56 http://deb.debian.org/debian trixie/main amd64 libpam-modules amd64 1.5.3-7 [265 kB] Get:57 http://deb.debian.org/debian trixie/main amd64 libpam-runtime all 1.5.3-7 [140 kB] Get:58 http://deb.debian.org/debian trixie/main amd64 libmd0 amd64 1.1.0-2 [35.8 kB] Get:59 http://deb.debian.org/debian trixie/main amd64 libbsd0 amd64 0.12.2-1 [131 kB] Get:60 http://deb.debian.org/debian trixie/main amd64 login amd64 1:4.15.3-2 [564 kB] Get:61 http://deb.debian.org/debian trixie/main amd64 libacl1 amd64 2.3.2-2 [32.4 kB] Get:62 http://deb.debian.org/debian trixie/main amd64 libattr1 amd64 1:2.5.2-1 [22.5 kB] Get:63 http://deb.debian.org/debian trixie/main amd64 libsemanage-common all 3.5-1 [9908 B] Get:64 http://deb.debian.org/debian trixie/main amd64 libsepol2 amd64 3.7-1 [293 kB] Get:65 http://deb.debian.org/debian trixie/main amd64 libsemanage2 amd64 3.5-1+b4 [90.1 kB] Get:66 http://deb.debian.org/debian trixie/main amd64 passwd amd64 1:4.15.3-2 [973 kB] Get:67 http://deb.debian.org/debian trixie/main amd64 adduser all 3.137 [140 kB] Get:68 http://deb.debian.org/debian trixie/main amd64 gpgv amd64 2.2.43-8 [216 kB] Get:69 http://deb.debian.org/debian trixie/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:70 http://deb.debian.org/debian trixie/main amd64 libseccomp2 amd64 2.5.5-1+b1 [47.3 kB] Get:71 http://deb.debian.org/debian trixie/main amd64 apt amd64 2.9.8 [1410 kB] Get:72 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-7 [57.2 kB] Get:73 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-2 [186 kB] Get:74 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:75 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2 [128 kB] Get:76 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.19.0-3+b2 [48.9 kB] Get:77 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:78 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:79 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:80 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:81 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:82 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:83 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:84 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.62.1-2 [74.9 kB] Get:85 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.21-1 [47.3 kB] Get:86 http://deb.debian.org/debian trixie/main amd64 libhtscodecs2 amd64 1.6.0-1+b1 [93.0 kB] Get:87 http://deb.debian.org/debian trixie/main amd64 coreutils amd64 9.4-3.1 [2950 kB] Get:88 http://deb.debian.org/debian trixie/main amd64 dash amd64 0.5.12-9 [93.2 kB] Get:89 http://deb.debian.org/debian trixie/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:90 http://deb.debian.org/debian trixie/main amd64 tar amd64 1.35+dfsg-3 [813 kB] Get:91 http://deb.debian.org/debian trixie/main amd64 dpkg amd64 1.22.11 [1531 kB] Get:92 http://deb.debian.org/debian trixie/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:93 http://deb.debian.org/debian trixie/main amd64 grep amd64 3.11-4 [431 kB] Get:94 http://deb.debian.org/debian trixie/main amd64 gzip amd64 1.12-1.1 [133 kB] Get:95 http://deb.debian.org/debian trixie/main amd64 hostname amd64 3.23+nmu2 [10.6 kB] Get:96 http://deb.debian.org/debian trixie/main amd64 libncursesw6 amd64 6.5-2 [135 kB] Get:97 http://deb.debian.org/debian trixie/main amd64 libtinfo6 amd64 6.5-2 [344 kB] Get:98 http://deb.debian.org/debian trixie/main amd64 ncurses-bin amd64 6.5-2 [433 kB] Get:99 http://deb.debian.org/debian trixie/main amd64 sed amd64 4.9-2 [329 kB] Get:100 http://deb.debian.org/debian trixie/main amd64 libblkid1 amd64 2.40.2-1 [166 kB] Get:101 http://deb.debian.org/debian trixie/main amd64 libmount1 amd64 2.40.2-1 [198 kB] Get:102 http://deb.debian.org/debian trixie/main amd64 libsmartcols1 amd64 2.40.2-1 [138 kB] Get:103 http://deb.debian.org/debian trixie/main amd64 libuuid1 amd64 2.40.2-1 [34.9 kB] Get:104 http://deb.debian.org/debian trixie/main amd64 util-linux amd64 2.40.2-1 [1214 kB] Get:105 http://deb.debian.org/debian trixie/main amd64 util-linux-extra amd64 2.40.2-1 [263 kB] Get:106 http://deb.debian.org/debian trixie/main amd64 usr-is-merged all 39 [5572 B] Get:107 http://deb.debian.org/debian trixie/main amd64 init-system-helpers all 1.66 [39.0 kB] Get:108 http://deb.debian.org/debian trixie/main amd64 ncurses-base all 6.5-2 [270 kB] Get:109 http://deb.debian.org/debian trixie/main amd64 sysvinit-utils amd64 3.10-1 [32.7 kB] Get:110 http://deb.debian.org/debian trixie/main amd64 logsave amd64 1.47.1-1 [22.7 kB] Get:111 http://deb.debian.org/debian trixie/main amd64 libext2fs2t64 amd64 1.47.1-1 [210 kB] Get:112 http://deb.debian.org/debian trixie/main amd64 e2fsprogs amd64 1.47.1-1 [583 kB] Get:113 http://deb.debian.org/debian trixie/main amd64 libatomic1 amd64 14.2.0-1 [9280 B] Get:114 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 9.0.0-1 [474 kB] Get:115 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.81.2-1 [1497 kB] Get:116 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b4 [439 kB] Get:117 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get:118 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-4 [69.3 kB] Get:119 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-4 [167 kB] Get:120 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:121 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get:122 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get:123 http://deb.debian.org/debian trixie/main amd64 python3-biopython amd64 1.83+dfsg1-3+b1 [1606 kB] Get:124 http://deb.debian.org/debian trixie/main amd64 python3-reportlab all 4.2.2-1 [1150 kB] Get:125 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.4-3 [812 kB] Get:126 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get:127 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.4-3 [2137 kB] Get:128 http://deb.debian.org/debian trixie/main amd64 python3-vcf amd64 0.6.8+git20170215.476169c-10+b1 [50.3 kB] Get:129 http://deb.debian.org/debian trixie/main amd64 python3-pysam amd64 0.22.1+ds-2+b1 [3474 kB] Get:130 http://deb.debian.org/debian trixie/main amd64 python3-pil amd64 10.4.0-1 [502 kB] Get:131 http://deb.debian.org/debian trixie/main amd64 python3-numpy amd64 1:1.26.4+ds-11 [4236 kB] Get:132 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.12.5-1 [26.7 kB] Get:133 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.12.5-1 [27.6 kB] Get:134 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 70.3.0-2 [264 kB] Get:135 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get:136 http://deb.debian.org/debian trixie/main amd64 libgomp1 amd64 14.2.0-1 [137 kB] Get:137 http://deb.debian.org/debian trixie/main amd64 libimagequant0 amd64 2.18.0-1+b1 [35.3 kB] Get:138 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:139 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.14-2+b1 [154 kB] Get:140 http://deb.debian.org/debian trixie/main amd64 libopenjp2-7 amd64 2.5.0-2+b3 [190 kB] Get:141 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:142 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:143 http://deb.debian.org/debian trixie/main amd64 libraqm0 amd64 0.10.1-1+b1 [14.2 kB] Get:144 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:145 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:146 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get:147 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get:148 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:149 http://deb.debian.org/debian trixie/main amd64 libwebpdemux2 amd64 1.4.0-0.1 [110 kB] Get:150 http://deb.debian.org/debian trixie/main amd64 libwebpmux3 amd64 1.4.0-0.1 [123 kB] Get:151 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:152 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:153 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:154 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:155 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-1 [837 kB] Get:156 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:157 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get:158 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024a-4 [255 kB] Get:159 http://deb.debian.org/debian trixie/main amd64 libsqlite3-0 amd64 3.46.0-1 [902 kB] Get:160 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.4-3 [1950 kB] Get:161 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.4-3 [664 kB] Get:162 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.12.5-1 [9588 B] Get:163 http://deb.debian.org/debian trixie/main amd64 python3-chardet all 5.2.0+dfsg-1 [107 kB] Get:164 http://deb.debian.org/debian trixie/main amd64 fonts-urw-base35 all 20200910-8 [10.8 MB] Get:165 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get:166 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get:167 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get:168 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:169 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:170 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get:171 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:172 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:173 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get:174 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.0-3+b1 [531 kB] Get:175 http://deb.debian.org/debian trixie/main amd64 python3-cairo amd64 1.26.1-1+b1 [114 kB] Get:176 http://deb.debian.org/debian trixie/main amd64 python3-freetype all 2.4.0-2 [78.6 kB] Get:177 http://deb.debian.org/debian trixie/main amd64 python3-rlpycairo all 0.3.0-3 [9904 B] Get:178 http://deb.debian.org/debian trixie/main amd64 mount amd64 2.40.2-1 [154 kB] Get:179 http://deb.debian.org/debian trixie/main amd64 mawk amd64 1.3.4.20240622-2 [136 kB] Get:180 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-5 [64.7 kB] Get:181 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-5 [878 kB] Get:182 http://deb.debian.org/debian trixie/main amd64 python3-decorator all 5.1.1-5 [15.1 kB] Get:183 http://deb.debian.org/debian trixie/main amd64 liblbfgsb0 amd64 3.0+dfsg.4-1+b1 [29.1 kB] Get:184 http://deb.debian.org/debian trixie/main amd64 python3-scipy amd64 1.13.1-3 [16.7 MB] Get:185 http://deb.debian.org/debian trixie/main amd64 python3-joblib all 1.3.2-2 [218 kB] Get:186 http://deb.debian.org/debian trixie/main amd64 python3-threadpoolctl all 3.1.0-1 [21.2 kB] Get:187 http://deb.debian.org/debian trixie/main amd64 python3-sklearn-lib amd64 1.4.2+dfsg-6 [3657 kB] Get:188 http://deb.debian.org/debian trixie/main amd64 python3-sklearn all 1.4.2+dfsg-6 [2248 kB] Get:189 http://deb.debian.org/debian trixie/main amd64 cutesv all 2.1.0-2 [36.9 kB] Get:190 http://deb.debian.org/debian trixie/main amd64 libquadmath0 amd64 14.2.0-1 [145 kB] Get:191 http://deb.debian.org/debian trixie/main amd64 gcc-12-base amd64 12.4.0-2 [42.9 kB] Get:192 http://deb.debian.org/debian trixie/main amd64 libfontenc1 amd64 1:1.1.8-1 [23.0 kB] Get:193 http://deb.debian.org/debian trixie/main amd64 libss2 amd64 1.47.1-1 [27.6 kB] Get:194 http://deb.debian.org/debian trixie/main amd64 mailcap all 3.72 [32.6 kB] Get:195 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:196 http://deb.debian.org/debian trixie/main amd64 xml-core all 0.19 [20.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 111 MB in 1s (185 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 ... 12276 files and directories currently installed.) Preparing to unpack .../libnettle8t64_3.10-1_amd64.deb ... Unpacking libnettle8t64:amd64 (3.10-1) ... Setting up libnettle8t64:amd64 (3.10-1) ... dpkg: libhogweed6:amd64: dependency problems, but removing anyway as you requested: libgnutls30:amd64 depends on libhogweed6 (>= 3.6). (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 12285 files and directories currently installed.) Removing libhogweed6:amd64 (3.8.1-2) ... Selecting previously unselected package libhogweed6t64: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 ... 12279 files and directories currently installed.) Preparing to unpack .../libhogweed6t64_3.10-1_amd64.deb ... Unpacking libhogweed6t64:amd64 (3.10-1) ... Setting up libhogweed6t64:amd64 (3.10-1) ... (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 ... 12286 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.25.5-2_amd64.deb ... Unpacking libp11-kit0:amd64 (0.25.5-2) over (0.24.1-2) ... Setting up libp11-kit0:amd64 (0.25.5-2) ... Selecting previously unselected package libunistring5: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 ... 12286 files and directories currently installed.) Preparing to unpack .../libunistring5_1.2-1_amd64.deb ... Unpacking libunistring5:amd64 (1.2-1) ... Setting up libunistring5:amd64 (1.2-1) ... dpkg: libgnutls30:amd64: dependency problems, but removing anyway as you requested: libldap-2.5-0:amd64 depends on libgnutls30 (>= 3.7.5). libcurl3-gnutls:amd64 depends on libgnutls30 (>= 3.7.5). apt depends on libgnutls30 (>= 3.7.5). (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 ... 12292 files and directories currently installed.) Removing libgnutls30:amd64 (3.7.9-2+deb12u3) ... Selecting previously unselected package libgnutls30t64: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 ... 12263 files and directories currently installed.) Preparing to unpack .../libgnutls30t64_3.8.6-2_amd64.deb ... Unpacking libgnutls30t64:amd64 (3.8.6-2) ... Setting up libgnutls30t64:amd64 (3.8.6-2) ... Selecting previously unselected package libnghttp3-9: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 ... 12292 files and directories currently installed.) Preparing to unpack .../libnghttp3-9_1.4.0-1_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.4.0-1) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../libngtcp2-16_1.6.0-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.6.0-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../libngtcp2-crypto-gnutls8_1.6.0-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... dpkg: libpsl5:amd64: dependency problems, but removing anyway as you requested: libcurl3-gnutls:amd64 depends on libpsl5 (>= 0.16.0). (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 ... 12310 files and directories currently installed.) Removing libpsl5:amd64 (0.21.2-1) ... Selecting previously unselected package libpsl5t64: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 ... 12304 files and directories currently installed.) Preparing to unpack .../libpsl5t64_0.21.2-1.1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1) ... dpkg: libssh2-1:amd64: dependency problems, but removing anyway as you requested: libcurl3-gnutls:amd64 depends on libssh2-1 (>= 1.7.0). (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 ... 12311 files and directories currently installed.) Removing libssh2-1:amd64 (1.10.0-3+b1) ... dpkg: libssl3:amd64: dependency problems, but removing anyway as you requested: libpython3.11-minimal:amd64 depends on libssl3 (>= 3.0.0). libkrb5-3:amd64 depends on libssl3 (>= 3.0.0). libhts3:amd64 depends on libssl3 (>= 3.0.0). Removing libssl3:amd64 (3.0.13-1~deb12u1) ... Selecting previously unselected package libssl3t64: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 ... 12290 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.2.2-1_amd64.deb ... Unpacking libssl3t64:amd64 (3.2.2-1) ... Setting up libssl3t64:amd64 (3.2.2-1) ... Selecting previously unselected package libssh2-1t64: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 ... 12305 files and directories currently installed.) Preparing to unpack .../libssh2-1t64_1.11.0-7_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-7) ... dpkg: libcurl3-gnutls:amd64: dependency problems, but removing anyway as you requested: libhts3:amd64 depends on libcurl3-gnutls (>= 7.18.0). (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 ... 12314 files and directories currently installed.) Removing libcurl3-gnutls:amd64 (7.88.1-10+deb12u6) ... Selecting previously unselected package libcurl3t64-gnutls: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 ... 12306 files and directories currently installed.) Preparing to unpack .../libcurl3t64-gnutls_8.9.1-2_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.9.1-2) ... dpkg: libhts3:amd64: dependency problems, but removing anyway as you requested: python3-pysam depends on libhts3 (>= 1.16). (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 ... 12299 files and directories currently installed.) Preparing to unpack .../libhts3t64_1.20+ds-1_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-1) ... dpkg: libapt-pkg6.0:amd64: dependency problems, but removing anyway as you requested: apt depends on libapt-pkg6.0 (>= 2.6.1). (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 ... 12315 files and directories currently installed.) Removing libapt-pkg6.0:amd64 (2.6.1) ... Selecting previously unselected package libapt-pkg6.0t64: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 ... 12266 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0t64_2.9.8_amd64.deb ... Unpacking libapt-pkg6.0t64:amd64 (2.9.8) ... Setting up libapt-pkg6.0t64:amd64 (2.9.8) ... (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 ... 12315 files and directories currently installed.) Preparing to unpack .../libxxhash0_0.8.2-2+b1_amd64.deb ... Unpacking libxxhash0:amd64 (0.8.2-2+b1) over (0.8.1-1) ... Setting up libxxhash0:amd64 (0.8.2-2+b1) ... (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 ... 12316 files and directories currently installed.) Preparing to unpack .../liblz4-1_1.9.4-3_amd64.deb ... Unpacking liblz4-1:amd64 (1.9.4-3) over (1.9.4-1) ... Setting up liblz4-1:amd64 (1.9.4-3) ... (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 ... 12316 files and directories currently installed.) Preparing to unpack .../liblzma5_5.6.2-2_amd64.deb ... Unpacking liblzma5:amd64 (5.6.2-2) over (5.4.1-0.2) ... Setting up liblzma5:amd64 (5.6.2-2) ... (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 ... 12316 files and directories currently installed.) Preparing to unpack .../libudev1_256.5-1_amd64.deb ... Unpacking libudev1:amd64 (256.5-1) over (252.26-1~deb12u2) ... Setting up libudev1:amd64 (256.5-1) ... (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 ... 12316 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.272_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.272) over (0.270) ... Setting up libdebconfclient0:amd64 (0.272) ... (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 ... 12316 files and directories currently installed.) Preparing to unpack .../libpcre2-8-0_10.42-4+b1_amd64.deb ... Unpacking libpcre2-8-0:amd64 (10.42-4+b1) over (10.42-1) ... Setting up libpcre2-8-0:amd64 (10.42-4+b1) ... (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 ... 12317 files and directories currently installed.) Preparing to unpack .../libselinux1_3.5-2+b4_amd64.deb ... Unpacking libselinux1:amd64 (3.5-2+b4) over (3.4-1+b6) ... Setting up libselinux1:amd64 (3.5-2+b4) ... (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 ... 12318 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.4_amd64.deb ... Unpacking base-passwd (3.6.4) over (3.6.1) ... Setting up base-passwd (3.6.4) ... (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 ... 12318 files and directories currently installed.) Preparing to unpack .../libsasl2-modules-db_2.1.28+dfsg1-7_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-7) over (2.1.28+dfsg-10) ... dpkg: libdb5.3:amd64: dependency problems, but removing anyway as you requested: libpython3.11-stdlib:amd64 depends on libdb5.3. libperl5.36:amd64 depends on libdb5.3. libpam-modules:amd64 depends on libdb5.3. (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 ... 12317 files and directories currently installed.) Removing libdb5.3:amd64 (5.3.28+dfsg2-1) ... Selecting previously unselected package libdb5.3t64: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 ... 12311 files and directories currently installed.) Preparing to unpack .../libdb5.3t64_5.3.28+dfsg2-7_amd64.deb ... Unpacking libdb5.3t64:amd64 (5.3.28+dfsg2-7) ... Setting up libdb5.3t64:amd64 (5.3.28+dfsg2-7) ... (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 ... 12317 files and directories currently installed.) Preparing to unpack .../libaudit-common_1%3a3.1.2-4_all.deb ... Unpacking libaudit-common (1:3.1.2-4) over (1:3.0.9-1) ... Setting up libaudit-common (1:3.1.2-4) ... (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 ... 12317 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.8.5-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.8.5-2) over (0.8.3-1+b3) ... Setting up libcap-ng0:amd64 (0.8.5-2) ... (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 ... 12316 files and directories currently installed.) Preparing to unpack .../libaudit1_1%3a3.1.2-4+b1_amd64.deb ... Unpacking libaudit1:amd64 (1:3.1.2-4+b1) over (1:3.0.9-1) ... Setting up libaudit1:amd64 (1:3.1.2-4+b1) ... (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 ... 12317 files and directories currently installed.) Preparing to unpack .../libcrypt1_1%3a4.4.36-5_amd64.deb ... Unpacking libcrypt1:amd64 (1:4.4.36-5) over (1:4.4.33-2) ... Setting up libcrypt1:amd64 (1:4.4.36-5) ... (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 ... 12317 files and directories currently installed.) Preparing to unpack .../perl_5.38.2-5_amd64.deb ... Unpacking perl (5.38.2-5) over (5.36.0-7+deb12u1) ... Selecting previously unselected package perl-modules-5.38. Preparing to unpack .../perl-modules-5.38_5.38.2-5_all.deb ... Unpacking perl-modules-5.38 (5.38.2-5) ... dpkg: libgdbm6:amd64: dependency problems, but removing anyway as you requested: libperl5.36:amd64 depends on libgdbm6 (>= 1.21). libgdbm-compat4:amd64 depends on libgdbm6 (>= 1.16). (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 ... 13730 files and directories currently installed.) Removing libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm6t64:amd64. (Reading database ... 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Setting up perl-base (5.38.2-5) ... (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 ... 14258 files and directories currently installed.) Preparing to unpack .../debconf_1.5.87_all.deb ... Unpacking debconf (1.5.87) over (1.5.82) ... Setting up debconf (1.5.87) ... Installing new version of config file /etc/debconf.conf ... (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 ... 14254 files and directories currently installed.) Preparing to unpack .../login_1%3a4.15.3-2_amd64.deb ... Unpacking login (1:4.15.3-2) over (1:4.13+dfsg1-1+b1) ... Setting up login (1:4.15.3-2) ... Installing new version of config file /etc/login.defs ... Installing new version of config file /etc/pam.d/login ... (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 ... 14216 files and directories currently installed.) Preparing to unpack .../libacl1_2.3.2-2_amd64.deb ... Unpacking libacl1:amd64 (2.3.2-2) over (2.3.1-3) ... Setting up libacl1:amd64 (2.3.2-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14216 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 ... (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 ... 14216 files and directories currently installed.) Preparing to unpack .../libsepol2_3.7-1_amd64.deb ... Unpacking libsepol2:amd64 (3.7-1) over (3.4-2.1) ... Setting up libsepol2:amd64 (3.7-1) ... (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 ... 14216 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.15.3-2_amd64.deb ... Unpacking passwd (1:4.15.3-2) over (1:4.13+dfsg1-1+b1) ... Setting up passwd (1:4.15.3-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14204 files and directories currently installed.) Preparing to unpack .../archives/apt_2.9.8_amd64.deb ... Unpacking apt (2.9.8) over (2.6.1) ... Setting up apt (2.9.8) ... (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 ... 14200 files and directories currently installed.) Preparing to unpack .../libsasl2-2_2.1.28+dfsg1-7_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-7) over (2.1.28+dfsg-10) ... Preparing to unpack .../libldap-2.5-0_2.5.18+dfsg-2_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-2) over (2.5.13+dfsg-5) ... Preparing to unpack .../libffi8_3.4.6-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.6-1) over (3.4.4-1) ... Setting up libffi8:amd64 (3.4.6-1) ... (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 ... 14199 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.7-2_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.7-2) over (2.3.3-1+b1) ... Setting up libidn2-0:amd64 (2.3.7-2) ... (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 ... 14199 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-3+b2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-3+b2) over (4.19.0-2) ... Setting up libtasn1-6:amd64 (4.19.0-3+b2) ... (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 ... 14200 files and directories currently installed.) Preparing to unpack .../00-libbrotli1_1.1.0-2+b4_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b4) over (1.0.9-2+b6) ... Preparing to unpack .../01-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../02-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../03-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../05-libcom-err2_1.47.1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1) over (1.47.0-2) ... Preparing to unpack .../06-libkeyutils1_1.6.3-3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-3) over (1.6.3-2) ... Preparing to unpack .../07-libnghttp2-14_1.62.1-2_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.62.1-2) over (1.52.0-1+deb12u1) ... Preparing to unpack .../08-libdeflate0_1.21-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.21-1) over (1.14-1) ... Preparing to unpack .../09-libhtscodecs2_1.6.0-1+b1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.0-1+b1) over (1.3.0-4) ... Preparing to unpack .../10-coreutils_9.4-3.1_amd64.deb ... Unpacking coreutils (9.4-3.1) over (9.1-1) ... Setting up coreutils (9.4-3.1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14208 files and directories currently installed.) Preparing to unpack .../dash_0.5.12-9_amd64.deb ... Unpacking dash (0.5.12-9) over (0.5.12-2) ... Setting up dash (0.5.12-9) ... Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' (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 ... 14205 files and directories currently installed.) Preparing to unpack .../diffutils_1%3a3.10-1_amd64.deb ... Unpacking diffutils (1:3.10-1) over (1:3.8-4) ... Setting up diffutils (1:3.10-1) ... (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 ... 14207 files and directories currently installed.) Preparing to unpack .../tar_1.35+dfsg-3_amd64.deb ... Unpacking tar (1.35+dfsg-3) over (1.34+dfsg-1.2+deb12u1) ... Setting up tar (1.35+dfsg-3) ... (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 ... 14208 files and directories currently installed.) Preparing to unpack .../dpkg_1.22.11_amd64.deb ... Unpacking dpkg (1.22.11) over (1.21.22) ... Setting up dpkg (1.22.11) ... (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 ... 14195 files and directories currently installed.) Preparing to unpack .../findutils_4.10.0-3_amd64.deb ... Unpacking findutils (4.10.0-3) over (4.9.0-4) ... Setting up findutils (4.10.0-3) ... (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 ... 14193 files and directories currently installed.) Preparing to unpack .../gzip_1.12-1.1_amd64.deb ... Unpacking gzip (1.12-1.1) over (1.12-1) ... dpkg: warning: old file '/bin/uncompress' is the same as several new files! (both '/usr/bin/gunzip' and '/usr/bin/uncompress') dpkg: warning: old file '/bin/gunzip' is the same as several new files! (both '/usr/bin/gunzip' and '/usr/bin/uncompress') Setting up gzip (1.12-1.1) ... (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 ... 14193 files and directories currently installed.) Preparing to unpack .../hostname_3.23+nmu2_amd64.deb ... Unpacking hostname (3.23+nmu2) over (3.23+nmu1) ... Setting up hostname (3.23+nmu2) ... (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 ... 14193 files and directories currently installed.) Preparing to unpack .../libncursesw6_6.5-2_amd64.deb ... Unpacking libncursesw6:amd64 (6.5-2) over (6.4-4) ... Preparing to unpack .../libtinfo6_6.5-2_amd64.deb ... Unpacking libtinfo6:amd64 (6.5-2) over (6.4-4) ... Setting up libtinfo6:amd64 (6.5-2) ... (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 ... 14193 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.5-2_amd64.deb ... Unpacking ncurses-bin (6.5-2) over (6.4-4) ... Setting up ncurses-bin (6.5-2) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14193 files and directories currently installed.) Preparing to unpack .../libblkid1_2.40.2-1_amd64.deb ... Unpacking libblkid1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up libblkid1:amd64 (2.40.2-1) ... (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 ... 14194 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.2-1_amd64.deb ... Unpacking libmount1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up libmount1:amd64 (2.40.2-1) ... (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 ... 14195 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.40.2-1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up libsmartcols1:amd64 (2.40.2-1) ... (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 ... 14196 files and directories currently installed.) Preparing to unpack .../libuuid1_2.40.2-1_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up libuuid1:amd64 (2.40.2-1) ... (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 ... 14197 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-1_amd64.deb ... Unpacking util-linux (2.40.2-1) over (2.38.1-5+deb12u1) ... Setting up util-linux (2.40.2-1) ... (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 ... 14171 files and directories currently installed.) Preparing to unpack .../util-linux-extra_2.40.2-1_amd64.deb ... Adding 'diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra' Adding 'diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra' Unpacking util-linux-extra (2.40.2-1) over (2.38.1-5+deb12u1) ... dpkg: warning: unable to delete old directory '/usr/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/usr/lib/udev': Directory not empty Setting up util-linux-extra (2.40.2-1) ... (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 ... 14211 files and directories currently installed.) Preparing to unpack .../usr-is-merged_39_all.deb ... Unpacking usr-is-merged (39) over (37~deb12u1) ... Setting up usr-is-merged (39) ... (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 ... 14211 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.66_all.deb ... Unpacking init-system-helpers (1.66) over (1.65.2) ... Setting up init-system-helpers (1.66) ... (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 ... 14211 files and directories currently installed.) Preparing to unpack .../ncurses-base_6.5-2_all.deb ... Unpacking ncurses-base (6.5-2) over (6.4-4) ... Setting up ncurses-base (6.5-2) ... (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 ... 14209 files and directories currently installed.) Preparing to unpack .../sysvinit-utils_3.10-1_amd64.deb ... Unpacking sysvinit-utils (3.10-1) over (3.06-4) ... dpkg: warning: unable to delete old directory '/lib/lsb/init-functions.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/lsb': Directory not empty dpkg: warning: unable to delete old directory '/lib/init': Directory not empty Setting up sysvinit-utils (3.10-1) ... (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 ... 14209 files and directories currently installed.) Preparing to unpack .../logsave_1.47.1-1_amd64.deb ... Unpacking logsave (1.47.1-1) over (1.47.0-2) ... dpkg: libext2fs2:amd64: dependency problems, but removing anyway as you requested: e2fsprogs depends on libext2fs2 (= 1.47.0-2). (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 ... 14209 files and directories currently installed.) Removing libext2fs2:amd64 (1.47.0-2) ... Selecting previously unselected package libext2fs2t64: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 ... 14202 files and directories currently installed.) Preparing to unpack .../libext2fs2t64_1.47.1-1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' Unpacking libext2fs2t64:amd64 (1.47.1-1) ... Setting up libcom-err2:amd64 (1.47.1-1) ... Setting up libext2fs2t64:amd64 (1.47.1-1) ... (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 ... 14218 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.47.1-1_amd64.deb ... Unpacking e2fsprogs (1.47.1-1) over (1.47.0-2) ... dpkg: warning: unable to delete old directory '/lib/udev/rules.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/udev': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd': Directory not empty Selecting previously unselected package libatomic1:amd64. Preparing to unpack .../libatomic1_14.2.0-1_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-1) ... Preparing to unpack .../libharfbuzz0b_9.0.0-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (9.0.0-1) over (6.0.0+dfsg-3) ... (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 ... 14218 files and directories currently installed.) Removing libglib2.0-0:amd64 (2.74.6-2+deb12u3) ... Selecting previously unselected package libglib2.0-0t64: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 ... 14194 files and directories currently installed.) Preparing to unpack .../libglib2.0-0t64_2.81.2-1_amd64.deb ... libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:amd64.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... removed '/var/lib/dpkg/info/libglib2.0-0:amd64.postrm' Unpacking libglib2.0-0t64:amd64 (2.81.2-1) ... Preparing to unpack .../libfreetype6_2.13.2+dfsg-1+b4_amd64.deb ... Unpacking libfreetype6:amd64 (2.13.2+dfsg-1+b4) over (2.12.1+dfsg-5+deb12u3) ... (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 ... 14220 files and directories currently installed.) Removing libpng16-16:amd64 (1.6.39-2) ... Selecting previously unselected package libpng16-16t64: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 ... 14209 files and directories currently installed.) Preparing to unpack .../libpng16-16t64_1.6.43-5_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.43-5) ... Preparing to unpack .../readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) over (8.2-1.3) ... dpkg: libreadline8:amd64: dependency problems, but removing anyway as you requested: libpython3.11-stdlib:amd64 depends on libreadline8 (>= 7.0~beta). (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 ... 14221 files and directories currently installed.) Removing libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libreadline8t64: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 ... 14208 files and directories currently installed.) Preparing to unpack .../libreadline8t64_8.2-4_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-4) ... Preparing to unpack .../libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) over (1.3.3+ds-1) ... Preparing to unpack .../libnsl2_1.3.0-3+b2_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b2) over (1.3.0-2) ... dpkg: libtirpc3:amd64: dependency problems, but removing anyway as you requested: libpython3.11-stdlib:amd64 depends on libtirpc3 (>= 1.0.2). (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 ... 14230 files and directories currently installed.) Removing libtirpc3:amd64 (1.3.3+ds-1) ... Selecting previously unselected package libtirpc3t64: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 ... 14223 files and directories currently installed.) Preparing to unpack .../libtirpc3t64_1.3.4+ds-1.3_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Preparing to unpack .../python3-biopython_1.83+dfsg1-3+b1_amd64.deb ... Unpacking python3-biopython (1.83+dfsg1-3+b1) over (1.80+dfsg-4+b1) ... (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 ... 14226 files and directories currently installed.) Removing python3-renderpm:amd64 (3.6.12-1+b1) ... dpkg: python3-reportlab-accel:amd64: dependency problems, but removing anyway as you requested: python3-reportlab depends on python3-reportlab-accel (>= 3.6.12-1). Removing python3-reportlab-accel:amd64 (3.6.12-1+b1) ... (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 ... 14214 files and directories currently installed.) Preparing to unpack .../0-python3-reportlab_4.2.2-1_all.deb ... Unpacking python3-reportlab (4.2.2-1) over (3.6.12-1) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../1-libpython3.12-minimal_3.12.4-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.4-3) ... 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Setting up python3-vcf (0.6.8+git20170215.476169c-10+b1) ... /usr/lib/python3/dist-packages/vcf/parser.py:278: SyntaxWarning: invalid escape sequence '\[' self._alt_pattern = re.compile('[\[\]]') /usr/lib/python3/dist-packages/vcf/parser.py:536: SyntaxWarning: invalid escape sequence '\[' remoteOrientation = (re.search('\[', str) is not None) Setting up python3-chardet (5.2.0+dfsg-1) ... Setting up python3-numpy (1:1.26.4+ds-11) ... Setting up python3-scipy (1.13.1-3) ... Setting up python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... Setting up python3-sklearn (1.4.2+dfsg-6) ... Processing triggers for sgml-base (1.31) ... Processing triggers for debianutils (5.20) ... Setting up libfontconfig1:amd64 (2.15.0-1.1) ... Processing triggers for libc-bin (2.39-7) ... Setting up libcairo2:amd64 (1.18.0-3+b1) ... Setting up python3-cairo (1.26.1-1+b1) ... Setting up python3-rlpycairo (0.3.0-3) ... Setting up python3-reportlab (4.2.2-1) ... Setting up python3-biopython (1.83+dfsg1-3+b1) ... Setting up cutesv (2.1.0-2) ... Processing triggers for libc-bin (2.39-7) ... 1m37.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-yf', 'dist-upgrade'] 1m37.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m38.7s DUMP: 36c06d98e0f6c883a3de9a14d5939c3b - 1m38.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m38.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'show', '--no-all-versions', 'cutesv'] 1m38.9s DUMP: Package: cutesv Version: 2.1.0-2 Installed-Size: 222 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-cigar, python3-numpy, python3-pysam, python3-scipy, python3-sklearn, python3-vcf, python3:any Description-en: comprehensive discovery of structural variations of genomic sequences Long-read sequencing enables the comprehensive discovery of structural variations (SVs). However, it is still non-trivial to achieve high sensitivity and performance simultaneously due to the complex SV characteristics implied by noisy long reads. . cuteSV is a sensitive, fast and scalable long-read-based SV detection approach. cuteSV uses tailored methods to collect the signatures of various types of SVs and employs a clustering-and-refinement method to analyze the signatures to implement sensitive SV detection. Benchmarks on real Pacific Biosciences (PacBio) and Oxford Nanopore Technology (ONT) datasets demonstrate that cuteSV has better yields and scalability than state-of-the-art tools. Description-md5: 9edbac2d955018599acd19a7f6e81744 Homepage: https://github.com/tjiangHIT/cuteSV Section: science Priority: optional Filename: pool/main/c/cutesv/cutesv_2.1.0-2_all.deb Size: 36872 MD5sum: 151d9c85cee35c8ad2cc29047ee88d8d SHA256: a2763c15d8db22f795aa5739351fe04959c5045e26cd06bdbb6610558a4c0777 1m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'show', '--no-all-versions', 'cutesv'] 1m38.9s INFO: apt-cache knows about the following packages: cutesv 1m38.9s INFO: Running scripts pre_install 1m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 1m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 1m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 1m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 1m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 1m38.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 1m38.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 1m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 1m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 1m39.0s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian trixie/main amd64 Packages release o=Debian,a=testing,n=trixie,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m39.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 1m39.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 1m39.1s DUMP: cutesv: Installed: 2.1.0-2 Candidate: 2.1.0-2 Version table: *** 2.1.0-2 500 500 http://deb.debian.org/debian trixie/main amd64 Packages 100 /var/lib/dpkg/status 1m39.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 1m39.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv'] 1m39.8s DUMP: Reading package lists... Building dependency tree... Reading state information... cutesv is already the newest version (2.1.0-2). The following packages were automatically installed and are no longer required: libnsl2 libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 libtirpc-common libtirpc3t64 perl-modules-5.36 python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m39.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv'] 1m39.8s INFO: Running scripts post_install 1m39.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 1m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 1m39.9s INFO: Running scripts post_distupgrade 1m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_exceptions'] 1m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_exceptions'] 1m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m39.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_zz_backports'] 1m39.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_zz_backports'] 1m39.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 1m41.1s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 1m41.1s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmpsn0n12f4 to sid 1m41.1s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 1m41.1s INFO: Running scripts pre_distupgrade 1m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_exceptions'] 1m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_exceptions'] 1m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m41.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m41.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m41.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m41.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m41.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m41.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'update'] 1m44.6s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9954 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7306 kB] Fetched 17.5 MB in 2s (7793 kB/s) Reading package lists... 1m44.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'update'] 1m44.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-yf', 'dist-upgrade'] 1m59.1s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 perl-modules-5.36 python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: login.defs openssl-provider-legacy python3-autocommand python3-inflect python3-jaraco.context python3-jaraco.functools python3-more-itertools python3-typeguard python3-typing-extensions The following packages will be upgraded: bash bsdutils cutesv gcc-14-base libatomic1 libaudit-common libaudit1 libblkid1 libgcc-s1 libgfortran5 libgomp1 libhtscodecs2 libldap-2.5-0 libmount1 libpython3.11-minimal libpython3.11-stdlib libpython3.12-minimal libpython3.12-stdlib libquadmath0 libreadline8t64 libselinux1 libsmartcols1 libsqlite3-0 libssl3t64 libstdc++6 libuuid1 login mawk mount passwd python3-pkg-resources python3-scipy python3.11 python3.11-minimal python3.12 python3.12-minimal readline-common util-linux util-linux-extra 39 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. Need to get 39.4 MB of archives. After this operation, 1607 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.32-1 [1499 kB] Get:2 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-7 [105 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.1-1 [12.3 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.1-1 [54.5 kB] Get:5 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.40.2-7 [265 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-7 [35.3 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-7 [167 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-7 [199 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-7 [139 kB] Get:10 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-7 [1217 kB] Get:11 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-7 [154 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.7-1+b1 [76.6 kB] Get:13 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.16.0-4 [185 kB] Get:14 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-7 [57.7 kB] Get:15 http://deb.debian.org/debian sid/main amd64 openssl-provider-legacy amd64 3.3.1-7 [298 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libssl3t64 amd64 3.3.1-7 [2269 kB] Get:17 http://deb.debian.org/debian sid/main amd64 python3.11 amd64 3.11.9-1 [602 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libpython3.11-stdlib amd64 3.11.9-1 [1792 kB] Get:19 http://deb.debian.org/debian sid/main amd64 python3.11-minimal amd64 3.11.9-1 [1879 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libpython3.11-minimal amd64 3.11.9-1 [817 kB] Get:21 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-5 [69.3 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libsqlite3-0 amd64 3.46.1-1 [913 kB] Get:24 http://deb.debian.org/debian sid/main amd64 python3.12 amd64 3.12.5-4 [667 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libpython3.12-stdlib amd64 3.12.5-4 [1960 kB] Get:26 http://deb.debian.org/debian sid/main amd64 python3.12-minimal amd64 3.12.5-4 [2168 kB] Get:27 http://deb.debian.org/debian sid/main amd64 libpython3.12-minimal amd64 3.12.5-4 [812 kB] Get:28 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.16.0-4 [1232 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-3 [9288 B] Get:30 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-3 [46.2 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-3 [713 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libquadmath0 amd64 14.2.0-3 [145 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-3 [137 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-3 [837 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-3 [72.8 kB] Get:36 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20240819-2 [138 kB] Get:37 http://deb.debian.org/debian sid/main amd64 python3-scipy amd64 1.13.1-4 [16.7 MB] Get:38 http://deb.debian.org/debian sid/main amd64 cutesv all 2.1.1-1 [37.4 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get:40 http://deb.debian.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3 [187 kB] Get:41 http://deb.debian.org/debian sid/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get:42 http://deb.debian.org/debian sid/main amd64 python3-more-itertools all 10.3.0-1 [62.0 kB] Get:43 http://deb.debian.org/debian sid/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get:44 http://deb.debian.org/debian sid/main amd64 python3-typeguard all 4.3.0-1 [36.5 kB] Get:45 http://deb.debian.org/debian sid/main amd64 python3-inflect all 7.3.1-1 [42.2 kB] Get:46 http://deb.debian.org/debian sid/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get:47 http://deb.debian.org/debian sid/main amd64 python3-jaraco.functools all 4.0.2-1 [11.7 kB] Get:48 http://deb.debian.org/debian sid/main amd64 python3-pkg-resources all 73.0.1-1 [212 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 39.4 MB in 0s (187 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 ... 17758 files and directories currently installed.) Preparing to unpack .../bash_5.2.32-1_amd64.deb ... Unpacking bash (5.2.32-1) over (5.2.21-2.1+b1) ... Setting up bash (5.2.32-1) ... Installing new version of config file /etc/bash.bashrc ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 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Leaving 'diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra' Leaving 'diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra' Unpacking util-linux-extra (2.40.2-7) over (2.40.2-1) ... Preparing to unpack .../libuuid1_2.40.2-7_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-7) over (2.40.2-1) ... Setting up libuuid1:amd64 (2.40.2-7) ... (Reading database ... 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Leaving 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Leaving 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) over (8.2-4) ... Preparing to unpack .../06-libsqlite3-0_3.46.1-1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.46.1-1) over (3.46.0-1) ... Preparing to unpack .../07-python3.12_3.12.5-4_amd64.deb ... Unpacking python3.12 (3.12.5-4) over (3.12.4-3) ... Preparing to unpack .../08-libpython3.12-stdlib_3.12.5-4_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.5-4) over (3.12.4-3) ... 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Setting up python3-jaraco.context (6.0.0-1) ... Setting up libsqlite3-0:amd64 (3.46.1-1) ... Setting up libpython3.12-minimal:amd64 (3.12.5-4) ... Setting up libgomp1:amd64 (14.2.0-3) ... Setting up python3-autocommand (2.2.2-3) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Setting up libquadmath0:amd64 (14.2.0-3) ... Setting up libatomic1:amd64 (14.2.0-3) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up libgfortran5:amd64 (14.2.0-3) ... Setting up mount (2.40.2-7) ... Setting up mawk (1.3.4.20240819-2) ... Setting up libpython3.11-minimal:amd64 (3.11.9-1) ... Setting up readline-common (8.2-5) ... Setting up util-linux-extra (2.40.2-7) ... Setting up login (1:4.16.0-2+really2.40.2-7) ... Setting up python3.11-minimal (3.11.9-1) ... Setting up python3.12-minimal (3.12.5-4) ... Setting up python3-scipy (1.13.1-4) ... Setting up python3-typeguard (4.3.0-1) ... Setting up cutesv (2.1.1-1) ... Setting up python3-inflect (7.3.1-1) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up python3-pkg-resources (73.0.1-1) ... Setting up libpython3.12-stdlib:amd64 (3.12.5-4) ... Setting up libpython3.11-stdlib:amd64 (3.11.9-1) ... Setting up python3.12 (3.12.5-4) ... Setting up python3.11 (3.11.9-1) ... Processing triggers for debianutils (5.20) ... Processing triggers for mailcap (3.72) ... Processing triggers for libc-bin (2.39-7) ... 1m59.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-yf', 'dist-upgrade'] 1m59.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m59.4s DUMP: 33ff7d6e2216f93cc3bfe8344a9ad638 - 1m59.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m59.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'show', '--no-all-versions', 'cutesv'] 1m59.6s DUMP: Package: cutesv Version: 2.1.1-1 Installed-Size: 225 Maintainer: Debian Med Packaging Team Architecture: all Depends: python3-biopython, python3-cigar, python3-numpy, python3-pysam, python3-scipy, python3-sklearn, python3:any, python3-vcf Description-en: comprehensive discovery of structural variations of genomic sequences Long-read sequencing enables the comprehensive discovery of structural variations (SVs). However, it is still non-trivial to achieve high sensitivity and performance simultaneously due to the complex SV characteristics implied by noisy long reads. . cuteSV is a sensitive, fast and scalable long-read-based SV detection approach. cuteSV uses tailored methods to collect the signatures of various types of SVs and employs a clustering-and-refinement method to analyze the signatures to implement sensitive SV detection. Benchmarks on real Pacific Biosciences (PacBio) and Oxford Nanopore Technology (ONT) datasets demonstrate that cuteSV has better yields and scalability than state-of-the-art tools. Description-md5: 9edbac2d955018599acd19a7f6e81744 Homepage: https://github.com/tjiangHIT/cuteSV Section: science Priority: optional Filename: pool/main/c/cutesv/cutesv_2.1.1-1_all.deb Size: 37364 MD5sum: c3e5f836522a04d64dbcad4043960d15 SHA256: 2d1784f6e00def897b58760f05e547b53ec3bd1c19a015e166a5d2a2f638458f 1m59.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'show', '--no-all-versions', 'cutesv'] 1m59.6s INFO: apt-cache knows about the following packages: cutesv 1m59.6s INFO: Running scripts pre_install 1m59.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 1m59.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 1m59.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 1m59.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 1m59.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 1m59.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 1m59.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 1m59.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 1m59.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m59.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m59.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 1m59.7s 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: 1m59.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 1m59.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 1m59.8s DUMP: cutesv: Installed: 2.1.1-1 Candidate: 2.1.1-1 Version table: *** 2.1.1-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 1m59.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 1m59.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv'] 2m0.3s DUMP: Reading package lists... Building dependency tree... Reading state information... cutesv is already the newest version (2.1.1-1). The following packages were automatically installed and are no longer required: libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 perl-modules-5.36 python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv'] 2m0.3s INFO: Running scripts post_install 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 2m0.3s INFO: Running scripts post_distupgrade 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_exceptions'] 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_exceptions'] 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_zz_backports'] 2m0.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_distupgrade_zz_backports'] 2m0.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m1.3s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m1.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m2.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m2.2s INFO: Running scripts pre_install 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 2m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_database-server'] 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 2m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_exceptions'] 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 2m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_extras'] 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 2m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture'] 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m2.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m2.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 2m2.3s 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: 2m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy'] 2m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 2m2.3s DUMP: cutesv: Installed: 2.1.1-1 Candidate: 2.1.1-1 Version table: *** 2.1.1-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m2.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-cache', 'policy', 'cutesv'] 2m2.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv=2.1.1-1'] 2m2.9s DUMP: Reading package lists... Building dependency tree... Reading state information... cutesv is already the newest version (2.1.1-1). The following packages were automatically installed and are no longer required: libperl5.36 libpython3.11-minimal libpython3.11-stdlib libquadmath0 perl-modules-5.36 python3.11 python3.11-minimal Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', '-y', 'install', 'cutesv=2.1.1-1'] 2m2.9s INFO: Running scripts post_install 2m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 2m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_install_exceptions'] 2m2.9s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m3.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m5.9s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', '-ac', '--ignore-obsolete'] 2m7.8s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', '-ac', '--ignore-obsolete'] 2m7.8s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m7.8s DUMP: 0.15.6 2m7.8s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m7.8s INFO: Running adequate version 0.15.6 now. 2m7.8s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'cutesv'] 2m7.8s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'cutesv'] 2m7.8s INFO: Running scripts pre_remove 2m7.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m7.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m7.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m7.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m10.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m10.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m10.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m10.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_exceptions'] 2m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/pre_remove_exceptions'] 2m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m10.4s DUMP: install ok installed adduser adduser 3.137 install ok installed apt apt 2.9.8 install ok installed base-files base-files 13.5 install ok installed base-passwd base-passwd 3.6.4 install ok installed bash bash 5.2.32-1 install ok installed bsdutils bsdutils 1:2.40.2-7 install ok installed coreutils coreutils 9.4-3.1 install ok installed cutesv cutesv 2.1.1-1 install ok installed dash dash 0.5.12-9 install ok installed debconf debconf 1.5.87 install ok installed debian-archive-keyring debian-archive-keyring 2023.4 install ok installed debianutils debianutils 5.20 install ok installed diffutils diffutils 1:3.10-1 install ok installed dpkg dpkg 1.22.11 install ok installed e2fsprogs e2fsprogs 1.47.1-1 install ok installed findutils findutils 4.10.0-3 install ok installed fontconfig-config fontconfig-config 2.15.0-1.1 install ok installed fonts-urw-base35 fonts-urw-base35 20200910-8 install ok installed gcc-12-base:amd64 gcc-12-base 12.4.0-2 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-3 install ok installed gpgv gpgv 2.2.43-8 install ok installed grep grep 3.11-4 install ok installed gzip gzip 1.12-1.1 install ok installed hostname hostname 3.23+nmu2 install ok installed init-system-helpers init-system-helpers 1.66 install ok installed libacl1:amd64 libacl1 2.3.2-2 install ok installed libapt-pkg6.0t64:amd64 libapt-pkg6.0t64 2.9.8 install ok installed libatomic1:amd64 libatomic1 14.2.0-3 install ok installed libattr1:amd64 libattr1 1:2.5.2-1 install ok installed libaudit-common libaudit-common 1:4.0.1-1 install ok installed libaudit1:amd64 libaudit1 1:4.0.1-1 install ok installed libblas3:amd64 libblas3 3.12.0-3 install ok installed libblkid1:amd64 libblkid1 2.40.2-7 install ok installed libbrotli1:amd64 libbrotli1 1.1.0-2+b4 install ok installed libbsd0:amd64 libbsd0 0.12.2-1 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-6 install ok installed libc-bin libc-bin 2.39-7 install ok installed libc6:amd64 libc6 2.39-7 install ok installed libcairo2:amd64 libcairo2 1.18.0-3+b1 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-2 install ok installed libcap2:amd64 libcap2 1:2.66-5 install ok installed libcom-err2:amd64 libcom-err2 1.47.1-1 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl3t64-gnutls:amd64 libcurl3t64-gnutls 8.9.1-2 install ok installed libdb5.3t64:amd64 libdb5.3t64 5.3.28+dfsg2-7 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.272 install ok installed libdeflate0:amd64 libdeflate0 1.21-1 install ok installed libexpat1:amd64 libexpat1 2.6.2-1 install ok installed libext2fs2t64:amd64 libext2fs2t64 1.47.1-1 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1.1 install ok installed libfontenc1:amd64 libfontenc1 1:1.1.8-1 install ok installed libfreetype6:amd64 libfreetype6 2.13.2+dfsg-1+b4 install ok installed libfribidi0:amd64 libfribidi0 1.0.15-1 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-3 install ok installed libgcrypt20:amd64 libgcrypt20 1.11.0-6 install ok installed libgdbm-compat4t64:amd64 libgdbm-compat4t64 1.24-2 install ok installed libgdbm6t64:amd64 libgdbm6t64 1.24-2 install ok installed libgfortran5:amd64 libgfortran5 14.2.0-3 deinstall ok config-files libglib2.0-0:amd64 libglib2.0-0 2.74.6-2+deb12u3 install ok installed libglib2.0-0t64:amd64 libglib2.0-0t64 2.81.2-1 install ok installed libgmp10:amd64 libgmp10 2:6.3.0+dfsg-2+b1 install ok installed libgnutls30t64:amd64 libgnutls30t64 3.8.6-2 install ok installed libgomp1:amd64 libgomp1 14.2.0-3 install ok installed libgpg-error0:amd64 libgpg-error0 1.50-3 install ok installed libgraphite2-3:amd64 libgraphite2-3 1.3.14-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.21.3-3 install ok installed libharfbuzz0b:amd64 libharfbuzz0b 9.0.0-1 install ok installed libhogweed6t64:amd64 libhogweed6t64 3.10-1 install ok installed libhts3t64:amd64 libhts3t64 1.20+ds-1 install ok installed libhtscodecs2:amd64 libhtscodecs2 1.6.1-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libimagequant0:amd64 libimagequant0 2.18.0-1+b1 install ok installed libjbig0:amd64 libjbig0 2.1-6.1+b1 install ok installed libjpeg62-turbo:amd64 libjpeg62-turbo 1:2.1.5-3 install ok installed libk5crypto3:amd64 libk5crypto3 1.21.3-3 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.3-3 install ok installed libkrb5-3:amd64 libkrb5-3 1.21.3-3 install ok installed libkrb5support0:amd64 libkrb5support0 1.21.3-3 install ok installed liblapack3:amd64 liblapack3 3.12.0-3 install ok installed liblbfgsb0:amd64 liblbfgsb0 3.0+dfsg.4-1+b1 install ok installed liblcms2-2:amd64 liblcms2-2 2.14-2+b1 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-3 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-4+b1 install ok installed liblz4-1:amd64 liblz4-1 1.9.4-3 install ok installed liblzma5:amd64 liblzma5 5.6.2-2 install ok installed libmd0:amd64 libmd0 1.1.0-2 install ok installed libmount1:amd64 libmount1 2.40.2-7 install ok installed libncursesw6:amd64 libncursesw6 6.5-2 install ok installed libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.62.1-2 install ok installed libnghttp3-9:amd64 libnghttp3-9 1.4.0-1 install ok installed libngtcp2-16:amd64 libngtcp2-16 1.6.0-1 install ok installed libngtcp2-crypto-gnutls8:amd64 libngtcp2-crypto-gnutls8 1.6.0-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-3+b2 install ok installed libopenjp2-7:amd64 libopenjp2-7 2.5.0-2+b3 install ok installed libp11-kit0:amd64 libp11-kit0 0.25.5-2 install ok installed libpam-modules:amd64 libpam-modules 1.5.3-7 install ok installed libpam-modules-bin libpam-modules-bin 1.5.3-7 install ok installed libpam-runtime libpam-runtime 1.5.3-7 install ok installed libpam0g:amd64 libpam0g 1.5.3-7 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libperl5.36:amd64 libperl5.36 5.36.0-7+deb12u1 install ok installed libperl5.38t64:amd64 libperl5.38t64 5.38.2-5 install ok installed libpixman-1-0:amd64 libpixman-1-0 0.42.2-1+b1 install ok installed libpng16-16t64:amd64 libpng16-16t64 1.6.43-5 install ok installed libproc2-0:amd64 libproc2-0 2:4.0.4-5 install ok installed libpsl5t64:amd64 libpsl5t64 0.21.2-1.1 install ok installed libpython3-stdlib:amd64 libpython3-stdlib 3.12.5-1 install ok installed libpython3.11-minimal:amd64 libpython3.11-minimal 3.11.9-1 install ok installed libpython3.11-stdlib:amd64 libpython3.11-stdlib 3.11.9-1 install ok installed libpython3.12-minimal:amd64 libpython3.12-minimal 3.12.5-4 install ok installed libpython3.12-stdlib:amd64 libpython3.12-stdlib 3.12.5-4 install ok installed libquadmath0:amd64 libquadmath0 14.2.0-3 install ok installed libraqm0:amd64 libraqm0 0.10.1-1+b1 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-5 install ok installed librtmp1:amd64 librtmp1 2.4+20151223.gitfa8646d.1-2+b4 install ok installed libsasl2-2:amd64 libsasl2-2 2.1.28+dfsg1-7 install ok installed libsasl2-modules-db:amd64 libsasl2-modules-db 2.1.28+dfsg1-7 install ok installed libseccomp2:amd64 libseccomp2 2.5.5-1+b1 install ok installed libselinux1:amd64 libselinux1 3.7-1+b1 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1+b4 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.4.0-0.1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-7 install ok installed libsqlite3-0:amd64 libsqlite3-0 3.46.1-1 install ok installed libss2:amd64 libss2 1.47.1-1 install ok installed libssh2-1t64:amd64 libssh2-1t64 1.11.0-7 install ok installed libssl3t64:amd64 libssl3t64 3.3.1-7 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-3 install ok installed libsystemd0:amd64 libsystemd0 256.5-1 install ok installed libtasn1-6:amd64 libtasn1-6 4.19.0-3+b2 install ok installed libtiff6:amd64 libtiff6 4.5.1+git230720-5 install ok installed libtinfo6:amd64 libtinfo6 6.5-2 install ok installed libtirpc-common libtirpc-common 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3 install ok installed libudev1:amd64 libudev1 256.5-1 install ok installed libunistring2:amd64 libunistring2 1.0-2 install ok installed libunistring5:amd64 libunistring5 1.2-1 install ok installed libuuid1:amd64 libuuid1 2.40.2-7 install ok installed libwebp7:amd64 libwebp7 1.4.0-0.1 install ok installed libwebpdemux2:amd64 libwebpdemux2 1.4.0-0.1 install ok installed libwebpmux3:amd64 libwebpmux3 1.4.0-0.1 install ok installed libx11-6:amd64 libx11-6 2:1.8.7-1+b1 install ok installed libx11-data libx11-data 2:1.8.7-1 install ok installed libxau6:amd64 libxau6 1:1.0.9-1+b1 install ok installed libxcb-render0:amd64 libxcb-render0 1.17.0-2 install ok installed libxcb-shm0:amd64 libxcb-shm0 1.17.0-2 install ok installed libxcb1:amd64 libxcb1 1.17.0-2 install ok installed libxdmcp6:amd64 libxdmcp6 1:1.1.2-3+b1 install ok installed libxext6:amd64 libxext6 2:1.3.4-1+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b1 install ok installed libxxhash0:amd64 libxxhash0 0.8.2-2+b1 install ok installed libzstd1:amd64 libzstd1 1.5.6+dfsg-1 install ok installed login login 1:4.16.0-2+really2.40.2-7 install ok installed login.defs login.defs 1:4.16.0-4 install ok installed logsave logsave 1.47.1-1 install ok installed mailcap mailcap 3.72 install ok installed mawk mawk 1.3.4.20240819-2 install ok installed media-types media-types 10.1.0 install ok installed mime-support mime-support 3.66 install ok installed mount mount 2.40.2-7 install ok installed ncurses-base ncurses-base 6.5-2 install ok installed ncurses-bin ncurses-bin 6.5-2 install ok installed netbase netbase 6.4 install ok installed openssl-provider-legacy openssl-provider-legacy 3.3.1-7 install ok installed passwd passwd 1:4.16.0-4 install ok installed perl perl 5.38.2-5 install ok installed perl-base perl-base 5.38.2-5 install ok installed perl-modules-5.36 perl-modules-5.36 5.36.0-7+deb12u1 install ok installed perl-modules-5.38 perl-modules-5.38 5.38.2-5 install ok installed procps procps 2:4.0.4-5 install ok installed python3 python3 3.12.5-1 install ok installed python3-autocommand python3-autocommand 2.2.2-3 install ok installed python3-biopython python3-biopython 1.83+dfsg1-3+b1 install ok installed python3-cairo python3-cairo 1.26.1-1+b1 install ok installed python3-chardet python3-chardet 5.2.0+dfsg-1 install ok installed python3-cigar python3-cigar 0.1.3-2 install ok installed python3-decorator python3-decorator 5.1.1-5 install ok installed python3-freetype python3-freetype 2.4.0-2 install ok installed python3-inflect python3-inflect 7.3.1-1 install ok installed python3-jaraco.context python3-jaraco.context 6.0.0-1 install ok installed python3-jaraco.functools python3-jaraco.functools 4.0.2-1 install ok installed python3-joblib python3-joblib 1.3.2-2 install ok installed python3-minimal python3-minimal 3.12.5-1 install ok installed python3-more-itertools python3-more-itertools 10.3.0-1 install ok installed python3-numpy python3-numpy 1:1.26.4+ds-11 install ok installed python3-pil:amd64 python3-pil 10.4.0-1 install ok installed python3-pkg-resources python3-pkg-resources 73.0.1-1 install ok installed python3-pysam python3-pysam 0.22.1+ds-2+b1 install ok installed python3-reportlab python3-reportlab 4.2.2-1 install ok installed python3-rlpycairo python3-rlpycairo 0.3.0-3 install ok installed python3-scipy python3-scipy 1.13.1-4 install ok installed python3-sklearn python3-sklearn 1.4.2+dfsg-6 install ok installed python3-sklearn-lib:amd64 python3-sklearn-lib 1.4.2+dfsg-6 install ok installed python3-threadpoolctl python3-threadpoolctl 3.1.0-1 install ok installed python3-typeguard python3-typeguard 4.3.0-1 install ok installed python3-typing-extensions python3-typing-extensions 4.12.2-2 install ok installed python3-vcf python3-vcf 0.6.8+git20170215.476169c-10+b1 install ok installed python3.11 python3.11 3.11.9-1 install ok installed python3.11-minimal python3.11-minimal 3.11.9-1 install ok installed python3.12 python3.12 3.12.5-4 install ok installed python3.12-minimal python3.12-minimal 3.12.5-4 install ok installed readline-common readline-common 8.2-5 install ok installed sed sed 4.9-2 install ok installed sgml-base sgml-base 1.31 install ok installed sysvinit-utils sysvinit-utils 3.10-1 install ok installed tar tar 1.35+dfsg-3 install ok installed tzdata tzdata 2024a-4 install ok installed usr-is-merged usr-is-merged 39 install ok installed util-linux util-linux 2.40.2-7 install ok installed util-linux-extra util-linux-extra 2.40.2-7 install ok installed w3c-sgml-lib w3c-sgml-lib 1.3-3 install ok installed x11-common x11-common 1:7.7+23.1 install ok installed xfonts-encodings xfonts-encodings 1:1.0.4-2.2 install ok installed xfonts-utils xfonts-utils 1:7.7+6 install ok installed xml-core xml-core 0.19 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 2m10.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m10.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'remove', 'fontconfig-config', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38t64:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'mailcap', 'media-types', 'mime-support', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'procps', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-cigar', 'python3-decorator', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-threadpoolctl', 'python3-typeguard', 'python3-typing-extensions', 'python3-vcf', 'python3.11', 'python3.11-minimal', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'cutesv'] 2m50.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Package 'libglib2.0-0' is not installed, so not removed The following packages will be REMOVED: cutesv fontconfig-config fonts-urw-base35 libatomic1 libblas3 libbrotli1 libcairo2 libcurl3t64-gnutls libdeflate0 libexpat1 libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgdbm-compat4t64 libgdbm6t64 libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libhts3t64 libhtscodecs2 libimagequant0 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblerc4 libncursesw6 libnghttp2-14 libnghttp3-9 libngtcp2-16 libngtcp2-crypto-gnutls8 libnsl2 libopenjp2-7 libperl5.36 libperl5.38t64 libpixman-1-0 libpng16-16t64 libproc2-0 libpsl5t64 libpython3-stdlib libpython3.11-minimal libpython3.11-stdlib libpython3.12-minimal libpython3.12-stdlib libquadmath0 libraqm0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsqlite3-0 libssh2-1t64 libtiff6 libtirpc-common libtirpc3t64 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxrender1 mailcap media-types mime-support netbase perl perl-modules-5.36 perl-modules-5.38 procps python3 python3-autocommand python3-biopython python3-cairo python3-chardet python3-cigar python3-decorator python3-freetype python3-inflect python3-jaraco.context python3-jaraco.functools python3-joblib python3-minimal python3-more-itertools python3-numpy python3-pil python3-pkg-resources python3-pysam python3-reportlab python3-rlpycairo python3-scipy python3-sklearn python3-sklearn-lib python3-threadpoolctl python3-typeguard python3-typing-extensions python3-vcf python3.11 python3.11-minimal python3.12 python3.12-minimal readline-common sgml-base w3c-sgml-lib x11-common xfonts-encodings xfonts-utils xml-core 0 upgraded, 0 newly installed, 124 to remove and 0 not upgraded. After this operation, 402 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 ... 17863 files and directories currently installed.) Removing cutesv (2.1.1-1) ... Removing python3-biopython (1.83+dfsg1-3+b1) ... Removing python3-reportlab (4.2.2-1) ... Removing python3-rlpycairo (0.3.0-3) ... Removing python3-cairo (1.26.1-1+b1) ... Removing libcairo2:amd64 (1.18.0-3+b1) ... Removing libfontconfig1:amd64 (2.15.0-1.1) ... Removing fontconfig-config (2.15.0-1.1) ... Removing fonts-urw-base35 (20200910-8) ... Removing python3-pil:amd64 (10.4.0-1) ... Removing libraqm0:amd64 (0.10.1-1+b1) ... Removing libharfbuzz0b:amd64 (9.0.0-1) ... Removing libglib2.0-0t64:amd64 (2.81.2-1) ... Removing libatomic1:amd64 (14.2.0-3) ... Removing python3-sklearn (1.4.2+dfsg-6) ... Removing python3-scipy (1.13.1-4) ... Removing python3-sklearn-lib:amd64 (1.4.2+dfsg-6) ... Removing python3-numpy (1:1.26.4+ds-11) ... Removing liblbfgsb0:amd64 (3.0+dfsg.4-1+b1) ... Removing liblapack3:amd64 (3.12.0-3) ... Removing libblas3:amd64 (3.12.0-3) ... Removing xfonts-utils (1:7.7+6) ... Removing python3-freetype (2.4.0-2) ... Removing libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Removing python3-vcf (0.6.8+git20170215.476169c-10+b1) ... Removing python3-pysam (0.22.1+ds-2+b1) ... Removing libhts3t64:amd64 (1.20+ds-1) ... Removing libcurl3t64-gnutls:amd64 (8.9.1-2) ... Removing libbrotli1:amd64 (1.1.0-2+b4) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.21-1) ... Removing python3-joblib (1.3.2-2) ... Removing python3-chardet (5.2.0+dfsg-1) ... Removing python3-pkg-resources (73.0.1-1) ... Removing python3-inflect (7.3.1-1) ... Removing python3-typeguard (4.3.0-1) ... Removing python3-typing-extensions (4.12.2-2) ... Removing python3.11 (3.11.9-1) ... Removing python3.11-minimal (3.11.9-1) ... Removing libfontenc1:amd64 (1:1.1.8-1) ... Removing libfribidi0:amd64 (1.0.15-1) ... Removing libpython3.11-stdlib:amd64 (3.11.9-1) ... Removing mime-support (3.66) ... Removing mailcap (3.72) ... Removing perl (5.38.2-5) ... Removing libperl5.38t64:amd64 (5.38.2-5) ... Removing libperl5.36:amd64 (5.36.0-7+deb12u1) ... Removing libgdbm-compat4t64:amd64 (1.24-2) ... Removing libgdbm6t64:amd64 (1.24-2) ... Removing libgfortran5:amd64 (14.2.0-3) ... Removing libimagequant0:amd64 (2.18.0-1+b1) ... Removing libgomp1:amd64 (14.2.0-3) ... Removing libgraphite2-3:amd64 (1.3.14-2) ... Removing libhtscodecs2:amd64 (1.6.1-1) ... Removing libjbig0:amd64 (2.1-6.1+b1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3) ... Removing liblcms2-2:amd64 (2.14-2+b1) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-3) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing procps (2:4.0.4-5) ... Removing libnghttp2-14:amd64 (1.62.1-2) ... Removing libnghttp3-9:amd64 (1.4.0-1) ... Removing libngtcp2-crypto-gnutls8:amd64 (1.6.0-1) ... Removing libngtcp2-16:amd64 (1.6.0-1) ... Removing libopenjp2-7:amd64 (2.5.0-2+b3) ... Removing libpixman-1-0:amd64 (0.42.2-1+b1) ... Removing libpng16-16t64:amd64 (1.6.43-5) ... Removing libproc2-0:amd64 (2:4.0.4-5) ... Removing libpsl5t64:amd64 (0.21.2-1.1) ... Removing libpython3.11-minimal:amd64 (3.11.9-1) ... Removing libquadmath0:amd64 (14.2.0-3) ... Removing librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) ... Removing libsasl2-2:amd64 (2.1.28+dfsg1-7) ... Removing libsasl2-modules-db:amd64 (2.1.28+dfsg1-7) ... Removing libwebpmux3:amd64 (1.4.0-0.1) ... Removing libwebpdemux2:amd64 (1.4.0-0.1) ... Removing libwebp7:amd64 (1.4.0-0.1) ... Removing libsharpyuv0:amd64 (1.4.0-0.1) ... Removing libssh2-1t64:amd64 (1.11.0-7) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b1) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing libx11-6:amd64 (2:1.8.7-1+b1) ... Removing libx11-data (2:1.8.7-1) ... Removing libxcb-shm0:amd64 (1.17.0-2) ... Removing libxcb-render0:amd64 (1.17.0-2) ... Removing libxcb1:amd64 (1.17.0-2) ... Removing libxau6:amd64 (1:1.0.9-1+b1) ... Removing libxdmcp6:amd64 (1:1.1.2-3+b1) ... Removing perl-modules-5.36 (5.36.0-7+deb12u1) ... Removing perl-modules-5.38 (5.38.2-5) ... Removing python3-autocommand (2.2.2-3) ... Removing python3-cigar (0.1.3-2) ... Removing python3-decorator (5.1.1-5) ... Removing python3-jaraco.context (6.0.0-1) ... Removing python3-jaraco.functools (4.0.2-1) ... Removing python3-more-itertools (10.3.0-1) ... Removing python3-threadpoolctl (3.1.0-1) ... Removing w3c-sgml-lib (1.3-3) ... Removing xml-core (0.19) ... Removing sgml-base (1.31) ... Removing xfonts-encodings (1:1.0.4-2.2) ... Removing x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of stop. Removing python3 (3.12.5-1) ... Removing python3.12 (3.12.5-4) ... Removing python3-minimal (3.12.5-1) ... Removing python3.12-minimal (3.12.5-4) ... Removing libexpat1:amd64 (2.6.2-1) ... Removing libpython3-stdlib:amd64 (3.12.5-1) ... Removing libpython3.12-stdlib:amd64 (3.12.5-4) ... find: '/usr/lib/python3': No such file or directory Removing libnsl2:amd64 (1.3.0-3+b2) ... Removing libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Removing 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Removing libgssapi-krb5-2:amd64 (1.21.3-3) ... Removing libkrb5-3:amd64 (1.21.3-3) ... Removing libk5crypto3:amd64 (1.21.3-3) ... Removing libkeyutils1:amd64 (1.6.3-3) ... Removing libkrb5support0:amd64 (1.21.3-3) ... Removing libncursesw6:amd64 (6.5-2) ... Removing libpython3.12-minimal:amd64 (3.12.5-4) ... find: '/usr/lib/python3': No such file or directory Removing libreadline8t64:amd64 (8.2-5) ... Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Removing 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Removing libsqlite3-0:amd64 (3.46.1-1) ... Removing libtirpc-common (1.3.4+ds-1.3) ... Removing media-types (10.1.0) ... Removing netbase (6.4) ... Removing readline-common (8.2-5) ... Processing triggers for libc-bin (2.39-7) ... 2m50.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'remove', 'fontconfig-config', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38t64:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'mailcap', 'media-types', 'mime-support', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'procps', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-cigar', 'python3-decorator', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-threadpoolctl', 'python3-typeguard', 'python3-typing-extensions', 'python3-vcf', 'python3.11', 'python3.11-minimal', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core', 'cutesv'] 2m50.7s INFO: Running scripts post_remove 2m50.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_remove_exceptions'] 2m50.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_remove_exceptions'] 2m50.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--purge', 'fontconfig-config', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38t64:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'mailcap', 'media-types', 'mime-support', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'procps', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-cigar', 'python3-decorator', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-threadpoolctl', 'python3-typeguard', 'python3-typing-extensions', 'python3-vcf', 'python3.11', 'python3.11-minimal', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 2m51.2s DUMP: (Reading database ... 5334 files and directories currently installed.) Purging configuration files for fontconfig-config (2.15.0-1.1) ... dpkg: warning: while removing fontconfig-config, directory '/etc/fonts/conf.d' not empty so not removed Purging configuration files for fonts-urw-base35 (20200910-8) ... dpkg: warning: ignoring request to remove libatomic1 which isn't installed dpkg: warning: ignoring request to remove libblas3 which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed dpkg: warning: ignoring request to remove libcurl3t64-gnutls which isn't installed dpkg: warning: ignoring request to remove libdeflate0 which isn't installed dpkg: warning: ignoring request to remove libexpat1 which isn't installed dpkg: warning: ignoring request to remove libfontconfig1 which isn't installed dpkg: warning: ignoring request to remove libfontenc1 which isn't installed dpkg: warning: ignoring request to remove libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgdbm-compat4t64 which isn't installed dpkg: warning: ignoring request to remove libgdbm6t64 which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.81.2-1) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed Purging configuration files for libgssapi-krb5-2:amd64 (1.21.3-3) ... dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhts3t64 which isn't installed dpkg: warning: ignoring request to remove libhtscodecs2 which isn't installed dpkg: warning: ignoring request to remove libimagequant0 which isn't installed dpkg: warning: ignoring request to remove libjbig0 which isn't installed dpkg: warning: ignoring request to remove libjpeg62-turbo which isn't installed dpkg: warning: ignoring request to remove libk5crypto3 which isn't installed dpkg: warning: ignoring request to remove libkeyutils1 which isn't installed dpkg: warning: ignoring request to remove libkrb5-3 which isn't installed dpkg: warning: ignoring request to remove libkrb5support0 which isn't installed dpkg: warning: ignoring request to remove liblapack3 which isn't installed dpkg: warning: ignoring request to remove liblbfgsb0 which isn't installed dpkg: warning: ignoring request to remove liblcms2-2 which isn't installed dpkg: warning: ignoring request to remove libldap-2.5-0 which isn't installed dpkg: warning: ignoring request to remove liblerc4 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 libnghttp3-9 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-16 which isn't installed dpkg: warning: ignoring request to remove libngtcp2-crypto-gnutls8 which isn't installed dpkg: warning: ignoring request to remove libnsl2 which isn't installed dpkg: warning: ignoring request to remove libopenjp2-7 which isn't installed dpkg: warning: ignoring request to remove libperl5.36 which isn't installed dpkg: warning: ignoring request to remove libperl5.38t64 which isn't installed dpkg: warning: ignoring request to remove libpixman-1-0 which isn't installed dpkg: warning: ignoring request to remove libpng16-16t64 which isn't installed dpkg: warning: ignoring request to remove libproc2-0 which isn't installed dpkg: warning: ignoring request to remove libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libpython3-stdlib which isn't installed Purging configuration files for libpython3.11-minimal:amd64 (3.11.9-1) ... dpkg: warning: ignoring request to remove libpython3.11-stdlib which isn't installed Purging configuration files for libpython3.12-minimal:amd64 (3.12.5-4) ... dpkg: warning: ignoring request to remove libpython3.12-stdlib which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed dpkg: warning: ignoring request to remove libraqm0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-5) ... 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 libsharpyuv0 which isn't installed dpkg: warning: ignoring request to remove libsqlite3-0 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed Purging configuration files for libtirpc-common (1.3.4+ds-1.3) ... Purging configuration files for libtirpc3t64:amd64 (1.3.4+ds-1.3) ... dpkg: warning: ignoring request to remove libwebp7 which isn't installed dpkg: warning: ignoring request to remove libwebpdemux2 which isn't installed dpkg: warning: ignoring request to remove libwebpmux3 which isn't installed dpkg: warning: ignoring request to remove libx11-6 which isn't installed dpkg: warning: ignoring request to remove libx11-data which isn't installed dpkg: warning: ignoring request to remove libxau6 which isn't installed dpkg: warning: ignoring request to remove libxcb-render0 which isn't installed dpkg: warning: ignoring request to remove libxcb-shm0 which isn't installed dpkg: warning: ignoring request to remove libxcb1 which isn't installed dpkg: warning: ignoring request to remove libxdmcp6 which isn't installed dpkg: warning: ignoring request to remove libxext6 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed Purging configuration files for mailcap (3.72) ... Purging configuration files for media-types (10.1.0) ... dpkg: warning: ignoring request to remove mime-support which isn't installed Purging configuration files for netbase (6.4) ... Purging configuration files for perl (5.38.2-5) ... dpkg: warning: ignoring request to remove perl-modules-5.36 which isn't installed dpkg: warning: ignoring request to remove perl-modules-5.38 which isn't installed Purging configuration files for procps (2:4.0.4-5) ... Purging configuration files for python3 (3.12.5-1) ... dpkg: warning: ignoring request to remove python3-autocommand which isn't installed dpkg: warning: ignoring request to remove python3-biopython which isn't installed dpkg: warning: ignoring request to remove python3-cairo which isn't installed dpkg: warning: ignoring request to remove python3-chardet which isn't installed dpkg: warning: ignoring request to remove python3-cigar which isn't installed dpkg: warning: ignoring request to remove python3-decorator which isn't installed dpkg: warning: ignoring request to remove python3-freetype which isn't installed dpkg: warning: ignoring request to remove python3-inflect which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.context which isn't installed dpkg: warning: ignoring request to remove python3-jaraco.functools which isn't installed dpkg: warning: ignoring request to remove python3-joblib which isn't installed dpkg: warning: ignoring request to remove python3-minimal which isn't installed dpkg: warning: ignoring request to remove python3-more-itertools which isn't installed dpkg: warning: ignoring request to remove python3-numpy which isn't installed dpkg: warning: ignoring request to remove python3-pil which isn't installed dpkg: warning: ignoring request to remove python3-pkg-resources which isn't installed dpkg: warning: ignoring request to remove python3-pysam which isn't installed dpkg: warning: ignoring request to remove python3-reportlab which isn't installed dpkg: warning: ignoring request to remove python3-rlpycairo which isn't installed dpkg: warning: ignoring request to remove python3-scipy which isn't installed dpkg: warning: ignoring request to remove python3-sklearn which isn't installed dpkg: warning: ignoring request to remove python3-sklearn-lib which isn't installed dpkg: warning: ignoring request to remove python3-threadpoolctl which isn't installed dpkg: warning: ignoring request to remove python3-typeguard which isn't installed dpkg: warning: ignoring request to remove python3-typing-extensions which isn't installed dpkg: warning: ignoring request to remove python3-vcf which isn't installed dpkg: warning: ignoring request to remove python3.11 which isn't installed Purging configuration files for python3.11-minimal (3.11.9-1) ... dpkg: warning: ignoring request to remove python3.12 which isn't installed Purging configuration files for python3.12-minimal (3.12.5-4) ... Purging configuration files for readline-common (8.2-5) ... Purging configuration files for sgml-base (1.31) ... Purging configuration files for w3c-sgml-lib (1.3-3) ... Purging configuration files for x11-common (1:7.7+23.1) ... dpkg: warning: while removing x11-common, directory '/etc/init.d' not empty so not removed dpkg: warning: ignoring request to remove xfonts-encodings which isn't installed Purging configuration files for xfonts-utils (1:7.7+6) ... Purging configuration files for xml-core (0.19) ... 2m51.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--purge', 'fontconfig-config', 'fonts-urw-base35', 'libatomic1:amd64', 'libblas3:amd64', 'libbrotli1:amd64', 'libcairo2:amd64', 'libcurl3t64-gnutls:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfontenc1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgdbm-compat4t64:amd64', 'libgdbm6t64:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libgssapi-krb5-2:amd64', 'libharfbuzz0b:amd64', 'libhts3t64:amd64', 'libhtscodecs2:amd64', 'libimagequant0:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'libk5crypto3:amd64', 'libkeyutils1:amd64', 'libkrb5-3:amd64', 'libkrb5support0:amd64', 'liblapack3:amd64', 'liblbfgsb0:amd64', 'liblcms2-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'libncursesw6:amd64', 'libnghttp2-14:amd64', 'libnghttp3-9:amd64', 'libngtcp2-16:amd64', 'libngtcp2-crypto-gnutls8:amd64', 'libnsl2:amd64', 'libopenjp2-7:amd64', 'libperl5.36:amd64', 'libperl5.38t64:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libproc2-0:amd64', 'libpsl5t64:amd64', 'libpython3-stdlib:amd64', 'libpython3.11-minimal:amd64', 'libpython3.11-stdlib:amd64', 'libpython3.12-minimal:amd64', 'libpython3.12-stdlib:amd64', 'libquadmath0:amd64', 'libraqm0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsqlite3-0:amd64', 'libssh2-1t64:amd64', 'libtiff6:amd64', 'libtirpc-common', 'libtirpc3t64:amd64', 'libwebp7:amd64', 'libwebpdemux2:amd64', 'libwebpmux3:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxrender1:amd64', 'mailcap', 'media-types', 'mime-support', 'netbase', 'perl', 'perl-modules-5.36', 'perl-modules-5.38', 'procps', 'python3', 'python3-autocommand', 'python3-biopython', 'python3-cairo', 'python3-chardet', 'python3-cigar', 'python3-decorator', 'python3-freetype', 'python3-inflect', 'python3-jaraco.context', 'python3-jaraco.functools', 'python3-joblib', 'python3-minimal', 'python3-more-itertools', 'python3-numpy', 'python3-pil:amd64', 'python3-pkg-resources', 'python3-pysam', 'python3-reportlab', 'python3-rlpycairo', 'python3-scipy', 'python3-sklearn', 'python3-sklearn-lib:amd64', 'python3-threadpoolctl', 'python3-typeguard', 'python3-typing-extensions', 'python3-vcf', 'python3.11', 'python3.11-minimal', 'python3.12', 'python3.12-minimal', 'readline-common', 'sgml-base', 'w3c-sgml-lib', 'x11-common', 'xfonts-encodings', 'xfonts-utils', 'xml-core'] 2m51.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--purge', 'cutesv'] 2m51.2s DUMP: dpkg: warning: ignoring request to remove cutesv which isn't installed 2m51.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--purge', 'cutesv'] 2m51.2s INFO: Running scripts post_purge 2m51.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_purge_exceptions'] 2m51.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_purge_exceptions'] 2m51.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--purge', '--pending'] 2m51.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--purge', '--pending'] 2m51.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--remove', '--pending'] 2m51.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg', '--remove', '--pending'] 2m51.3s INFO: Running scripts post_test 2m51.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_test_exceptions'] 2m51.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'tmp/scripts/post_test_exceptions'] 2m51.3s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m51.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m51.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg-divert', '--list'] 2m51.8s DUMP: diversion of /sbin/mkfs.bfs to /sbin/mkfs.bfs.usr-is-merged by util-linux-extra diversion of /lib/x86_64-linux-gnu/libe2p.so.2 to /lib/x86_64-linux-gnu/libe2p.so.2.usr-is-merged by libext2fs2t64 local diversion of /bin/sync to /bin/sync.distrib.usr-is-merged diversion of /sbin/mkfs.minix to /sbin/mkfs.minix.usr-is-merged by util-linux-extra diversion of /lib/x86_64-linux-gnu/libext2fs.so.2.4 to /lib/x86_64-linux-gnu/libext2fs.so.2.4.usr-is-merged by libext2fs2t64 diversion of /sbin/mkfs.cramfs to /sbin/mkfs.cramfs.usr-is-merged by util-linux-extra local diversion of /home to /home.distrib diversion of /lib64/ld-linux-x86-64.so.2 to /lib64/ld-linux-x86-64.so.2.usr-is-merged by libc6 diversion of /lib/x86_64-linux-gnu/libext2fs.so.2 to /lib/x86_64-linux-gnu/libext2fs.so.2.usr-is-merged by libext2fs2t64 diversion of /lib/x86_64-linux-gnu/libe2p.so.2.3 to /lib/x86_64-linux-gnu/libe2p.so.2.3.usr-is-merged by libext2fs2t64 diversion of /libx32 to /.libx32.usr-is-merged by base-files local diversion of /usr/bin/sync to /usr/bin/sync.distrib diversion of /sbin/ctrlaltdel to /sbin/ctrlaltdel.usr-is-merged by util-linux-extra diversion of /sbin/fsck.minix to /sbin/fsck.minix.usr-is-merged by util-linux-extra diversion of /lib32 to /.lib32.usr-is-merged by base-files diversion of /libo32 to /.libo32.usr-is-merged by base-files diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra 2m51.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'dpkg-divert', '--list'] 2m51.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'clean'] 2m51.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4', 'apt-get', 'clean'] 2m51.8s DEBUG: Recording chroot state 2m52.4s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fontconfig-config, fonts-urw-base35 /etc/fonts/conf.d/ owned by: fontconfig-config, fonts-urw-base35 /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned 2m52.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/shm'] 2m52.7s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/shm'] 2m52.7s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/console'] 2m52.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/console'] 2m52.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/ptmx'] 2m52.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/ptmx'] 2m52.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/pts'] 2m52.8s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/dev/pts'] 2m52.8s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/proc'] 2m52.9s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4/proc'] 2m52.9s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m53.0s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmpsn0n12f4'] 2m53.0s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmpsn0n12f4 2m53.0s INFO: PASS: Upgrading between Debian distributions. 2m53.0s INFO: PASS: All tests. 2m53.0s INFO: piuparts run ends. ret=0 End: 2024-08-24 00:48:37 GMT