Start: 2024-08-16 22:12:02 GMT [stable] Package: r-bioc-biocneighbors Version: 1.8.2+ds-1 Installed-Size: 1142 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-cran-rcpp, r-bioc-s4vectors, r-bioc-biocparallel, r-cran-matrix, r-cran-rcpphnsw, libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Recommends: r-cran-testthat, r-cran-fnn Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-rcppannoy Description: Nearest Neighbor Detection for Bioconductor Packages Homepage: https://bioconductor.org/packages/BiocNeighbors/ Description-md5: cc15f0b45813def49274bba4d4b7cf0b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-biocneighbors/r-bioc-biocneighbors_1.8.2+ds-1_amd64.deb Size: 537032 MD5sum: 9b7869e7f1e481280019c5e5c9a0a1c5 SHA256: 90c9920d28f0625f32a4e58647c9fc9ee4af1b44cee429c13d5aee207bfb27e7 [testing] Package: r-bioc-biocneighbors Version: 1.16.0+ds-1 Installed-Size: 1424 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.2.2.20221110-1), r-api-4.0, r-api-bioc-3.16, r-cran-rcpp, r-bioc-s4vectors, r-bioc-biocparallel, r-cran-matrix, r-cran-rcpphnsw, libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 11) Suggests: r-cran-testthat, r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-fnn, r-cran-rcppannoy Description: Nearest Neighbor Detection for Bioconductor Packages Homepage: https://bioconductor.org/packages/BiocNeighbors/ Description-md5: cc15f0b45813def49274bba4d4b7cf0b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-biocneighbors/r-bioc-biocneighbors_1.16.0+ds-1_amd64.deb Size: 581808 MD5sum: 9404b7c455e990ec6d15c093069b2cb0 SHA256: f539d4411acb5ec9a983a89828776e22b7b6a6960d3988b75f2389f8f006500b [sid] Package: r-bioc-biocneighbors Version: 1.22.0+ds-1 Installed-Size: 1558 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-cran-rcpp, r-bioc-s4vectors (>= 0.42.1), r-bioc-biocparallel (>= 1.38.0), r-cran-matrix, r-cran-rcpphnsw, libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 14) Suggests: r-cran-testthat, r-bioc-biocstyle (>= 2.32.1), r-cran-knitr, r-cran-rmarkdown, r-cran-fnn, r-cran-rcppannoy Description: Nearest Neighbor Detection for Bioconductor Packages Homepage: https://bioconductor.org/packages/BiocNeighbors/ Description-md5: cc15f0b45813def49274bba4d4b7cf0b Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-biocneighbors/r-bioc-biocneighbors_1.22.0+ds-1_amd64.deb Size: 620448 MD5sum: 5bf64b90bf5394d97bc60c222c53ec9a SHA256: 3f1e52a58a36d8d1d74adcc579fcf60c4ee0be12ac6d695f2e42a902b40bdee4 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/bullseye-merged-usr_amd64.tar.gz -d stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt r-bioc-biocneighbors=1.22.0+ds-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 1.4.2 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/bullseye-merged-usr_amd64.tar.gz -d stable -d testing -d sid -B /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat --apt r-bioc-biocneighbors=1.22.0+ds-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/tmp4u0ps8pt 0m0.0s DEBUG: Unpacking /srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz into /srv/piuparts.debian.org/tmp/tmp4u0ps8pt 0m0.0s DEBUG: Starting command: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Command ok: ['tar', '-C', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', '--auto-compress', '-xf', '/srv/piuparts.debian.org/slave/basetgz/bullseye-merged-usr_amd64.tar.gz'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/proc'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'proc', 'proc', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/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/tmp4u0ps8pt/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/tmp4u0ps8pt/dev/pts'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/ptmx'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/pts/ptmx', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/ptmx'] 0m0.3s DEBUG: Starting command: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/console'] 0m0.3s DEBUG: Command ok: ['mount', '-o', 'bind', '/dev/pts/3', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/console'] 0m0.3s DEBUG: Starting command: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/shm'] 0m0.3s DEBUG: Command ok: ['mount', '-t', 'tmpfs', '-o', 'size=65536k', 'tmpfs', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/shm'] 0m0.3s DEBUG: sources.list: deb http://deb.debian.org/debian/ bullseye main 0m0.3s DEBUG: Created policy-rc.d and chmodded it. 0m0.3s DEBUG: Created resolv.conf. 0m0.3s DEBUG: Copying scriptsdir /etc/piuparts/scripts to /srv/piuparts.debian.org/tmp/tmp4u0ps8pt/tmp/scripts/ 0m0.3s INFO: Running scripts post_chroot_unpack 0m0.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_chroot_unpack_allow_unauthenticated'] 0m0.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'update'] 0m1.1s DUMP: Hit:1 http://deb.debian.org/debian bullseye InRelease Reading package lists... 0m1.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'update'] 0m1.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-yf', 'dist-upgrade'] 0m1.5s DUMP: Reading package lists... Building dependency tree... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 0m1.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-yf', 'dist-upgrade'] 0m1.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.8s DUMP: e0568dca630aa17b9cacee75afdb778e - 0m1.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 0m1.8s INFO: Running scripts post_setup 0m1.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_dummy_users'] 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_dummy_users'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_forbid_home'] 0m2.8s DUMP: Disabling /home Adding 'local diversion of /home to /home.distrib' 0m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_forbid_home'] 0m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.9s 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' 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_force-unsafe-io'] 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_minimize'] 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_minimize'] 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_squeeze-backports'] 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_zz_backports'] 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_setup_zz_backports'] 0m2.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.9s DUMP: install ok installed adduser adduser 3.118+deb11u1 install ok installed apt apt 2.2.4 install ok installed base-files base-files 11.1+deb11u10 install ok installed base-passwd base-passwd 3.5.51 install ok installed bash bash 5.1-2+deb11u1 install ok installed bsdutils bsdutils 1:2.36.1-8+deb11u2 install ok installed coreutils coreutils 8.32-4+b1 install ok installed dash dash 0.5.11+git20200708+dd9ef66-5 install ok installed debconf debconf 1.5.77 install ok installed debian-archive-keyring debian-archive-keyring 2021.1.1+deb11u1 install ok installed debianutils debianutils 4.11.2 install ok installed diffutils diffutils 1:3.7-5 install ok installed dpkg dpkg 1.20.13 install ok installed e2fsprogs e2fsprogs 1.46.2-2 install ok installed findutils findutils 4.8.0-1 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 install ok installed gpgv gpgv 2.2.27-2+deb11u2 install ok installed grep grep 3.6-1+deb11u1 install ok installed gzip gzip 1.10-4+deb11u1 install ok installed hostname hostname 3.23 install ok installed init-system-helpers init-system-helpers 1.60 install ok installed libacl1:amd64 libacl1 2.2.53-10 install ok installed libapt-pkg6.0:amd64 libapt-pkg6.0 2.2.4 install ok installed libattr1:amd64 libattr1 1:2.4.48-6 install ok installed libaudit-common libaudit-common 1:3.0-2 install ok installed libaudit1:amd64 libaudit1 1:3.0-2 install ok installed libblkid1:amd64 libblkid1 2.36.1-8+deb11u2 install ok installed libbz2-1.0:amd64 libbz2-1.0 1.0.8-4 install ok installed libc-bin libc-bin 2.31-13+deb11u10 install ok installed libc6:amd64 libc6 2.31-13+deb11u10 install ok installed libcap-ng0:amd64 libcap-ng0 0.7.9-2.2+b1 install ok installed libcom-err2:amd64 libcom-err2 1.46.2-2 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.18-4 install ok installed libdb5.3:amd64 libdb5.3 5.3.28+dfsg1-0.8 install ok installed libdebconfclient0:amd64 libdebconfclient0 0.260 install ok installed libext2fs2:amd64 libext2fs2 1.46.2-2 install ok installed libffi7:amd64 libffi7 3.3-6 install ok installed libgcc-s1:amd64 libgcc-s1 10.2.1-6 install ok installed libgcrypt20:amd64 libgcrypt20 1.8.7-6 install ok installed libgmp10:amd64 libgmp10 2:6.2.1+dfsg-1+deb11u1 install ok installed libgnutls30:amd64 libgnutls30 3.7.1-5+deb11u5 install ok installed libgpg-error0:amd64 libgpg-error0 1.38-2 install ok installed libgssapi-krb5-2:amd64 libgssapi-krb5-2 1.18.3-6+deb11u4 install ok installed libhogweed6:amd64 libhogweed6 3.7.3-1 install ok installed libidn2-0:amd64 libidn2-0 2.3.0-5 install ok installed libk5crypto3:amd64 libk5crypto3 1.18.3-6+deb11u4 install ok installed libkeyutils1:amd64 libkeyutils1 1.6.1-2 install ok installed libkrb5-3:amd64 libkrb5-3 1.18.3-6+deb11u4 install ok installed libkrb5support0:amd64 libkrb5support0 1.18.3-6+deb11u4 install ok installed liblz4-1:amd64 liblz4-1 1.9.3-2 install ok installed liblzma5:amd64 liblzma5 5.2.5-2.1~deb11u1 install ok installed libmount1:amd64 libmount1 2.36.1-8+deb11u2 install ok installed libnettle8:amd64 libnettle8 3.7.3-1 install ok installed libnsl2:amd64 libnsl2 1.3.0-2 install ok installed libp11-kit0:amd64 libp11-kit0 0.23.22-1 install ok installed libpam-modules:amd64 libpam-modules 1.4.0-9+deb11u1 install ok installed libpam-modules-bin libpam-modules-bin 1.4.0-9+deb11u1 install ok installed libpam-runtime libpam-runtime 1.4.0-9+deb11u1 install ok installed libpam0g:amd64 libpam0g 1.4.0-9+deb11u1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.36-2+deb11u1 install ok installed libpcre3:amd64 libpcre3 2:8.39-13 install ok installed libseccomp2:amd64 libseccomp2 2.5.1-1+deb11u1 install ok installed libselinux1:amd64 libselinux1 3.1-3 install ok installed libsemanage-common libsemanage-common 3.1-1 install ok installed libsemanage1:amd64 libsemanage1 3.1-1+b2 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsmartcols1:amd64 libsmartcols1 2.36.1-8+deb11u2 install ok installed libss2:amd64 libss2 1.46.2-2 install ok installed libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libstdc++6:amd64 libstdc++6 10.2.1-6 install ok installed libsystemd0:amd64 libsystemd0 247.3-7+deb11u5 install ok installed libtasn1-6:amd64 libtasn1-6 4.16.0-2+deb11u1 install ok installed libtinfo6:amd64 libtinfo6 6.2+20201114-2+deb11u2 install ok installed libtirpc-common libtirpc-common 1.3.1-1+deb11u1 install ok installed libtirpc3:amd64 libtirpc3 1.3.1-1+deb11u1 install ok installed libudev1:amd64 libudev1 247.3-7+deb11u5 install ok installed libunistring2:amd64 libunistring2 0.9.10-4 install ok installed libuuid1:amd64 libuuid1 2.36.1-8+deb11u2 install ok installed libxxhash0:amd64 libxxhash0 0.8.0-2 install ok installed libzstd1:amd64 libzstd1 1.4.8+dfsg-2.1 install ok installed login login 1:4.8.1-1 install ok installed logsave logsave 1.46.2-2 install ok installed lsb-base lsb-base 11.1.0 install ok installed mawk mawk 1.3.4.20200120-2 install ok installed mount mount 2.36.1-8+deb11u2 install ok installed ncurses-base ncurses-base 6.2+20201114-2+deb11u2 install ok installed ncurses-bin ncurses-bin 6.2+20201114-2+deb11u2 install ok installed passwd passwd 1:4.8.1-1 install ok installed perl-base perl-base 5.32.1-4+deb11u3 install ok installed sed sed 4.7-1 install ok installed sysvinit-utils sysvinit-utils 2.96-7+deb11u1 install ok installed tar tar 1.34+dfsg-1+deb11u1 install ok installed tzdata tzdata 2024a-0+deb11u1 install ok installed util-linux util-linux 2.36.1-8+deb11u2 install ok installed zlib1g:amd64 zlib1g 1:1.2.11.dfsg-2+deb11u2 0m2.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 0m2.9s DEBUG: Loading chroot meta data from /srv/piuparts.debian.org/slave/refchroot/stable22sid/reference-chroot-metadata.dat 0m3.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 0m3.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 0m3.5s INFO: Running scripts is_testable 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/is_testable_uninstallable'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/is_testable_uninstallable'] 0m3.5s INFO: Running scripts pre_test 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_test_exceptions'] 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_test_exceptions'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_test_root_password'] 0m3.5s DUMP: New password: Retype new password: passwd: password updated successfully 0m3.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_test_root_password'] 0m3.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-biocneighbors'] 0m3.8s DUMP: Package: r-bioc-biocneighbors Version: 1.8.2+ds-1 Installed-Size: 1142 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.0.3-1), r-api-4.0, r-api-bioc-3.12, r-cran-rcpp, r-bioc-s4vectors, r-bioc-biocparallel, r-cran-matrix, r-cran-rcpphnsw, libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2) Recommends: r-cran-testthat, r-cran-fnn Suggests: r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-rcppannoy Description-en: Nearest Neighbor Detection for Bioconductor Packages Implements exact and approximate methods for nearest neighbor detection, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Exact searches can be performed using the k-means for k-nearest neighbors algorithm or with vantage point trees. Approximate searches can be performed using the Annoy or HNSW libraries. Searching on either Euclidean or Manhattan distances is supported. Parallelization is achieved for all methods by using BiocParallel. Functions are also provided to search for all neighbors within a given distance. Description-md5: cc15f0b45813def49274bba4d4b7cf0b Homepage: https://bioconductor.org/packages/BiocNeighbors/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-biocneighbors/r-bioc-biocneighbors_1.8.2+ds-1_amd64.deb Size: 537032 MD5sum: 9b7869e7f1e481280019c5e5c9a0a1c5 SHA256: 90c9920d28f0625f32a4e58647c9fc9ee4af1b44cee429c13d5aee207bfb27e7 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-biocneighbors'] 0m3.8s INFO: apt-cache knows about the following packages: r-bioc-biocneighbors 0m3.8s INFO: Running scripts pre_install 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 0m3.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 0m3.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bullseye/main amd64 Packages release v=11.10,o=Debian,a=oldstable,n=bullseye,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 0m3.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 0m3.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 0m4.0s DUMP: r-bioc-biocneighbors: Installed: (none) Candidate: 1.8.2+ds-1 Version table: 1.8.2+ds-1 500 500 http://deb.debian.org/debian bullseye/main amd64 Packages 0m4.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 0m4.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors'] 0m27.0s DUMP: Reading package lists... Building dependency tree... The following additional packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core libasan6 libatomic1 libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libicu67 libitm1 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 liblsan0 libmd0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh2-1 libstdc++-10-dev libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-dev libtk8.6 libtsan0 libubsan1 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6 linux-libc-dev littler openssl r-base-core r-bioc-biocgenerics r-bioc-biocparallel r-bioc-s4vectors r-cran-bh r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-lattice r-cran-littler r-cran-matrix r-cran-pkgkitten r-cran-rcpp r-cran-rcpphnsw r-cran-snow readline-common sensible-utils ucf unzip x11-common xdg-utils zip Suggested packages: libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev glibc-doc manpages-dev libstdc++-10-doc tcl8.6 tk8.6 elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html r-bioc-biobase r-bioc-iranges r-bioc-genomicranges r-bioc-delayedarray r-bioc-biostrings r-bioc-rsamtools r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2 r-bioc-annotate r-bioc-biocstyle r-cran-knitr r-cran-rmarkdown r-cran-rcppannoy r-cran-foreach r-cran-bbmisc r-bioc-variantannotation r-bioc-genomicalignments r-bioc-shortread r-cran-codetools r-cran-data.table r-bioc-summarizedexperiment r-bioc-graph r-cran-shiny r-cran-jsonlite r-cran-getopt r-cran-inline r-cran-covr r-cran-rmpi r-cran-rsprng r-cran-rlecuyer readline-doc Recommended packages: manpages manpages-dev libc-devtools libglib2.0-data shared-mime-info xdg-user-dirs libldap-common publicsuffix libsasl2-modules r-recommended r-base-dev r-doc-html r-cran-runit r-cran-testthat r-cran-fnn r-cran-batchjobs r-cran-doparallel r-bioc-rsamtools r-cran-batchtools r-cran-rmpi r-bioc-iranges r-bioc-genomicranges r-cran-testit r-cran-codetools r-cran-survival libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: ca-certificates fontconfig fontconfig-config fonts-dejavu-core libasan6 libatomic1 libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgfortran5 libglib2.0-0 libgomp1 libgraphite2-3 libharfbuzz0b libice6 libicu67 libitm1 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 liblsan0 libmd0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 librtmp1 libsasl2-2 libsasl2-modules-db libsm6 libssh2-1 libstdc++-10-dev libtcl8.6 libthai-data libthai0 libtiff5 libtirpc-dev libtk8.6 libtsan0 libubsan1 libwebp6 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6 linux-libc-dev littler openssl r-base-core r-bioc-biocgenerics r-bioc-biocneighbors r-bioc-biocparallel r-bioc-s4vectors r-cran-bh r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-lattice r-cran-littler r-cran-matrix r-cran-pkgkitten r-cran-rcpp r-cran-rcpphnsw r-cran-snow readline-common sensible-utils ucf unzip x11-common xdg-utils zip 0 upgraded, 103 newly installed, 0 to remove and 0 not upgraded. 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http://deb.debian.org/debian bullseye/main amd64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get:97 http://deb.debian.org/debian bullseye/main amd64 r-cran-snow all 1:0.4.3-2 [109 kB] Get:98 http://deb.debian.org/debian bullseye/main amd64 r-cran-bh all 1.74.0-1 [5196 B] Get:99 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocparallel amd64 1.24.1-1 [1143 kB] Get:100 http://deb.debian.org/debian bullseye/main amd64 r-cran-lattice amd64 0.20-41-1+b1 [1164 kB] Get:101 http://deb.debian.org/debian bullseye/main amd64 r-cran-matrix amd64 1.3-2-1 [3604 kB] Get:102 http://deb.debian.org/debian bullseye/main amd64 r-cran-rcpphnsw amd64 0.3.0.9001+ds-1+b1 [145 kB] Get:103 http://deb.debian.org/debian bullseye/main amd64 r-bioc-biocneighbors amd64 1.8.2+ds-1 [537 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 88.9 MB in 2s (43.2 MB/s) Selecting previously unselected package readline-common. 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Preparing to unpack .../101-r-cran-rcpphnsw_0.3.0.9001+ds-1+b1_amd64.deb ... Unpacking r-cran-rcpphnsw (0.3.0.9001+ds-1+b1) ... Selecting previously unselected package r-bioc-biocneighbors. Preparing to unpack .../102-r-bioc-biocneighbors_1.8.2+ds-1_amd64.deb ... Unpacking r-bioc-biocneighbors (1.8.2+ds-1) ... Setting up libexpat1:amd64 (2.2.10-2+deb11u5) ... Setting up libgraphite2-3:amd64 (1.3.14-1) ... Setting up libpixman-1-0:amd64 (0.40.0-1.1~deb11u1) ... Setting up libxau6:amd64 (1:1.0.9-1) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up libicu67:amd64 (67.1-7) ... Setting up libdatrie1:amd64 (0.2.13-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1+deb11u4) ... No schema files found: doing nothing. Setting up unzip (6.0-26+deb11u1) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:amd64 (1.43.0-1+deb11u1) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up linux-libc-dev:amd64 (5.10.218-1) ... Setting up libgomp1:amd64 (10.2.1-6) ... Setting up libjbig0:amd64 (2.1-3.1+b2) ... Setting up libasan6:amd64 (10.2.1-6) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up zip (3.0-12) ... Setting up libblas3:amd64 (3.9.0-3+deb11u1) ... 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 libtirpc-dev:amd64 (1.3.1-1+deb11u1) ... Setting up libjpeg62-turbo:amd64 (1:2.0.6-4) ... Setting up libx11-data (2:1.7.2-1+deb11u2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libfribidi0:amd64 (1.0.8-2+deb11u1) ... Setting up libquadmath0:amd64 (10.2.1-6) ... Setting up libpng16-16:amd64 (1.6.37-3) ... Setting up libatomic1:amd64 (10.2.1-6) ... Setting up libtcl8.6:amd64 (8.6.11+dfsg-1) ... Setting up libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1+deb11u1) ... Setting up libgfortran5:amd64 (10.2.1-6) ... Setting up libubsan1:amd64 (10.2.1-6) ... Setting up libmd0:amd64 (1.0.3-3) ... Setting up libnsl-dev:amd64 (1.3.0-2) ... Setting up sensible-utils (0.0.14) ... Setting up libcrypt-dev:amd64 (1:4.4.18-4) ... Setting up libthai-data (0.1.28-3) ... Setting up libssh2-1:amd64 (1.9.0-2+deb11u1) ... Setting up libtiff5:amd64 (4.2.0-1+deb11u5) ... Setting up libc-dev-bin (2.31-13+deb11u10) ... Setting up openssl (1.1.1w-0+deb11u1) ... Setting up libbsd0:amd64 (0.11.3-1+deb11u1) ... Setting up readline-common (8.1-1) ... Setting up xdg-utils (1.1.3-4.1) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up liblsan0:amd64 (10.2.1-6) ... Setting up libitm1:amd64 (10.2.1-6) ... Setting up libtsan0:amd64 (10.2.1-6) ... Setting up libice6:amd64 (2:1.0.10-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up liblapack3:amd64 (3.9.0-3+deb11u1) ... 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 (1.14-3) ... Setting up libxcb-render0:amd64 (1.14-3) ... Setting up libgcc-10-dev:amd64 (10.2.1-6) ... Setting up libreadline8:amd64 (8.1-1) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Setting up libxcb-shm0:amd64 (1.14-3) ... Setting up libthai0:amd64 (0.1.28-3) ... Setting up ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 129 added, 0 removed; done. Setting up libfreetype6:amd64 (2.10.4+dfsg-1+deb11u1) ... Setting up ucf (3.0043) ... Setting up libcurl4:amd64 (7.74.0-1.3+deb11u12) ... Setting up libc6-dev:amd64 (2.31-13+deb11u10) ... Setting up libx11-6:amd64 (2:1.7.2-1+deb11u2) ... Setting up libharfbuzz0b:amd64 (2.7.4-1) ... Setting up libsm6:amd64 (2:1.2.3-1) ... Setting up libpaper1:amd64 (1.1.28+b1) ... Creating config file /etc/papersize with new version Setting up libstdc++-10-dev:amd64 (10.2.1-6) ... Setting up libboost1.74-dev:amd64 (1.74.0-9) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up libxext6:amd64 (2:1.3.3-1.1) ... Setting up libpaper-utils (1.1.28+b1) ... Setting up libxt6:amd64 (1:1.2.0-1) ... Setting up libboost-dev:amd64 (1.74.0.3) ... Setting up libxss1:amd64 (1:1.2.3-1) ... Setting up libfontconfig1:amd64 (2.13.1-4.2) ... Setting up r-cran-bh (1.74.0-1) ... Setting up fontconfig (2.13.1-4.2) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.2-2) ... Setting up libtk8.6:amd64 (8.6.11-2) ... Setting up libpango-1.0-0:amd64 (1.46.2-3) ... Setting up libcairo2:amd64 (1.16.0-5) ... Setting up libpangoft2-1.0-0:amd64 (1.46.2-3) ... Setting up libpangocairo-1.0-0:amd64 (1.46.2-3) ... Setting up r-base-core (4.0.4-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-futile.options (1.0.1-3) ... Setting up r-cran-lattice (0.20-41-1+b1) ... Setting up r-cran-formatr (1.7-2) ... Setting up r-cran-pkgkitten (0.2.1-1) ... Setting up r-cran-littler (0.3.12-1) ... Setting up r-cran-rcpp (1.0.6-1) ... Setting up r-bioc-biocgenerics (0.36.0-1) ... Setting up littler (0.3.12-1) ... Setting up r-cran-rcpphnsw (0.3.0.9001+ds-1+b1) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up r-cran-snow (1:0.4.3-2) ... Setting up r-bioc-s4vectors (0.28.1-1) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up r-cran-matrix (1.3-2-1) ... Setting up r-bioc-biocparallel (1.24.1-1) ... Setting up r-bioc-biocneighbors (1.8.2+ds-1) ... Processing triggers for libc-bin (2.31-13+deb11u10) ... Processing triggers for ca-certificates (20210119) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors'] 0m27.0s INFO: Running scripts post_install 0m27.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 0m27.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 0m27.0s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 0m28.7s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 0m28.7s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp4u0ps8pt to testing 0m28.7s DEBUG: sources.list: deb http://deb.debian.org/debian/ bookworm main 0m28.7s INFO: Running scripts pre_distupgrade 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_exceptions'] 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_database-server'] 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 0m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'update'] 0m32.5s DUMP: Get:1 http://deb.debian.org/debian bookworm InRelease [151 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 Packages [8788 kB] Get:3 http://deb.debian.org/debian bookworm/main Translation-en [6109 kB] Fetched 15.0 MB in 3s (5450 kB/s) Reading package lists... 0m32.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'update'] 0m32.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-yf', 'dist-upgrade'] 1m13.5s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: gcc-11-base libasan6 libgcc-10-dev libicu67 libldap-2.4-2 libstdc++-10-dev libtiff5 libtsan0 libwebp6 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libsemanage1 The following NEW packages will be installed: gcc-11-base gcc-12-base libasan8 libcap2 libffi8 libfile-find-rule-perl libgcc-12-dev libgdbm-compat4 libgdbm6 libicu72 libldap-2.5-0 liblerc4 libnumber-compare-perl libperl5.36 libsemanage2 libsepol2 libssl3 libstdc++-12-dev libtext-glob-perl libtiff6 libtsan2 libwebp7 perl perl-modules-5.36 r-cran-codetools r-cran-cpp11 rpcsvc-proto usrmerge util-linux-extra The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils ca-certificates coreutils dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils fontconfig fontconfig-config fonts-dejavu-core gpgv grep gzip hostname init-system-helpers libacl1 libapt-pkg6.0 libasan6 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libboost1.74-dev libbrotli1 libbsd0 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcairo2 libcap-ng0 libcom-err2 libcrypt-dev libcrypt1 libcurl4 libdatrie1 libdb5.3 libdebconfclient0 libdeflate0 libexpat1 libext2fs2 libfontconfig1 libfreetype6 libfribidi0 libgcc-s1 libgcrypt20 libgfortran5 libglib2.0-0 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libharfbuzz0b libhogweed6 libidn2-0 libitm1 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libnettle8 libnghttp2-14 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-8-0 libpcre3 libpixman-1-0 libpng16-16 libpsl5 libquadmath0 libreadline8 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsmartcols1 libss2 libssh2-1 libstdc++6 libsystemd0 libtasn1-6 libtcl8.6 libthai-data libthai0 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libtk8.6 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libx11-6 libx11-data libxcb-render0 libxcb-shm0 libxcb1 libxext6 libxft2 libxrender1 libxt6 libxxhash0 libzstd1 linux-libc-dev littler login logsave lsb-base mawk mount ncurses-base ncurses-bin openssl passwd perl-base r-base-core r-bioc-biocgenerics r-bioc-biocneighbors r-bioc-biocparallel r-bioc-s4vectors r-cran-bh r-cran-formatr r-cran-lattice r-cran-littler r-cran-matrix r-cran-pkgkitten r-cran-rcpp r-cran-rcpphnsw r-cran-snow readline-common sed sensible-utils sysvinit-utils tar tzdata ucf unzip util-linux x11-common zip zlib1g 173 upgraded, 29 newly installed, 1 to remove and 0 not upgraded. Need to get 139 MB of archives. After this operation, 148 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian bookworm/main amd64 base-files amd64 12.4+deb12u6 [70.8 kB] Get:2 http://deb.debian.org/debian bookworm/main amd64 libcrypt-dev amd64 1:4.4.33-2 [118 kB] Get:3 http://deb.debian.org/debian bookworm/main amd64 libc6-dev amd64 2.36-9+deb12u7 [1899 kB] Get:4 http://deb.debian.org/debian bookworm/main amd64 libc-dev-bin amd64 2.36-9+deb12u7 [45.8 kB] Get:5 http://deb.debian.org/debian bookworm/main amd64 rpcsvc-proto amd64 1.4.3-1 [63.3 kB] Get:6 http://deb.debian.org/debian bookworm/main amd64 libaudit-common all 1:3.0.9-1 [10.4 kB] Get:7 http://deb.debian.org/debian bookworm/main amd64 libc6 amd64 2.36-9+deb12u7 [2758 kB] Get:8 http://deb.debian.org/debian bookworm/main amd64 libc-bin amd64 2.36-9+deb12u7 [607 kB] Get:9 http://deb.debian.org/debian bookworm/main amd64 libcap-ng0 amd64 0.8.3-1+b3 [17.1 kB] Get:10 http://deb.debian.org/debian bookworm/main amd64 libaudit1 amd64 1:3.0.9-1 [46.8 kB] Get:11 http://deb.debian.org/debian bookworm/main amd64 perl-base amd64 5.36.0-7+deb12u1 [1608 kB] Get:12 http://deb.debian.org/debian bookworm/main amd64 debconf all 1.5.82 [121 kB] Get:13 http://deb.debian.org/debian bookworm/main amd64 libpam0g amd64 1.5.2-6+deb12u1 [92.0 kB] Get:14 http://deb.debian.org/debian bookworm/main amd64 libcrypt1 amd64 1:4.4.33-2 [89.5 kB] Get:15 http://deb.debian.org/debian bookworm/main amd64 linux-libc-dev amd64 6.1.94-1 [1994 kB] Get:16 http://deb.debian.org/debian bookworm/main amd64 gcc-12-base amd64 12.2.0-14 [37.5 kB] Get:17 http://deb.debian.org/debian bookworm/main amd64 libgcc-s1 amd64 12.2.0-14 [49.9 kB] Get:18 http://deb.debian.org/debian bookworm/main amd64 libblkid1 amd64 2.38.1-5+deb12u1 [147 kB] Get:19 http://deb.debian.org/debian bookworm/main amd64 libpcre2-8-0 amd64 10.42-1 [261 kB] Get:20 http://deb.debian.org/debian bookworm/main amd64 libselinux1 amd64 3.4-1+b6 [73.7 kB] Get:21 http://deb.debian.org/debian bookworm/main amd64 libmount1 amd64 2.38.1-5+deb12u1 [165 kB] Get:22 http://deb.debian.org/debian bookworm/main amd64 libsmartcols1 amd64 2.38.1-5+deb12u1 [107 kB] Get:23 http://deb.debian.org/debian bookworm/main amd64 login amd64 1:4.13+dfsg1-1+b1 [616 kB] Get:24 http://deb.debian.org/debian bookworm/main amd64 util-linux-extra amd64 2.38.1-5+deb12u1 [110 kB] Get:25 http://deb.debian.org/debian bookworm/main amd64 util-linux amd64 2.38.1-5+deb12u1 [1176 kB] Get:26 http://deb.debian.org/debian bookworm/main amd64 liblzma5 amd64 5.4.1-0.2 [205 kB] Get:27 http://deb.debian.org/debian bookworm/main amd64 libzstd1 amd64 1.5.4+dfsg2-5 [290 kB] Get:28 http://deb.debian.org/debian bookworm/main amd64 tar amd64 1.34+dfsg-1.2+deb12u1 [836 kB] Get:29 http://deb.debian.org/debian bookworm/main amd64 dpkg amd64 1.21.22 [1567 kB] Get:30 http://deb.debian.org/debian bookworm/main amd64 sysvinit-utils amd64 3.06-4 [31.0 kB] Get:31 http://deb.debian.org/debian bookworm/main amd64 lsb-base all 11.6 [4584 B] Get:32 http://deb.debian.org/debian bookworm/main amd64 x11-common all 1:7.7+23 [252 kB] Get:33 http://deb.debian.org/debian bookworm/main amd64 debianutils amd64 5.7-0.5~deb12u1 [103 kB] Get:34 http://deb.debian.org/debian bookworm/main amd64 bash amd64 5.2.15-2+b7 [1490 kB] Get:35 http://deb.debian.org/debian bookworm/main amd64 bsdutils amd64 1:2.38.1-5+deb12u1 [94.3 kB] Get:36 http://deb.debian.org/debian bookworm/main amd64 libgmp10 amd64 2:6.2.1+dfsg1-1.1 [563 kB] Get:37 http://deb.debian.org/debian bookworm/main amd64 coreutils amd64 9.1-1 [2897 kB] Get:38 http://deb.debian.org/debian bookworm/main amd64 dash amd64 0.5.12-2 [91.8 kB] Get:39 http://deb.debian.org/debian bookworm/main amd64 diffutils amd64 1:3.8-4 [352 kB] Get:40 http://deb.debian.org/debian bookworm/main amd64 findutils amd64 4.9.0-4 [636 kB] Get:41 http://deb.debian.org/debian bookworm/main amd64 grep amd64 3.8-5 [421 kB] Get:42 http://deb.debian.org/debian bookworm/main amd64 gzip amd64 1.12-1 [140 kB] Get:43 http://deb.debian.org/debian bookworm/main amd64 hostname amd64 3.23+nmu1 [10.5 kB] Get:44 http://deb.debian.org/debian bookworm/main amd64 libtinfo6 amd64 6.4-4 [331 kB] Get:45 http://deb.debian.org/debian bookworm/main amd64 ncurses-bin amd64 6.4-4 [421 kB] Get:46 http://deb.debian.org/debian bookworm/main amd64 sed amd64 4.9-1 [329 kB] Get:47 http://deb.debian.org/debian bookworm/main amd64 libgpg-error0 amd64 1.46-1 [76.9 kB] Get:48 http://deb.debian.org/debian bookworm/main amd64 libgcrypt20 amd64 1.10.1-3 [696 kB] Get:49 http://deb.debian.org/debian bookworm/main amd64 libstdc++6 amd64 12.2.0-14 [614 kB] Get:50 http://deb.debian.org/debian bookworm/main amd64 libbz2-1.0 amd64 1.0.8-5+b1 [47.3 kB] Get:51 http://deb.debian.org/debian bookworm/main amd64 liblz4-1 amd64 1.9.4-1 [62.9 kB] Get:52 http://deb.debian.org/debian bookworm/main amd64 libcap2 amd64 1:2.66-4 [27.0 kB] Get:53 http://deb.debian.org/debian bookworm/main amd64 libsystemd0 amd64 252.26-1~deb12u2 [332 kB] Get:54 http://deb.debian.org/debian bookworm/main amd64 libudev1 amd64 252.26-1~deb12u2 [108 kB] Get:55 http://deb.debian.org/debian bookworm/main amd64 libxxhash0 amd64 0.8.1-1 [27.6 kB] Get:56 http://deb.debian.org/debian bookworm/main amd64 zlib1g amd64 1:1.2.13.dfsg-1 [86.7 kB] Get:57 http://deb.debian.org/debian bookworm/main amd64 libapt-pkg6.0 amd64 2.6.1 [907 kB] Get:58 http://deb.debian.org/debian bookworm/main amd64 libnettle8 amd64 3.8.1-2 [288 kB] Get:59 http://deb.debian.org/debian bookworm/main amd64 libhogweed6 amd64 3.8.1-2 [328 kB] Get:60 http://deb.debian.org/debian bookworm/main amd64 libunistring2 amd64 1.0-2 [437 kB] Get:61 http://deb.debian.org/debian bookworm/main amd64 libidn2-0 amd64 2.3.3-1+b1 [124 kB] Get:62 http://deb.debian.org/debian bookworm/main amd64 libffi8 amd64 3.4.4-1 [22.9 kB] Get:63 http://deb.debian.org/debian bookworm/main amd64 libp11-kit0 amd64 0.24.1-2 [345 kB] Get:64 http://deb.debian.org/debian bookworm/main amd64 libtasn1-6 amd64 4.19.0-2 [56.6 kB] Get:65 http://deb.debian.org/debian bookworm/main amd64 libgnutls30 amd64 3.7.9-2+deb12u3 [1405 kB] Get:66 http://deb.debian.org/debian bookworm/main amd64 libsemanage-common all 3.4-1 [21.6 kB] Get:67 http://deb.debian.org/debian bookworm/main amd64 libsepol2 amd64 3.4-2.1 [276 kB] Get:68 http://deb.debian.org/debian bookworm/main amd64 libsemanage2 amd64 3.4-1+b5 [89.9 kB] Get:69 http://deb.debian.org/debian bookworm/main amd64 passwd amd64 1:4.13+dfsg1-1+b1 [972 kB] Get:70 http://deb.debian.org/debian bookworm/main amd64 libpam-modules-bin amd64 1.5.2-6+deb12u1 [75.6 kB] Get:71 http://deb.debian.org/debian bookworm/main amd64 libpam-modules amd64 1.5.2-6+deb12u1 [291 kB] Get:72 http://deb.debian.org/debian bookworm/main amd64 adduser all 3.134 [183 kB] Get:73 http://deb.debian.org/debian bookworm/main amd64 gpgv amd64 2.2.40-1.1 [648 kB] Get:74 http://deb.debian.org/debian bookworm/main amd64 debian-archive-keyring all 2023.3+deb12u1 [161 kB] Get:75 http://deb.debian.org/debian bookworm/main amd64 libseccomp2 amd64 2.5.4-1+deb12u1 [46.8 kB] Get:76 http://deb.debian.org/debian bookworm/main amd64 apt amd64 2.6.1 [1373 kB] Get:77 http://deb.debian.org/debian bookworm/main amd64 libdebconfclient0 amd64 0.270 [9900 B] Get:78 http://deb.debian.org/debian bookworm/main amd64 base-passwd amd64 3.6.1 [60.0 kB] Get:79 http://deb.debian.org/debian bookworm/main amd64 perl-modules-5.36 all 5.36.0-7+deb12u1 [2815 kB] Get:80 http://deb.debian.org/debian bookworm/main amd64 libgdbm6 amd64 1.23-3 [72.2 kB] Get:81 http://deb.debian.org/debian bookworm/main amd64 libgdbm-compat4 amd64 1.23-3 [48.2 kB] Get:82 http://deb.debian.org/debian bookworm/main amd64 libdb5.3 amd64 5.3.28+dfsg2-1 [697 kB] Get:83 http://deb.debian.org/debian bookworm/main amd64 libperl5.36 amd64 5.36.0-7+deb12u1 [4218 kB] Get:84 http://deb.debian.org/debian bookworm/main amd64 perl amd64 5.36.0-7+deb12u1 [239 kB] Get:85 http://deb.debian.org/debian bookworm/main amd64 libnumber-compare-perl all 0.03-3 [6332 B] Get:86 http://deb.debian.org/debian bookworm/main amd64 libtext-glob-perl all 0.11-3 [7676 B] Get:87 http://deb.debian.org/debian bookworm/main amd64 libfile-find-rule-perl all 0.34-3 [26.6 kB] Get:88 http://deb.debian.org/debian bookworm/main amd64 usrmerge all 37~deb12u1 [13.3 kB] Get:89 http://deb.debian.org/debian bookworm/main amd64 init-system-helpers all 1.65.2 [49.8 kB] Get:90 http://deb.debian.org/debian bookworm/main amd64 ncurses-base all 6.4-4 [261 kB] Get:91 http://deb.debian.org/debian bookworm/main amd64 logsave amd64 1.47.0-2 [19.6 kB] Get:92 http://deb.debian.org/debian bookworm/main amd64 libext2fs2 amd64 1.47.0-2 [205 kB] Get:93 http://deb.debian.org/debian bookworm/main amd64 e2fsprogs amd64 1.47.0-2 [571 kB] Get:94 http://deb.debian.org/debian bookworm/main amd64 mount amd64 2.38.1-5+deb12u1 [134 kB] Get:95 http://deb.debian.org/debian bookworm/main amd64 libpam-runtime all 1.5.2-6+deb12u1 [161 kB] Get:96 http://deb.debian.org/debian bookworm/main amd64 libacl1 amd64 2.3.1-3 [31.5 kB] Get:97 http://deb.debian.org/debian bookworm/main amd64 libattr1 amd64 1:2.5.1-4 [22.2 kB] Get:98 http://deb.debian.org/debian bookworm/main amd64 libmd0 amd64 1.0.4-2 [29.5 kB] Get:99 http://deb.debian.org/debian bookworm/main amd64 libpcre3 amd64 2:8.39-15 [341 kB] Get:100 http://deb.debian.org/debian bookworm/main amd64 libuuid1 amd64 2.38.1-5+deb12u1 [28.6 kB] Get:101 http://deb.debian.org/debian bookworm/main amd64 mawk amd64 1.3.4.20200120-3.1 [119 kB] Get:102 http://deb.debian.org/debian bookworm/main amd64 tzdata all 2024a-0+deb12u1 [297 kB] Get:103 http://deb.debian.org/debian bookworm/main amd64 readline-common all 8.2-1.3 [69.0 kB] Get:104 http://deb.debian.org/debian bookworm/main amd64 sensible-utils all 0.0.17+nmu1 [19.0 kB] Get:105 http://deb.debian.org/debian bookworm/main amd64 libssl3 amd64 3.0.13-1~deb12u1 [2022 kB] Get:106 http://deb.debian.org/debian bookworm/main amd64 openssl amd64 3.0.13-1~deb12u1 [1418 kB] Get:107 http://deb.debian.org/debian bookworm/main amd64 ca-certificates all 20230311 [153 kB] Get:108 http://deb.debian.org/debian bookworm/main amd64 ucf all 3.0043+nmu1 [55.2 kB] Get:109 http://deb.debian.org/debian bookworm/main amd64 fonts-dejavu-core all 2.37-6 [1068 kB] Get:110 http://deb.debian.org/debian bookworm/main amd64 fontconfig-config amd64 2.14.1-4 [315 kB] Get:111 http://deb.debian.org/debian bookworm/main amd64 libexpat1 amd64 2.5.0-1 [99.3 kB] Get:112 http://deb.debian.org/debian bookworm/main amd64 libbrotli1 amd64 1.0.9-2+b6 [275 kB] Get:113 http://deb.debian.org/debian bookworm/main amd64 libpng16-16 amd64 1.6.39-2 [276 kB] Get:114 http://deb.debian.org/debian bookworm/main amd64 libfreetype6 amd64 2.12.1+dfsg-5+deb12u3 [398 kB] Get:115 http://deb.debian.org/debian bookworm/main amd64 libfontconfig1 amd64 2.14.1-4 [386 kB] Get:116 http://deb.debian.org/debian bookworm/main amd64 fontconfig amd64 2.14.1-4 [449 kB] Get:117 http://deb.debian.org/debian bookworm/main amd64 gcc-11-base amd64 11.3.0-12 [38.4 kB] Get:118 http://deb.debian.org/debian bookworm/main amd64 libasan6 amd64 11.3.0-12 [2050 kB] Get:119 http://deb.debian.org/debian bookworm/main amd64 libasan8 amd64 12.2.0-14 [2195 kB] Get:120 http://deb.debian.org/debian bookworm/main amd64 libatomic1 amd64 12.2.0-14 [9328 B] Get:121 http://deb.debian.org/debian bookworm/main amd64 libblas3 amd64 3.11.0-2 [149 kB] Get:122 http://deb.debian.org/debian bookworm/main amd64 libgomp1 amd64 12.2.0-14 [116 kB] Get:123 http://deb.debian.org/debian bookworm/main amd64 libitm1 amd64 12.2.0-14 [26.1 kB] Get:124 http://deb.debian.org/debian bookworm/main amd64 liblsan0 amd64 12.2.0-14 [969 kB] Get:125 http://deb.debian.org/debian bookworm/main amd64 libtsan2 amd64 12.2.0-14 [2196 kB] Get:126 http://deb.debian.org/debian bookworm/main amd64 libubsan1 amd64 12.2.0-14 [883 kB] Get:127 http://deb.debian.org/debian bookworm/main amd64 libquadmath0 amd64 12.2.0-14 [144 kB] Get:128 http://deb.debian.org/debian bookworm/main amd64 libgcc-12-dev amd64 12.2.0-14 [2437 kB] Get:129 http://deb.debian.org/debian bookworm/main amd64 libstdc++-12-dev amd64 12.2.0-14 [2046 kB] Get:130 http://deb.debian.org/debian bookworm/main amd64 libboost1.74-dev amd64 1.74.0+ds1-21 [9508 kB] Get:131 http://deb.debian.org/debian bookworm/main amd64 libbsd0 amd64 0.11.7-2 [117 kB] Get:132 http://deb.debian.org/debian bookworm/main amd64 libpixman-1-0 amd64 0.42.2-1 [546 kB] Get:133 http://deb.debian.org/debian bookworm/main amd64 libx11-data all 2:1.8.4-2+deb12u2 [292 kB] Get:134 http://deb.debian.org/debian bookworm/main amd64 libxcb1 amd64 1.15-1 [144 kB] Get:135 http://deb.debian.org/debian bookworm/main amd64 libx11-6 amd64 2:1.8.4-2+deb12u2 [760 kB] Get:136 http://deb.debian.org/debian bookworm/main amd64 libxcb-render0 amd64 1.15-1 [115 kB] Get:137 http://deb.debian.org/debian bookworm/main amd64 libxcb-shm0 amd64 1.15-1 [105 kB] Get:138 http://deb.debian.org/debian bookworm/main amd64 libxext6 amd64 2:1.3.4-1+b1 [52.9 kB] Get:139 http://deb.debian.org/debian bookworm/main amd64 libxrender1 amd64 1:0.9.10-1.1 [33.2 kB] Get:140 http://deb.debian.org/debian bookworm/main amd64 libcairo2 amd64 1.16.0-7 [575 kB] Get:141 http://deb.debian.org/debian bookworm/main amd64 libcom-err2 amd64 1.47.0-2 [19.8 kB] Get:142 http://deb.debian.org/debian bookworm/main amd64 libgssapi-krb5-2 amd64 1.20.1-2+deb12u1 [134 kB] Get:143 http://deb.debian.org/debian bookworm/main amd64 libkrb5-3 amd64 1.20.1-2+deb12u1 [332 kB] Get:144 http://deb.debian.org/debian bookworm/main amd64 libk5crypto3 amd64 1.20.1-2+deb12u1 [78.9 kB] Get:145 http://deb.debian.org/debian bookworm/main amd64 libkrb5support0 amd64 1.20.1-2+deb12u1 [32.4 kB] Get:146 http://deb.debian.org/debian bookworm/main amd64 libkeyutils1 amd64 1.6.3-2 [8808 B] Get:147 http://deb.debian.org/debian bookworm/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg-10 [20.3 kB] Get:148 http://deb.debian.org/debian bookworm/main amd64 libsasl2-2 amd64 2.1.28+dfsg-10 [59.7 kB] Get:149 http://deb.debian.org/debian bookworm/main amd64 libldap-2.5-0 amd64 2.5.13+dfsg-5 [183 kB] Get:150 http://deb.debian.org/debian bookworm/main amd64 libnghttp2-14 amd64 1.52.0-1+deb12u1 [72.4 kB] Get:151 http://deb.debian.org/debian bookworm/main amd64 libpsl5 amd64 0.21.2-1 [58.7 kB] Get:152 http://deb.debian.org/debian bookworm/main amd64 libssh2-1 amd64 1.10.0-3+b1 [179 kB] Get:153 http://deb.debian.org/debian bookworm/main amd64 libcurl4 amd64 7.88.1-10+deb12u6 [390 kB] Get:154 http://deb.debian.org/debian bookworm/main amd64 libdatrie1 amd64 0.2.13-2+b1 [43.3 kB] Get:155 http://deb.debian.org/debian bookworm/main amd64 libdeflate0 amd64 1.14-1 [61.4 kB] Get:156 http://deb.debian.org/debian bookworm/main amd64 libfribidi0 amd64 1.0.8-2.1 [65.0 kB] Get:157 http://deb.debian.org/debian bookworm/main amd64 libgfortran5 amd64 12.2.0-14 [793 kB] Get:158 http://deb.debian.org/debian bookworm/main amd64 libglib2.0-0 amd64 2.74.6-2+deb12u3 [1400 kB] Get:159 http://deb.debian.org/debian bookworm/main amd64 libharfbuzz0b amd64 6.0.0+dfsg-3 [1945 kB] Get:160 http://deb.debian.org/debian bookworm/main amd64 libicu72 amd64 72.1-3 [9376 kB] Get:161 http://deb.debian.org/debian bookworm/main amd64 libjbig0 amd64 2.1-6.1 [31.7 kB] Get:162 http://deb.debian.org/debian bookworm/main amd64 libjpeg62-turbo amd64 1:2.1.5-2 [166 kB] Get:163 http://deb.debian.org/debian bookworm/main amd64 liblapack3 amd64 3.11.0-2 [2323 kB] Get:164 http://deb.debian.org/debian bookworm/main amd64 liblerc4 amd64 4.0.0+ds-2 [170 kB] Get:165 http://deb.debian.org/debian bookworm/main amd64 libpango-1.0-0 amd64 1.50.12+ds-1 [212 kB] Get:166 http://deb.debian.org/debian bookworm/main amd64 libpangocairo-1.0-0 amd64 1.50.12+ds-1 [34.2 kB] Get:167 http://deb.debian.org/debian bookworm/main amd64 libpangoft2-1.0-0 amd64 1.50.12+ds-1 [47.4 kB] Get:168 http://deb.debian.org/debian bookworm/main amd64 libthai-data all 0.1.29-1 [176 kB] Get:169 http://deb.debian.org/debian bookworm/main amd64 libthai0 amd64 0.1.29-1 [57.5 kB] Get:170 http://deb.debian.org/debian bookworm/main amd64 libpaper1 amd64 1.1.29 [12.5 kB] Get:171 http://deb.debian.org/debian bookworm/main amd64 libpaper-utils amd64 1.1.29 [8868 B] Get:172 http://deb.debian.org/debian bookworm/main amd64 libreadline8 amd64 8.2-1.3 [166 kB] Get:173 http://deb.debian.org/debian bookworm/main amd64 libss2 amd64 1.47.0-2 [24.5 kB] Get:174 http://deb.debian.org/debian bookworm/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [1035 kB] Get:175 http://deb.debian.org/debian bookworm/main amd64 libwebp7 amd64 1.2.4-0.2+deb12u1 [286 kB] Get:176 http://deb.debian.org/debian bookworm/main amd64 libtiff6 amd64 4.5.0-6+deb12u1 [316 kB] Get:177 http://deb.debian.org/debian bookworm/main amd64 libtirpc-common all 1.3.3+ds-1 [14.0 kB] Get:178 http://deb.debian.org/debian bookworm/main amd64 libtirpc-dev amd64 1.3.3+ds-1 [191 kB] Get:179 http://deb.debian.org/debian bookworm/main amd64 libtirpc3 amd64 1.3.3+ds-1 [85.2 kB] Get:180 http://deb.debian.org/debian bookworm/main amd64 libxft2 amd64 2.3.6-1 [61.8 kB] Get:181 http://deb.debian.org/debian bookworm/main amd64 libtk8.6 amd64 8.6.13-2 [781 kB] Get:182 http://deb.debian.org/debian bookworm/main amd64 libtsan0 amd64 11.3.0-12 [2016 kB] Get:183 http://deb.debian.org/debian bookworm/main amd64 libxt6 amd64 1:1.2.1-1.1 [186 kB] Get:184 http://deb.debian.org/debian bookworm/main amd64 zip amd64 3.0-13 [230 kB] Get:185 http://deb.debian.org/debian bookworm/main amd64 unzip amd64 6.0-28 [166 kB] Get:186 http://deb.debian.org/debian bookworm/main amd64 r-base-core amd64 4.2.2.20221110-2 [26.0 MB] Get:187 http://deb.debian.org/debian bookworm/main amd64 r-cran-littler amd64 0.3.17-1 [96.3 kB] Get:188 http://deb.debian.org/debian bookworm/main amd64 littler all 0.3.17-1 [14.4 kB] Get:189 http://deb.debian.org/debian bookworm/main amd64 r-cran-pkgkitten all 0.2.2-2 [27.0 kB] Get:190 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpp amd64 1.0.10-1 [2059 kB] Get:191 http://deb.debian.org/debian bookworm/main amd64 r-bioc-s4vectors amd64 0.36.1-1 [2026 kB] Get:192 http://deb.debian.org/debian bookworm/main amd64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get:193 http://deb.debian.org/debian bookworm/main amd64 r-cran-codetools all 0.2-19-1 [90.9 kB] Get:194 http://deb.debian.org/debian bookworm/main amd64 r-cran-bh all 1.74.0-2 [5524 B] Get:195 http://deb.debian.org/debian bookworm/main amd64 r-cran-cpp11 all 0.4.3-1 [223 kB] Get:196 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocparallel amd64 1.32.5-1 [1337 kB] Get:197 http://deb.debian.org/debian bookworm/main amd64 r-cran-lattice amd64 0.20-45-3 [1177 kB] Get:198 http://deb.debian.org/debian bookworm/main amd64 r-cran-matrix amd64 1.5-3-1 [3822 kB] Get:199 http://deb.debian.org/debian bookworm/main amd64 r-cran-rcpphnsw amd64 0.4.1+ds-2 [147 kB] Get:200 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocneighbors amd64 1.16.0+ds-1 [582 kB] Get:201 http://deb.debian.org/debian bookworm/main amd64 r-bioc-biocgenerics all 0.44.0-2 [600 kB] Get:202 http://deb.debian.org/debian bookworm/main amd64 r-cran-formatr all 1.14-1 [152 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 139 MB in 1s (97.4 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 ... 29197 files and directories currently installed.) Preparing to unpack .../findutils_4.9.0-4_amd64.deb ... Unpacking findutils (4.9.0-4) over (4.8.0-1) ... Setting up findutils (4.9.0-4) ... (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 ... 29197 files and directories currently installed.) Preparing to unpack .../archives/grep_3.8-5_amd64.deb ... Unpacking grep (3.8-5) over (3.6-1+deb11u1) ... Setting up grep (3.8-5) ... (Reading database ... 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(Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 29197 files and directories currently installed.) Preparing to unpack .../ncurses-bin_6.4-4_amd64.deb ... Unpacking ncurses-bin (6.4-4) over (6.2+20201114-2+deb11u2) ... Setting up ncurses-bin (6.4-4) ... (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 ... 29197 files and directories currently installed.) Preparing to unpack .../archives/sed_4.9-1_amd64.deb ... Unpacking sed (4.9-1) over (4.7-1) ... Setting up sed (4.9-1) ... (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 ... 29198 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.10.1-3_amd64.deb ... Unpacking libgcrypt20:amd64 (1.10.1-3) over (1.8.7-6) ... Setting up libgcrypt20:amd64 (1.10.1-3) ... (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 ... 29200 files and directories currently installed.) Preparing to unpack .../libstdc++6_12.2.0-14_amd64.deb ... Unpacking libstdc++6:amd64 (12.2.0-14) over (10.2.1-6) ... Setting up libstdc++6:amd64 (12.2.0-14) ... (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 ... 29201 files and directories currently installed.) Preparing to unpack .../libcap2_1%3a2.66-4_amd64.deb ... Unpacking libcap2:amd64 (1:2.66-4) ... Setting up libcap2:amd64 (1:2.66-4) ... (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 ... 29209 files and directories currently installed.) Preparing to unpack .../libsystemd0_252.26-1~deb12u2_amd64.deb ... Unpacking libsystemd0:amd64 (252.26-1~deb12u2) over (247.3-7+deb11u5) ... Setting up libsystemd0:amd64 (252.26-1~deb12u2) ... (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 ... 29210 files and directories currently installed.) Preparing to unpack .../libudev1_252.26-1~deb12u2_amd64.deb ... Unpacking libudev1:amd64 (252.26-1~deb12u2) over (247.3-7+deb11u5) ... Setting up libudev1:amd64 (252.26-1~deb12u2) ... (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 ... 29211 files and directories currently installed.) Preparing to unpack .../libxxhash0_0.8.1-1_amd64.deb ... Unpacking libxxhash0:amd64 (0.8.1-1) over (0.8.0-2) ... Setting up libxxhash0:amd64 (0.8.1-1) ... (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 ... 29211 files and directories currently installed.) Preparing to unpack .../libapt-pkg6.0_2.6.1_amd64.deb ... Unpacking libapt-pkg6.0:amd64 (2.6.1) over (2.2.4) ... Setting up libapt-pkg6.0:amd64 (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 ... 29211 files and directories currently installed.) Preparing to unpack .../libnettle8_3.8.1-2_amd64.deb ... Unpacking libnettle8:amd64 (3.8.1-2) over (3.7.3-1) ... Setting up libnettle8:amd64 (3.8.1-2) ... (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 ... 29211 files and directories currently installed.) Preparing to unpack .../libhogweed6_3.8.1-2_amd64.deb ... Unpacking libhogweed6:amd64 (3.8.1-2) over (3.7.3-1) ... Setting up libhogweed6:amd64 (3.8.1-2) ... (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 ... 29211 files and directories currently installed.) Preparing to unpack .../libunistring2_1.0-2_amd64.deb ... Unpacking libunistring2:amd64 (1.0-2) over (0.9.10-4) ... Setting up libunistring2:amd64 (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 ... 29211 files and directories currently installed.) Preparing to unpack .../libidn2-0_2.3.3-1+b1_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.3-1+b1) over (2.3.0-5) ... Setting up libidn2-0:amd64 (2.3.3-1+b1) ... Selecting previously unselected package libffi8: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 ... 29213 files and directories currently installed.) Preparing to unpack .../libffi8_3.4.4-1_amd64.deb ... Unpacking libffi8:amd64 (3.4.4-1) ... Setting up libffi8:amd64 (3.4.4-1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 29218 files and directories currently installed.) Preparing to unpack .../libp11-kit0_0.24.1-2_amd64.deb ... Unpacking libp11-kit0:amd64 (0.24.1-2) over (0.23.22-1) ... Setting up libp11-kit0:amd64 (0.24.1-2) ... (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 ... 29218 files and directories currently installed.) Preparing to unpack .../libtasn1-6_4.19.0-2_amd64.deb ... Unpacking libtasn1-6:amd64 (4.19.0-2) over (4.16.0-2+deb11u1) ... Setting up libtasn1-6:amd64 (4.19.0-2) ... (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 ... 29218 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.7.9-2+deb12u3_amd64.deb ... Unpacking libgnutls30:amd64 (3.7.9-2+deb12u3) over (3.7.1-5+deb11u5) ... Setting up libgnutls30:amd64 (3.7.9-2+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 ... 29220 files and directories currently installed.) Preparing to unpack .../libsemanage-common_3.4-1_all.deb ... Unpacking libsemanage-common (3.4-1) over (3.1-1) ... Setting up libsemanage-common (3.4-1) ... Installing new version of config file /etc/selinux/semanage.conf ... Selecting previously unselected package libsepol2: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 ... 29220 files and directories currently installed.) Preparing to unpack .../libsepol2_3.4-2.1_amd64.deb ... Unpacking libsepol2:amd64 (3.4-2.1) ... Setting up libsepol2:amd64 (3.4-2.1) ... Selecting previously unselected package libsemanage2: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 ... 29224 files and directories currently installed.) Preparing to unpack .../libsemanage2_3.4-1+b5_amd64.deb ... Unpacking libsemanage2:amd64 (3.4-1+b5) ... Setting up libsemanage2:amd64 (3.4-1+b5) ... (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 ... 29229 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.13+dfsg1-1+b1_amd64.deb ... Unpacking passwd (1:4.13+dfsg1-1+b1) over (1:4.8.1-1) ... Setting up passwd (1:4.13+dfsg1-1+b1) ... Installing new version of config file /etc/default/useradd ... (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 ... 29259 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.2-6+deb12u1_amd64.deb ... Unpacking libpam-modules-bin (1.5.2-6+deb12u1) over (1.4.0-9+deb11u1) ... Replacing files in old package libpam-modules:amd64 (1.4.0-9+deb11u1) ... Setting up libpam-modules-bin (1.5.2-6+deb12u1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 29266 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.2-6+deb12u1_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.2-6+deb12u1) over (1.4.0-9+deb11u1) ... Setting up libpam-modules:amd64 (1.5.2-6+deb12u1) ... Installing new version of config file /etc/security/limits.conf ... Installing new version of config file /etc/security/sepermit.conf ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 29267 files and directories currently installed.) Preparing to unpack .../archives/adduser_3.134_all.deb ... moving unchanged adduser.conf to adduser.conf.update-old. New dpkg-conffile will come from the package. Unpacking adduser (3.134) over (3.118+deb11u1) ... Setting up adduser (3.134) ... Installing new version of config file /etc/deluser.conf ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 29235 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.40-1.1_amd64.deb ... Unpacking gpgv (2.2.40-1.1) over (2.2.27-2+deb11u2) ... Setting up gpgv (2.2.40-1.1) ... (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 ... 29235 files and directories currently installed.) Preparing to unpack .../debian-archive-keyring_2023.3+deb12u1_all.deb ... Unpacking debian-archive-keyring (2023.3+deb12u1) over (2021.1.1+deb11u1) ... Setting up debian-archive-keyring (2023.3+deb12u1) ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-buster-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-buster-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-buster-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bullseye-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bullseye-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bullseye-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bookworm-stable.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bookworm-security-automatic.gpg ... Removing obsolete conffile /etc/apt/trusted.gpg.d/debian-archive-bookworm-automatic.gpg ... (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 ... 29235 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.4-1+deb12u1_amd64.deb ... Unpacking libseccomp2:amd64 (2.5.4-1+deb12u1) over (2.5.1-1+deb11u1) ... Setting up libseccomp2:amd64 (2.5.4-1+deb12u1) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 29235 files and directories currently installed.) Preparing to unpack .../archives/apt_2.6.1_amd64.deb ... Unpacking apt (2.6.1) over (2.2.4) ... Setting up apt (2.6.1) ... Installing new version of config file /etc/apt/apt.conf.d/01autoremove ... Installing new version of config file /etc/cron.daily/apt-compat ... Removing obsolete conffile /etc/kernel/postinst.d/apt-auto-removal ... (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 ... 29232 files and directories currently installed.) Preparing to unpack .../libdebconfclient0_0.270_amd64.deb ... Unpacking libdebconfclient0:amd64 (0.270) over (0.260) ... Setting up libdebconfclient0:amd64 (0.270) ... (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 ... 29232 files and directories currently installed.) Preparing to unpack .../base-passwd_3.6.1_amd64.deb ... Unpacking base-passwd (3.6.1) over (3.5.51) ... Setting up base-passwd (3.6.1) ... 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 ... 29232 files and directories currently installed.) Preparing to unpack .../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 .../libgdbm6_1.23-3_amd64.deb ... Unpacking libgdbm6:amd64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4:amd64. Preparing to unpack .../libgdbm-compat4_1.23-3_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.23-3) ... Preparing to unpack .../libdb5.3_5.3.28+dfsg2-1_amd64.deb ... Unpacking libdb5.3:amd64 (5.3.28+dfsg2-1) over (5.3.28+dfsg1-0.8) ... Setting up libdb5.3:amd64 (5.3.28+dfsg2-1) ... Selecting previously unselected package libperl5.36: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 ... 30654 files and directories currently installed.) Preparing to unpack .../libperl5.36_5.36.0-7+deb12u1_amd64.deb ... Unpacking libperl5.36:amd64 (5.36.0-7+deb12u1) ... Selecting previously unselected package perl. Preparing to unpack .../perl_5.36.0-7+deb12u1_amd64.deb ... Unpacking perl (5.36.0-7+deb12u1) ... Selecting previously unselected package libnumber-compare-perl. Preparing to unpack .../libnumber-compare-perl_0.03-3_all.deb ... Unpacking libnumber-compare-perl (0.03-3) ... Setting up libnumber-compare-perl (0.03-3) ... Selecting previously unselected package libtext-glob-perl. (Reading database ... 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Processing triggers for debianutils (5.7-0.5~deb12u1) ... Processing triggers for libc-bin (2.36-9+deb12u7) ... Processing triggers for ca-certificates (20230311) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 1m13.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-yf', 'dist-upgrade'] 1m13.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m14.8s DUMP: 913e17be84ed63a3110ce3137c1d003a - 1m14.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 1m14.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-biocneighbors'] 1m15.0s DUMP: Package: r-bioc-biocneighbors Version: 1.16.0+ds-1 Installed-Size: 1424 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-base-core (>= 4.2.2.20221110-1), r-api-4.0, r-api-bioc-3.16, r-cran-rcpp, r-bioc-s4vectors, r-bioc-biocparallel, r-cran-matrix, r-cran-rcpphnsw, libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 11) Suggests: r-cran-testthat, r-bioc-biocstyle, r-cran-knitr, r-cran-rmarkdown, r-cran-fnn, r-cran-rcppannoy Description-en: Nearest Neighbor Detection for Bioconductor Packages Implements exact and approximate methods for nearest neighbor detection, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Exact searches can be performed using the k-means for k-nearest neighbors algorithm or with vantage point trees. Approximate searches can be performed using the Annoy or HNSW libraries. Searching on either Euclidean or Manhattan distances is supported. Parallelization is achieved for all methods by using BiocParallel. Functions are also provided to search for all neighbors within a given distance. Description-md5: cc15f0b45813def49274bba4d4b7cf0b Homepage: https://bioconductor.org/packages/BiocNeighbors/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-biocneighbors/r-bioc-biocneighbors_1.16.0+ds-1_amd64.deb Size: 581808 MD5sum: 9404b7c455e990ec6d15c093069b2cb0 SHA256: f539d4411acb5ec9a983a89828776e22b7b6a6960d3988b75f2389f8f006500b 1m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-biocneighbors'] 1m15.0s INFO: apt-cache knows about the following packages: r-bioc-biocneighbors 1m15.0s INFO: Running scripts pre_install 1m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 1m15.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 1m15.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 1m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 1m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 1m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 1m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 1m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 1m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 1m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 1m15.1s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian bookworm/main amd64 Packages release v=12.6,o=Debian,a=stable,n=bookworm,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 1m15.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 1m15.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 1m15.2s DUMP: r-bioc-biocneighbors: Installed: 1.16.0+ds-1 Candidate: 1.16.0+ds-1 Version table: *** 1.16.0+ds-1 500 500 http://deb.debian.org/debian bookworm/main amd64 Packages 100 /var/lib/dpkg/status 1m15.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 1m15.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors'] 1m15.7s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-biocneighbors is already the newest version (1.16.0+ds-1). The following packages were automatically installed and are no longer required: gcc-11-base libasan6 libgcc-10-dev libicu67 libldap-2.4-2 libstdc++-10-dev libtiff5 libtsan0 libwebp6 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors'] 1m15.7s INFO: Running scripts post_install 1m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 1m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 1m15.7s INFO: Running scripts post_distupgrade 1m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m15.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_base_cleanup'] 1m15.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_exceptions'] 1m15.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_exceptions'] 1m15.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m15.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 1m15.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m15.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_squeeze-backports'] 1m15.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_zz_backports'] 1m15.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_zz_backports'] 1m15.8s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 1m17.8s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 1m17.8s DEBUG: Upgrading /srv/piuparts.debian.org/tmp/tmp4u0ps8pt to sid 1m17.8s DEBUG: sources.list: deb http://deb.debian.org/debian/ sid main 1m17.8s INFO: Running scripts pre_distupgrade 1m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_allow_unauthenticated'] 1m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_exceptions'] 1m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_exceptions'] 1m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m17.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_foreign_architecture_i386'] 1m17.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_database-server'] 1m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m17.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_distupgrade_zz_upgrade_early'] 1m17.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'update'] 1m22.4s DUMP: Get:1 http://deb.debian.org/debian sid InRelease [198 kB] Get:2 http://deb.debian.org/debian sid/main amd64 Packages [9969 kB] Get:3 http://deb.debian.org/debian sid/main Translation-en [7297 kB] Fetched 17.5 MB in 3s (5131 kB/s) Reading package lists... 1m22.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'update'] 1m22.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-yf', 'dist-upgrade'] 2m2.8s DUMP: Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: gcc-11-base gcc-12-base libasan6 libgcc-10-dev libgcc-12-dev libicu67 libldap-2.4-2 libnsl-dev libperl5.36 libstdc++-10-dev libstdc++-12-dev libtiff5 libtirpc-dev libtsan0 libwebp6 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libapt-pkg6.0 libboost1.74-dev libcurl4 libdb5.3 libext2fs2 libgdbm-compat4 libgdbm6 libglib2.0-0 libgnutls30 libhogweed6 libnettle8 libpng16-16 libpsl5 libreadline8 libssh2-1 libssl3 libtirpc3 libxt6 The following NEW packages will be installed: fonts-dejavu-mono gcc-14-base libapt-pkg6.0t64 libboost1.83-dev libcurl4t64 libdb5.3t64 libext2fs2t64 libgcc-14-dev libgdbm-compat4t64 libgdbm6t64 libglib2.0-0t64 libgnutls30t64 libhogweed6t64 libhwasan0 libnettle8t64 libperl5.38t64 libpng16-16t64 libpsl5t64 libreadline8t64 libsharpyuv0 libssh2-1t64 libssl3t64 libstdc++-14-dev libtirpc3t64 libunistring5 libxt6t64 login.defs perl-modules-5.38 The following packages will be upgraded: adduser apt base-files base-passwd bash bsdutils ca-certificates coreutils dash debconf debian-archive-keyring debianutils diffutils dpkg e2fsprogs findutils fontconfig fontconfig-config fonts-dejavu-core gcc-11-base gcc-12-base gpgv grep gzip hostname init-system-helpers libacl1 libasan6 libasan8 libatomic1 libattr1 libaudit-common libaudit1 libblas3 libblkid1 libboost-dev libbrotli1 libbsd0 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcairo2 libcap-ng0 libcap2 libcom-err2 libcrypt-dev libcrypt1 libdatrie1 libdebconfclient0 libdeflate0 libexpat1 libffi8 libfontconfig1 libfreetype6 libfribidi0 libgcc-12-dev libgcc-s1 libgcrypt20 libgfortran5 libgmp10 libgomp1 libgpg-error0 libgraphite2-3 libgssapi-krb5-2 libharfbuzz0b libice6 libicu72 libidn2-0 libitm1 libjbig0 libjpeg62-turbo libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3 libldap-2.5-0 liblerc4 liblsan0 liblz4-1 liblzma5 libmd0 libmount1 libnghttp2-14 libnsl-dev libnsl2 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-8-0 libpcre3 libpixman-1-0 libquadmath0 librtmp1 libsasl2-2 libsasl2-modules-db libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsm6 libsmartcols1 libss2 libstdc++-12-dev libstdc++6 libsystemd0 libtasn1-6 libtcl8.6 libthai-data libthai0 libtiff6 libtinfo6 libtirpc-common libtirpc-dev libtk8.6 libtsan0 libtsan2 libubsan1 libudev1 libuuid1 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxft2 libxrender1 libxss1 libxxhash0 libzstd1 linux-libc-dev littler login logsave mawk mount ncurses-base ncurses-bin openssl passwd perl perl-base r-base-core r-bioc-biocgenerics r-bioc-biocneighbors r-bioc-biocparallel r-bioc-s4vectors r-cran-bh r-cran-codetools r-cran-cpp11 r-cran-formatr r-cran-lattice r-cran-littler r-cran-matrix r-cran-pkgkitten r-cran-rcpp r-cran-rcpphnsw readline-common sed sensible-utils sysvinit-utils tar tzdata usrmerge util-linux util-linux-extra x11-common zip zlib1g 182 upgraded, 28 newly installed, 18 to remove and 0 not upgraded. Need to get 151 MB of archives. After this operation, 136 MB of additional disk space will be used. Get:1 http://deb.debian.org/debian sid/main amd64 base-files amd64 13.5 [72.8 kB] Get:2 http://deb.debian.org/debian sid/main amd64 libnsl-dev amd64 1.3.0-3+b2 [67.2 kB] Get:3 http://deb.debian.org/debian sid/main amd64 libcrypt-dev amd64 1:4.4.36-5 [118 kB] Get:4 http://deb.debian.org/debian sid/main amd64 libc6-dev amd64 2.39-7 [1925 kB] Get:5 http://deb.debian.org/debian sid/main amd64 libc-dev-bin amd64 2.39-7 [51.6 kB] Get:6 http://deb.debian.org/debian sid/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get:7 http://deb.debian.org/debian sid/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [189 kB] Get:8 http://deb.debian.org/debian sid/main amd64 libunistring5 amd64 1.2-1 [425 kB] Get:9 http://deb.debian.org/debian sid/main amd64 libcurl4t64 amd64 8.9.1-2 [463 kB] Get:10 http://deb.debian.org/debian sid/main amd64 libidn2-0 amd64 2.3.7-2 [128 kB] Get:11 http://deb.debian.org/debian sid/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get:12 http://deb.debian.org/debian sid/main amd64 libzstd1 amd64 1.5.6+dfsg-1 [303 kB] Get:13 http://deb.debian.org/debian sid/main amd64 openssl amd64 3.3.1-6 [1381 kB] Get:14 http://deb.debian.org/debian sid/main amd64 libc6 amd64 2.39-7 [2791 kB] Get:15 http://deb.debian.org/debian sid/main amd64 libc-bin amd64 2.39-7 [610 kB] Get:16 http://deb.debian.org/debian sid/main amd64 libssl3t64 amd64 3.3.1-6 [2270 kB] Get:17 http://deb.debian.org/debian sid/main amd64 zlib1g amd64 1:1.3.dfsg+really1.3.1-1 [87.9 kB] Get:18 http://deb.debian.org/debian sid/main amd64 libssh2-1t64 amd64 1.11.0-7 [216 kB] Get:19 http://deb.debian.org/debian sid/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get:20 http://deb.debian.org/debian sid/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get:21 http://deb.debian.org/debian sid/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get:22 http://deb.debian.org/debian sid/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get:23 http://deb.debian.org/debian sid/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get:24 http://deb.debian.org/debian sid/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get:25 http://deb.debian.org/debian sid/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get:26 http://deb.debian.org/debian sid/main amd64 libgmp10 amd64 2:6.3.0+dfsg-2+b1 [559 kB] Get:27 http://deb.debian.org/debian sid/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get:28 http://deb.debian.org/debian sid/main amd64 libgpg-error0 amd64 1.50-3 [81.5 kB] Get:29 http://deb.debian.org/debian sid/main amd64 libgcrypt20 amd64 1.11.0-6 [843 kB] Get:30 http://deb.debian.org/debian sid/main amd64 gcc-14-base amd64 14.2.0-2 [46.0 kB] Get:31 http://deb.debian.org/debian sid/main amd64 libgcc-s1 amd64 14.2.0-2 [72.8 kB] Get:32 http://deb.debian.org/debian sid/main amd64 libstdc++6 amd64 14.2.0-2 [714 kB] Get:33 http://deb.debian.org/debian sid/main amd64 libnettle8t64 amd64 3.10-1 [303 kB] Get:34 http://deb.debian.org/debian sid/main amd64 libhogweed6t64 amd64 3.10-1 [334 kB] Get:35 http://deb.debian.org/debian sid/main amd64 libp11-kit0 amd64 0.25.5-2 [424 kB] Get:36 http://deb.debian.org/debian sid/main amd64 libgnutls30t64 amd64 3.8.6-2 [1444 kB] Get:37 http://deb.debian.org/debian sid/main amd64 libapt-pkg6.0t64 amd64 2.9.8 [1045 kB] Get:38 http://deb.debian.org/debian sid/main amd64 libbz2-1.0 amd64 1.0.8-5.1 [38.0 kB] Get:39 http://deb.debian.org/debian sid/main amd64 libxxhash0 amd64 0.8.2-2+b1 [26.6 kB] Get:40 http://deb.debian.org/debian sid/main amd64 liblz4-1 amd64 1.9.4-3 [59.4 kB] Get:41 http://deb.debian.org/debian sid/main amd64 liblzma5 amd64 5.6.2-2 [254 kB] Get:42 http://deb.debian.org/debian sid/main amd64 libcap2 amd64 1:2.66-5 [27.4 kB] Get:43 http://deb.debian.org/debian sid/main amd64 libsystemd0 amd64 256.5-1 [381 kB] Get:44 http://deb.debian.org/debian sid/main amd64 libudev1 amd64 256.5-1 [144 kB] Get:45 http://deb.debian.org/debian sid/main amd64 libdebconfclient0 amd64 0.272 [10.0 kB] Get:46 http://deb.debian.org/debian sid/main amd64 libpcre2-8-0 amd64 10.42-4+b1 [262 kB] Get:47 http://deb.debian.org/debian sid/main amd64 libselinux1 amd64 3.5-2+b4 [75.1 kB] Get:48 http://deb.debian.org/debian sid/main amd64 base-passwd amd64 3.6.4 [50.9 kB] Get:49 http://deb.debian.org/debian sid/main amd64 login.defs all 1:4.16.0-4 [185 kB] Get:50 http://deb.debian.org/debian sid/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-7 [19.6 kB] Get:51 http://deb.debian.org/debian sid/main amd64 libdb5.3t64 amd64 5.3.28+dfsg2-7 [697 kB] Get:52 http://deb.debian.org/debian sid/main amd64 libaudit-common all 1:4.0.1-1 [12.3 kB] Get:53 http://deb.debian.org/debian sid/main amd64 libcap-ng0 amd64 0.8.5-1+b1 [17.4 kB] Get:54 http://deb.debian.org/debian sid/main amd64 libaudit1 amd64 1:4.0.1-1 [54.5 kB] Get:55 http://deb.debian.org/debian sid/main amd64 libcrypt1 amd64 1:4.4.36-5 [89.8 kB] Get:56 http://deb.debian.org/debian sid/main amd64 perl-modules-5.38 all 5.38.2-5 [2905 kB] Get:57 http://deb.debian.org/debian sid/main amd64 libgdbm6t64 amd64 1.24-2 [75.2 kB] Get:58 http://deb.debian.org/debian sid/main amd64 libgdbm-compat4t64 amd64 1.24-2 [50.3 kB] Get:59 http://deb.debian.org/debian sid/main amd64 libperl5.38t64 amd64 5.38.2-5 [4275 kB] Get:60 http://deb.debian.org/debian sid/main amd64 perl amd64 5.38.2-5 [236 kB] Get:61 http://deb.debian.org/debian sid/main amd64 perl-base amd64 5.38.2-5 [1643 kB] Get:62 http://deb.debian.org/debian sid/main amd64 debconf all 1.5.87 [119 kB] Get:63 http://deb.debian.org/debian sid/main amd64 libpam0g amd64 1.5.3-7 [67.7 kB] Get:64 http://deb.debian.org/debian sid/main amd64 libpam-modules-bin amd64 1.5.3-7 [54.4 kB] Get:65 http://deb.debian.org/debian sid/main amd64 libpam-modules amd64 1.5.3-7 [265 kB] Get:66 http://deb.debian.org/debian sid/main amd64 libacl1 amd64 2.3.2-2 [32.4 kB] Get:67 http://deb.debian.org/debian sid/main amd64 libattr1 amd64 1:2.5.2-1 [22.5 kB] Get:68 http://deb.debian.org/debian sid/main amd64 libmd0 amd64 1.1.0-2 [35.8 kB] Get:69 http://deb.debian.org/debian sid/main amd64 libbsd0 amd64 0.12.2-1 [131 kB] Get:70 http://deb.debian.org/debian sid/main amd64 libsemanage-common all 3.5-1 [9908 B] Get:71 http://deb.debian.org/debian sid/main amd64 libsepol2 amd64 3.7-1 [293 kB] Get:72 http://deb.debian.org/debian sid/main amd64 libsemanage2 amd64 3.5-1+b4 [90.1 kB] Get:73 http://deb.debian.org/debian sid/main amd64 passwd amd64 1:4.16.0-4 [1232 kB] Get:74 http://deb.debian.org/debian sid/main amd64 adduser all 3.137 [140 kB] Get:75 http://deb.debian.org/debian sid/main amd64 gpgv amd64 2.2.43-8 [216 kB] Get:76 http://deb.debian.org/debian sid/main amd64 debian-archive-keyring all 2023.4 [161 kB] Get:77 http://deb.debian.org/debian sid/main amd64 libseccomp2 amd64 2.5.5-1+b1 [47.3 kB] Get:78 http://deb.debian.org/debian sid/main amd64 apt amd64 2.9.8 [1410 kB] Get:79 http://deb.debian.org/debian sid/main amd64 libffi8 amd64 3.4.6-1 [23.6 kB] Get:80 http://deb.debian.org/debian sid/main amd64 libtasn1-6 amd64 4.19.0-3+b2 [48.9 kB] Get:81 http://deb.debian.org/debian sid/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-7 [57.2 kB] Get:82 http://deb.debian.org/debian sid/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-2 [186 kB] Get:83 http://deb.debian.org/debian sid/main amd64 libnghttp2-14 amd64 1.62.1-2 [74.9 kB] Get:84 http://deb.debian.org/debian sid/main amd64 libblkid1 amd64 2.40.2-7 [167 kB] Get:85 http://deb.debian.org/debian sid/main amd64 libmount1 amd64 2.40.2-7 [199 kB] Get:86 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get:87 http://deb.debian.org/debian sid/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get:88 http://deb.debian.org/debian sid/main amd64 fontconfig-config amd64 2.15.0-1.1 [317 kB] Get:89 http://deb.debian.org/debian sid/main amd64 libexpat1 amd64 2.6.2-1 [103 kB] Get:90 http://deb.debian.org/debian sid/main amd64 libfontconfig1 amd64 2.15.0-1.1 [388 kB] Get:91 http://deb.debian.org/debian sid/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get:92 http://deb.debian.org/debian sid/main amd64 libxau6 amd64 1:1.0.9-1+b1 [18.1 kB] Get:93 http://deb.debian.org/debian sid/main amd64 libxdmcp6 amd64 1:1.1.2-3+b1 [24.3 kB] Get:94 http://deb.debian.org/debian sid/main amd64 libxcb1 amd64 1.17.0-2 [144 kB] Get:95 http://deb.debian.org/debian sid/main amd64 libx11-data all 2:1.8.7-1 [328 kB] Get:96 http://deb.debian.org/debian sid/main amd64 libx11-6 amd64 2:1.8.7-1+b1 [799 kB] Get:97 http://deb.debian.org/debian sid/main amd64 libxcb-render0 amd64 1.17.0-2 [115 kB] Get:98 http://deb.debian.org/debian sid/main amd64 libxcb-shm0 amd64 1.17.0-2 [105 kB] Get:99 http://deb.debian.org/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1.1+b1 [27.9 kB] Get:100 http://deb.debian.org/debian sid/main amd64 libcairo2 amd64 1.18.0-3+b1 [531 kB] Get:101 http://deb.debian.org/debian sid/main amd64 libpng16-16t64 amd64 1.6.43-5 [278 kB] Get:102 http://deb.debian.org/debian sid/main amd64 libfreetype6 amd64 2.13.2+dfsg-1+b4 [439 kB] Get:103 http://deb.debian.org/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-2 [74.9 kB] Get:104 http://deb.debian.org/debian sid/main amd64 libharfbuzz0b amd64 9.0.0-1 [474 kB] Get:105 http://deb.debian.org/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-1 [35.0 kB] Get:106 http://deb.debian.org/debian sid/main amd64 libpango-1.0-0 amd64 1.54.0+ds-1 [219 kB] Get:107 http://deb.debian.org/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-1 [48.0 kB] Get:108 http://deb.debian.org/debian sid/main amd64 fontconfig amd64 2.15.0-1.1 [463 kB] Get:109 http://deb.debian.org/debian sid/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get:110 http://deb.debian.org/debian sid/main amd64 libthai-data all 0.1.29-2 [168 kB] Get:111 http://deb.debian.org/debian sid/main amd64 libdatrie1 amd64 0.2.13-3 [37.7 kB] Get:112 http://deb.debian.org/debian sid/main amd64 libthai0 amd64 0.1.29-2 [49.1 kB] Get:113 http://deb.debian.org/debian sid/main amd64 libglib2.0-0t64 amd64 2.81.1-3 [1496 kB] Get:114 http://deb.debian.org/debian sid/main amd64 libatomic1 amd64 14.2.0-2 [9288 B] Get:115 http://deb.debian.org/debian sid/main amd64 libreadline8t64 amd64 8.2-4 [167 kB] Get:116 http://deb.debian.org/debian sid/main amd64 readline-common all 8.2-4 [69.3 kB] Get:117 http://deb.debian.org/debian sid/main amd64 libtinfo6 amd64 6.5-2 [344 kB] Get:118 http://deb.debian.org/debian sid/main amd64 libxt6t64 amd64 1:1.2.1-1.2 [187 kB] Get:119 http://deb.debian.org/debian sid/main amd64 debianutils amd64 5.20 [89.5 kB] Get:120 http://deb.debian.org/debian sid/main amd64 tar amd64 1.35+dfsg-3 [813 kB] Get:121 http://deb.debian.org/debian sid/main amd64 dpkg amd64 1.22.11 [1531 kB] Get:122 http://deb.debian.org/debian sid/main amd64 sysvinit-utils amd64 3.10-1 [32.7 kB] Get:123 http://deb.debian.org/debian sid/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get:124 http://deb.debian.org/debian sid/main amd64 libice6 amd64 2:1.0.10-1+b1 [56.7 kB] Get:125 http://deb.debian.org/debian sid/main amd64 libuuid1 amd64 2.40.2-7 [35.3 kB] Get:126 http://deb.debian.org/debian sid/main amd64 libsm6 amd64 2:1.2.3-1+b1 [33.6 kB] Get:127 http://deb.debian.org/debian sid/main amd64 zip amd64 3.0-14 [233 kB] Get:128 http://deb.debian.org/debian sid/main amd64 libpaper1 amd64 1.1.29+b1 [12.9 kB] Get:129 http://deb.debian.org/debian sid/main amd64 libpaper-utils amd64 1.1.29+b1 [9176 B] Get:130 http://deb.debian.org/debian sid/main amd64 libblas3 amd64 3.12.0-3 [148 kB] Get:131 http://deb.debian.org/debian sid/main amd64 libdeflate0 amd64 1.21-1 [47.3 kB] Get:132 http://deb.debian.org/debian sid/main amd64 libgomp1 amd64 14.2.0-2 [137 kB] Get:133 http://deb.debian.org/debian sid/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get:134 http://deb.debian.org/debian sid/main amd64 libjpeg62-turbo amd64 1:2.1.5-3 [167 kB] Get:135 http://deb.debian.org/debian sid/main amd64 libgfortran5 amd64 14.2.0-2 [837 kB] Get:136 http://deb.debian.org/debian sid/main amd64 liblapack3 amd64 3.12.0-3 [2407 kB] Get:137 http://deb.debian.org/debian sid/main amd64 tzdata all 2024a-4 [255 kB] Get:138 http://deb.debian.org/debian sid/main amd64 libtcl8.6 amd64 8.6.14+dfsg-1 [1034 kB] Get:139 http://deb.debian.org/debian sid/main amd64 libsharpyuv0 amd64 1.4.0-0.1 [113 kB] Get:140 http://deb.debian.org/debian sid/main amd64 libwebp7 amd64 1.4.0-0.1 [311 kB] Get:141 http://deb.debian.org/debian sid/main amd64 libjbig0 amd64 2.1-6.1+b1 [32.0 kB] Get:142 http://deb.debian.org/debian sid/main amd64 liblerc4 amd64 4.0.0+ds-4+b1 [171 kB] Get:143 http://deb.debian.org/debian sid/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get:144 http://deb.debian.org/debian sid/main amd64 libxft2 amd64 2.3.6-1+b1 [54.2 kB] Get:145 http://deb.debian.org/debian sid/main amd64 libxss1 amd64 1:1.2.3-1+b1 [17.0 kB] Get:146 http://deb.debian.org/debian sid/main amd64 libtk8.6 amd64 8.6.14-1 [784 kB] Get:147 http://deb.debian.org/debian sid/main amd64 ca-certificates all 20240203 [158 kB] Get:148 http://deb.debian.org/debian sid/main amd64 r-base-core amd64 4.4.1-1 [28.3 MB] Get:149 http://deb.debian.org/debian sid/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3 [82.7 kB] Get:150 http://deb.debian.org/debian sid/main amd64 libnsl2 amd64 1.3.0-3+b2 [40.3 kB] Get:151 http://deb.debian.org/debian sid/main amd64 linux-libc-dev all 6.10.4-1 [2369 kB] Get:152 http://deb.debian.org/debian sid/main amd64 bash amd64 5.2.21-2.1+b1 [1498 kB] Get:153 http://deb.debian.org/debian sid/main amd64 bsdutils amd64 1:2.40.2-7 [105 kB] Get:154 http://deb.debian.org/debian sid/main amd64 usrmerge all 39 [13.1 kB] Get:155 http://deb.debian.org/debian sid/main amd64 coreutils amd64 9.4-3.1 [2950 kB] Get:156 http://deb.debian.org/debian sid/main amd64 dash amd64 0.5.12-9 [93.2 kB] Get:157 http://deb.debian.org/debian sid/main amd64 diffutils amd64 1:3.10-1 [375 kB] Get:158 http://deb.debian.org/debian sid/main amd64 findutils amd64 4.10.0-3 [700 kB] Get:159 http://deb.debian.org/debian sid/main amd64 grep amd64 3.11-4 [431 kB] Get:160 http://deb.debian.org/debian sid/main amd64 gzip amd64 1.12-1.1 [133 kB] Get:161 http://deb.debian.org/debian sid/main amd64 hostname amd64 3.23+nmu2 [10.6 kB] Get:162 http://deb.debian.org/debian sid/main amd64 libpam-runtime all 1.5.3-7 [140 kB] Get:163 http://deb.debian.org/debian sid/main amd64 login amd64 1:4.16.0-2+really2.40.2-7 [57.7 kB] Get:164 http://deb.debian.org/debian sid/main amd64 ncurses-bin amd64 6.5-2 [433 kB] Get:165 http://deb.debian.org/debian sid/main amd64 sed amd64 4.9-2 [329 kB] Get:166 http://deb.debian.org/debian sid/main amd64 libsmartcols1 amd64 2.40.2-7 [139 kB] Get:167 http://deb.debian.org/debian sid/main amd64 util-linux amd64 2.40.2-7 [1217 kB] Get:168 http://deb.debian.org/debian sid/main amd64 util-linux-extra amd64 2.40.2-7 [265 kB] Get:169 http://deb.debian.org/debian sid/main amd64 init-system-helpers all 1.66 [39.0 kB] Get:170 http://deb.debian.org/debian sid/main amd64 ncurses-base all 6.5-2 [270 kB] Get:171 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sid/main amd64 libstdc++-14-dev amd64 14.2.0-2 [2343 kB] Get:183 http://deb.debian.org/debian sid/main amd64 libboost-dev amd64 1.83.0.2+b2 [3836 B] Get:184 http://deb.debian.org/debian sid/main amd64 libboost1.83-dev amd64 1.83.0-3.1 [10.6 MB] Get:185 http://deb.debian.org/debian sid/main amd64 logsave amd64 1.47.1-1 [22.7 kB] Get:186 http://deb.debian.org/debian sid/main amd64 libext2fs2t64 amd64 1.47.1-1 [210 kB] Get:187 http://deb.debian.org/debian sid/main amd64 e2fsprogs amd64 1.47.1-1 [583 kB] Get:188 http://deb.debian.org/debian sid/main amd64 mount amd64 2.40.2-7 [154 kB] Get:189 http://deb.debian.org/debian sid/main amd64 mawk amd64 1.3.4.20240622-2 [136 kB] Get:190 http://deb.debian.org/debian sid/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get:191 http://deb.debian.org/debian sid/main amd64 libasan6 amd64 11.5.0-1 [2046 kB] Get:192 http://deb.debian.org/debian sid/main amd64 libtsan0 amd64 11.5.0-1 [2018 kB] Get:193 http://deb.debian.org/debian sid/main amd64 gcc-11-base amd64 11.5.0-1 [42.1 kB] Get:194 http://deb.debian.org/debian sid/main amd64 libpcre3 amd64 2:8.39-15+b1 [342 kB] Get:195 http://deb.debian.org/debian sid/main amd64 libss2 amd64 1.47.1-1 [27.6 kB] Get:196 http://deb.debian.org/debian sid/main amd64 r-cran-littler amd64 0.3.20-1 [102 kB] Get:197 http://deb.debian.org/debian sid/main amd64 littler all 0.3.20-1 [16.0 kB] Get:198 http://deb.debian.org/debian sid/main amd64 r-cran-pkgkitten all 0.2.3-1 [26.7 kB] Get:199 http://deb.debian.org/debian sid/main amd64 r-cran-rcpp amd64 1.0.13-1 [2082 kB] Get:200 http://deb.debian.org/debian sid/main amd64 r-bioc-s4vectors amd64 0.42.1+dfsg-1 [1894 kB] Get:201 http://deb.debian.org/debian sid/main amd64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get:202 http://deb.debian.org/debian sid/main amd64 r-cran-bh all 1.84.0-1 [5912 B] Get:203 http://deb.debian.org/debian sid/main amd64 r-cran-cpp11 all 0.4.7-1 [219 kB] Get:204 http://deb.debian.org/debian sid/main amd64 r-bioc-biocparallel amd64 1.38.0-2 [1325 kB] Get:205 http://deb.debian.org/debian sid/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB] Get:206 http://deb.debian.org/debian sid/main amd64 r-cran-matrix amd64 1.7-0-3 [4127 kB] Get:207 http://deb.debian.org/debian sid/main amd64 r-cran-rcpphnsw amd64 0.5.0+ds-1 [161 kB] Get:208 http://deb.debian.org/debian sid/main amd64 r-bioc-biocneighbors amd64 1.22.0+ds-1 [620 kB] Get:209 http://deb.debian.org/debian sid/main amd64 r-bioc-biocgenerics all 0.50.0-1 [606 kB] Get:210 http://deb.debian.org/debian sid/main amd64 r-cran-formatr all 1.14-2 [152 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 151 MB in 1s (161 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 ... 32327 files and directories currently installed.) Preparing to unpack .../libc6_2.39-7_amd64.deb ... Unpacking libc6:amd64 (2.39-7) over (2.36-9+deb12u7) ... Setting up libc6:amd64 (2.39-7) ... (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 ... 32329 files and directories currently installed.) Preparing to unpack .../libc-bin_2.39-7_amd64.deb ... Unpacking libc-bin (2.39-7) over (2.36-9+deb12u7) ... Setting up libc-bin (2.39-7) ... dpkg: libssl3:amd64: dependency problems, but removing anyway as you requested: libkrb5-3:amd64 depends on libssl3 (>= 3.0.0). (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 ... 32329 files and directories currently installed.) 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 ... 32317 files and directories currently installed.) Preparing to unpack .../libssl3t64_3.3.1-6_amd64.deb ... Unpacking libssl3t64:amd64 (3.3.1-6) ... Setting up libssl3t64:amd64 (3.3.1-6) ... (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 ... 32330 files and directories currently installed.) Preparing to unpack .../0-libssh2-1t64_1.11.0-7_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.0-7) ... Preparing to unpack .../1-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 .../2-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 .../3-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 .../4-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../5-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) over (1.20.1-2+deb12u1) ... Preparing to unpack .../6-libcom-err2_1.47.1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1) over (1.47.0-2) ... Preparing to unpack .../7-libkeyutils1_1.6.3-3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-3) over (1.6.3-2) ... Preparing to unpack .../8-libgmp10_2%3a6.3.0+dfsg-2+b1_amd64.deb ... Unpacking libgmp10:amd64 (2:6.3.0+dfsg-2+b1) over (2:6.2.1+dfsg1-1.1) ... Setting up libgmp10:amd64 (2:6.3.0+dfsg-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 ... 32342 files and directories currently installed.) Preparing to unpack .../librtmp1_2.4+20151223.gitfa8646d.1-2+b4_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b4) over (2.4+20151223.gitfa8646d.1-2+b2) ... Preparing to unpack .../libgpg-error0_1.50-3_amd64.deb ... Unpacking libgpg-error0:amd64 (1.50-3) over (1.46-1) ... Setting up libgpg-error0:amd64 (1.50-3) ... (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 ... 32342 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.11.0-6_amd64.deb ... Unpacking libgcrypt20:amd64 (1.11.0-6) over (1.10.1-3) ... Setting up libgcrypt20:amd64 (1.11.0-6) ... Selecting previously unselected package gcc-14-base: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 ... 32342 files and directories currently installed.) Preparing to unpack .../gcc-14-base_14.2.0-2_amd64.deb ... Unpacking gcc-14-base:amd64 (14.2.0-2) ... Setting up gcc-14-base:amd64 (14.2.0-2) ... (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 ... 32347 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14.2.0-2_amd64.deb ... Unpacking libgcc-s1:amd64 (14.2.0-2) over (12.2.0-14) ... Setting up libgcc-s1:amd64 (14.2.0-2) ... (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 ... 32347 files and directories currently installed.) Preparing to unpack .../libstdc++6_14.2.0-2_amd64.deb ... Unpacking libstdc++6:amd64 (14.2.0-2) over (12.2.0-14) ... Setting up libstdc++6:amd64 (14.2.0-2) ... dpkg: libnettle8:amd64: dependency problems, but removing anyway as you requested: libhogweed6:amd64 depends on libnettle8. libgnutls30:amd64 depends on libnettle8 (>= 3.7~). (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 ... 32347 files and directories currently installed.) Removing libnettle8:amd64 (3.8.1-2) ... Selecting previously unselected package libnettle8t64: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 ... 32339 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 ... 32348 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 ... 32342 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 ... 32349 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) ... dpkg: libgnutls30:amd64: dependency problems, but removing anyway as you requested: libldap-2.5-0:amd64 depends on libgnutls30 (>= 3.7.5). libldap-2.4-2:amd64 depends on libgnutls30 (>= 3.7.0). 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 ... 32349 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 ... 32320 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) ... 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 ... 32349 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 ... 32300 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 ... (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 ... 32350 files and directories currently installed.) Preparing to unpack .../libbz2-1.0_1.0.8-5.1_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.8-5.1) over (1.0.8-5+b1) ... Setting up libbz2-1.0:amd64 (1.0.8-5.1) ... (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 ... 32349 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 ... 32350 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 ... 32350 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 ... 32350 files and directories currently installed.) Preparing to unpack .../libcap2_1%3a2.66-5_amd64.deb ... Unpacking libcap2:amd64 (1:2.66-5) over (1:2.66-4) ... Setting up libcap2:amd64 (1:2.66-5) ... (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 ... 32350 files and directories currently installed.) Preparing to unpack .../libsystemd0_256.5-1_amd64.deb ... Unpacking libsystemd0:amd64 (256.5-1) over (252.26-1~deb12u2) ... Setting up libsystemd0: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 ... 32350 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 ... 32350 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 ... 32350 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 ... 32351 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 ... 32352 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) ... Selecting previously unselected package login.defs. (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 ... 32352 files and directories currently installed.) Preparing to unpack .../login.defs_1%3a4.16.0-4_all.deb ... Unpacking login.defs (1:4.16.0-4) ... Replacing files in old package login (1:4.13+dfsg1-1+b1) ... Setting up login.defs (1:4.16.0-4) ... Installing new version of config file /etc/login.defs ... (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 ... 32357 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: 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 ... 32356 files and directories currently installed.) Removing libdb5.3:amd64 (5.3.28+dfsg2-1) ... Selecting previously unselected package libdb5.3t64:amd64. (Reading database ... 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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 ... 33769 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 ... 34297 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 ... 34295 files and directories currently installed.) Preparing to unpack .../libpam-modules-bin_1.5.3-7_amd64.deb ... Unpacking libpam-modules-bin (1.5.3-7) over (1.5.2-6+deb12u1) ... Setting up libpam-modules-bin (1.5.3-7) ... (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 ... 34294 files and directories currently installed.) Preparing to unpack .../libpam-modules_1.5.3-7_amd64.deb ... Unpacking libpam-modules:amd64 (1.5.3-7) over (1.5.2-6+deb12u1) ... dpkg: warning: unable to delete old directory '/lib/x86_64-linux-gnu/security': Directory not empty Setting up libpam-modules:amd64 (1.5.3-7) ... Installing new version of config file /etc/security/namespace.init ... (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 ... 34294 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 ... 34294 files and directories currently installed.) Preparing to unpack .../libmd0_1.1.0-2_amd64.deb ... Unpacking libmd0:amd64 (1.1.0-2) over (1.0.4-2) ... Setting up libmd0:amd64 (1.1.0-2) ... (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 ... 34294 files and directories currently installed.) Preparing to unpack .../libsemanage2_3.5-1+b4_amd64.deb ... Unpacking libsemanage2:amd64 (3.5-1+b4) over (3.4-1+b5) ... Setting up libsemanage2:amd64 (3.5-1+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 ... 34294 files and directories currently installed.) Preparing to unpack .../passwd_1%3a4.16.0-4_amd64.deb ... Unpacking passwd (1:4.16.0-4) over (1:4.13+dfsg1-1+b1) ... Replacing files in old package login (1:4.13+dfsg1-1+b1) ... Setting up passwd (1:4.16.0-4) ... (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 ... 34283 files and directories currently installed.) Preparing to unpack .../archives/adduser_3.137_all.deb ... Unpacking adduser (3.137) over (3.134) ... Setting up adduser (3.137) ... Installing new version of config file /etc/adduser.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 ... 34277 files and directories currently installed.) Preparing to unpack .../debian-archive-keyring_2023.4_all.deb ... Unpacking debian-archive-keyring (2023.4) over (2023.3+deb12u1) ... Setting up debian-archive-keyring (2023.4) ... (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 ... 34277 files and directories currently installed.) Preparing to unpack .../libseccomp2_2.5.5-1+b1_amd64.deb ... Unpacking libseccomp2:amd64 (2.5.5-1+b1) over (2.5.4-1+deb12u1) ... Setting up libseccomp2:amd64 (2.5.5-1+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 ... 34278 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 ... 34274 files and directories currently installed.) 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 ... 34274 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 ... 34275 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 .../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 .../libblkid1_2.40.2-7_amd64.deb ... Unpacking libblkid1:amd64 (2.40.2-7) over (2.38.1-5+deb12u1) ... Setting up libblkid1:amd64 (2.40.2-7) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34275 files and directories currently installed.) Preparing to unpack .../libmount1_2.40.2-7_amd64.deb ... Unpacking libmount1:amd64 (2.40.2-7) over (2.38.1-5+deb12u1) ... Setting up libmount1:amd64 (2.40.2-7) ... (Reading database ... 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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 ... 34275 files and directories currently installed.) Preparing to unpack .../libglib2.0-0t64_2.81.1-3_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 (2.81.1-3) ... Preparing to unpack .../libatomic1_14.2.0-2_amd64.deb ... Unpacking libatomic1:amd64 (14.2.0-2) over (12.2.0-14) ... dpkg: libreadline8:amd64: dependency problems, but removing anyway as you requested: r-base-core depends on libreadline8 (>= 6.0). (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 ... 34300 files and directories currently installed.) Removing libreadline8:amd64 (8.2-1.3) ... Selecting previously unselected package libreadline8t64:amd64. (Reading database ... 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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 .../readline-common_8.2-4_all.deb ... Unpacking readline-common (8.2-4) over (8.2-1.3) ... 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) ... dpkg: libxt6:amd64: dependency problems, but removing anyway as you requested: r-base-core depends on libxt6. (Reading database ... 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(Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 34296 files and directories currently installed.) Preparing to unpack .../x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) over (1:7.7+23) ... Preparing to unpack .../libice6_2%3a1.0.10-1+b1_amd64.deb ... Unpacking libice6:amd64 (2:1.0.10-1+b1) over (2:1.0.10-1) ... Preparing to unpack .../libuuid1_2.40.2-7_amd64.deb ... Unpacking libuuid1:amd64 (2.40.2-7) over (2.38.1-5+deb12u1) ... 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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 ... 33709 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 ... 33702 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) ... 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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 ... 35315 files and directories currently installed.) Preparing to unpack .../util-linux_2.40.2-7_amd64.deb ... Unpacking util-linux (2.40.2-7) over (2.38.1-5+deb12u1) ... Setting up util-linux (2.40.2-7) ... (Reading database ... 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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 (2.40.2-7) 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 (2.40.2-7) ... (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 ... 35328 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 ... 35326 files and directories currently installed.) Preparing to unpack .../00-libitm1_14.2.0-2_amd64.deb ... Unpacking libitm1:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../01-libasan8_14.2.0-2_amd64.deb ... Unpacking libasan8:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../02-liblsan0_14.2.0-2_amd64.deb ... Unpacking liblsan0:amd64 (14.2.0-2) over (12.2.0-14) ... Preparing to unpack .../03-libubsan1_14.2.0-2_amd64.deb ... 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Unpacking libgcc-14-dev:amd64 (14.2.0-2) ... Selecting previously unselected package libstdc++-14-dev:amd64. Preparing to unpack .../11-libstdc++-14-dev_14.2.0-2_amd64.deb ... Unpacking libstdc++-14-dev:amd64 (14.2.0-2) ... Preparing to unpack .../12-libboost-dev_1.83.0.2+b2_amd64.deb ... Unpacking libboost-dev:amd64 (1.83.0.2+b2) over (1.74.0.3) ... (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 ... 36390 files and directories currently installed.) Removing libboost1.74-dev:amd64 (1.74.0+ds1-21) ... Selecting previously unselected package libboost1.83-dev: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 ... 20881 files and directories currently installed.) Preparing to unpack .../libboost1.83-dev_1.83.0-3.1_amd64.deb ... Unpacking libboost1.83-dev:amd64 (1.83.0-3.1) ... 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 ... 37841 files and directories currently installed.) Removing libext2fs2:amd64 (1.47.0-2) ... Selecting previously unselected package libext2fs2t64:amd64. (Reading database ... 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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 ... 37850 files and directories currently installed.) Preparing to unpack .../00-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 Preparing to unpack .../01-mount_2.40.2-7_amd64.deb ... Unpacking mount (2.40.2-7) over (2.38.1-5+deb12u1) ... Preparing to unpack .../02-mawk_1.3.4.20240622-2_amd64.deb ... Unpacking mawk (1.3.4.20240622-2) over (1.3.4.20200120-3.1) ... Preparing to unpack .../03-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) over (0.0.17+nmu1) ... Preparing to unpack .../04-libasan6_11.5.0-1_amd64.deb ... Unpacking libasan6:amd64 (11.5.0-1) over (11.3.0-12) ... Preparing to unpack .../05-libtsan0_11.5.0-1_amd64.deb ... Unpacking libtsan0:amd64 (11.5.0-1) over (11.3.0-12) ... 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Setting up x11-common (1:7.7+23.1) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of restart. Setting up libpsl5t64:amd64 (0.21.2-1.1) ... Setting up libnghttp2-14:amd64 (1.62.1-2) ... Setting up libdeflate0:amd64 (1.21-1) ... Setting up linux-libc-dev (6.10.4-1) ... Setting up libxcb-shm0:amd64 (1.17.0-2) ... Setting up libpaper-utils (1.1.29+b1) ... Setting up libgomp1:amd64 (14.2.0-2) ... Setting up libjbig0:amd64 (2.1-6.1+b1) ... Setting up libasan6:amd64 (11.5.0-1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up gcc-12-base:amd64 (12.4.0-2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-7) ... Setting up tzdata (2024a-4) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Aug 16 22:13:57 UTC 2024. Universal Time is now: Fri Aug 16 22:13:57 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libpcre3:amd64 (2:8.39-15+b1) ... Setting up zip (3.0-14) ... 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Setting up libsasl2-2:amd64 (2.1.28+dfsg1-7) ... Setting up libgfortran5:amd64 (14.2.0-2) ... Setting up libwebp7:amd64 (1.4.0-0.1) ... Setting up libubsan1:amd64 (14.2.0-2) ... Setting up mount (2.40.2-7) ... Setting up sensible-utils (0.0.24) ... Setting up libhwasan0:amd64 (14.2.0-2) ... Setting up libcrypt-dev:amd64 (1:4.4.36-5) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libasan8:amd64 (14.2.0-2) ... Setting up libx11-6:amd64 (2:1.8.7-1+b1) ... Setting up libthai-data (0.1.29-2) ... Setting up mawk (1.3.4.20240622-2) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libxss1:amd64 (1:1.2.3-1+b1) ... Setting up libssh2-1t64:amd64 (1.11.0-7) ... Setting up libtsan2:amd64 (14.2.0-2) ... Setting up libc-dev-bin (2.39-7) ... Setting up openssl (3.3.1-6) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up readline-common (8.2-4) ... Setting up liblsan0:amd64 (14.2.0-2) ... Setting up libitm1:amd64 (14.2.0-2) ... Setting up libtsan0:amd64 (11.5.0-1) ... Setting up libice6:amd64 (2:1.0.10-1+b1) ... Setting up liblapack3:amd64 (3.12.0-3) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b1) ... Setting up fontconfig-config (2.15.0-1.1) ... Setting up e2fsprogs (1.47.1-1) ... Installing new version of config file /etc/cron.d/e2scrub_all ... Installing new version of config file /etc/mke2fs.conf ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-2) ... Setting up libthai0:amd64 (0.1.29-2) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt, it does not contain exactly one certificate or CRL 14 added, 8 removed; done. Setting up libglib2.0-0t64:amd64 (2.81.1-3) ... No schema files found: doing nothing. Setting up libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Setting up libgcc-12-dev:amd64 (12.4.0-2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libreadline8t64:amd64 (8.2-4) ... Setting up libc6-dev:amd64 (2.39-7) ... Setting up libharfbuzz0b:amd64 (9.0.0-1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1) ... Setting up libgcc-14-dev:amd64 (14.2.0-2) ... Setting up libstdc++-14-dev:amd64 (14.2.0-2) ... Setting up libsm6:amd64 (2:1.2.3-1+b1) ... Setting up fontconfig (2.15.0-1.1) ... Regenerating fonts cache... done. Setting up libxft2:amd64 (2.3.6-1+b1) ... Setting up libboost1.83-dev:amd64 (1.83.0-3.1) ... Setting up libcurl4t64:amd64 (8.9.1-2) ... Setting up libstdc++-12-dev:amd64 (12.4.0-2) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3) ... Setting up libtk8.6:amd64 (8.6.14-1) ... Setting up libpango-1.0-0:amd64 (1.54.0+ds-1) ... Setting up libcairo2:amd64 (1.18.0-3+b1) ... Setting up libtirpc-dev:amd64 (1.3.4+ds-1.3) ... Setting up libxt6t64:amd64 (1:1.2.1-1.2) ... Setting up libnsl2:amd64 (1.3.0-3+b2) ... Setting up libboost-dev:amd64 (1.83.0.2+b2) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-1) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-1) ... Setting up r-base-core (4.4.1-1) ... Installing new version of config file /etc/R/Makeconf ... Installing new version of config file /etc/R/repositories ... Replacing config file /etc/R/Renviron with new version Setting up r-cran-lattice (0.22-6-1) ... Setting up r-cran-formatr (1.14-2) ... Setting up libnsl-dev:amd64 (1.3.0-3+b2) ... Setting up r-cran-pkgkitten (0.2.3-1) ... Setting up r-cran-littler (0.3.20-1) ... Setting up r-cran-bh (1.84.0-1) ... Setting up r-cran-rcpp (1.0.13-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-bioc-biocgenerics (0.50.0-1) ... Setting up littler (0.3.20-1) ... Setting up r-cran-rcpphnsw (0.5.0+ds-1) ... Setting up r-cran-cpp11 (0.4.7-1) ... Setting up r-bioc-s4vectors (0.42.1+dfsg-1) ... Setting up r-cran-matrix (1.7-0-3) ... Setting up r-bioc-biocparallel (1.38.0-2) ... Setting up r-bioc-biocneighbors (1.22.0+ds-1) ... Processing triggers for debianutils (5.20) ... Processing triggers for libc-bin (2.39-7) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. 2m2.8s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-yf', 'dist-upgrade'] 2m2.8s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m4.3s DUMP: cf73a56004e7833014ed78306747eb35 - 2m4.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'sh', '-c', 'apt-cache dumpavail | md5sum'] 2m4.3s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-biocneighbors'] 2m4.6s DUMP: Package: r-bioc-biocneighbors Version: 1.22.0+ds-1 Installed-Size: 1558 Maintainer: Debian R Packages Maintainers Architecture: amd64 Depends: r-api-4.0, r-api-bioc-3.19, r-cran-rcpp, r-bioc-s4vectors (>= 0.42.1), r-bioc-biocparallel (>= 1.38.0), r-cran-matrix, r-cran-rcpphnsw, libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 14) Suggests: r-cran-testthat, r-bioc-biocstyle (>= 2.32.1), r-cran-knitr, r-cran-rmarkdown, r-cran-fnn, r-cran-rcppannoy Description-en: Nearest Neighbor Detection for Bioconductor Packages Implements exact and approximate methods for nearest neighbor detection, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Exact searches can be performed using the k-means for k-nearest neighbors algorithm or with vantage point trees. Approximate searches can be performed using the Annoy or HNSW libraries. Searching on either Euclidean or Manhattan distances is supported. Parallelization is achieved for all methods by using BiocParallel. Functions are also provided to search for all neighbors within a given distance. Description-md5: cc15f0b45813def49274bba4d4b7cf0b Homepage: https://bioconductor.org/packages/BiocNeighbors/ Section: gnu-r Priority: optional Filename: pool/main/r/r-bioc-biocneighbors/r-bioc-biocneighbors_1.22.0+ds-1_amd64.deb Size: 620448 MD5sum: 5bf64b90bf5394d97bc60c222c53ec9a SHA256: 3f1e52a58a36d8d1d74adcc579fcf60c4ee0be12ac6d695f2e42a902b40bdee4 2m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'show', '--no-all-versions', 'r-bioc-biocneighbors'] 2m4.6s INFO: apt-cache knows about the following packages: r-bioc-biocneighbors 2m4.6s INFO: Running scripts pre_install 2m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 2m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 2m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 2m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 2m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 2m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 2m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 2m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 2m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m4.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m4.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 2m4.7s 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: 2m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 2m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 2m4.7s DUMP: r-bioc-biocneighbors: Installed: 1.22.0+ds-1 Candidate: 1.22.0+ds-1 Version table: *** 1.22.0+ds-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m4.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 2m4.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors'] 2m5.5s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-biocneighbors is already the newest version (1.22.0+ds-1). The following packages were automatically installed and are no longer required: gcc-11-base gcc-12-base libasan6 libgcc-10-dev libgcc-12-dev libicu67 libldap-2.4-2 libnsl-dev libperl5.36 libstdc++-10-dev libstdc++-12-dev libtiff5 libtirpc-dev libtsan0 libwebp6 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors'] 2m5.5s INFO: Running scripts post_install 2m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 2m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 2m5.5s INFO: Running scripts post_distupgrade 2m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_base_cleanup'] 2m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_exceptions'] 2m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_exceptions'] 2m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_force-unsafe-io'] 2m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_squeeze-backports'] 2m5.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_zz_backports'] 2m5.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_distupgrade_zz_backports'] 2m5.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m7.6s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m7.6s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m9.9s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m9.9s INFO: Running scripts pre_install 2m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 2m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_database-server'] 2m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 2m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_exceptions'] 2m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 2m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_extras'] 2m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 2m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture'] 2m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_install_foreign_architecture_i386'] 2m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 2m9.9s DUMP: Package files: 100 /var/lib/dpkg/status release a=now 500 http://deb.debian.org/debian sid/main amd64 Packages release o=Debian,a=unstable,n=sid,l=Debian,c=main,b=amd64 origin deb.debian.org Pinned packages: 2m9.9s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy'] 2m9.9s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 2m10.0s DUMP: r-bioc-biocneighbors: Installed: 1.22.0+ds-1 Candidate: 1.22.0+ds-1 Version table: *** 1.22.0+ds-1 500 500 http://deb.debian.org/debian sid/main amd64 Packages 100 /var/lib/dpkg/status 2m10.0s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-cache', 'policy', 'r-bioc-biocneighbors'] 2m10.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors=1.22.0+ds-1'] 2m10.6s DUMP: Reading package lists... Building dependency tree... Reading state information... r-bioc-biocneighbors is already the newest version (1.22.0+ds-1). The following packages were automatically installed and are no longer required: gcc-11-base gcc-12-base libasan6 libgcc-10-dev libgcc-12-dev libicu67 libldap-2.4-2 libnsl-dev libperl5.36 libstdc++-10-dev libstdc++-12-dev libtiff5 libtirpc-dev libtsan0 libwebp6 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 2m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', '-y', 'install', 'r-bioc-biocneighbors=1.22.0+ds-1'] 2m10.6s INFO: Running scripts post_install 2m10.6s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 2m10.6s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_install_exceptions'] 2m10.7s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m12.5s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m12.6s INFO: /lib converted to /usr/lib by /usr merge 2m12.6s INFO: /lib/x86_64-linux-gnu converted to /usr/lib/x86_64-linux-gnu by /usr merge 2m15.7s DEBUG: Starting command: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', '-ac', '--ignore-obsolete'] 2m19.9s DEBUG: Command ok: ['debsums', '--root', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', '-ac', '--ignore-obsolete'] 2m19.9s DEBUG: Starting command: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m19.9s DUMP: 0.15.6 2m19.9s DEBUG: Command ok: ['dpkg-query', '-f', '${Version}\n', '-W', 'adequate'] 2m19.9s INFO: Running adequate version 0.15.6 now. 2m19.9s DEBUG: Starting command: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'r-bioc-biocneighbors'] 2m20.0s DEBUG: Command ok: ['adequate', '--root', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'r-bioc-biocneighbors'] 2m20.0s INFO: Running scripts pre_remove 2m20.0s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_40_find_missing_md5sums'] 2m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m20.1s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_40_find_obsolete_conffiles'] 2m20.1s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m25.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_40_find_unowned_lib_links'] 2m25.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_50_find_bad_permissions'] 2m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m25.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_50_find_missing_copyright'] 2m25.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_exceptions'] 2m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/pre_remove_exceptions'] 2m25.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m25.7s 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 5.2.21-2.1+b1 install ok installed bsdutils bsdutils 1:2.40.2-7 install ok installed ca-certificates ca-certificates 20240203 install ok installed coreutils coreutils 9.4-3.1 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 fontconfig 2.15.0-1.1 install ok installed fontconfig-config fontconfig-config 2.15.0-1.1 install ok installed fonts-dejavu-core fonts-dejavu-core 2.37-8 install ok installed fonts-dejavu-mono fonts-dejavu-mono 2.37-8 install ok installed gcc-10-base:amd64 gcc-10-base 10.2.1-6 install ok installed gcc-11-base:amd64 gcc-11-base 11.5.0-1 install ok installed gcc-12-base:amd64 gcc-12-base 12.4.0-2 install ok installed gcc-14-base:amd64 gcc-14-base 14.2.0-2 install ok installed gcc-9-base:amd64 gcc-9-base 9.3.0-22 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 libasan6:amd64 libasan6 11.5.0-1 install ok installed libasan8:amd64 libasan8 14.2.0-2 install ok installed libatomic1:amd64 libatomic1 14.2.0-2 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 libboost-dev:amd64 libboost-dev 1.83.0.2+b2 install ok installed libboost1.83-dev:amd64 libboost1.83-dev 1.83.0-3.1 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 1.0.8-5.1 install ok installed libc-bin libc-bin 2.39-7 install ok installed libc-dev-bin libc-dev-bin 2.39-7 install ok installed libc6:amd64 libc6 2.39-7 install ok installed libc6-dev:amd64 libc6-dev 2.39-7 install ok installed libcairo2:amd64 libcairo2 1.18.0-3+b1 install ok installed libcap-ng0:amd64 libcap-ng0 0.8.5-1+b1 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 libcrypt-dev:amd64 libcrypt-dev 1:4.4.36-5 install ok installed libcrypt1:amd64 libcrypt1 1:4.4.36-5 install ok installed libcurl4t64:amd64 libcurl4t64 8.9.1-2 install ok installed libdatrie1:amd64 libdatrie1 0.2.13-3 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 libffi7:amd64 libffi7 3.3-6 install ok installed libffi8:amd64 libffi8 3.4.6-1 install ok installed libfile-find-rule-perl libfile-find-rule-perl 0.34-3 install ok installed libfontconfig1:amd64 libfontconfig1 2.15.0-1.1 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-10-dev:amd64 libgcc-10-dev 10.2.1-6 install ok installed libgcc-12-dev:amd64 libgcc-12-dev 12.4.0-2 install ok installed libgcc-14-dev:amd64 libgcc-14-dev 14.2.0-2 install ok installed libgcc-s1:amd64 libgcc-s1 14.2.0-2 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 14.2.0-2 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 2.81.1-3 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 14.2.0-2 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 libhwasan0:amd64 libhwasan0 14.2.0-2 install ok installed libice6:amd64 libice6 2:1.0.10-1+b1 install ok installed libicu67:amd64 libicu67 67.1-7 install ok installed libicu72:amd64 libicu72 72.1-5 install ok installed libidn2-0:amd64 libidn2-0 2.3.7-2 install ok installed libitm1:amd64 libitm1 14.2.0-2 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 libldap-2.4-2:amd64 libldap-2.4-2 2.4.57+dfsg-3+deb11u1 install ok installed libldap-2.5-0:amd64 libldap-2.5-0 2.5.18+dfsg-2 install ok installed liblerc4:amd64 liblerc4 4.0.0+ds-4+b1 install ok installed liblsan0:amd64 liblsan0 14.2.0-2 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 libnettle8t64:amd64 libnettle8t64 3.10-1 install ok installed libnghttp2-14:amd64 libnghttp2-14 1.62.1-2 install ok installed libnsl-dev:amd64 libnsl-dev 1.3.0-3+b2 install ok installed libnsl2:amd64 libnsl2 1.3.0-3+b2 install ok installed libnumber-compare-perl libnumber-compare-perl 0.03-3 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 libpango-1.0-0:amd64 libpango-1.0-0 1.54.0+ds-1 install ok installed libpangocairo-1.0-0:amd64 libpangocairo-1.0-0 1.54.0+ds-1 install ok installed libpangoft2-1.0-0:amd64 libpangoft2-1.0-0 1.54.0+ds-1 install ok installed libpaper-utils libpaper-utils 1.1.29+b1 install ok installed libpaper1:amd64 libpaper1 1.1.29+b1 install ok installed libpcre2-8-0:amd64 libpcre2-8-0 10.42-4+b1 install ok installed libpcre3:amd64 libpcre3 2:8.39-15+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 libpsl5t64:amd64 libpsl5t64 0.21.2-1.1 install ok installed libquadmath0:amd64 libquadmath0 14.2.0-2 install ok installed libreadline8t64:amd64 libreadline8t64 8.2-4 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 3.5-2+b4 install ok installed libsemanage-common libsemanage-common 3.5-1 install ok installed libsemanage2:amd64 libsemanage2 3.5-1+b4 install ok installed libsepol1:amd64 libsepol1 3.1-1 install ok installed libsepol2:amd64 libsepol2 3.7-1 install ok installed libsharpyuv0:amd64 libsharpyuv0 1.4.0-0.1 install ok installed libsm6:amd64 libsm6 2:1.2.3-1+b1 install ok installed libsmartcols1:amd64 libsmartcols1 2.40.2-7 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 libssl1.1:amd64 libssl1.1 1.1.1w-0+deb11u1 install ok installed libssl3t64:amd64 libssl3t64 3.3.1-6 install ok installed libstdc++-10-dev:amd64 libstdc++-10-dev 10.2.1-6 install ok installed libstdc++-12-dev:amd64 libstdc++-12-dev 12.4.0-2 install ok installed libstdc++-14-dev:amd64 libstdc++-14-dev 14.2.0-2 install ok installed libstdc++6:amd64 libstdc++6 14.2.0-2 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 libtcl8.6:amd64 libtcl8.6 8.6.14+dfsg-1 install ok installed libtext-glob-perl libtext-glob-perl 0.11-3 install ok installed libthai-data libthai-data 0.1.29-2 install ok installed libthai0:amd64 libthai0 0.1.29-2 install ok installed libtiff5:amd64 libtiff5 4.2.0-1+deb11u5 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 libtirpc-dev:amd64 libtirpc-dev 1.3.4+ds-1.3 install ok installed libtirpc3t64:amd64 libtirpc3t64 1.3.4+ds-1.3 install ok installed libtk8.6:amd64 libtk8.6 8.6.14-1 install ok installed libtsan0:amd64 libtsan0 11.5.0-1 install ok installed libtsan2:amd64 libtsan2 14.2.0-2 install ok installed libubsan1:amd64 libubsan1 14.2.0-2 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 libwebp6:amd64 libwebp6 0.6.1-2.1+deb11u2 install ok installed libwebp7:amd64 libwebp7 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 libxft2:amd64 libxft2 2.3.6-1+b1 install ok installed libxrender1:amd64 libxrender1 1:0.9.10-1.1+b1 install ok installed libxss1:amd64 libxss1 1:1.2.3-1+b1 install ok installed libxt6t64:amd64 libxt6t64 1:1.2.1-1.2 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 linux-libc-dev linux-libc-dev 6.10.4-1 install ok installed littler littler 0.3.20-1 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 lsb-base lsb-base 11.6 install ok installed mawk mawk 1.3.4.20240622-2 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 openssl openssl 3.3.1-6 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 r-base-core r-base-core 4.4.1-1 install ok installed r-bioc-biocgenerics r-bioc-biocgenerics 0.50.0-1 install ok installed r-bioc-biocneighbors r-bioc-biocneighbors 1.22.0+ds-1 install ok installed r-bioc-biocparallel r-bioc-biocparallel 1.38.0-2 install ok installed r-bioc-s4vectors r-bioc-s4vectors 0.42.1+dfsg-1 install ok installed r-cran-bh r-cran-bh 1.84.0-1 install ok installed r-cran-codetools r-cran-codetools 0.2-20-1 install ok installed r-cran-cpp11 r-cran-cpp11 0.4.7-1 install ok installed r-cran-formatr r-cran-formatr 1.14-2 install ok installed r-cran-futile.logger r-cran-futile.logger 1.4.3-4 install ok installed r-cran-futile.options r-cran-futile.options 1.0.1-3 install ok installed r-cran-lambda.r r-cran-lambda.r 1.2.4-2 install ok installed r-cran-lattice r-cran-lattice 0.22-6-1 install ok installed r-cran-littler r-cran-littler 0.3.20-1 install ok installed r-cran-matrix r-cran-matrix 1.7-0-3 install ok installed r-cran-pkgkitten r-cran-pkgkitten 0.2.3-1 install ok installed r-cran-rcpp r-cran-rcpp 1.0.13-1 install ok installed r-cran-rcpphnsw r-cran-rcpphnsw 0.5.0+ds-1 install ok installed r-cran-snow r-cran-snow 1:0.4.4-2 install ok installed readline-common readline-common 8.2-4 install ok installed rpcsvc-proto rpcsvc-proto 1.4.3-1 install ok installed sed sed 4.9-2 install ok installed sensible-utils sensible-utils 0.0.24 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 ucf ucf 3.0043+nmu1 install ok installed unzip unzip 6.0-28 install ok installed usrmerge usrmerge 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 x11-common x11-common 1:7.7+23.1 install ok installed xdg-utils xdg-utils 1.1.3-4.1 install ok installed zip zip 3.0-14 install ok installed zlib1g:amd64 zlib1g 1:1.3.dfsg+really1.3.1-1 2m25.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg-query', '-W', '-f', '${Status}\\t${binary:Package}\\t${Package}\\t${Version}\\n'] 2m25.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-s4vectors', 'r-cran-bh', 'r-cran-codetools', 'r-cran-cpp11', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-littler', 'r-cran-matrix', 'r-cran-pkgkitten', 'r-cran-rcpp', 'r-cran-rcpphnsw', 'r-cran-snow', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'r-bioc-biocneighbors'] 2m28.7s DUMP: Reading package lists... Building dependency tree... Reading state information... Package 'libglib2.0-0' is not installed, so not removed The following packages were automatically installed and are no longer required: gcc-12-base libperl5.36 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: ca-certificates fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono gcc-11-base libasan6 libasan8 libatomic1 libblas3 libboost-dev libboost1.83-dev libbrotli1 libc-dev-bin libc6-dev libcairo2 libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libexpat1 libfontconfig1 libfreetype6 libfribidi0 libgcc-10-dev libgcc-12-dev libgcc-14-dev libgfortran5 libglib2.0-0t64 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libice6 libicu67 libicu72 libitm1 libjbig0 libjpeg62-turbo liblapack3 libldap-2.4-2 libldap-2.5-0 liblerc4 liblsan0 libnghttp2-14 libnsl-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0 libpng16-16t64 libpsl5t64 libquadmath0 libreadline8t64 librtmp1 libsasl2-2 libsasl2-modules-db libsharpyuv0 libsm6 libssh2-1t64 libstdc++-10-dev libstdc++-12-dev libstdc++-14-dev libtcl8.6 libthai-data libthai0 libtiff5 libtiff6 libtirpc-dev libtk8.6 libtsan0 libtsan2 libubsan1 libwebp6 libwebp7 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxrender1 libxss1 libxt6t64 linux-libc-dev littler openssl r-base-core r-bioc-biocgenerics r-bioc-biocneighbors r-bioc-biocparallel r-bioc-s4vectors r-cran-bh r-cran-codetools r-cran-cpp11 r-cran-formatr r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-lattice r-cran-littler r-cran-matrix r-cran-pkgkitten r-cran-rcpp r-cran-rcpphnsw r-cran-snow readline-common rpcsvc-proto sensible-utils ucf unzip x11-common xdg-utils zip 0 upgraded, 0 newly installed, 119 to remove and 0 not upgraded. After this operation, 544 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 ... 37924 files and directories currently installed.) Removing r-bioc-biocneighbors (1.22.0+ds-1) ... Removing r-cran-matrix (1.7-0-3) ... Removing r-bioc-biocparallel (1.38.0-2) ... Removing r-cran-snow (1:0.4.4-2) ... Removing r-cran-rcpphnsw (0.5.0+ds-1) ... Removing r-cran-rcpp (1.0.13-1) ... Removing r-cran-pkgkitten (0.2.3-1) ... Removing r-cran-futile.logger (1.4.3-4) ... Removing r-cran-lambda.r (1.2.4-2) ... Removing libstdc++-10-dev:amd64 (10.2.1-6) ... Removing libgcc-10-dev:amd64 (10.2.1-6) ... Removing libtsan0:amd64 (11.5.0-1) ... Removing libasan6:amd64 (11.5.0-1) ... Removing gcc-11-base:amd64 (11.5.0-1) ... Removing r-cran-bh (1.84.0-1) ... Removing libboost-dev:amd64 (1.83.0.2+b2) ... Removing libboost1.83-dev:amd64 (1.83.0-3.1) ... Removing libstdc++-14-dev:amd64 (14.2.0-2) ... Removing libgcc-14-dev:amd64 (14.2.0-2) ... Removing libstdc++-12-dev:amd64 (12.4.0-2) ... Removing libgcc-12-dev:amd64 (12.4.0-2) ... Removing libasan8:amd64 (14.2.0-2) ... Removing libc6-dev:amd64 (2.39-7) ... Removing libc-dev-bin (2.39-7) ... Removing libcrypt-dev:amd64 (1:4.4.36-5) ... Removing libtiff5:amd64 (4.2.0-1+deb11u5) ... Removing libhwasan0:amd64 (14.2.0-2) ... Removing libicu67:amd64 (67.1-7) ... Removing libitm1:amd64 (14.2.0-2) ... Removing libldap-2.4-2:amd64 (2.4.57+dfsg-3+deb11u1) ... Removing liblsan0:amd64 (14.2.0-2) ... Removing libnsl-dev:amd64 (1.3.0-3+b2) ... Removing libquadmath0:amd64 (14.2.0-2) ... Removing libtirpc-dev:amd64 (1.3.4+ds-1.3) ... Removing libtsan2:amd64 (14.2.0-2) ... Removing libubsan1:amd64 (14.2.0-2) ... Removing libwebp6:amd64 (0.6.1-2.1+deb11u2) ... Removing linux-libc-dev (6.10.4-1) ... Removing littler (0.3.20-1) ... Removing r-bioc-s4vectors (0.42.1+dfsg-1) ... Removing r-bioc-biocgenerics (0.50.0-1) ... Removing r-cran-codetools (0.2-20-1) ... Removing r-cran-cpp11 (0.4.7-1) ... Removing r-cran-formatr (1.14-2) ... Removing r-cran-futile.options (1.0.1-3) ... Removing r-cran-lattice (0.22-6-1) ... Removing r-cran-littler (0.3.20-1) ... Removing rpcsvc-proto (1.4.3-1) ... Removing r-base-core (4.4.1-1) ... Removing ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Removing libpangocairo-1.0-0:amd64 (1.54.0+ds-1) ... Removing libpangoft2-1.0-0:amd64 (1.54.0+ds-1) ... Removing libpango-1.0-0:amd64 (1.54.0+ds-1) ... Removing fontconfig (2.15.0-1.1) ... Removing libtk8.6:amd64 (8.6.14-1) ... Removing libxft2:amd64 (2.3.6-1+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-dejavu-core (2.37-8) ... Removing fonts-dejavu-mono (2.37-8) ... Removing libharfbuzz0b:amd64 (9.0.0-1) ... Removing libglib2.0-0t64:amd64 (2.81.1-3) ... Removing libatomic1:amd64 (14.2.0-2) ... Removing liblapack3:amd64 (3.12.0-3) ... Removing libblas3:amd64 (3.12.0-3) ... Removing libfreetype6:amd64 (2.13.2+dfsg-1+b4) ... Removing libcurl4t64:amd64 (8.9.1-2) ... Removing libbrotli1:amd64 (1.1.0-2+b4) ... Removing libthai0:amd64 (0.1.29-2) ... Removing libdatrie1:amd64 (0.2.13-3) ... Removing libtiff6:amd64 (4.5.1+git230720-5) ... Removing libdeflate0:amd64 (1.21-1) ... Removing libexpat1:amd64 (2.6.2-1) ... Removing libfribidi0:amd64 (1.0.15-1) ... Removing libgfortran5:amd64 (14.2.0-2) ... Removing libgomp1:amd64 (14.2.0-2) ... Removing libgraphite2-3:amd64 (1.3.14-2) ... Removing libxt6t64:amd64 (1:1.2.1-1.2) ... Removing libsm6:amd64 (2:1.2.3-1+b1) ... Removing libice6:amd64 (2:1.0.10-1+b1) ... Removing libicu72:amd64 (72.1-5) ... Removing libjbig0:amd64 (2.1-6.1+b1) ... Removing libjpeg62-turbo:amd64 (1:2.1.5-3) ... Removing libldap-2.5-0:amd64 (2.5.18+dfsg-2) ... Removing liblerc4:amd64 (4.0.0+ds-4+b1) ... Removing libnghttp2-14:amd64 (1.62.1-2) ... Removing libpaper-utils (1.1.29+b1) ... Removing libpaper1:amd64 (1.1.29+b1) ... Removing libpixman-1-0:amd64 (0.42.2-1+b1) ... Removing libpng16-16t64:amd64 (1.6.43-5) ... Removing libpsl5t64:amd64 (0.21.2-1.1) ... Removing libreadline8t64:amd64 (8.2-4) ... 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 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 libwebp7:amd64 (1.4.0-0.1) ... Removing libsharpyuv0:amd64 (1.4.0-0.1) ... Removing libssh2-1t64:amd64 (1.11.0-7) ... Removing libtcl8.6:amd64 (8.6.14+dfsg-1) ... Removing libthai-data (0.1.29-2) ... Removing libxss1:amd64 (1:1.2.3-1+b1) ... Removing libxrender1:amd64 (1:0.9.10-1.1+b1) ... Removing libxcb-shm0:amd64 (1.17.0-2) ... Removing libxcb-render0:amd64 (1.17.0-2) ... Removing libxext6:amd64 (2:1.3.4-1+b1) ... Removing openssl (3.3.1-6) ... Removing readline-common (8.2-4) ... Removing ucf (3.0043+nmu1) ... Removing sensible-utils (0.0.24) ... Removing unzip (6.0-28) ... 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 xdg-utils (1.1.3-4.1) ... Removing zip (3.0-14) ... Removing libx11-6:amd64 (2:1.8.7-1+b1) ... Removing libx11-data (2:1.8.7-1) ... 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) ... Processing triggers for libc-bin (2.39-7) ... 2m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'remove', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-s4vectors', 'r-cran-bh', 'r-cran-codetools', 'r-cran-cpp11', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-littler', 'r-cran-matrix', 'r-cran-pkgkitten', 'r-cran-rcpp', 'r-cran-rcpphnsw', 'r-cran-snow', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip', 'r-bioc-biocneighbors'] 2m28.7s INFO: Running scripts post_remove 2m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_remove_exceptions'] 2m28.7s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_remove_exceptions'] 2m28.7s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-s4vectors', 'r-cran-bh', 'r-cran-codetools', 'r-cran-cpp11', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-littler', 'r-cran-matrix', 'r-cran-pkgkitten', 'r-cran-rcpp', 'r-cran-rcpphnsw', 'r-cran-snow', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip'] 2m29.4s DUMP: (Reading database ... 9412 files and directories currently installed.) Purging configuration files for ca-certificates (20240203) ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for fontconfig (2.15.0-1.1) ... 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-dejavu-core (2.37-8) ... Purging configuration files for fonts-dejavu-mono (2.37-8) ... dpkg: warning: while removing fonts-dejavu-mono, directory '/usr/share/fonts/truetype/dejavu' not empty so not removed dpkg: warning: while removing fonts-dejavu-mono, directory '/etc/fonts' not empty so not removed dpkg: warning: ignoring request to remove gcc-11-base which isn't installed dpkg: warning: ignoring request to remove libasan6 which isn't installed dpkg: warning: ignoring request to remove libasan8 which isn't installed 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 libboost-dev which isn't installed dpkg: warning: ignoring request to remove libboost1.83-dev which isn't installed dpkg: warning: ignoring request to remove libbrotli1 which isn't installed dpkg: warning: ignoring request to remove libc-dev-bin which isn't installed dpkg: warning: ignoring request to remove libc6-dev which isn't installed dpkg: warning: ignoring request to remove libcairo2 which isn't installed Purging configuration files for libcrypt-dev:amd64 (1:4.4.36-5) ... dpkg: warning: ignoring request to remove libcurl4t64 which isn't installed dpkg: warning: ignoring request to remove libdatrie1 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 libfreetype6 which isn't installed dpkg: warning: ignoring request to remove libfribidi0 which isn't installed dpkg: warning: ignoring request to remove libgcc-10-dev which isn't installed dpkg: warning: ignoring request to remove libgcc-12-dev which isn't installed dpkg: warning: ignoring request to remove libgcc-14-dev which isn't installed dpkg: warning: ignoring request to remove libgfortran5 which isn't installed Purging configuration files for libglib2.0-0t64:amd64 (2.81.1-3) ... dpkg: warning: ignoring request to remove libgomp1 which isn't installed dpkg: warning: ignoring request to remove libgraphite2-3 which isn't installed dpkg: warning: ignoring request to remove libharfbuzz0b which isn't installed dpkg: warning: ignoring request to remove libhwasan0 which isn't installed dpkg: warning: ignoring request to remove libice6 which isn't installed dpkg: warning: ignoring request to remove libicu67 which isn't installed dpkg: warning: ignoring request to remove libicu72 which isn't installed dpkg: warning: ignoring request to remove libitm1 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 liblapack3 which isn't installed dpkg: warning: ignoring request to remove libldap-2.4-2 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 liblsan0 which isn't installed dpkg: warning: ignoring request to remove libnghttp2-14 which isn't installed dpkg: warning: ignoring request to remove libnsl-dev which isn't installed dpkg: warning: ignoring request to remove libpango-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangocairo-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpangoft2-1.0-0 which isn't installed dpkg: warning: ignoring request to remove libpaper-utils which isn't installed Purging configuration files for libpaper1:amd64 (1.1.29+b1) ... 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 libpsl5t64 which isn't installed dpkg: warning: ignoring request to remove libquadmath0 which isn't installed Purging configuration files for libreadline8t64:amd64 (8.2-4) ... 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 libsm6 which isn't installed dpkg: warning: ignoring request to remove libssh2-1t64 which isn't installed dpkg: warning: ignoring request to remove libstdc++-10-dev which isn't installed dpkg: warning: ignoring request to remove libstdc++-12-dev which isn't installed dpkg: warning: ignoring request to remove libstdc++-14-dev which isn't installed dpkg: warning: ignoring request to remove libtcl8.6 which isn't installed dpkg: warning: ignoring request to remove libthai-data which isn't installed dpkg: warning: ignoring request to remove libthai0 which isn't installed dpkg: warning: ignoring request to remove libtiff5 which isn't installed dpkg: warning: ignoring request to remove libtiff6 which isn't installed dpkg: warning: ignoring request to remove libtirpc-dev which isn't installed dpkg: warning: ignoring request to remove libtk8.6 which isn't installed dpkg: warning: ignoring request to remove libtsan0 which isn't installed dpkg: warning: ignoring request to remove libtsan2 which isn't installed dpkg: warning: ignoring request to remove libubsan1 which isn't installed dpkg: warning: ignoring request to remove libwebp6 which isn't installed dpkg: warning: ignoring request to remove libwebp7 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 libxft2 which isn't installed dpkg: warning: ignoring request to remove libxrender1 which isn't installed dpkg: warning: ignoring request to remove libxss1 which isn't installed dpkg: warning: ignoring request to remove libxt6t64 which isn't installed dpkg: warning: ignoring request to remove linux-libc-dev which isn't installed dpkg: warning: ignoring request to remove littler which isn't installed Purging configuration files for openssl (3.3.1-6) ... Purging configuration files for r-base-core (4.4.1-1) ... dpkg: warning: ignoring request to remove r-bioc-biocgenerics which isn't installed dpkg: warning: ignoring request to remove r-bioc-biocparallel which isn't installed dpkg: warning: ignoring request to remove r-bioc-s4vectors which isn't installed dpkg: warning: ignoring request to remove r-cran-bh which isn't installed dpkg: warning: ignoring request to remove r-cran-codetools which isn't installed dpkg: warning: ignoring request to remove r-cran-cpp11 which isn't installed dpkg: warning: ignoring request to remove r-cran-formatr which isn't installed dpkg: warning: ignoring request to remove r-cran-futile.logger which isn't installed dpkg: warning: ignoring request to remove r-cran-futile.options which isn't installed dpkg: warning: ignoring request to remove r-cran-lambda.r which isn't installed dpkg: warning: ignoring request to remove r-cran-lattice which isn't installed dpkg: warning: ignoring request to remove r-cran-littler which isn't installed dpkg: warning: ignoring request to remove r-cran-matrix which isn't installed dpkg: warning: ignoring request to remove r-cran-pkgkitten which isn't installed dpkg: warning: ignoring request to remove r-cran-rcpp which isn't installed dpkg: warning: ignoring request to remove r-cran-rcpphnsw which isn't installed dpkg: warning: ignoring request to remove r-cran-snow which isn't installed Purging configuration files for readline-common (8.2-4) ... dpkg: warning: ignoring request to remove rpcsvc-proto which isn't installed dpkg: warning: ignoring request to remove sensible-utils which isn't installed Purging configuration files for ucf (3.0043+nmu1) ... Purging configuration files for unzip (6.0-28) ... 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 xdg-utils which isn't installed dpkg: warning: ignoring request to remove zip which isn't installed 2m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--purge', 'ca-certificates', 'fontconfig', 'fontconfig-config', 'fonts-dejavu-core', 'fonts-dejavu-mono', 'gcc-11-base:amd64', 'libasan6:amd64', 'libasan8:amd64', 'libatomic1:amd64', 'libblas3:amd64', 'libboost-dev:amd64', 'libboost1.83-dev:amd64', 'libbrotli1:amd64', 'libc-dev-bin', 'libc6-dev:amd64', 'libcairo2:amd64', 'libcrypt-dev:amd64', 'libcurl4t64:amd64', 'libdatrie1:amd64', 'libdeflate0:amd64', 'libexpat1:amd64', 'libfontconfig1:amd64', 'libfreetype6:amd64', 'libfribidi0:amd64', 'libgcc-10-dev:amd64', 'libgcc-12-dev:amd64', 'libgcc-14-dev:amd64', 'libgfortran5:amd64', 'libglib2.0-0:amd64', 'libglib2.0-0t64:amd64', 'libgomp1:amd64', 'libgraphite2-3:amd64', 'libharfbuzz0b:amd64', 'libhwasan0:amd64', 'libice6:amd64', 'libicu67:amd64', 'libicu72:amd64', 'libitm1:amd64', 'libjbig0:amd64', 'libjpeg62-turbo:amd64', 'liblapack3:amd64', 'libldap-2.4-2:amd64', 'libldap-2.5-0:amd64', 'liblerc4:amd64', 'liblsan0:amd64', 'libnghttp2-14:amd64', 'libnsl-dev:amd64', 'libpango-1.0-0:amd64', 'libpangocairo-1.0-0:amd64', 'libpangoft2-1.0-0:amd64', 'libpaper-utils', 'libpaper1:amd64', 'libpixman-1-0:amd64', 'libpng16-16t64:amd64', 'libpsl5t64:amd64', 'libquadmath0:amd64', 'libreadline8t64:amd64', 'librtmp1:amd64', 'libsasl2-2:amd64', 'libsasl2-modules-db:amd64', 'libsharpyuv0:amd64', 'libsm6:amd64', 'libssh2-1t64:amd64', 'libstdc++-10-dev:amd64', 'libstdc++-12-dev:amd64', 'libstdc++-14-dev:amd64', 'libtcl8.6:amd64', 'libthai-data', 'libthai0:amd64', 'libtiff5:amd64', 'libtiff6:amd64', 'libtirpc-dev:amd64', 'libtk8.6:amd64', 'libtsan0:amd64', 'libtsan2:amd64', 'libubsan1:amd64', 'libwebp6:amd64', 'libwebp7:amd64', 'libx11-6:amd64', 'libx11-data', 'libxau6:amd64', 'libxcb-render0:amd64', 'libxcb-shm0:amd64', 'libxcb1:amd64', 'libxdmcp6:amd64', 'libxext6:amd64', 'libxft2:amd64', 'libxrender1:amd64', 'libxss1:amd64', 'libxt6t64:amd64', 'linux-libc-dev', 'littler', 'openssl', 'r-base-core', 'r-bioc-biocgenerics', 'r-bioc-biocparallel', 'r-bioc-s4vectors', 'r-cran-bh', 'r-cran-codetools', 'r-cran-cpp11', 'r-cran-formatr', 'r-cran-futile.logger', 'r-cran-futile.options', 'r-cran-lambda.r', 'r-cran-lattice', 'r-cran-littler', 'r-cran-matrix', 'r-cran-pkgkitten', 'r-cran-rcpp', 'r-cran-rcpphnsw', 'r-cran-snow', 'readline-common', 'rpcsvc-proto', 'sensible-utils', 'ucf', 'unzip', 'x11-common', 'xdg-utils', 'zip'] 2m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--purge', 'r-bioc-biocneighbors'] 2m29.4s DUMP: dpkg: warning: ignoring request to remove r-bioc-biocneighbors which isn't installed 2m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--purge', 'r-bioc-biocneighbors'] 2m29.4s INFO: Running scripts post_purge 2m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_purge_exceptions'] 2m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_purge_exceptions'] 2m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--purge', '--pending'] 2m29.4s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--purge', '--pending'] 2m29.4s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--remove', '--pending'] 2m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg', '--remove', '--pending'] 2m29.5s INFO: Running scripts post_test 2m29.5s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_test_exceptions'] 2m29.5s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'tmp/scripts/post_test_exceptions'] 2m29.5s DEBUG: Starting command: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m30.2s DEBUG: Command failed (status=1), but ignoring error: ['lsof', '-w', '+D', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m30.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg-divert', '--list'] 2m30.2s 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 /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64 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 diversion of /sbin/fsck.cramfs to /sbin/fsck.cramfs.usr-is-merged by util-linux-extra 2m30.2s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'dpkg-divert', '--list'] 2m30.2s DEBUG: Starting command: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'clean'] 2m30.3s DEBUG: Command ok: ['chroot', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt', 'apt-get', 'clean'] 2m30.3s DEBUG: Recording chroot state 2m31.2s INFO: Warning: Package purging left files on system: /etc/fonts/ owned by: fontconfig-config, fonts-dejavu-mono, fonts-dejavu-core /etc/fonts/conf.d/ owned by: fontconfig-config, fonts-dejavu-mono, fonts-dejavu-core /etc/fonts/conf.d/70-no-bitmaps-except-emoji.conf -> /usr/share/fontconfig/conf.avail/70-no-bitmaps-except-emoji.conf not owned /usr/local/share/fonts/ not owned /usr/local/share/fonts/.uuid not owned /usr/share/fonts/ owned by: fonts-dejavu-mono, fonts-dejavu-core /usr/share/fonts/.uuid not owned /usr/share/fonts/truetype/ owned by: fonts-dejavu-mono, fonts-dejavu-core /usr/share/fonts/truetype/.uuid not owned /usr/share/fonts/truetype/dejavu/ owned by: fonts-dejavu-mono, fonts-dejavu-core /usr/share/fonts/truetype/dejavu/.uuid not owned 2m32.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/shm'] 2m32.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/shm'] 2m32.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/console'] 2m32.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/console'] 2m32.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/ptmx'] 2m32.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/ptmx'] 2m32.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/pts'] 2m32.0s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/dev/pts'] 2m32.0s DEBUG: Starting command: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/proc'] 2m32.1s DEBUG: Command ok: ['umount', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt/proc'] 2m32.1s DEBUG: Starting command: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m32.3s DEBUG: Command ok: ['rm', '-rf', '--one-file-system', '/srv/piuparts.debian.org/tmp/tmp4u0ps8pt'] 2m32.3s DEBUG: Removed directory tree at /srv/piuparts.debian.org/tmp/tmp4u0ps8pt 2m32.3s INFO: PASS: Upgrading between Debian distributions. 2m32.3s INFO: PASS: All tests. 2m32.3s INFO: piuparts run ends. ret=0 End: 2024-08-16 22:14:35 GMT