0s autopkgtest [15:10:15]: starting date and time: 2025-03-15 15:10:15+0000 0s autopkgtest [15:10:15]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [15:10:15]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.3tphywfo/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:glibc --apt-upgrade r-bioc-rtracklayer --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-arm64-37.secgroup --name adt-plucky-arm64-r-bioc-rtracklayer-20250315-151014-juju-7f2275-prod-proposed-migration-environment-15-ba67cf07-520c-4e3e-93d5-4870de5f576c --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/ 139s autopkgtest [15:12:34]: testbed dpkg architecture: arm64 139s autopkgtest [15:12:34]: testbed apt version: 2.9.33 140s autopkgtest [15:12:35]: @@@@@@@@@@@@@@@@@@@@ test bed setup 140s autopkgtest [15:12:35]: testbed release detected to be: None 141s autopkgtest [15:12:36]: updating testbed package index (apt update) 141s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 142s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 142s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 142s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 142s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 142s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [101 kB] 142s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [404 kB] 142s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [78.2 kB] 142s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 c-n-f Metadata [1976 B] 142s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 c-n-f Metadata [116 B] 142s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [346 kB] 143s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 c-n-f Metadata [15.8 kB] 143s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [4948 B] 143s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 c-n-f Metadata [572 B] 143s Fetched 1094 kB in 1s (732 kB/s) 145s Reading package lists... 145s + lsb_release --codename --short 145s + RELEASE=plucky 145s + cat 145s + [ plucky != trusty ] 145s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 145s Reading package lists... 146s Building dependency tree... 146s Reading state information... 147s Calculating upgrade... 148s Calculating upgrade... 149s The following packages will be upgraded: 149s python3-jinja2 strace 149s 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 149s Need to get 608 kB of archives. 149s After this operation, 11.3 kB of additional disk space will be used. 149s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 strace arm64 6.13+ds-1ubuntu1 [499 kB] 150s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 151s Fetched 608 kB in 1s (595 kB/s) 151s (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 ... 117701 files and directories currently installed.) 151s Preparing to unpack .../strace_6.13+ds-1ubuntu1_arm64.deb ... 151s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 151s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 151s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 151s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 152s Setting up strace (6.13+ds-1ubuntu1) ... 152s Processing triggers for man-db (2.13.0-1) ... 153s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 153s + /usr/lib/apt/apt-helper analyze-pattern ?true 153s + uname -r 153s + sed s/\./\\./g 153s + running_kernel_pattern=^linux-.*6\.14\.0-10-generic.* 153s + apt list ?obsolete 153s + tail -n+2 153s + grep -v ^linux-.*6\.14\.0-10-generic.* 153s + cut -d/ -f1 153s + obsolete_pkgs=linux-headers-6.11.0-8-generic 153s linux-headers-6.11.0-8 153s linux-image-6.11.0-8-generic 153s linux-modules-6.11.0-8-generic 153s linux-tools-6.11.0-8-generic 153s linux-tools-6.11.0-8 153s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8Reading package lists... 153s Building dependency tree... linux-image-6.11.0-8-generic linux-modules-6.11.0-8-generic linux-tools-6.11.0-8-generic linux-tools-6.11.0-8 154s 154s Reading state information... 154s Solving dependencies... 155s The following packages will be REMOVED: 155s libnsl2* libpython3.12-minimal* libpython3.12-stdlib* libpython3.12t64* 155s libunwind8* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 155s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 155s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* 155s 0 upgraded, 0 newly installed, 11 to remove and 5 not upgraded. 155s After this operation, 267 MB disk space will be freed. 155s (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 ... 117701 files and directories currently installed.) 155s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 155s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 155s Removing libpython3.12t64:arm64 (3.12.9-1) ... 155s Removing libpython3.12-stdlib:arm64 (3.12.9-1) ... 156s Removing libnsl2:arm64 (1.3.0-3build3) ... 156s Removing libpython3.12-minimal:arm64 (3.12.9-1) ... 156s Removing libunwind8:arm64 (1.6.2-3.1) ... 156s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 156s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 158s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 159s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic 159s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic 159s /etc/kernel/postrm.d/initramfs-tools: 159s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 159s /etc/kernel/postrm.d/zz-flash-kernel: 159s flash-kernel: Kernel 6.11.0-8-generic has been removed. 159s flash-kernel: A higher version (6.14.0-10-generic) is still installed, no reflashing required. 159s /etc/kernel/postrm.d/zz-update-grub: 159s Sourcing file `/etc/default/grub' 159s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 159s Generating grub configuration file ... 160s Found linux image: /boot/vmlinuz-6.14.0-10-generic 160s Found initrd image: /boot/initrd.img-6.14.0-10-generic 160s Warning: os-prober will not be executed to detect other bootable partitions. 160s Systems on them will not be added to the GRUB boot configuration. 160s Check GRUB_DISABLE_OS_PROBER documentation entry. 160s Adding boot menu entry for UEFI Firmware Settings ... 160s done 160s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 161s Processing triggers for libc-bin (2.41-1ubuntu1) ... 161s (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 ... 81650 files and directories currently installed.) 161s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 161s Purging configuration files for libpython3.12-minimal:arm64 (3.12.9-1) ... 161s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 161s + grep -q trusty /etc/lsb-release 161s + [ ! -d /usr/share/doc/unattended-upgrades ] 161s + [ ! -d /usr/share/doc/lxd ] 161s + [ ! -d /usr/share/doc/lxd-client ] 161s + [ ! -d /usr/share/doc/snapd ] 161s + type iptables 161s + cat 161s + chmod 755 /etc/rc.local 161s + . /etc/rc.local 161s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 161s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 161s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 161s + uname -m 161s + [ aarch64 = ppc64le ] 161s + [ -d /run/systemd/system ] 161s + systemd-detect-virt --quiet --vm 161s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 161s + cat 161s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 161s + echo COMPRESS=lz4 161s autopkgtest [15:12:56]: upgrading testbed (apt dist-upgrade and autopurge) 162s Reading package lists... 163s Building dependency tree... 163s Reading state information... 164s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 164s Starting 2 pkgProblemResolver with broken count: 0 164s Done 165s Entering ResolveByKeep 166s 166s Calculating upgrade... 167s The following packages will be upgraded: 167s libc-bin libc-dev-bin libc6 libc6-dev locales 167s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 167s Need to get 9530 kB of archives. 167s After this operation, 0 B of additional disk space will be used. 167s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6-dev arm64 2.41-1ubuntu2 [1750 kB] 169s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-dev-bin arm64 2.41-1ubuntu2 [24.0 kB] 169s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc6 arm64 2.41-1ubuntu2 [2910 kB] 172s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libc-bin arm64 2.41-1ubuntu2 [600 kB] 172s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 locales all 2.41-1ubuntu2 [4246 kB] 176s Preconfiguring packages ... 176s Fetched 9530 kB in 8s (1159 kB/s) 176s (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 ... 81647 files and directories currently installed.) 176s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_arm64.deb ... 176s Unpacking libc6-dev:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 177s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_arm64.deb ... 177s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 177s Preparing to unpack .../libc6_2.41-1ubuntu2_arm64.deb ... 177s Unpacking libc6:arm64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 177s Setting up libc6:arm64 (2.41-1ubuntu2) ... 178s (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 ... 81647 files and directories currently installed.) 178s Preparing to unpack .../libc-bin_2.41-1ubuntu2_arm64.deb ... 178s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 178s Setting up libc-bin (2.41-1ubuntu2) ... 178s (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 ... 81647 files and directories currently installed.) 178s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 178s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 178s Setting up locales (2.41-1ubuntu2) ... 180s Generating locales (this might take a while)... 186s en_US.UTF-8... done 186s Generation complete. 186s Setting up libc-dev-bin (2.41-1ubuntu2) ... 186s Setting up libc6-dev:arm64 (2.41-1ubuntu2) ... 186s Processing triggers for man-db (2.13.0-1) ... 187s Processing triggers for systemd (257.3-1ubuntu3) ... 188s Reading package lists... 189s Building dependency tree... 189s Reading state information... 190s Starting pkgProblemResolver with broken count: 0 190s Starting 2 pkgProblemResolver with broken count: 0 190s Done 191s Solving dependencies... 192s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 192s autopkgtest [15:13:27]: rebooting testbed after setup commands that affected boot 214s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 222s autopkgtest [15:13:57]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 15:45:31 UTC 2025 684s autopkgtest [15:21:39]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-rtracklayer 702s Get:1 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-rtracklayer 1.66.0-2 (dsc) [2459 B] 703s Get:2 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-rtracklayer 1.66.0-2 (tar) [4113 kB] 703s Get:3 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-rtracklayer 1.66.0-2 (diff) [27.5 kB] 703s gpgv: Signature made Mon Jan 13 14:23:45 2025 UTC 703s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 703s gpgv: issuer "crusoe@debian.org" 703s gpgv: Can't check signature: No public key 703s dpkg-source: warning: cannot verify inline signature for ./r-bioc-rtracklayer_1.66.0-2.dsc: no acceptable signature found 703s autopkgtest [15:21:58]: testing package r-bioc-rtracklayer version 1.66.0-2 796s autopkgtest [15:23:31]: build not needed 812s autopkgtest [15:23:47]: test pkg-r-autopkgtest: preparing testbed 813s Reading package lists... 813s Building dependency tree... 813s Reading state information... 814s Starting pkgProblemResolver with broken count: 0 814s Starting 2 pkgProblemResolver with broken count: 0 814s Done 815s The following NEW packages will be installed: 815s build-essential cpp cpp-14 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu 815s dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 815s g++ g++-14 g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14 815s gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu gfortran gfortran-14 815s gfortran-14-aarch64-linux-gnu gfortran-aarch64-linux-gnu icu-devtools 815s libasan8 libblas-dev libblas3 libboost-dev libboost1.83-dev libbz2-dev 815s libcairo2 libcc1-0 libdatrie1 libdeflate-dev libdeflate0 libfontconfig1 815s libgcc-14-dev libgfortran-14-dev libgfortran5 libgomp1 libgraphite2-3 815s libharfbuzz0b libhwasan0 libice6 libicu-dev libisl23 libitm1 libjbig0 815s libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev 815s liblapack-dev liblapack3 liblerc4 liblsan0 liblzma-dev libmpc3 815s libncurses-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 815s libpaper-utils libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev 815s libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev libreadline-dev 815s libsharpyuv0 libsm6 libstdc++-14-dev libtcl8.6 libthai-data libthai0 815s libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7 libxcb-render0 815s libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64 pkg-r-autopkgtest pkgconf 815s pkgconf-bin r-base-core r-base-dev r-bioc-annotate r-bioc-annotationdbi 815s r-bioc-biobase r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel 815s r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-genefilter 815s r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments 815s r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest 815s r-bioc-limma r-bioc-matrixgenerics r-bioc-org.hs.eg.db r-bioc-rhtslib 815s r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors 815s r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-ucsc.utils 815s r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-bh 815s r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-cachem r-cran-cli 815s r-cran-codetools r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-dbi 815s r-cran-fastmap r-cran-formatr r-cran-futile.logger r-cran-futile.options 815s r-cran-glue r-cran-httr r-cran-jsonlite r-cran-lambda.r r-cran-lattice 815s r-cran-lifecycle r-cran-matrix r-cran-matrixstats r-cran-memoise r-cran-mime 815s r-cran-openssl r-cran-pkgconfig r-cran-plogr r-cran-png r-cran-r6 815s r-cran-rcurl r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rsqlite 815s r-cran-runit r-cran-snow r-cran-statmod r-cran-survival r-cran-sys 815s r-cran-vctrs r-cran-xml r-cran-xtable r-cran-yaml unzip x11-common xdg-utils 815s zip zlib1g-dev 815s 0 upgraded, 177 newly installed, 0 to remove and 0 not upgraded. 815s Need to get 312 MB of archives. 815s After this operation, 1121 MB of additional disk space will be used. 815s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 libisl23 arm64 0.27-1 [676 kB] 816s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libmpc3 arm64 1.3.1-1build2 [56.8 kB] 816s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [10.6 MB] 823s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-14 arm64 14.2.0-17ubuntu3 [1028 B] 823s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [5558 B] 823s Get:6 http://ftpmaster.internal/ubuntu plucky/main arm64 cpp arm64 4:14.2.0-1ubuntu1 [22.4 kB] 823s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 libcc1-0 arm64 15-20250222-0ubuntu1 [44.2 kB] 823s Get:8 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 15-20250222-0ubuntu1 [146 kB] 823s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 libitm1 arm64 15-20250222-0ubuntu1 [28.0 kB] 823s Get:10 http://ftpmaster.internal/ubuntu plucky/main arm64 libasan8 arm64 15-20250222-0ubuntu1 [2924 kB] 824s Get:11 http://ftpmaster.internal/ubuntu plucky/main arm64 liblsan0 arm64 15-20250222-0ubuntu1 [1319 kB] 825s Get:12 http://ftpmaster.internal/ubuntu plucky/main arm64 libtsan2 arm64 15-20250222-0ubuntu1 [2694 kB] 826s Get:13 http://ftpmaster.internal/ubuntu plucky/main arm64 libubsan1 arm64 15-20250222-0ubuntu1 [1178 kB] 827s Get:14 http://ftpmaster.internal/ubuntu plucky/main arm64 libhwasan0 arm64 15-20250222-0ubuntu1 [1642 kB] 828s Get:15 http://ftpmaster.internal/ubuntu plucky/main arm64 libgcc-14-dev arm64 14.2.0-17ubuntu3 [2593 kB] 829s Get:16 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [20.9 MB] 839s Get:17 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-14 arm64 14.2.0-17ubuntu3 [526 kB] 839s Get:18 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [1200 B] 839s Get:19 http://ftpmaster.internal/ubuntu plucky/main arm64 gcc arm64 4:14.2.0-1ubuntu1 [4998 B] 839s Get:20 http://ftpmaster.internal/ubuntu plucky/main arm64 libstdc++-14-dev arm64 14.2.0-17ubuntu3 [2499 kB] 841s Get:21 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [12.1 MB] 847s Get:22 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-14 arm64 14.2.0-17ubuntu3 [21.8 kB] 847s Get:23 http://ftpmaster.internal/ubuntu plucky/main arm64 g++-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [956 B] 847s Get:24 http://ftpmaster.internal/ubuntu plucky/main arm64 g++ arm64 4:14.2.0-1ubuntu1 [1080 B] 847s Get:25 http://ftpmaster.internal/ubuntu plucky/main arm64 build-essential arm64 12.10ubuntu1 [4932 B] 847s Get:26 http://ftpmaster.internal/ubuntu plucky/main arm64 dctrl-tools arm64 2.24-3build3 [103 kB] 847s Get:27 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB] 847s Get:28 http://ftpmaster.internal/ubuntu plucky/main arm64 fonts-dejavu-core all 2.37-8 [835 kB] 848s Get:29 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig-config arm64 2.15.0-2ubuntu1 [37.5 kB] 848s Get:30 http://ftpmaster.internal/ubuntu plucky/main arm64 libfontconfig1 arm64 2.15.0-2ubuntu1 [144 kB] 848s Get:31 http://ftpmaster.internal/ubuntu plucky/main arm64 fontconfig arm64 2.15.0-2ubuntu1 [191 kB] 848s Get:32 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 15-20250222-0ubuntu1 [444 kB] 848s Get:33 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran-14-dev arm64 14.2.0-17ubuntu3 [498 kB] 849s Get:34 http://ftpmaster.internal/ubuntu plucky/main arm64 gfortran-14-aarch64-linux-gnu arm64 14.2.0-17ubuntu3 [11.4 MB] 855s Get:35 http://ftpmaster.internal/ubuntu plucky/main arm64 gfortran-14 arm64 14.2.0-17ubuntu3 [13.6 kB] 855s Get:36 http://ftpmaster.internal/ubuntu plucky/main arm64 gfortran-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [1022 B] 855s Get:37 http://ftpmaster.internal/ubuntu plucky/main arm64 gfortran arm64 4:14.2.0-1ubuntu1 [1166 B] 855s Get:38 http://ftpmaster.internal/ubuntu plucky/main arm64 icu-devtools arm64 76.1-1ubuntu2 [213 kB] 855s Get:39 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.1-2 [161 kB] 855s Get:40 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas-dev arm64 3.12.1-2 [126 kB] 855s Get:41 http://ftpmaster.internal/ubuntu plucky/main arm64 libboost1.83-dev arm64 1.83.0-4.1ubuntu2 [10.7 MB] 862s Get:42 http://ftpmaster.internal/ubuntu plucky/main arm64 libboost-dev arm64 1.83.0.2ubuntu1 [4468 B] 862s Get:43 http://ftpmaster.internal/ubuntu plucky/main arm64 libbz2-dev arm64 1.0.8-6 [36.1 kB] 862s Get:44 http://ftpmaster.internal/ubuntu plucky/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB] 862s Get:45 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB] 862s Get:46 http://ftpmaster.internal/ubuntu plucky/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B] 862s Get:47 http://ftpmaster.internal/ubuntu plucky/main arm64 libxrender1 arm64 1:0.9.10-1.1build1 [18.8 kB] 862s Get:48 http://ftpmaster.internal/ubuntu plucky/main arm64 libcairo2 arm64 1.18.2-2 [560 kB] 863s Get:49 http://ftpmaster.internal/ubuntu plucky/main arm64 libdatrie1 arm64 0.2.13-3build1 [19.2 kB] 863s Get:50 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate0 arm64 1.23-1 [46.2 kB] 863s Get:51 http://ftpmaster.internal/ubuntu plucky/main arm64 libdeflate-dev arm64 1.23-1 [53.7 kB] 863s Get:52 http://ftpmaster.internal/ubuntu plucky/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB] 863s Get:53 http://ftpmaster.internal/ubuntu plucky/main arm64 libharfbuzz0b arm64 10.2.0-1 [490 kB] 863s Get:54 http://ftpmaster.internal/ubuntu plucky/main arm64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 863s Get:55 http://ftpmaster.internal/ubuntu plucky/main arm64 libice6 arm64 2:1.1.1-1 [42.3 kB] 863s Get:56 http://ftpmaster.internal/ubuntu plucky/main arm64 libicu-dev arm64 76.1-1ubuntu2 [12.2 MB] 871s Get:57 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8 arm64 2.1.5-3ubuntu2 [165 kB] 871s Get:58 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-turbo8-dev arm64 2.1.5-3ubuntu2 [306 kB] 872s Get:59 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B] 872s Get:60 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg8-dev arm64 8c-2ubuntu11 [1484 B] 872s Get:61 http://ftpmaster.internal/ubuntu plucky/main arm64 libjpeg-dev arm64 8c-2ubuntu11 [1482 B] 872s Get:62 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.1-2 [2307 kB] 873s Get:63 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack-dev arm64 3.12.1-2 [4439 kB] 877s Get:64 http://ftpmaster.internal/ubuntu plucky/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB] 878s Get:65 http://ftpmaster.internal/ubuntu plucky/main arm64 libncurses-dev arm64 6.5+20250216-2 [389 kB] 878s Get:66 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai-data all 0.1.29-2build1 [158 kB] 878s Get:67 http://ftpmaster.internal/ubuntu plucky/main arm64 libthai0 arm64 0.1.29-2build1 [18.2 kB] 879s Get:68 http://ftpmaster.internal/ubuntu plucky/main arm64 libpango-1.0-0 arm64 1.56.2-1 [237 kB] 879s Get:69 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangoft2-1.0-0 arm64 1.56.2-1 [49.5 kB] 879s Get:70 http://ftpmaster.internal/ubuntu plucky/main arm64 libpangocairo-1.0-0 arm64 1.56.2-1 [27.6 kB] 879s Get:71 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper2 arm64 2.2.5-0.3 [17.3 kB] 879s Get:72 http://ftpmaster.internal/ubuntu plucky/main arm64 libpaper-utils arm64 2.2.5-0.3 [15.4 kB] 879s Get:73 http://ftpmaster.internal/ubuntu plucky/main arm64 libpcre2-16-0 arm64 10.45-1 [222 kB] 880s Get:74 http://ftpmaster.internal/ubuntu plucky/main arm64 libpcre2-32-0 arm64 10.45-1 [210 kB] 880s Get:75 http://ftpmaster.internal/ubuntu plucky/main arm64 libpcre2-posix3 arm64 10.45-1 [7084 B] 880s Get:76 http://ftpmaster.internal/ubuntu plucky/main arm64 libpcre2-dev arm64 10.45-1 [768 kB] 881s Get:77 http://ftpmaster.internal/ubuntu plucky/main arm64 libpkgconf3 arm64 1.8.1-4 [31.4 kB] 881s Get:78 http://ftpmaster.internal/ubuntu plucky/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1ubuntu1 [894 kB] 882s Get:79 http://ftpmaster.internal/ubuntu plucky/main arm64 libpng-dev arm64 1.6.47-1 [269 kB] 882s Get:80 http://ftpmaster.internal/ubuntu plucky/main arm64 libreadline-dev arm64 8.2-6 [179 kB] 883s Get:81 http://ftpmaster.internal/ubuntu plucky/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [16.9 kB] 883s Get:82 http://ftpmaster.internal/ubuntu plucky/main arm64 libsm6 arm64 2:1.2.4-1 [16.4 kB] 883s Get:83 http://ftpmaster.internal/ubuntu plucky/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [987 kB] 884s Get:84 http://ftpmaster.internal/ubuntu plucky/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB] 884s Get:85 http://ftpmaster.internal/ubuntu plucky/main arm64 libwebp7 arm64 1.5.0-0.1 [194 kB] 884s Get:86 http://ftpmaster.internal/ubuntu plucky/main arm64 libtiff6 arm64 4.5.1+git230720-4ubuntu4 [193 kB] 884s Get:87 http://ftpmaster.internal/ubuntu plucky/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB] 885s Get:88 http://ftpmaster.internal/ubuntu plucky/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B] 885s Get:89 http://ftpmaster.internal/ubuntu plucky/main arm64 libtk8.6 arm64 8.6.16-1 [776 kB] 885s Get:90 http://ftpmaster.internal/ubuntu plucky/main arm64 libxt6t64 arm64 1:1.2.1-1.2build1 [168 kB] 886s Get:91 http://ftpmaster.internal/ubuntu plucky/main arm64 zip arm64 3.0-14ubuntu2 [173 kB] 886s Get:92 http://ftpmaster.internal/ubuntu plucky/main arm64 unzip arm64 6.0-28ubuntu6 [178 kB] 886s Get:93 http://ftpmaster.internal/ubuntu plucky/main arm64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 886s Get:94 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-base-core arm64 4.4.3-1 [28.4 MB] 914s Get:95 http://ftpmaster.internal/ubuntu plucky/main arm64 liblzma-dev arm64 5.6.4-1 [180 kB] 914s Get:96 http://ftpmaster.internal/ubuntu plucky/main arm64 pkgconf-bin arm64 1.8.1-4 [20.9 kB] 914s Get:97 http://ftpmaster.internal/ubuntu plucky/main arm64 pkgconf arm64 1.8.1-4 [16.7 kB] 914s Get:98 http://ftpmaster.internal/ubuntu plucky/main arm64 libtirpc-dev arm64 1.3.4+ds-1.3 [201 kB] 915s Get:99 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-base-dev all 4.4.3-1 [4176 B] 915s Get:100 http://ftpmaster.internal/ubuntu plucky/universe arm64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B] 915s Get:101 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-biocgenerics all 0.52.0-2 [624 kB] 915s Get:102 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-biobase arm64 2.66.0-2 [2331 kB] 918s Get:103 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-s4vectors arm64 0.44.0+dfsg-2 [2054 kB] 920s Get:104 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-iranges arm64 2.40.1-2 [2303 kB] 922s Get:105 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-dbi all 1.2.3-1 [853 kB] 923s Get:106 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-bit arm64 4.6.0+dfsg-1 [450 kB] 923s Get:107 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-bit64 arm64 4.6.0-1-1ubuntu2 [497 kB] 923s Get:108 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rlang arm64 1.1.5-1 [1707 kB] 925s Get:109 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-cli arm64 3.6.4-1 [1374 kB] 926s Get:110 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-glue arm64 1.8.0-1 [163 kB] 926s Get:111 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 927s Get:112 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-vctrs arm64 0.6.5-1 [1327 kB] 928s Get:113 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-blob all 1.2.4-1 [49.8 kB] 928s Get:114 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-fastmap arm64 1.2.0-1 [70.6 kB] 928s Get:115 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-cachem arm64 1.1.0-1 [74.1 kB] 929s Get:116 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-memoise all 2.0.1-1 [53.9 kB] 929s Get:117 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 929s Get:118 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-plogr all 0.2.0-3build1 [15.1 kB] 929s Get:119 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-cpp11 all 0.5.2-1 [233 kB] 929s Get:120 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rsqlite arm64 2.3.9-1 [1247 kB] 931s Get:121 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-curl arm64 6.2.1+dfsg-1ubuntu1 [196 kB] 931s Get:122 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-jsonlite arm64 1.9.1+dfsg-1 [445 kB] 931s Get:123 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-mime arm64 0.12-2 [35.8 kB] 931s Get:124 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-sys arm64 3.4.3-1 [45.2 kB] 931s Get:125 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-askpass arm64 1.2.1-1 [24.8 kB] 932s Get:126 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-openssl arm64 2.3.2+dfsg-1 [406 kB] 932s Get:127 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-r6 all 2.6.1-1 [101 kB] 932s Get:128 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] 933s Get:129 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-png arm64 0.1-8-1build2 [40.1 kB] 933s Get:130 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB] 933s Get:131 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-xvector arm64 0.46.0-2 [618 kB] 934s Get:132 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB] 934s Get:133 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB] 947s Get:134 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB] 952s Get:135 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-crayon all 1.5.3-1 [165 kB] 952s Get:136 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-biostrings arm64 2.74.1+dfsg-2 [13.3 MB] 967s Get:137 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-keggrest all 1.46.0+dfsg-2 [183 kB] 967s Get:138 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-annotationdbi all 1.68.0-2 [4857 kB] 972s Get:139 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-xml arm64 3.99-0.18-1 [1745 kB] 974s Get:140 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-xtable all 1:1.8-4-2 [689 kB] 975s Get:141 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-annotate all 1.84.0+dfsg-2 [1870 kB] 977s Get:142 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-biocio all 1.16.0+dfsg-2 [209 kB] 977s Get:143 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-formatr all 1.14-2 [152 kB] 978s Get:144 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-lambda.r all 1.2.4-2build1 [119 kB] 978s Get:145 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-futile.options all 1.0.1-3build1 [20.2 kB] 978s Get:146 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-futile.logger all 1.4.3-4build1 [99.3 kB] 978s Get:147 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-snow all 1:0.4.4-2 [97.6 kB] 978s Get:148 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-codetools all 0.2-20-1 [90.5 kB] 979s Get:149 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-bh all 1.84.0-1 [5962 B] 979s Get:150 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-biocparallel arm64 1.40.0-2 [1333 kB] 980s Get:151 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-genomicranges arm64 1.58.0+dfsg-2 [2083 kB] 982s Get:152 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-bitops arm64 1.0-9-1 [30.2 kB] 982s Get:153 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-rhtslib arm64 3.2.0+dfsg-2 [1429 kB] 983s Get:154 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-rsamtools arm64 2.22.0+dfsg-2 [3668 kB] 986s Get:155 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-matrixstats arm64 1.5.0-1 [496 kB] 987s Get:156 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-matrixgenerics all 1.18.1-1 [450 kB] 988s Get:157 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-lattice arm64 0.22-6-1 [1363 kB] 989s Get:158 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-matrix arm64 1.7-3-1 [4045 kB] 992s Get:159 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-abind all 1.4-8-1 [66.9 kB] 993s Get:160 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-s4arrays arm64 1.6.0+dfsg-2 [698 kB] 993s Get:161 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-sparsearray arm64 1.6.2+dfsg-1 [1369 kB] 994s Get:162 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-delayedarray arm64 0.32.0+dfsg-2 [2064 kB] 996s Get:163 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1109 kB] 997s Get:164 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-genomicalignments arm64 1.42.0-2 [2164 kB] 999s Get:165 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rcurl arm64 1.98-1.16+dfsg-1 [806 kB] 1000s Get:166 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-rjson arm64 0.2.23-1 [104 kB] 1000s Get:167 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-yaml arm64 2.3.10-1 [108 kB] 1000s Get:168 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-restfulr arm64 0.0.15-1 [380 kB] 1001s Get:169 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-rtracklayer arm64 1.66.0-2 [5218 kB] 1005s Get:170 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-bsgenome all 1.74.0-2 [7001 kB] 1010s Get:171 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-survival arm64 3.8-3-1 [8213 kB] 1015s Get:172 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-genefilter arm64 1.88.0-2 [1241 kB] 1016s Get:173 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-genomicfeatures all 1.58.0+dfsg-2 [937 kB] 1017s Get:174 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-statmod arm64 1.5.0-1 [294 kB] 1017s Get:175 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-limma arm64 3.62.2+dfsg-1 [1968 kB] 1019s Get:176 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-bioc-org.hs.eg.db all 3.20.0-3 [63.1 MB] 1064s Get:177 http://ftpmaster.internal/ubuntu plucky/universe arm64 r-cran-runit all 0.4.33-1 [377 kB] 1065s Preconfiguring packages ... 1066s Fetched 312 MB in 4min 10s (1251 kB/s) 1066s Selecting previously unselected package libisl23:arm64. 1066s (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 ... 81647 files and directories currently installed.) 1066s Preparing to unpack .../000-libisl23_0.27-1_arm64.deb ... 1066s Unpacking libisl23:arm64 (0.27-1) ... 1066s Selecting previously unselected package libmpc3:arm64. 1066s Preparing to unpack .../001-libmpc3_1.3.1-1build2_arm64.deb ... 1066s Unpacking libmpc3:arm64 (1.3.1-1build2) ... 1066s Selecting previously unselected package cpp-14-aarch64-linux-gnu. 1066s Preparing to unpack .../002-cpp-14-aarch64-linux-gnu_14.2.0-17ubuntu3_arm64.deb ... 1066s Unpacking cpp-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 1066s Selecting previously unselected package cpp-14. 1066s Preparing to unpack .../003-cpp-14_14.2.0-17ubuntu3_arm64.deb ... 1066s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 1066s Selecting previously unselected package cpp-aarch64-linux-gnu. 1066s Preparing to unpack .../004-cpp-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ... 1066s Unpacking cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 1066s Selecting previously unselected package cpp. 1066s Preparing to unpack .../005-cpp_4%3a14.2.0-1ubuntu1_arm64.deb ... 1066s Unpacking cpp (4:14.2.0-1ubuntu1) ... 1066s Selecting previously unselected package libcc1-0:arm64. 1067s Preparing to unpack .../006-libcc1-0_15-20250222-0ubuntu1_arm64.deb ... 1067s Unpacking libcc1-0:arm64 (15-20250222-0ubuntu1) ... 1067s Selecting previously unselected package libgomp1:arm64. 1067s Preparing to unpack .../007-libgomp1_15-20250222-0ubuntu1_arm64.deb ... 1067s Unpacking libgomp1:arm64 (15-20250222-0ubuntu1) ... 1067s Selecting previously unselected package libitm1:arm64. 1067s Preparing to unpack .../008-libitm1_15-20250222-0ubuntu1_arm64.deb ... 1067s Unpacking libitm1:arm64 (15-20250222-0ubuntu1) ... 1067s Selecting previously unselected package libasan8:arm64. 1067s Preparing to unpack .../009-libasan8_15-20250222-0ubuntu1_arm64.deb ... 1067s Unpacking libasan8:arm64 (15-20250222-0ubuntu1) ... 1067s Selecting previously unselected package liblsan0:arm64. 1067s Preparing to unpack .../010-liblsan0_15-20250222-0ubuntu1_arm64.deb ... 1067s Unpacking liblsan0:arm64 (15-20250222-0ubuntu1) ... 1067s Selecting previously unselected package libtsan2:arm64. 1067s Preparing to unpack .../011-libtsan2_15-20250222-0ubuntu1_arm64.deb ... 1067s Unpacking libtsan2:arm64 (15-20250222-0ubuntu1) ... 1067s Selecting previously unselected package libubsan1:arm64. 1067s Preparing to unpack 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.../032-libgfortran-14-dev_14.2.0-17ubuntu3_arm64.deb ... 1069s Unpacking libgfortran-14-dev:arm64 (14.2.0-17ubuntu3) ... 1069s Selecting previously unselected package gfortran-14-aarch64-linux-gnu. 1069s Preparing to unpack .../033-gfortran-14-aarch64-linux-gnu_14.2.0-17ubuntu3_arm64.deb ... 1069s Unpacking gfortran-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 1069s Selecting previously unselected package gfortran-14. 1069s Preparing to unpack .../034-gfortran-14_14.2.0-17ubuntu3_arm64.deb ... 1069s Unpacking gfortran-14 (14.2.0-17ubuntu3) ... 1069s Selecting previously unselected package gfortran-aarch64-linux-gnu. 1070s Preparing to unpack .../035-gfortran-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ... 1070s Unpacking gfortran-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 1070s Selecting previously unselected package gfortran. 1070s Preparing to unpack .../036-gfortran_4%3a14.2.0-1ubuntu1_arm64.deb ... 1070s Unpacking gfortran (4:14.2.0-1ubuntu1) ... 1070s Selecting previously unselected package icu-devtools. 1070s Preparing to unpack .../037-icu-devtools_76.1-1ubuntu2_arm64.deb ... 1070s Unpacking icu-devtools (76.1-1ubuntu2) ... 1070s Selecting previously unselected package libblas3:arm64. 1070s Preparing to unpack .../038-libblas3_3.12.1-2_arm64.deb ... 1070s Unpacking libblas3:arm64 (3.12.1-2) ... 1070s Selecting previously unselected package libblas-dev:arm64. 1070s Preparing to unpack .../039-libblas-dev_3.12.1-2_arm64.deb ... 1070s Unpacking libblas-dev:arm64 (3.12.1-2) ... 1070s Selecting previously unselected package libboost1.83-dev:arm64. 1070s Preparing to unpack .../040-libboost1.83-dev_1.83.0-4.1ubuntu2_arm64.deb ... 1070s Unpacking libboost1.83-dev:arm64 (1.83.0-4.1ubuntu2) ... 1072s Selecting previously unselected package libboost-dev:arm64. 1072s Preparing to unpack .../041-libboost-dev_1.83.0.2ubuntu1_arm64.deb ... 1072s Unpacking libboost-dev:arm64 (1.83.0.2ubuntu1) ... 1072s Selecting previously unselected package libbz2-dev:arm64. 1072s Preparing to unpack .../042-libbz2-dev_1.0.8-6_arm64.deb ... 1072s Unpacking libbz2-dev:arm64 (1.0.8-6) ... 1072s Selecting previously unselected package libpixman-1-0:arm64. 1072s Preparing to unpack .../043-libpixman-1-0_0.44.0-3_arm64.deb ... 1072s Unpacking libpixman-1-0:arm64 (0.44.0-3) ... 1072s Selecting previously unselected package libxcb-render0:arm64. 1072s Preparing to unpack .../044-libxcb-render0_1.17.0-2_arm64.deb ... 1072s Unpacking libxcb-render0:arm64 (1.17.0-2) ... 1072s Selecting previously unselected package libxcb-shm0:arm64. 1072s Preparing to unpack .../045-libxcb-shm0_1.17.0-2_arm64.deb ... 1072s Unpacking libxcb-shm0:arm64 (1.17.0-2) ... 1072s Selecting previously unselected package libxrender1:arm64. 1072s Preparing to unpack .../046-libxrender1_1%3a0.9.10-1.1build1_arm64.deb ... 1072s Unpacking libxrender1:arm64 (1:0.9.10-1.1build1) ... 1072s Selecting previously unselected package libcairo2:arm64. 1072s Preparing to unpack .../047-libcairo2_1.18.2-2_arm64.deb ... 1072s Unpacking libcairo2:arm64 (1.18.2-2) ... 1072s Selecting previously unselected package libdatrie1:arm64. 1072s Preparing to unpack .../048-libdatrie1_0.2.13-3build1_arm64.deb ... 1072s Unpacking libdatrie1:arm64 (0.2.13-3build1) ... 1072s Selecting previously unselected package libdeflate0:arm64. 1072s Preparing to unpack .../049-libdeflate0_1.23-1_arm64.deb ... 1072s Unpacking libdeflate0:arm64 (1.23-1) ... 1072s Selecting previously unselected package libdeflate-dev:arm64. 1072s Preparing to unpack .../050-libdeflate-dev_1.23-1_arm64.deb ... 1072s Unpacking libdeflate-dev:arm64 (1.23-1) ... 1072s Selecting previously unselected package libgraphite2-3:arm64. 1072s Preparing to unpack .../051-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ... 1072s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ... 1072s Selecting previously unselected package libharfbuzz0b:arm64. 1072s Preparing to unpack .../052-libharfbuzz0b_10.2.0-1_arm64.deb ... 1072s Unpacking libharfbuzz0b:arm64 (10.2.0-1) ... 1072s Selecting previously unselected package x11-common. 1072s Preparing to unpack .../053-x11-common_1%3a7.7+23ubuntu3_all.deb ... 1072s Unpacking x11-common (1:7.7+23ubuntu3) ... 1072s Selecting previously unselected package libice6:arm64. 1072s Preparing to unpack .../054-libice6_2%3a1.1.1-1_arm64.deb ... 1072s Unpacking libice6:arm64 (2:1.1.1-1) ... 1072s Selecting previously unselected package libicu-dev:arm64. 1072s Preparing to unpack .../055-libicu-dev_76.1-1ubuntu2_arm64.deb ... 1072s Unpacking libicu-dev:arm64 (76.1-1ubuntu2) ... 1073s Selecting previously unselected package libjpeg-turbo8:arm64. 1073s Preparing to unpack .../056-libjpeg-turbo8_2.1.5-3ubuntu2_arm64.deb ... 1073s Unpacking libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ... 1073s Selecting previously unselected package libjpeg-turbo8-dev:arm64. 1073s Preparing to unpack .../057-libjpeg-turbo8-dev_2.1.5-3ubuntu2_arm64.deb ... 1073s Unpacking libjpeg-turbo8-dev:arm64 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package liblerc4:arm64. 1073s Preparing to unpack .../063-liblerc4_4.0.0+ds-5ubuntu1_arm64.deb ... 1073s Unpacking liblerc4:arm64 (4.0.0+ds-5ubuntu1) ... 1073s Selecting previously unselected package libncurses-dev:arm64. 1073s Preparing to unpack .../064-libncurses-dev_6.5+20250216-2_arm64.deb ... 1073s Unpacking libncurses-dev:arm64 (6.5+20250216-2) ... 1073s Selecting previously unselected package libthai-data. 1073s Preparing to unpack .../065-libthai-data_0.1.29-2build1_all.deb ... 1073s Unpacking libthai-data (0.1.29-2build1) ... 1073s Selecting previously unselected package libthai0:arm64. 1073s Preparing to unpack .../066-libthai0_0.1.29-2build1_arm64.deb ... 1073s Unpacking libthai0:arm64 (0.1.29-2build1) ... 1073s Selecting previously unselected package libpango-1.0-0:arm64. 1073s Preparing to unpack .../067-libpango-1.0-0_1.56.2-1_arm64.deb ... 1073s Unpacking libpango-1.0-0:arm64 (1.56.2-1) ... 1074s Selecting previously unselected package libpangoft2-1.0-0:arm64. 1074s Preparing to unpack .../068-libpangoft2-1.0-0_1.56.2-1_arm64.deb ... 1074s Unpacking libpangoft2-1.0-0:arm64 (1.56.2-1) ... 1074s Selecting previously unselected package libpangocairo-1.0-0:arm64. 1074s Preparing to unpack .../069-libpangocairo-1.0-0_1.56.2-1_arm64.deb ... 1074s Unpacking libpangocairo-1.0-0:arm64 (1.56.2-1) ... 1074s Selecting previously unselected package libpaper2:arm64. 1074s Preparing to unpack .../070-libpaper2_2.2.5-0.3_arm64.deb ... 1074s Unpacking libpaper2:arm64 (2.2.5-0.3) ... 1074s Selecting previously unselected package libpaper-utils. 1074s Preparing to unpack .../071-libpaper-utils_2.2.5-0.3_arm64.deb ... 1074s Unpacking libpaper-utils (2.2.5-0.3) ... 1074s Selecting previously unselected package libpcre2-16-0:arm64. 1074s Preparing to unpack .../072-libpcre2-16-0_10.45-1_arm64.deb ... 1074s Unpacking libpcre2-16-0:arm64 (10.45-1) ... 1074s Selecting previously unselected package libpcre2-32-0:arm64. 1074s Preparing to unpack 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(2.1-6.1ubuntu2) ... 1074s Selecting previously unselected package libwebp7:arm64. 1074s Preparing to unpack .../084-libwebp7_1.5.0-0.1_arm64.deb ... 1074s Unpacking libwebp7:arm64 (1.5.0-0.1) ... 1074s Selecting previously unselected package libtiff6:arm64. 1074s Preparing to unpack .../085-libtiff6_4.5.1+git230720-4ubuntu4_arm64.deb ... 1074s Unpacking libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 1075s Selecting previously unselected package libxft2:arm64. 1075s Preparing to unpack .../086-libxft2_2.3.6-1build1_arm64.deb ... 1075s Unpacking libxft2:arm64 (2.3.6-1build1) ... 1075s Selecting previously unselected package libxss1:arm64. 1075s Preparing to unpack .../087-libxss1_1%3a1.2.3-1build3_arm64.deb ... 1075s Unpacking libxss1:arm64 (1:1.2.3-1build3) ... 1075s Selecting previously unselected package libtk8.6:arm64. 1075s Preparing to unpack .../088-libtk8.6_8.6.16-1_arm64.deb ... 1075s Unpacking libtk8.6:arm64 (8.6.16-1) ... 1075s Selecting previously unselected package libxt6t64:arm64. 1075s Preparing to unpack .../089-libxt6t64_1%3a1.2.1-1.2build1_arm64.deb ... 1075s Unpacking libxt6t64:arm64 (1:1.2.1-1.2build1) ... 1075s Selecting previously unselected package zip. 1075s Preparing to unpack .../090-zip_3.0-14ubuntu2_arm64.deb ... 1075s Unpacking zip (3.0-14ubuntu2) ... 1075s Selecting previously unselected package unzip. 1075s Preparing to unpack .../091-unzip_6.0-28ubuntu6_arm64.deb ... 1075s Unpacking unzip (6.0-28ubuntu6) ... 1075s Selecting previously unselected package xdg-utils. 1075s Preparing to unpack .../092-xdg-utils_1.2.1-2ubuntu1_all.deb ... 1075s Unpacking xdg-utils (1.2.1-2ubuntu1) ... 1075s Selecting previously unselected package r-base-core. 1075s Preparing to unpack .../093-r-base-core_4.4.3-1_arm64.deb ... 1075s Unpacking r-base-core (4.4.3-1) ... 1075s Selecting previously unselected package liblzma-dev:arm64. 1075s Preparing to unpack .../094-liblzma-dev_5.6.4-1_arm64.deb ... 1075s Unpacking liblzma-dev:arm64 (5.6.4-1) ... 1075s Selecting previously unselected package pkgconf-bin. 1076s Preparing to unpack .../095-pkgconf-bin_1.8.1-4_arm64.deb ... 1076s Unpacking pkgconf-bin (1.8.1-4) ... 1076s Selecting previously unselected package pkgconf:arm64. 1076s Preparing to unpack .../096-pkgconf_1.8.1-4_arm64.deb ... 1076s Unpacking pkgconf:arm64 (1.8.1-4) ... 1076s Selecting previously unselected package libtirpc-dev:arm64. 1076s Preparing to unpack .../097-libtirpc-dev_1.3.4+ds-1.3_arm64.deb ... 1076s Unpacking libtirpc-dev:arm64 (1.3.4+ds-1.3) ... 1076s Selecting previously unselected package r-base-dev. 1076s Preparing to unpack .../098-r-base-dev_4.4.3-1_all.deb ... 1076s Unpacking r-base-dev (4.4.3-1) ... 1076s Selecting previously unselected package pkg-r-autopkgtest. 1076s Preparing to unpack .../099-pkg-r-autopkgtest_20231212ubuntu1_all.deb ... 1076s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ... 1076s Selecting previously unselected package r-bioc-biocgenerics. 1076s Preparing to unpack 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1076s Selecting previously unselected package r-cran-bit64. 1076s Preparing to unpack .../106-r-cran-bit64_4.6.0-1-1ubuntu2_arm64.deb ... 1076s Unpacking r-cran-bit64 (4.6.0-1-1ubuntu2) ... 1076s Selecting previously unselected package r-cran-rlang. 1076s Preparing to unpack .../107-r-cran-rlang_1.1.5-1_arm64.deb ... 1076s Unpacking r-cran-rlang (1.1.5-1) ... 1076s Selecting previously unselected package r-cran-cli. 1076s Preparing to unpack .../108-r-cran-cli_3.6.4-1_arm64.deb ... 1076s Unpacking r-cran-cli (3.6.4-1) ... 1076s Selecting previously unselected package r-cran-glue. 1076s Preparing to unpack .../109-r-cran-glue_1.8.0-1_arm64.deb ... 1076s Unpacking r-cran-glue (1.8.0-1) ... 1076s Selecting previously unselected package r-cran-lifecycle. 1076s Preparing to unpack .../110-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... 1076s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... 1076s Selecting previously unselected package r-cran-vctrs. 1076s Preparing to unpack .../111-r-cran-vctrs_0.6.5-1_arm64.deb ... 1076s Unpacking r-cran-vctrs (0.6.5-1) ... 1077s Selecting previously unselected package r-cran-blob. 1077s Preparing to unpack .../112-r-cran-blob_1.2.4-1_all.deb ... 1077s Unpacking r-cran-blob (1.2.4-1) ... 1077s Selecting previously unselected package r-cran-fastmap. 1077s Preparing to unpack .../113-r-cran-fastmap_1.2.0-1_arm64.deb ... 1077s Unpacking r-cran-fastmap (1.2.0-1) ... 1077s Selecting previously unselected package r-cran-cachem. 1077s Preparing to unpack .../114-r-cran-cachem_1.1.0-1_arm64.deb ... 1077s Unpacking r-cran-cachem (1.1.0-1) ... 1077s Selecting previously unselected package r-cran-memoise. 1077s Preparing to unpack .../115-r-cran-memoise_2.0.1-1_all.deb ... 1077s Unpacking r-cran-memoise (2.0.1-1) ... 1077s Selecting previously unselected package r-cran-pkgconfig. 1077s Preparing to unpack .../116-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 1077s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 1077s Selecting previously unselected package r-cran-plogr. 1077s Preparing to unpack .../117-r-cran-plogr_0.2.0-3build1_all.deb ... 1077s Unpacking r-cran-plogr (0.2.0-3build1) ... 1077s Selecting previously unselected package r-cran-cpp11. 1077s Preparing to unpack .../118-r-cran-cpp11_0.5.2-1_all.deb ... 1077s Unpacking r-cran-cpp11 (0.5.2-1) ... 1077s Selecting previously unselected package r-cran-rsqlite. 1077s Preparing to unpack .../119-r-cran-rsqlite_2.3.9-1_arm64.deb ... 1077s Unpacking r-cran-rsqlite (2.3.9-1) ... 1077s Selecting previously unselected package r-cran-curl. 1077s Preparing to unpack .../120-r-cran-curl_6.2.1+dfsg-1ubuntu1_arm64.deb ... 1077s Unpacking r-cran-curl (6.2.1+dfsg-1ubuntu1) ... 1077s Selecting previously unselected package r-cran-jsonlite. 1077s Preparing to unpack .../121-r-cran-jsonlite_1.9.1+dfsg-1_arm64.deb ... 1077s Unpacking r-cran-jsonlite (1.9.1+dfsg-1) ... 1077s Selecting previously unselected package r-cran-mime. 1077s Preparing to unpack .../122-r-cran-mime_0.12-2_arm64.deb ... 1077s Unpacking r-cran-mime (0.12-2) ... 1077s Selecting previously unselected package r-cran-sys. 1077s Preparing to unpack .../123-r-cran-sys_3.4.3-1_arm64.deb ... 1077s Unpacking r-cran-sys (3.4.3-1) ... 1077s Selecting previously unselected package r-cran-askpass. 1077s Preparing to unpack .../124-r-cran-askpass_1.2.1-1_arm64.deb ... 1077s Unpacking r-cran-askpass (1.2.1-1) ... 1077s Selecting previously unselected package r-cran-openssl. 1077s Preparing to unpack .../125-r-cran-openssl_2.3.2+dfsg-1_arm64.deb ... 1077s Unpacking r-cran-openssl (2.3.2+dfsg-1) ... 1077s Selecting previously unselected package r-cran-r6. 1077s Preparing to unpack .../126-r-cran-r6_2.6.1-1_all.deb ... 1077s Unpacking r-cran-r6 (2.6.1-1) ... 1077s Selecting previously unselected package r-cran-httr. 1077s Preparing to unpack .../127-r-cran-httr_1.4.7+dfsg-1_all.deb ... 1077s Unpacking r-cran-httr (1.4.7+dfsg-1) ... 1077s Selecting previously unselected package r-cran-png. 1078s Preparing to unpack .../128-r-cran-png_0.1-8-1build2_arm64.deb ... 1078s Unpacking r-cran-png (0.1-8-1build2) ... 1078s Selecting previously unselected package r-bioc-zlibbioc. 1078s Preparing to unpack .../129-r-bioc-zlibbioc_1.52.0+dfsg-2_all.deb ... 1078s Unpacking r-bioc-zlibbioc (1.52.0+dfsg-2) ... 1078s Selecting previously unselected package r-bioc-xvector. 1078s Preparing to unpack .../130-r-bioc-xvector_0.46.0-2_arm64.deb ... 1078s Unpacking r-bioc-xvector (0.46.0-2) ... 1078s Selecting previously unselected package r-bioc-ucsc.utils. 1078s Preparing to unpack .../131-r-bioc-ucsc.utils_1.2.0+ds-2_all.deb ... 1078s Unpacking r-bioc-ucsc.utils (1.2.0+ds-2) ... 1078s Selecting previously unselected package r-bioc-genomeinfodbdata. 1078s Preparing to unpack .../132-r-bioc-genomeinfodbdata_1.2.13-2_all.deb ... 1078s Unpacking r-bioc-genomeinfodbdata (1.2.13-2) ... 1078s Selecting previously unselected package r-bioc-genomeinfodb. 1078s Preparing to unpack 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1078s Unpacking r-cran-xml (3.99-0.18-1) ... 1078s Selecting previously unselected package r-cran-xtable. 1078s Preparing to unpack .../139-r-cran-xtable_1%3a1.8-4-2_all.deb ... 1078s Unpacking r-cran-xtable (1:1.8-4-2) ... 1078s Selecting previously unselected package r-bioc-annotate. 1078s Preparing to unpack .../140-r-bioc-annotate_1.84.0+dfsg-2_all.deb ... 1078s Unpacking r-bioc-annotate (1.84.0+dfsg-2) ... 1079s Selecting previously unselected package r-bioc-biocio. 1079s Preparing to unpack .../141-r-bioc-biocio_1.16.0+dfsg-2_all.deb ... 1079s Unpacking r-bioc-biocio (1.16.0+dfsg-2) ... 1079s Selecting previously unselected package r-cran-formatr. 1079s Preparing to unpack .../142-r-cran-formatr_1.14-2_all.deb ... 1079s Unpacking r-cran-formatr (1.14-2) ... 1079s Selecting previously unselected package r-cran-lambda.r. 1079s Preparing to unpack .../143-r-cran-lambda.r_1.2.4-2build1_all.deb ... 1079s Unpacking r-cran-lambda.r (1.2.4-2build1) ... 1079s Selecting previously unselected package r-cran-futile.options. 1079s Preparing to unpack .../144-r-cran-futile.options_1.0.1-3build1_all.deb ... 1079s Unpacking r-cran-futile.options (1.0.1-3build1) ... 1079s Selecting previously unselected package r-cran-futile.logger. 1079s Preparing to unpack .../145-r-cran-futile.logger_1.4.3-4build1_all.deb ... 1079s Unpacking r-cran-futile.logger (1.4.3-4build1) ... 1079s Selecting previously unselected package r-cran-snow. 1079s Preparing to unpack .../146-r-cran-snow_1%3a0.4.4-2_all.deb ... 1079s Unpacking r-cran-snow (1:0.4.4-2) ... 1079s Selecting previously unselected package r-cran-codetools. 1079s Preparing to unpack .../147-r-cran-codetools_0.2-20-1_all.deb ... 1079s Unpacking r-cran-codetools (0.2-20-1) ... 1079s Selecting previously unselected package r-cran-bh. 1079s Preparing to unpack .../148-r-cran-bh_1.84.0-1_all.deb ... 1079s Unpacking r-cran-bh (1.84.0-1) ... 1079s Selecting previously unselected package r-bioc-biocparallel. 1079s Preparing to unpack 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(1.5.0-0.1) ... 1083s Setting up liblzma-dev:arm64 (5.6.4-1) ... 1083s Setting up libubsan1:arm64 (15-20250222-0ubuntu1) ... 1083s Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ... 1083s Setting up libpcre2-posix3:arm64 (10.45-1) ... 1083s Setting up libhwasan0:arm64 (15-20250222-0ubuntu1) ... 1083s Setting up libasan8:arm64 (15-20250222-0ubuntu1) ... 1083s Setting up libharfbuzz0b:arm64 (10.2.0-1) ... 1083s Setting up libthai-data (0.1.29-2build1) ... 1083s Setting up libxss1:arm64 (1:1.2.3-1build3) ... 1083s Setting up libpaper2:arm64 (2.2.5-0.3) ... 1083s Setting up libtsan2:arm64 (15-20250222-0ubuntu1) ... 1083s Setting up libisl23:arm64 (0.27-1) ... 1083s Setting up libdeflate-dev:arm64 (1.23-1) ... 1083s Setting up libicu-dev:arm64 (76.1-1ubuntu2) ... 1083s Setting up xdg-utils (1.2.1-2ubuntu1) ... 1083s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode 1083s Setting up libcc1-0:arm64 (15-20250222-0ubuntu1) ... 1083s Setting up liblsan0:arm64 (15-20250222-0ubuntu1) ... 1083s Setting up libblas-dev:arm64 (3.12.1-2) ... 1083s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode 1083s Setting up dctrl-tools (2.24-3build3) ... 1083s Setting up libitm1:arm64 (15-20250222-0ubuntu1) ... 1083s Setting up libbz2-dev:arm64 (1.0.8-6) ... 1083s Setting up libjpeg8:arm64 (8c-2ubuntu11) ... 1083s Setting up libice6:arm64 (2:1.1.1-1) ... 1083s Setting up libjpeg-turbo8-dev:arm64 (2.1.5-3ubuntu2) ... 1083s Setting up liblapack3:arm64 (3.12.1-2) ... 1083s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 1083s Setting up libpcre2-dev:arm64 (10.45-1) ... 1083s Setting up fontconfig-config (2.15.0-2ubuntu1) ... 1084s Setting up libpng-dev:arm64 (1.6.47-1) ... 1084s Setting up libpaper-utils (2.2.5-0.3) ... 1084s Setting up pkgconf:arm64 (1.8.1-4) ... 1084s Setting up libthai0:arm64 (0.1.29-2build1) ... 1084s Setting up liblapack-dev:arm64 (3.12.1-2) ... 1084s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode 1084s Setting up cpp-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 1084s Setting up libtiff6:arm64 (4.5.1+git230720-4ubuntu4) ... 1084s Setting up libfontconfig1:arm64 (2.15.0-2ubuntu1) ... 1084s Setting up libgcc-14-dev:arm64 (14.2.0-17ubuntu3) ... 1084s Setting up libjpeg8-dev:arm64 (8c-2ubuntu11) ... 1084s Setting up libstdc++-14-dev:arm64 (14.2.0-17ubuntu3) ... 1084s Setting up libsm6:arm64 (2:1.2.4-1) ... 1084s Setting up libgfortran-14-dev:arm64 (14.2.0-17ubuntu3) ... 1084s Setting up fontconfig (2.15.0-2ubuntu1) ... 1086s Regenerating fonts cache... done. 1086s Setting up libxft2:arm64 (2.3.6-1build1) ... 1086s Setting up libboost1.83-dev:arm64 (1.83.0-4.1ubuntu2) ... 1086s Setting up libtk8.6:arm64 (8.6.16-1) ... 1086s Setting up libpango-1.0-0:arm64 (1.56.2-1) ... 1086s Setting up libjpeg-dev:arm64 (8c-2ubuntu11) ... 1086s Setting up libcairo2:arm64 (1.18.2-2) ... 1086s Setting up cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 1086s Setting up libxt6t64:arm64 (1:1.2.1-1.2build1) ... 1086s Setting up cpp-14 (14.2.0-17ubuntu3) ... 1086s Setting up cpp (4:14.2.0-1ubuntu1) ... 1086s Setting up libboost-dev:arm64 (1.83.0.2ubuntu1) ... 1086s Setting up gcc-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 1086s Setting up libpangoft2-1.0-0:arm64 (1.56.2-1) ... 1086s Setting up libpangocairo-1.0-0:arm64 (1.56.2-1) ... 1086s Setting up gcc-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 1086s Setting up g++-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 1086s Setting up gcc-14 (14.2.0-17ubuntu3) ... 1086s Setting up r-base-core (4.4.3-1) ... 1086s Creating config file /etc/R/Renviron with new version 1086s Setting up r-cran-crayon (1.5.3-1) ... 1086s Setting up r-cran-futile.options (1.0.1-3build1) ... 1086s Setting up r-cran-lattice (0.22-6-1) ... 1086s Setting up r-cran-formatr (1.14-2) ... 1086s Setting up r-cran-xml (3.99-0.18-1) ... 1086s Setting up gfortran-14-aarch64-linux-gnu (14.2.0-17ubuntu3) ... 1086s Setting up r-cran-statmod (1.5.0-1) ... 1086s Setting up g++-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 1086s Setting up gfortran-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ... 1086s Setting up g++-14 (14.2.0-17ubuntu3) ... 1086s Setting up r-cran-rjson (0.2.23-1) ... 1086s Setting up r-cran-r6 (2.6.1-1) ... 1086s Setting up gfortran-14 (14.2.0-17ubuntu3) ... 1086s Setting up r-bioc-genomeinfodbdata (1.2.13-2) ... 1086s Setting up r-cran-bh (1.84.0-1) ... 1086s Setting up r-cran-curl (6.2.1+dfsg-1ubuntu1) ... 1086s Setting up r-cran-codetools (0.2-20-1) ... 1086s Setting up r-bioc-biocgenerics (0.52.0-2) ... 1086s Setting up r-cran-rlang (1.1.5-1) ... 1086s Setting up r-cran-matrixstats (1.5.0-1) ... 1086s Setting up r-bioc-matrixgenerics (1.18.1-1) ... 1086s Setting up r-cran-sys (3.4.3-1) ... 1086s Setting up r-cran-plogr (0.2.0-3build1) ... 1086s Setting up r-cran-mime (0.12-2) ... 1086s Setting up r-cran-abind (1.4-8-1) ... 1086s Setting up r-cran-yaml (2.3.10-1) ... 1086s Setting up r-cran-lambda.r (1.2.4-2build1) ... 1086s Setting up r-cran-dbi (1.2.3-1) ... 1086s Setting up r-cran-snow (1:0.4.4-2) ... 1086s Setting up r-cran-glue (1.8.0-1) ... 1086s Setting up r-cran-bit (4.6.0+dfsg-1) ... 1086s Setting up r-cran-xtable (1:1.8-4-2) ... 1086s Setting up r-cran-cli (3.6.4-1) ... 1086s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ... 1086s Setting up r-cran-bitops (1.0-9-1) ... 1086s Setting up r-cran-bit64 (4.6.0-1-1ubuntu2) ... 1086s Setting up gcc (4:14.2.0-1ubuntu1) ... 1086s Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ... 1086s Setting up r-cran-askpass (1.2.1-1) ... 1086s Setting up r-cran-fastmap (1.2.0-1) ... 1086s Setting up r-cran-png (0.1-8-1build2) ... 1086s Setting up r-bioc-biobase (2.66.0-2) ... 1086s Setting up r-cran-jsonlite (1.9.1+dfsg-1) ... 1086s Setting up r-cran-pkgconfig (2.0.3-2build1) ... 1086s Setting up r-cran-cpp11 (0.5.2-1) ... 1086s Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ... 1086s Setting up r-cran-runit (0.4.33-1) ... 1086s Setting up r-cran-futile.logger (1.4.3-4build1) ... 1086s Setting up r-bioc-limma (3.62.2+dfsg-1) ... 1086s Setting up r-cran-matrix (1.7-3-1) ... 1086s Setting up g++ (4:14.2.0-1ubuntu1) ... 1086s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 1086s Setting up r-cran-cachem (1.1.0-1) ... 1086s Setting up build-essential (12.10ubuntu1) ... 1086s Setting up r-bioc-iranges (2.40.1-2) ... 1086s Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... 1086s Setting up r-cran-restfulr (0.0.15-1) ... 1086s Setting up r-cran-vctrs (0.6.5-1) ... 1086s Setting up r-cran-openssl (2.3.2+dfsg-1) ... 1086s Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ... 1086s Setting up r-bioc-biocparallel (1.40.0-2) ... 1086s Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ... 1086s Setting up r-cran-survival (3.8-3-1) ... 1086s Setting up r-bioc-biocio (1.16.0+dfsg-2) ... 1086s Setting up gfortran (4:14.2.0-1ubuntu1) ... 1086s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode 1086s update-alternatives: warning: skip creation of /usr/share/man/man1/f95.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f95) doesn't exist 1086s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode 1086s update-alternatives: warning: skip creation of /usr/share/man/man1/f77.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f77) doesn't exist 1086s Setting up r-cran-httr (1.4.7+dfsg-1) ... 1086s Setting up r-cran-memoise (2.0.1-1) ... 1086s Setting up r-cran-blob (1.2.4-1) ... 1086s Setting up r-bioc-xvector (0.46.0-2) ... 1086s Setting up r-cran-rsqlite (2.3.9-1) ... 1086s Setting up r-base-dev (4.4.3-1) ... 1086s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ... 1086s Setting up r-bioc-sparsearray (1.6.2+dfsg-1) ... 1086s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ... 1086s Setting up pkg-r-autopkgtest (20231212ubuntu1) ... 1086s Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ... 1086s Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ... 1086s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ... 1086s Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ... 1086s Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... 1086s Setting up r-bioc-keggrest (1.46.0+dfsg-2) ... 1086s Setting up r-bioc-annotationdbi (1.68.0-2) ... 1086s Setting up r-bioc-annotate (1.84.0+dfsg-2) ... 1086s Setting up r-bioc-genefilter (1.88.0-2) ... 1086s Setting up r-bioc-genomicalignments (1.42.0-2) ... 1086s Setting up r-bioc-org.hs.eg.db (3.20.0-3) ... 1086s Setting up r-bioc-rtracklayer (1.66.0-2) ... 1086s Setting up r-bioc-genomicfeatures (1.58.0+dfsg-2) ... 1086s Setting up r-bioc-bsgenome (1.74.0-2) ... 1086s Processing triggers for libc-bin (2.41-1ubuntu2) ... 1086s Processing triggers for man-db (2.13.0-1) ... 1088s Processing triggers for install-info (7.1.1-1) ... 1090s autopkgtest [15:28:25]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 1090s autopkgtest [15:28:25]: test pkg-r-autopkgtest: [----------------------- 1090s Test: Try to load the R library rtracklayer 1090s 1090s R version 4.4.3 (2025-02-28) -- "Trophy Case" 1090s Copyright (C) 2025 The R Foundation for Statistical Computing 1090s Platform: aarch64-unknown-linux-gnu 1090s 1090s R is free software and comes with ABSOLUTELY NO WARRANTY. 1090s You are welcome to redistribute it under certain conditions. 1090s Type 'license()' or 'licence()' for distribution details. 1090s 1090s R is a collaborative project with many contributors. 1090s Type 'contributors()' for more information and 1090s 'citation()' on how to cite R or R packages in publications. 1090s 1090s Type 'demo()' for some demos, 'help()' for on-line help, or 1090s 'help.start()' for an HTML browser interface to help. 1090s Type 'q()' to quit R. 1090s 1090s > library('rtracklayer') 1090s Loading required package: GenomicRanges 1090s Loading required package: stats4 1090s Loading required package: BiocGenerics 1091s 1091s Attaching package: ‘BiocGenerics’ 1091s 1091s The following objects are masked from ‘package:stats’: 1091s 1091s IQR, mad, sd, var, xtabs 1091s 1091s The following objects are masked from ‘package:base’: 1091s 1091s anyDuplicated, aperm, append, as.data.frame, basename, cbind, 1091s colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find, 1091s get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply, 1091s match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, 1091s Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff, 1091s table, tapply, union, unique, unsplit, which.max, which.min 1091s 1091s Loading required package: S4Vectors 1091s 1091s Attaching package: ‘S4Vectors’ 1091s 1091s The following object is masked from ‘package:utils’: 1091s 1091s findMatches 1091s 1091s The following objects are masked from ‘package:base’: 1091s 1091s expand.grid, I, unname 1091s 1091s Loading required package: IRanges 1092s Loading required package: GenomeInfoDb 1099s > 1099s > 1099s Other tests are currently unsupported! 1099s They will be progressively added. 1100s autopkgtest [15:28:35]: test pkg-r-autopkgtest: -----------------------] 1100s pkg-r-autopkgtest PASS 1100s autopkgtest [15:28:35]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 1101s autopkgtest [15:28:36]: @@@@@@@@@@@@@@@@@@@@ summary 1101s pkg-r-autopkgtest PASS 1120s nova [W] Using flock in prodstack6-arm64 1120s Creating nova instance adt-plucky-arm64-r-bioc-rtracklayer-20250315-151014-juju-7f2275-prod-proposed-migration-environment-15-ba67cf07-520c-4e3e-93d5-4870de5f576c from image adt/ubuntu-plucky-arm64-server-20250315.img (UUID bd6e766c-b51f-4b53-86d6-23aa4d18f524)... 1120s nova [W] Timed out waiting for 6732736c-5886-4464-80f7-186c8a9f76b5 to get deleted.