0s autopkgtest [22:01:32]: starting date and time: 2025-03-15 22:01:32+0000 0s autopkgtest [22:01:32]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [22:01:32]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.whvqafk6/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-variantannotation --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-big --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@lcy02-3.secgroup --name adt-plucky-amd64-r-bioc-variantannotation-20250315-220131-juju-7f2275-prod-proposed-migration-environment-15-e13003be-ffee-4b49-bf6c-d7c519932d0f --image adt/ubuntu-plucky-amd64-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/ 47s autopkgtest [22:02:19]: testbed dpkg architecture: amd64 47s autopkgtest [22:02:19]: testbed apt version: 2.9.31ubuntu1 47s autopkgtest [22:02:19]: @@@@@@@@@@@@@@@@@@@@ test bed setup 47s autopkgtest [22:02:19]: testbed release detected to be: None 47s autopkgtest [22:02:19]: updating testbed package index (apt update) 48s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 48s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 48s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 48s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 48s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [44.1 kB] 48s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [369 kB] 48s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.5 kB] 48s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [67.4 kB] 48s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [85.7 kB] 48s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1852 B] 48s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [116 B] 48s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [174 kB] 48s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [342 kB] 48s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [15.3 kB] 48s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [8544 B] 48s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [16.1 kB] 48s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [628 B] 48s Fetched 1265 kB in 0s (5238 kB/s) 49s Reading package lists... 49s + lsb_release --codename --short 49s + RELEASE=plucky 49s + cat 49s + [ plucky != trusty ] 49s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 49s Reading package lists... 50s Building dependency tree... 50s Reading state information... 50s Calculating upgrade... 50s Calculating upgrade... 51s The following package was automatically installed and is no longer required: 51s libnl-genl-3-200 51s Use 'sudo apt autoremove' to remove it. 51s The following NEW packages will be installed: 51s bpftool libdebuginfod-common libdebuginfod1t64 linux-headers-6.14.0-10 51s linux-headers-6.14.0-10-generic linux-image-6.14.0-10-generic 51s linux-modules-6.14.0-10-generic linux-modules-extra-6.14.0-10-generic 51s linux-perf linux-tools-6.14.0-10 linux-tools-6.14.0-10-generic pnp.ids 51s The following packages will be upgraded: 51s apparmor apt apt-utils binutils binutils-common binutils-x86-64-linux-gnu 51s cloud-init cloud-init-base curl dosfstools fwupd gir1.2-girepository-2.0 51s gir1.2-glib-2.0 htop hwdata libapparmor1 libapt-pkg7.0 libaudit-common 51s libaudit1 libbinutils libbrotli1 libcap-ng0 libctf-nobfd0 libctf0 51s libcurl3t64-gnutls libcurl4t64 libestr0 libfwupd3 libgirepository-1.0-1 51s libglib2.0-0t64 libglib2.0-data libgprofng0 libjemalloc2 liblz4-1 liblzma5 51s libmm-glib0 libncurses6 libncursesw6 libnl-3-200 libnl-genl-3-200 51s libnl-route-3-200 libpci3 libpython3-stdlib libpython3.13 51s libpython3.13-minimal libpython3.13-stdlib libselinux1 libsframe1 51s libsqlite3-0 libtinfo6 libxml2 linux-firmware linux-generic 51s linux-headers-generic linux-headers-virtual linux-image-generic 51s linux-image-virtual linux-libc-dev linux-tools-common linux-virtual 51s media-types ncurses-base ncurses-bin ncurses-term pci.ids pciutils 51s pinentry-curses python-apt-common python3 python3-apt python3-cffi-backend 51s python3-dbus python3-gi python3-jinja2 python3-lazr.uri python3-markupsafe 51s python3-minimal python3-systemd python3-yaml python3.13 python3.13-gdbm 51s python3.13-minimal rsync rsyslog strace xz-utils 51s 86 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. 51s Need to get 807 MB of archives. 51s After this operation, 326 MB of additional disk space will be used. 51s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-bin amd64 6.5+20250216-2 [194 kB] 51s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-base all 6.5+20250216-2 [25.9 kB] 51s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-term all 6.5+20250216-2 [276 kB] 51s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 liblz4-1 amd64 1.10.0-4 [66.4 kB] 51s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma5 amd64 5.6.4-1 [157 kB] 51s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libapt-pkg7.0 amd64 2.9.33 [1138 kB] 51s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 apt amd64 2.9.33 [1439 kB] 51s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 apt-utils amd64 2.9.33 [222 kB] 51s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-minimal amd64 3.13.2-2 [27.7 kB] 51s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 python3 amd64 3.13.2-2 [24.0 kB] 51s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13 amd64 3.13.2-2 [2341 kB] 51s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 media-types all 13.0.0 [29.9 kB] 51s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses6 amd64 6.5+20250216-2 [126 kB] 51s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libncursesw6 amd64 6.5+20250216-2 [165 kB] 51s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libtinfo6 amd64 6.5+20250216-2 [119 kB] 51s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libsqlite3-0 amd64 3.46.1-2 [715 kB] 51s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.2-2 [735 kB] 51s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.2-2 [2365 kB] 51s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.2-2 [883 kB] 51s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.2-2 [2066 kB] 51s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.4 kB] 51s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 rsync amd64 3.4.1+ds1-3 [482 kB] 51s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod-common all 0.192-4 [15.4 kB] 51s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit-common all 1:4.0.2-2ubuntu2 [6628 B] 51s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-4build1 [15.6 kB] 51s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit1 amd64 1:4.0.2-2ubuntu2 [54.0 kB] 51s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libselinux1 amd64 3.7-3ubuntu3 [87.3 kB] 51s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-girepository-2.0 amd64 1.83.4-1 [25.3 kB] 51s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.84.0-1 [184 kB] 51s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1669 kB] 52s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.83.4-1 [89.5 kB] 52s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libapparmor1 amd64 4.1.0~beta5-0ubuntu8 [55.0 kB] 52s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libestr0 amd64 0.1.11-2 [8340 B] 52s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.84.0-1 [53.0 kB] 52s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2ubuntu5 [772 kB] 52s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python-apt-common all 2.9.9build1 [21.3 kB] 52s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-apt amd64 2.9.9build1 [172 kB] 52s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build2 [96.6 kB] 52s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB] 52s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB] 52s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB] 52s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB] 52s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB] 52s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 dosfstools amd64 4.2-1.2 [95.0 kB] 52s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-genl-3-200 amd64 3.7.0-1 [12.2 kB] 52s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-route-3-200 amd64 3.7.0-1 [191 kB] 52s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-3-200 amd64 3.7.0-1 [64.9 kB] 52s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 pci.ids all 0.0~2025.03.09-1 [285 kB] 52s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 pciutils amd64 1:3.13.0-2 [110 kB] 52s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libpci3 amd64 1:3.13.0-2 [39.8 kB] 52s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 strace amd64 6.13+ds-1ubuntu1 [622 kB] 52s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 xz-utils amd64 5.6.4-1 [278 kB] 52s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libgprofng0 amd64 2.44-3ubuntu1 [886 kB] 52s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf0 amd64 2.44-3ubuntu1 [96.5 kB] 52s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf-nobfd0 amd64 2.44-3ubuntu1 [98.9 kB] 52s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-x86-64-linux-gnu amd64 2.44-3ubuntu1 [1108 kB] 52s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libbinutils amd64 2.44-3ubuntu1 [585 kB] 52s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils amd64 2.44-3ubuntu1 [208 kB] 52s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-common amd64 2.44-3ubuntu1 [215 kB] 52s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libsframe1 amd64 2.44-3ubuntu1 [14.8 kB] 52s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 hwdata all 0.393-3 [1562 B] 52s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 pnp.ids all 0.393-3 [29.5 kB] 52s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-common all 6.14.0-10.10 [295 kB] 52s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 bpftool amd64 7.6.0+6.14.0-10.10 [1147 kB] 52s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build4 [13.4 kB] 52s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 52s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init-base all 25.1-0ubuntu3 [616 kB] 52s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libbrotli1 amd64 1.1.0-2build4 [365 kB] 52s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 curl amd64 8.12.1-3ubuntu1 [258 kB] 52s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4t64 amd64 8.12.1-3ubuntu1 [437 kB] 52s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl3t64-gnutls amd64 8.12.1-3ubuntu1 [432 kB] 52s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 fwupd amd64 2.0.6-4 [5408 kB] 52s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libfwupd3 amd64 2.0.6-4 [136 kB] 52s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libmm-glib0 amd64 1.23.4-0ubuntu3 [251 kB] 52s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 htop amd64 3.4.0-2 [195 kB] 52s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod1t64 amd64 0.192-4 [21.0 kB] 52s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libjemalloc2 amd64 5.3.0-3 [277 kB] 52s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-firmware amd64 20250310.git9e1370d3-0ubuntu1 [571 MB] 57s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-6.14.0-10-generic amd64 6.14.0-10.10 [41.2 MB] 57s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-6.14.0-10-generic amd64 6.14.0-10.10 [15.3 MB] 57s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-extra-6.14.0-10-generic amd64 6.14.0-10.10 [120 MB] 58s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B] 58s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB] 58s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B] 58s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB] 58s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B] 58s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB] 58s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB] 58s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB] 58s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-libc-dev amd64 6.14.0-10.10 [1723 kB] 58s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB] 58s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB] 58s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B] 58s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-2ubuntu3 [42.3 kB] 58s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB] 58s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB] 58s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB] 58s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B] 59s Preconfiguring packages ... 59s Fetched 807 MB in 8s (104 MB/s) 59s (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 ... 109138 files and directories currently installed.) 59s Preparing to unpack .../ncurses-bin_6.5+20250216-2_amd64.deb ... 59s Unpacking ncurses-bin (6.5+20250216-2) over (6.5+20250216-1) ... 59s Setting up ncurses-bin (6.5+20250216-2) ... 59s (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 ... 109138 files and directories currently installed.) 59s Preparing to unpack .../ncurses-base_6.5+20250216-2_all.deb ... 59s Unpacking ncurses-base (6.5+20250216-2) over (6.5+20250216-1) ... 59s Setting up ncurses-base (6.5+20250216-2) ... 59s (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 ... 109138 files and directories currently installed.) 59s Preparing to unpack .../ncurses-term_6.5+20250216-2_all.deb ... 59s Unpacking ncurses-term (6.5+20250216-2) over (6.5+20250216-1) ... 60s Preparing to unpack .../liblz4-1_1.10.0-4_amd64.deb ... 60s Unpacking liblz4-1:amd64 (1.10.0-4) over (1.10.0-3) ... 60s Setting up liblz4-1:amd64 (1.10.0-4) ... 60s (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 ... 109138 files and directories currently installed.) 60s Preparing to unpack .../liblzma5_5.6.4-1_amd64.deb ... 60s Unpacking liblzma5:amd64 (5.6.4-1) over (5.6.3-1) ... 60s Setting up liblzma5:amd64 (5.6.4-1) ... 60s (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 ... 109138 files and directories currently installed.) 60s Preparing to unpack .../libapt-pkg7.0_2.9.33_amd64.deb ... 60s Unpacking libapt-pkg7.0:amd64 (2.9.33) over (2.9.31ubuntu1) ... 60s Setting up libapt-pkg7.0:amd64 (2.9.33) ... 60s (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 ... 109138 files and directories currently installed.) 60s Preparing to unpack .../archives/apt_2.9.33_amd64.deb ... 60s Unpacking apt (2.9.33) over (2.9.31ubuntu1) ... 61s Setting up apt (2.9.33) ... 61s (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 ... 109138 files and directories currently installed.) 61s Preparing to unpack .../apt-utils_2.9.33_amd64.deb ... 61s Unpacking apt-utils (2.9.33) over (2.9.31ubuntu1) ... 61s Preparing to unpack .../python3-minimal_3.13.2-2_amd64.deb ... 61s Unpacking python3-minimal (3.13.2-2) over (3.13.2-1) ... 61s Setting up python3-minimal (3.13.2-2) ... 62s (Reading database ... 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64s Unpacking python3-apt (2.9.9build1) over (2.9.9) ... 64s Preparing to unpack .../10-python3-cffi-backend_1.17.1-2build2_amd64.deb ... 64s Unpacking python3-cffi-backend:amd64 (1.17.1-2build2) over (1.17.1-2build1) ... 64s Preparing to unpack .../11-python3-dbus_1.3.2-5build5_amd64.deb ... 64s Unpacking python3-dbus (1.3.2-5build5) over (1.3.2-5build4) ... 64s Preparing to unpack .../12-python3-gi_3.50.0-4build1_amd64.deb ... 64s Unpacking python3-gi (3.50.0-4build1) over (3.50.0-4) ... 64s Preparing to unpack .../13-python3-yaml_6.0.2-1build2_amd64.deb ... 64s Unpacking python3-yaml (6.0.2-1build2) over (6.0.2-1build1) ... 64s Preparing to unpack .../14-rsyslog_8.2412.0-2ubuntu2_amd64.deb ... 64s Unpacking rsyslog (8.2412.0-2ubuntu2) over (8.2412.0-2ubuntu1) ... 64s Preparing to unpack .../15-apparmor_4.1.0~beta5-0ubuntu8_amd64.deb ... 65s Unpacking apparmor (4.1.0~beta5-0ubuntu8) over (4.1.0~beta5-0ubuntu6) ... 65s Preparing to unpack .../16-dosfstools_4.2-1.2_amd64.deb ... 65s 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Preparing to unpack .../68-python3-systemd_235-1build6_amd64.deb ... 78s Unpacking python3-systemd (235-1build6) over (235-1build5) ... 78s Preparing to unpack .../69-python3.13-gdbm_3.13.2-2_amd64.deb ... 78s Unpacking python3.13-gdbm (3.13.2-2) over (3.13.2-1) ... 78s Preparing to unpack .../70-cloud-init_25.1-0ubuntu3_all.deb ... 78s Unpacking cloud-init (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 78s Setting up linux-headers-6.14.0-10 (6.14.0-10.10) ... 78s Setting up media-types (13.0.0) ... 78s Installing new version of config file /etc/mime.types ... 78s Setting up linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 78s Setting up libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) ... 78s Setting up pci.ids (0.0~2025.03.09-1) ... 78s Setting up apt-utils (2.9.33) ... 78s Setting up libdebuginfod-common (0.192-4) ... 78s Setting up linux-firmware (20250310.git9e1370d3-0ubuntu1) ... 78s Setting up bpftool (7.6.0+6.14.0-10.10) ... 78s Setting up libestr0:amd64 (0.1.11-2) ... 78s Setting up libbrotli1:amd64 (1.1.0-2build4) ... 78s Setting up libsqlite3-0:amd64 (3.46.1-2) ... 78s Setting up dosfstools (4.2-1.2) ... 78s Setting up rsyslog (8.2412.0-2ubuntu2) ... 78s info: The user `syslog' is already a member of `adm'. 79s Setting up binutils-common:amd64 (2.44-3ubuntu1) ... 79s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ... 79s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ... 79s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ... 79s Setting up linux-headers-generic (6.14.0-10.10) ... 79s Setting up libjemalloc2:amd64 (5.3.0-3) ... 79s Setting up libsframe1:amd64 (2.44-3ubuntu1) ... 79s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ... 79s Setting up apparmor (4.1.0~beta5-0ubuntu8) ... 79s Installing new version of config file /etc/apparmor.d/openvpn ... 80s Reloading AppArmor profiles 81s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ... 81s No schema files found: doing nothing. 81s Setting up libglib2.0-data (2.84.0-1) ... 81s Setting up libncurses6:amd64 (6.5+20250216-2) ... 81s Setting up strace (6.13+ds-1ubuntu1) ... 81s Setting up xz-utils (5.6.4-1) ... 81s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ... 81s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 83s Setting up libncursesw6:amd64 (6.5+20250216-2) ... 83s Setting up libpci3:amd64 (1:3.13.0-2) ... 83s Setting up python-apt-common (2.9.9build1) ... 83s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ... 83s Setting up pnp.ids (0.393-3) ... 83s Setting up libnl-3-200:amd64 (3.7.0-1) ... 83s Setting up python3.13-minimal (3.13.2-2) ... 84s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ... 84s Setting up libbinutils:amd64 (2.44-3ubuntu1) ... 84s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ... 84s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ... 84s Setting up rsync (3.4.1+ds1-3) ... 85s rsync.service is a disabled or a static unit not running, not starting it. 85s Setting up python3.13-gdbm (3.13.2-2) ... 85s Setting up libpython3-stdlib:amd64 (3.13.2-2) ... 85s Setting up ncurses-term (6.5+20250216-2) ... 85s Setting up libctf0:amd64 (2.44-3ubuntu1) ... 85s Setting up libpython3.13:amd64 (3.13.2-2) ... 85s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 85s Setting up libdebuginfod1t64:amd64 (0.192-4) ... 85s Setting up linux-headers-virtual (6.14.0-10.10) ... 85s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ... 85s Setting up python3.13 (3.13.2-2) ... 86s Setting up htop (3.4.0-2) ... 86s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ... 88s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic 88s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic 88s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic 88s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic 88s Setting up libfwupd3:amd64 (2.0.6-4) ... 88s Setting up python3 (3.13.2-2) ... 88s Setting up python3-markupsafe (2.1.5-1build4) ... 88s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 90s Setting up libnl-route-3-200:amd64 (3.7.0-1) ... 90s Setting up hwdata (0.393-3) ... 90s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 91s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ... 91s Setting up linux-perf (6.14.0-10.10) ... 91s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ... 91s Setting up python3-gi (3.50.0-4build1) ... 91s Setting up pciutils (1:3.13.0-2) ... 91s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ... 91s Setting up curl (8.12.1-3ubuntu1) ... 91s Setting up linux-image-virtual (6.14.0-10.10) ... 91s Setting up linux-tools-common (6.14.0-10.10) ... 91s Setting up fwupd (2.0.6-4) ... 91s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 91s fwupd.service is a disabled or a static unit not running, not starting it. 91s Setting up python3-systemd (235-1build6) ... 91s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ... 91s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ... 91s Setting up linux-image-generic (6.14.0-10.10) ... 91s Setting up python3-dbus (1.3.2-5build5) ... 92s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ... 92s Setting up linux-generic (6.14.0-10.10) ... 92s Setting up python3-apt (2.9.9build1) ... 92s Setting up python3-yaml (6.0.2-1build2) ... 92s Setting up python3-lazr.uri (1.0.6-6) ... 92s Setting up binutils (2.44-3ubuntu1) ... 92s Setting up cloud-init-base (25.1-0ubuntu3) ... 93s Setting up linux-virtual (6.14.0-10.10) ... 93s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 93s Setting up cloud-init (25.1-0ubuntu3) ... 93s Processing triggers for systemd (257.3-1ubuntu3) ... 94s Processing triggers for man-db (2.13.0-1) ... 95s Processing triggers for dbus (1.16.2-1ubuntu1) ... 95s Processing triggers for libc-bin (2.41-1ubuntu1) ... 95s Processing triggers for initramfs-tools (0.146ubuntu1) ... 95s update-initramfs: Generating /boot/initrd.img-6.12.0-16-generic 95s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 107s Processing triggers for linux-image-6.14.0-10-generic (6.14.0-10.10) ... 107s /etc/kernel/postinst.d/initramfs-tools: 107s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 107s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 118s /etc/kernel/postinst.d/zz-update-grub: 118s Sourcing file `/etc/default/grub' 118s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 118s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 118s Generating grub configuration file ... 118s Found linux image: /boot/vmlinuz-6.14.0-10-generic 118s Found initrd image: /boot/initrd.img-6.14.0-10-generic 119s Found linux image: /boot/vmlinuz-6.12.0-16-generic 119s Found initrd image: /boot/initrd.img-6.12.0-16-generic 119s Found linux image: /boot/vmlinuz-6.11.0-8-generic 119s Found initrd image: /boot/initrd.img-6.11.0-8-generic 119s Warning: os-prober will not be executed to detect other bootable partitions. 119s Systems on them will not be added to the GRUB boot configuration. 119s Check GRUB_DISABLE_OS_PROBER documentation entry. 119s Adding boot menu entry for UEFI Firmware Settings ... 119s done 119s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 119s + /usr/lib/apt/apt-helper analyze-pattern ?true 119s + uname -r 119s + sed s/\./\\./g 119s + running_kernel_pattern=^linux-.*6\.12\.0-16-generic.* 119s + apt list ?obsolete 119s + tail -n+2 119s + cut -d/ -f1 119s + grep -v ^linux-.*6\.12\.0-16-generic.* 121s + obsolete_pkgs=linux-headers-6.11.0-8-generic 121s linux-headers-6.11.0-8 121s linux-headers-6.12.0-16 121s linux-image-6.11.0-8-generic 121s linux-modules-6.11.0-8-generic 121s linux-tools-6.11.0-8-generic 121s linux-tools-6.11.0-8 121s linux-tools-6.12.0-16 121s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8 linux-headers-6.12.0-16 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 linux-tools-6.12.0-16 121s Reading package lists... 121s Building dependency tree... 121s Reading state information... 121s Solving dependencies... 121s The following packages will be REMOVED: 121s libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 121s libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 121s linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic* 121s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 121s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16* 121s linux-tools-6.12.0-16-generic* 122s 0 upgraded, 0 newly installed, 15 to remove and 5 not upgraded. 122s After this operation, 371 MB disk space will be freed. 122s (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 ... 148643 files and directories currently installed.) 122s Removing libnl-genl-3-200:amd64 (3.7.0-1) ... 122s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 122s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 122s Removing libpython3.12t64:amd64 (3.12.9-1) ... 122s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ... 122s Removing libnsl2:amd64 (1.3.0-3build3) ... 122s Removing libpython3.12-minimal:amd64 (3.12.9-1) ... 122s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 123s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 125s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ... 125s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ... 127s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 128s /etc/kernel/postrm.d/initramfs-tools: 128s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 128s /etc/kernel/postrm.d/zz-update-grub: 128s Sourcing file `/etc/default/grub' 128s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 128s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 128s Generating grub configuration file ... 128s Found linux image: /boot/vmlinuz-6.14.0-10-generic 128s Found initrd image: /boot/initrd.img-6.14.0-10-generic 128s Found linux image: /boot/vmlinuz-6.12.0-16-generic 128s Found initrd image: /boot/initrd.img-6.12.0-16-generic 128s Warning: os-prober will not be executed to detect other bootable partitions. 128s Systems on them will not be added to the GRUB boot configuration. 128s Check GRUB_DISABLE_OS_PROBER documentation entry. 128s Adding boot menu entry for UEFI Firmware Settings ... 128s done 128s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 129s Removing linux-tools-6.12.0-16-generic (6.12.0-16.16) ... 129s Removing linux-tools-6.12.0-16 (6.12.0-16.16) ... 129s Processing triggers for libc-bin (2.41-1ubuntu1) ... 129s (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 ... 84830 files and directories currently installed.) 129s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 129s Purging configuration files for libpython3.12-minimal:amd64 (3.12.9-1) ... 129s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 129s + grep -q trusty /etc/lsb-release 129s + [ ! -d /usr/share/doc/unattended-upgrades ] 129s + [ ! -d /usr/share/doc/lxd ] 129s + [ ! -d /usr/share/doc/lxd-client ] 129s + [ ! -d /usr/share/doc/snapd ] 129s + type iptables 129s + cat 129s + chmod 755 /etc/rc.local 129s + . /etc/rc.local 129s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 129s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 129s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 129s + uname -m 129s + [ x86_64 = ppc64le ] 129s + [ -d /run/systemd/system ] 129s + systemd-detect-virt --quiet --vm 129s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 129s + cat 129s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 129s + echo COMPRESS=lz4 129s autopkgtest [22:03:41]: upgrading testbed (apt dist-upgrade and autopurge) 129s Reading package lists... 129s Building dependency tree... 129s Reading state information... 130s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 130s Starting 2 pkgProblemResolver with broken count: 0 130s Done 131s Entering ResolveByKeep 131s 131s Calculating upgrade... 131s The following packages will be upgraded: 131s libc-bin libc-dev-bin libc6 libc6-dev locales 131s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 131s Need to get 10.5 MB of archives. 131s After this operation, 1024 B of additional disk space will be used. 131s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu2 [2183 kB] 131s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu2 [24.7 kB] 131s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu2 [3327 kB] 131s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu2 [700 kB] 131s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu2 [4246 kB] 132s Preconfiguring packages ... 132s Fetched 10.5 MB in 0s (46.4 MB/s) 132s (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 ... 84827 files and directories currently installed.) 132s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_amd64.deb ... 132s Unpacking libc6-dev:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 132s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_amd64.deb ... 132s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 132s Preparing to unpack .../libc6_2.41-1ubuntu2_amd64.deb ... 133s Unpacking libc6:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 133s Setting up libc6:amd64 (2.41-1ubuntu2) ... 133s (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 ... 84827 files and directories currently installed.) 133s Preparing to unpack .../libc-bin_2.41-1ubuntu2_amd64.deb ... 133s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 133s Setting up libc-bin (2.41-1ubuntu2) ... 133s (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 ... 84827 files and directories currently installed.) 133s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 133s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 133s Setting up locales (2.41-1ubuntu2) ... 134s Generating locales (this might take a while)... 135s en_US.UTF-8... done 135s Generation complete. 135s Setting up libc-dev-bin (2.41-1ubuntu2) ... 135s Setting up libc6-dev:amd64 (2.41-1ubuntu2) ... 135s Processing triggers for man-db (2.13.0-1) ... 136s Processing triggers for systemd (257.3-1ubuntu3) ... 137s Reading package lists... 137s Building dependency tree... 137s Reading state information... 138s Starting pkgProblemResolver with broken count: 0 138s Starting 2 pkgProblemResolver with broken count: 0 138s Done 138s Solving dependencies... 138s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 138s autopkgtest [22:03:50]: rebooting testbed after setup commands that affected boot 142s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds... 153s autopkgtest [22:04:05]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 16:07:00 UTC 2025 154s autopkgtest [22:04:06]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-variantannotation 155s Get:1 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-variantannotation 1.52.0-2 (dsc) [2626 B] 155s Get:2 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-variantannotation 1.52.0-2 (tar) [2146 kB] 155s Get:3 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-variantannotation 1.52.0-2 (diff) [8296 B] 156s gpgv: Signature made Mon Jan 13 22:34:03 2025 UTC 156s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 156s gpgv: issuer "crusoe@debian.org" 156s gpgv: Can't check signature: No public key 156s dpkg-source: warning: cannot verify inline signature for ./r-bioc-variantannotation_1.52.0-2.dsc: no acceptable signature found 156s autopkgtest [22:04:08]: testing package r-bioc-variantannotation version 1.52.0-2 156s autopkgtest [22:04:08]: build not needed 157s autopkgtest [22:04:09]: test pkg-r-autopkgtest: preparing testbed 157s Reading package lists... 158s Building dependency tree... 158s Reading state information... 158s Starting pkgProblemResolver with broken count: 0 158s Starting 2 pkgProblemResolver with broken count: 0 158s Done 159s The following NEW packages will be installed: 159s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 159s dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 159s fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax 159s g++ g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 159s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-14 159s gfortran-14-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools 159s imagemagick-7-common javascript-common libaom3 libasan8 159s libbibtex-parser-perl libblas-dev libblas3 libboost-dev libboost1.83-dev 159s libbz2-dev libcairo2 libcc1-0 libdatrie1 libde265-0 libdeflate-dev 159s libdeflate0 libfftw3-double3 libfontconfig1 libgcc-14-dev libgfortran-14-dev 159s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libheif-plugin-aomdec 159s libheif-plugin-libde265 libheif1 libhwasan0 libice6 libicu-dev 159s libio-string-perl libisl23 libitm1 libjbig0 libjpeg-dev libjpeg-turbo8 159s libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-bootstrap libjs-bootstrap4 159s libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery 159s libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json 159s libjs-lunr libjs-mathjax libjs-microplugin.js libjs-modernizr 159s libjs-popper.js libjs-prettify libjs-sifter.js 159s libjs-twitter-bootstrap-datepicker libkpathsea6 liblapack-dev liblapack3 159s liblatex-tounicode-perl liblcms2-2 liblerc4 liblqr-1-0 liblsan0 libltdl7 159s liblua5.4-0 liblzma-dev libmagick++-7.q16-5 libmagickcore-7.q16-10 159s libmagickwand-7.q16-10 libmpc3 libmpfi0 libncurses-dev libopenjp2-7 159s libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils 159s libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 159s libpixman-1-0 libpkgconf3 libpng-dev libpotrace0 libptexenc1 libquadmath0 159s libraw23t64 libreadline-dev libsharpyuv0 libsm6 libstdc++-14-dev libsynctex2 159s libtcl8.6 libteckit0 libtexlua53-5 libthai-data libthai0 libtiff6 159s libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7 libwebpdemux2 libwebpmux3 159s libxaw7 libxcb-render0 libxcb-shm0 libxft2 libxi6 libxmu6 libxpm4 159s libxrender1 libxss1 libxt6t64 libzzip-0-13t64 littler node-bootstrap-sass 159s node-html5shiv node-normalize.css pandoc pandoc-data pkg-r-autopkgtest 159s pkgconf pkgconf-bin r-base-core r-base-dev r-bioc-annotationdbi 159s r-bioc-annotationhub r-bioc-biobase r-bioc-biocfilecache r-bioc-biocgenerics 159s r-bioc-biocio r-bioc-biocparallel r-bioc-biocstyle r-bioc-biocversion 159s r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray r-bioc-genomeinfodb 159s r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures 159s r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics 159s r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays 159s r-bioc-s4vectors r-bioc-snpstats r-bioc-sparsearray 159s r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-variantannotation 159s r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-base64enc 159s r-cran-bh r-cran-biocmanager r-cran-bit r-cran-bit64 r-cran-bitops 159s r-cran-blob r-cran-bookdown r-cran-bslib r-cran-cachem r-cran-cli 159s r-cran-codetools r-cran-colorspace r-cran-commonmark r-cran-cpp11 159s r-cran-crayon r-cran-curl r-cran-dbi r-cran-dbplyr r-cran-digest 159s r-cran-dplyr r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap 159s r-cran-filelock r-cran-fontawesome r-cran-formatr r-cran-fs 159s r-cran-futile.logger r-cran-futile.options r-cran-generics r-cran-ggplot2 159s r-cran-glue r-cran-gtable r-cran-highr r-cran-htmltools r-cran-httpuv 159s r-cran-httr r-cran-isoband r-cran-jquerylib r-cran-jsonlite r-cran-knitr 159s r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lifecycle 159s r-cran-littler r-cran-magick r-cran-magrittr r-cran-mass r-cran-matrix 159s r-cran-matrixstats r-cran-memoise r-cran-mgcv r-cran-mime r-cran-munsell 159s r-cran-nlme r-cran-openssl r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten 159s r-cran-plogr r-cran-png r-cran-promises r-cran-purrr r-cran-r6 159s r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl r-cran-restfulr 159s r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rsqlite r-cran-runit 159s r-cran-sass r-cran-scales r-cran-shiny r-cran-snow r-cran-sourcetools 159s r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys r-cran-tibble 159s r-cran-tidyr r-cran-tidyselect r-cran-tinytex r-cran-utf8 r-cran-vctrs 159s r-cran-viridislite r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable 159s r-cran-yaml t1utils tex-common texlive-base texlive-bibtex-extra 159s texlive-binaries texlive-latex-base unzip x11-common xdg-utils zip 159s zlib1g-dev 159s 0 upgraded, 302 newly installed, 0 to remove and 0 not upgraded. 159s Need to get 482 MB of archives. 159s After this operation, 1434 MB of additional disk space will be used. 159s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250222-0ubuntu1 [148 kB] 159s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libfftw3-double3 amd64 3.3.10-2fakesync1build1 [839 kB] 159s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 159s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 159s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-2ubuntu1 [37.4 kB] 159s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-2ubuntu1 [164 kB] 159s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 159s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libaom3 amd64 3.12.0-1 [2742 kB] 159s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libheif-plugin-aomdec amd64 1.19.7-1 [11.6 kB] 159s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libde265-0 amd64 1.0.15-1build5 [285 kB] 159s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libheif-plugin-libde265 amd64 1.19.7-1 [9060 B] 159s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libheif1 amd64 1.19.7-1 [428 kB] 159s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 159s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB] 159s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 159s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 liblcms2-2 amd64 2.16-2 [212 kB] 159s Get:17 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblqr-1-0 amd64 0.4.2-2.1build2 [28.5 kB] 159s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 libltdl7 amd64 2.5.4-4 [46.5 kB] 159s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 libopenjp2-7 amd64 2.5.3-2 [218 kB] 159s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libraw23t64 amd64 0.21.3-1 [433 kB] 159s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 159s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 159s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 159s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 159s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpdemux2 amd64 1.5.0-0.1 [13.0 kB] 159s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebpmux3 amd64 1.5.0-0.1 [27.6 kB] 159s Get:27 http://ftpmaster.internal/ubuntu plucky/universe amd64 imagemagick-7-common all 8:7.1.1.43+dfsg1-1 [69.7 kB] 159s Get:28 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmagickcore-7.q16-10 amd64 8:7.1.1.43+dfsg1-1 [2306 kB] 159s Get:29 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmagickwand-7.q16-10 amd64 8:7.1.1.43+dfsg1-1 [347 kB] 159s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 159s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 159s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [11.9 MB] 160s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-17ubuntu3 [1030 B] 160s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [5586 B] 160s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.2.0-1ubuntu1 [22.4 kB] 160s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 15-20250222-0ubuntu1 [47.0 kB] 160s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 15-20250222-0ubuntu1 [28.6 kB] 160s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 15-20250222-0ubuntu1 [3055 kB] 160s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 15-20250222-0ubuntu1 [1355 kB] 160s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 15-20250222-0ubuntu1 [2756 kB] 160s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 15-20250222-0ubuntu1 [1205 kB] 160s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 15-20250222-0ubuntu1 [1677 kB] 160s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 15-20250222-0ubuntu1 [152 kB] 160s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-17ubuntu3 [2816 kB] 160s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [23.3 MB] 160s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-17ubuntu3 [536 kB] 160s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1208 B] 160s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.2.0-1ubuntu1 [5004 B] 160s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-17ubuntu3 [2486 kB] 160s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [13.4 MB] 161s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-17ubuntu3 [21.8 kB] 161s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [968 B] 161s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.2.0-1ubuntu1 [1100 B] 161s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 161s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 dctrl-tools amd64 2.24-3build3 [106 kB] 161s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-2ubuntu1 [180 kB] 161s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 161s Get:58 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 161s Get:59 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lmodern all 2.005-1 [4799 kB] 161s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 161s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250222-0ubuntu1 [919 kB] 161s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran-14-dev amd64 14.2.0-17ubuntu3 [966 kB] 161s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [12.6 MB] 161s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-14 amd64 14.2.0-17ubuntu3 [13.6 kB] 161s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1022 B] 161s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran amd64 4:14.2.0-1ubuntu1 [1174 B] 161s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 icu-devtools amd64 76.1-1ubuntu2 [237 kB] 161s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 javascript-common all 12 [5216 B] 161s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libio-string-perl all 1.08-4 [11.1 kB] 161s Get:70 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblatex-tounicode-perl all 0.55-1 [28.8 kB] 161s Get:71 http://ftpmaster.internal/ubuntu plucky/universe amd64 libbibtex-parser-perl all 1.05+dfsg-1 [16.5 kB] 161s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 161s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas-dev amd64 3.12.1-2 [338 kB] 161s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost1.83-dev amd64 1.83.0-4.1ubuntu2 [10.7 MB] 161s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost-dev amd64 1.83.0.2ubuntu1 [4468 B] 161s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libbz2-dev amd64 1.0.8-6 [33.8 kB] 161s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 161s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 161s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 161s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 161s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 161s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 161s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate-dev amd64 1.23-1 [71.7 kB] 161s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 161s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 161s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 161s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB] 161s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 libicu-dev amd64 76.1-1ubuntu2 [12.6 MB] 161s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8-dev amd64 2.1.5-3ubuntu2 [324 kB] 161s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B] 161s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B] 161s Get:92 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 161s Get:93 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB] 161s Get:94 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB] 161s Get:95 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-d3 all 3.5.17-4 [132 kB] 161s Get:96 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB] 161s Get:97 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB] 161s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 161s Get:99 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB] 161s Get:100 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB] 161s Get:101 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B] 161s Get:102 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB] 161s Get:103 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 161s Get:104 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-json all 0~20221030+~1.0.8-1 [20.6 kB] 161s Get:105 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-lunr all 2.3.9~dfsg-2 [66.8 kB] 161s Get:106 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB] 161s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 libkpathsea6 amd64 2024.20240313.70630+ds-6 [67.3 kB] 161s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 162s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack-dev amd64 3.12.1-2 [6489 kB] 162s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 liblua5.4-0 amd64 5.4.7-1 [196 kB] 162s Get:111 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmagick++-7.q16-5 amd64 8:7.1.1.43+dfsg1-1 [182 kB] 162s Get:112 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmpfi0 amd64 1.5.4+ds-4 [35.5 kB] 162s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses-dev amd64 6.5+20250216-2 [424 kB] 162s Get:114 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 162s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 162s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 libpango-1.0-0 amd64 1.56.2-1 [255 kB] 162s Get:117 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangoft2-1.0-0 amd64 1.56.2-1 [52.6 kB] 162s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangocairo-1.0-0 amd64 1.56.2-1 [29.1 kB] 162s Get:119 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper2 amd64 2.2.5-0.3 [17.4 kB] 162s Get:120 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper-utils amd64 2.2.5-0.3 [15.5 kB] 162s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-16-0 amd64 10.45-1 [268 kB] 162s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-32-0 amd64 10.45-1 [251 kB] 162s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-posix3 amd64 10.45-1 [7204 B] 162s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-dev amd64 10.45-1 [908 kB] 162s Get:125 http://ftpmaster.internal/ubuntu plucky/main amd64 libpkgconf3 amd64 1.8.1-4 [32.3 kB] 162s Get:126 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB] 162s Get:127 http://ftpmaster.internal/ubuntu plucky/main amd64 libpng-dev amd64 1.6.47-1 [298 kB] 162s Get:128 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpotrace0 amd64 1.16-2build1 [17.7 kB] 162s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 libptexenc1 amd64 2024.20240313.70630+ds-6 [43.7 kB] 162s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 libreadline-dev amd64 8.2-6 [184 kB] 162s Get:131 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB] 162s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 libsynctex2 amd64 2024.20240313.70630+ds-6 [62.5 kB] 162s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB] 162s Get:134 http://ftpmaster.internal/ubuntu plucky/universe amd64 libteckit0 amd64 2.5.12+ds1-1 [411 kB] 162s Get:135 http://ftpmaster.internal/ubuntu plucky/main amd64 libtexlua53-5 amd64 2024.20240313.70630+ds-6 [145 kB] 162s Get:136 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 162s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 162s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB] 162s Get:139 http://ftpmaster.internal/ubuntu plucky/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB] 162s Get:140 http://ftpmaster.internal/ubuntu plucky/main amd64 libxmu6 amd64 2:1.1.3-3build2 [47.6 kB] 162s Get:141 http://ftpmaster.internal/ubuntu plucky/main amd64 libxpm4 amd64 1:3.5.17-1build2 [36.5 kB] 162s Get:142 http://ftpmaster.internal/ubuntu plucky/main amd64 libxaw7 amd64 2:1.0.16-1 [207 kB] 162s Get:143 http://ftpmaster.internal/ubuntu plucky/main amd64 libxi6 amd64 2:1.8.2-1 [32.4 kB] 162s Get:144 http://ftpmaster.internal/ubuntu plucky/universe amd64 libzzip-0-13t64 amd64 0.13.78+dfsg.1-0.1 [30.0 kB] 162s Get:145 http://ftpmaster.internal/ubuntu plucky/main amd64 zip amd64 3.0-14ubuntu2 [185 kB] 162s Get:146 http://ftpmaster.internal/ubuntu plucky/main amd64 unzip amd64 6.0-28ubuntu6 [181 kB] 162s Get:147 http://ftpmaster.internal/ubuntu plucky/main amd64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 162s Get:148 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-base-core amd64 4.4.3-1 [28.9 MB] 162s Get:149 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-littler amd64 0.3.20-2 [96.6 kB] 162s Get:150 http://ftpmaster.internal/ubuntu plucky/universe amd64 littler all 0.3.20-2 [2554 B] 162s Get:151 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB] 162s Get:152 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 162s Get:153 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB] 162s Get:154 http://ftpmaster.internal/ubuntu plucky/universe amd64 pandoc-data all 3.1.11.1-3build1 [78.8 kB] 162s Get:155 http://ftpmaster.internal/ubuntu plucky/universe amd64 pandoc amd64 3.1.11.1+ds-2 [27.2 MB] 163s Get:156 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma-dev amd64 5.6.4-1 [189 kB] 163s Get:157 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf-bin amd64 1.8.1-4 [21.6 kB] 163s Get:158 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf amd64 1.8.1-4 [16.8 kB] 163s Get:159 http://ftpmaster.internal/ubuntu plucky/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [193 kB] 163s Get:160 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-base-dev all 4.4.3-1 [4176 B] 163s Get:161 http://ftpmaster.internal/ubuntu plucky/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B] 163s Get:162 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocgenerics all 0.52.0-2 [624 kB] 163s Get:163 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biobase amd64 2.66.0-2 [2332 kB] 163s Get:164 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-s4vectors amd64 0.44.0+dfsg-2 [2065 kB] 163s Get:165 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-iranges amd64 2.40.1-2 [2310 kB] 163s Get:166 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-dbi all 1.2.3-1 [853 kB] 163s Get:167 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bit amd64 4.6.0+dfsg-1 [466 kB] 163s Get:168 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bit64 amd64 4.6.0-1-1ubuntu2 [501 kB] 163s Get:169 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rlang amd64 1.1.5-1 [1719 kB] 163s Get:170 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB] 163s Get:171 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB] 163s Get:172 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 163s Get:173 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB] 163s Get:174 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-blob all 1.2.4-1 [49.8 kB] 163s Get:175 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB] 163s Get:176 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB] 163s Get:177 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB] 163s Get:178 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 163s Get:179 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-plogr all 0.2.0-3build1 [15.1 kB] 163s Get:180 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cpp11 all 0.5.2-1 [233 kB] 163s Get:181 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rsqlite amd64 2.3.9-1 [1467 kB] 163s Get:182 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-curl amd64 6.2.1+dfsg-1ubuntu1 [197 kB] 163s Get:183 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB] 163s Get:184 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB] 163s Get:185 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sys amd64 3.4.3-1 [45.3 kB] 163s Get:186 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-askpass amd64 1.2.1-1 [24.9 kB] 163s Get:187 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-openssl amd64 2.3.2+dfsg-1 [407 kB] 163s Get:188 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB] 163s Get:189 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] 163s Get:190 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-png amd64 0.1-8-1build2 [40.6 kB] 163s Get:191 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB] 163s Get:192 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-xvector amd64 0.46.0-2 [620 kB] 163s Get:193 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB] 163s Get:194 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB] 163s Get:195 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB] 163s Get:196 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB] 163s Get:197 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biostrings amd64 2.74.1+dfsg-2 [13.3 MB] 163s Get:198 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-keggrest all 1.46.0+dfsg-2 [183 kB] 163s Get:199 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-annotationdbi all 1.68.0-2 [4857 kB] 163s Get:200 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-generics all 0.1.3-1 [81.3 kB] 163s Get:201 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB] 163s Get:202 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-utf8 amd64 1.2.4-1 [140 kB] 163s Get:203 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pillar all 1.10.1+dfsg-1 [453 kB] 163s Get:204 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fansi amd64 1.0.5-1 [619 kB] 163s Get:205 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tibble amd64 3.2.1+dfsg-3 [419 kB] 163s Get:206 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-withr all 3.0.2+dfsg-1 [214 kB] 163s Get:207 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tidyselect amd64 1.2.1+dfsg-1 [222 kB] 163s Get:208 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-dplyr amd64 1.1.4-4 [1536 kB] 163s Get:209 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-purrr amd64 1.0.4-1 [552 kB] 163s Get:210 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-stringi amd64 1.8.4-1build1 [927 kB] 163s Get:211 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB] 163s Get:212 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tidyr amd64 1.3.1-1 [1156 kB] 163s Get:213 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-dbplyr all 2.5.0+dfsg-1 [1233 kB] 163s Get:214 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-filelock amd64 1.0.3-1 [29.6 kB] 163s Get:215 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocfilecache all 2.14.0+dfsg-2 [300 kB] 163s Get:216 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB] 163s Get:217 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocversion all 3.20.0-2 [11.1 kB] 163s Get:218 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rappdirs amd64 0.3.3-1 [47.5 kB] 163s Get:219 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB] 163s Get:220 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-annotationhub all 3.14.0+dfsg-2 [447 kB] 163s Get:221 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocio all 1.16.0+dfsg-2 [209 kB] 163s Get:222 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-formatr all 1.14-2 [152 kB] 163s Get:223 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-lambda.r all 1.2.4-2build1 [119 kB] 163s Get:224 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-futile.options all 1.0.1-3build1 [20.2 kB] 163s Get:225 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-futile.logger all 1.4.3-4build1 [99.3 kB] 163s Get:226 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-snow all 1:0.4.4-2 [97.6 kB] 163s Get:227 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-codetools all 0.2-20-1 [90.5 kB] 163s Get:228 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bh all 1.84.0-1 [5962 B] 163s Get:229 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocparallel amd64 1.40.0-2 [1337 kB] 163s Get:230 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-base64enc amd64 0.1-3-3 [27.6 kB] 163s Get:231 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-digest amd64 0.6.37-1 [200 kB] 163s Get:232 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB] 163s Get:233 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-evaluate all 1.0.3-1 [114 kB] 163s Get:234 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xfun amd64 0.51+dfsg-1 [574 kB] 163s Get:235 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-highr all 0.11+dfsg-1 [38.5 kB] 163s Get:236 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 163s Get:237 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-knitr all 1.49+dfsg-1 [859 kB] 163s Get:238 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB] 163s Get:239 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fs amd64 1.6.5+dfsg-1 [246 kB] 163s Get:240 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB] 164s Get:241 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bslib all 0.8.0+dfsg-1 [4294 kB] 164s Get:242 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fontawesome all 0.5.3-1 [1331 kB] 164s Get:243 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tinytex all 0.56-1 [148 kB] 164s Get:244 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-modernizr all 3.13.0-0.1 [101 kB] 164s Get:245 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB] 164s Get:246 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rcpp amd64 1.0.14-1 [1998 kB] 164s Get:247 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-later amd64 1.4.1+dfsg-1 [154 kB] 164s Get:248 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-promises amd64 1.3.2+dfsg-1 [291 kB] 164s Get:249 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB] 164s Get:250 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] 164s Get:251 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB] 164s Get:252 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-commonmark amd64 1.9.2-2 [137 kB] 164s Get:253 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] 164s Get:254 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-shiny all 1.10.0+dfsg-2 [3124 kB] 164s Get:255 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rmarkdown all 2.29+dfsg-1 [1501 kB] 164s Get:256 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bookdown all 0.42+dfsg-1 [1409 kB] 164s Get:257 http://ftpmaster.internal/ubuntu plucky/universe amd64 tex-common all 6.19 [29.8 kB] 164s Get:258 http://ftpmaster.internal/ubuntu plucky/main amd64 t1utils amd64 1.41-4build3 [61.3 kB] 164s Get:259 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-binaries amd64 2024.20240313.70630+ds-6 [9789 kB] 164s Get:260 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-base all 2024.20250114-1 [22.5 MB] 164s Get:261 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-latex-base all 2024.20250114-1 [1264 kB] 164s Get:262 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-bibtex-extra all 2024.20250114-1 [79.5 MB] 166s Get:263 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocstyle all 2.34.0+dfsg-1 [451 kB] 166s Get:264 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomicranges amd64 1.58.0+dfsg-2 [2083 kB] 166s Get:265 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xml amd64 3.99-0.18-1 [1748 kB] 166s Get:266 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bitops amd64 1.0-9-1 [30.3 kB] 166s Get:267 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-rhtslib amd64 3.2.0+dfsg-2 [1499 kB] 166s Get:268 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-rsamtools amd64 2.22.0+dfsg-2 [3745 kB] 166s Get:269 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-matrixstats amd64 1.5.0-1 [542 kB] 166s Get:270 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-matrixgenerics all 1.18.1-1 [450 kB] 166s Get:271 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-lattice amd64 0.22-6-1 [1340 kB] 166s Get:272 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-matrix amd64 1.7-3-1 [4349 kB] 166s Get:273 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-abind all 1.4-8-1 [66.9 kB] 166s Get:274 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-s4arrays amd64 1.6.0+dfsg-2 [698 kB] 166s Get:275 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-sparsearray amd64 1.6.2+dfsg-1 [1392 kB] 166s Get:276 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-delayedarray amd64 0.32.0+dfsg-2 [2064 kB] 166s Get:277 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1109 kB] 166s Get:278 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomicalignments amd64 1.42.0-2 [2165 kB] 166s Get:279 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rcurl amd64 1.98-1.16+dfsg-1 [807 kB] 166s Get:280 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rjson amd64 0.2.23-1 [104 kB] 166s Get:281 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-restfulr amd64 0.0.15-1 [380 kB] 166s Get:282 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-rtracklayer amd64 1.66.0-2 [5227 kB] 166s Get:283 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-bsgenome all 1.74.0-2 [7001 kB] 166s Get:284 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomicfeatures all 1.58.0+dfsg-2 [937 kB] 166s Get:285 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-survival amd64 3.8-3-1 [8239 kB] 166s Get:286 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-snpstats amd64 1.56.0+dfsg-2 [8473 kB] 166s Get:287 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-variantannotation amd64 1.52.0-2 [3642 kB] 166s Get:288 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-colorspace amd64 2.1-1+dfsg-1 [1563 kB] 166s Get:289 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-farver amd64 2.1.2-1 [1355 kB] 166s Get:290 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-gtable all 0.3.6+dfsg-1 [199 kB] 166s Get:291 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-isoband amd64 0.2.7-1 [1481 kB] 166s Get:292 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-mass amd64 7.3-64-1 [1114 kB] 167s Get:293 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-nlme amd64 3.1.167-1 [2320 kB] 167s Get:294 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-mgcv amd64 1.9-1-1 [3252 kB] 167s Get:295 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-labeling all 0.4.3-1 [62.1 kB] 167s Get:296 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-munsell all 0.5.1-1 [213 kB] 167s Get:297 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB] 167s Get:298 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-viridislite all 0.4.2-2 [1088 kB] 167s Get:299 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-scales all 1.3.0-1 [603 kB] 167s Get:300 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3940 kB] 167s Get:301 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-magick amd64 2.8.5+dfsg-1build1 [534 kB] 167s Get:302 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-runit all 0.4.33-1 [377 kB] 167s Preconfiguring packages ... 167s Fetched 482 MB in 8s (60.4 MB/s) 167s Selecting previously unselected package libgomp1:amd64. 168s (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 ... 84827 files and directories currently installed.) 168s Preparing to unpack .../000-libgomp1_15-20250222-0ubuntu1_amd64.deb ... 168s Unpacking libgomp1:amd64 (15-20250222-0ubuntu1) ... 168s Selecting previously unselected package libfftw3-double3:amd64. 168s Preparing to unpack .../001-libfftw3-double3_3.3.10-2fakesync1build1_amd64.deb ... 168s Unpacking libfftw3-double3:amd64 (3.3.10-2fakesync1build1) ... 168s Selecting previously unselected package fonts-dejavu-mono. 168s Preparing to unpack .../002-fonts-dejavu-mono_2.37-8_all.deb ... 168s Unpacking fonts-dejavu-mono (2.37-8) ... 168s Selecting previously unselected package fonts-dejavu-core. 168s Preparing to unpack .../003-fonts-dejavu-core_2.37-8_all.deb ... 168s Unpacking fonts-dejavu-core (2.37-8) ... 168s Selecting previously unselected package fontconfig-config. 168s Preparing to unpack .../004-fontconfig-config_2.15.0-2ubuntu1_amd64.deb ... 168s Unpacking fontconfig-config (2.15.0-2ubuntu1) ... 168s Selecting previously unselected package libfontconfig1:amd64. 168s Preparing to unpack .../005-libfontconfig1_2.15.0-2ubuntu1_amd64.deb ... 168s Unpacking libfontconfig1:amd64 (2.15.0-2ubuntu1) ... 168s Selecting previously unselected package libsharpyuv0:amd64. 168s Preparing to unpack .../006-libsharpyuv0_1.5.0-0.1_amd64.deb ... 168s Unpacking libsharpyuv0:amd64 (1.5.0-0.1) ... 168s Selecting previously unselected package libaom3:amd64. 168s Preparing to unpack .../007-libaom3_3.12.0-1_amd64.deb ... 168s Unpacking libaom3:amd64 (3.12.0-1) ... 168s Selecting previously unselected package libheif-plugin-aomdec:amd64. 168s Preparing to unpack .../008-libheif-plugin-aomdec_1.19.7-1_amd64.deb ... 168s Unpacking libheif-plugin-aomdec:amd64 (1.19.7-1) ... 168s Selecting previously unselected package libde265-0:amd64. 168s Preparing to unpack .../009-libde265-0_1.0.15-1build5_amd64.deb ... 168s Unpacking libde265-0:amd64 (1.0.15-1build5) ... 168s Selecting previously unselected package libheif-plugin-libde265:amd64. 168s Preparing to unpack .../010-libheif-plugin-libde265_1.19.7-1_amd64.deb ... 168s Unpacking libheif-plugin-libde265:amd64 (1.19.7-1) ... 168s Selecting previously unselected package libheif1:amd64. 168s Preparing to unpack .../011-libheif1_1.19.7-1_amd64.deb ... 168s Unpacking libheif1:amd64 (1.19.7-1) ... 168s Selecting previously unselected package libjbig0:amd64. 168s Preparing to unpack .../012-libjbig0_2.1-6.1ubuntu2_amd64.deb ... 168s Unpacking libjbig0:amd64 (2.1-6.1ubuntu2) ... 168s Selecting previously unselected package libjpeg-turbo8:amd64. 168s Preparing to unpack .../013-libjpeg-turbo8_2.1.5-3ubuntu2_amd64.deb ... 168s Unpacking libjpeg-turbo8:amd64 (2.1.5-3ubuntu2) ... 168s Selecting previously unselected package libjpeg8:amd64. 169s Preparing to unpack .../014-libjpeg8_8c-2ubuntu11_amd64.deb ... 169s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ... 169s Selecting previously unselected package liblcms2-2:amd64. 169s Preparing to unpack .../015-liblcms2-2_2.16-2_amd64.deb ... 169s Unpacking liblcms2-2:amd64 (2.16-2) ... 169s Selecting previously unselected package liblqr-1-0:amd64. 169s Preparing to unpack .../016-liblqr-1-0_0.4.2-2.1build2_amd64.deb ... 169s Unpacking liblqr-1-0:amd64 (0.4.2-2.1build2) ... 169s Selecting previously unselected package libltdl7:amd64. 169s Preparing to unpack .../017-libltdl7_2.5.4-4_amd64.deb ... 169s Unpacking libltdl7:amd64 (2.5.4-4) ... 169s Selecting previously unselected package libopenjp2-7:amd64. 169s Preparing to unpack .../018-libopenjp2-7_2.5.3-2_amd64.deb ... 169s Unpacking libopenjp2-7:amd64 (2.5.3-2) ... 169s Selecting previously unselected package libraw23t64:amd64. 169s Preparing to unpack .../019-libraw23t64_0.21.3-1_amd64.deb ... 169s Unpacking libraw23t64:amd64 (0.21.3-1) ... 169s Selecting previously unselected package libdeflate0:amd64. 169s Preparing to unpack .../020-libdeflate0_1.23-1_amd64.deb ... 169s Unpacking libdeflate0:amd64 (1.23-1) ... 169s Selecting previously unselected package liblerc4:amd64. 169s Preparing to unpack .../021-liblerc4_4.0.0+ds-5ubuntu1_amd64.deb ... 169s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 169s Selecting previously unselected package libwebp7:amd64. 169s Preparing to unpack .../022-libwebp7_1.5.0-0.1_amd64.deb ... 169s Unpacking libwebp7:amd64 (1.5.0-0.1) ... 169s Selecting previously unselected package libtiff6:amd64. 169s Preparing to unpack .../023-libtiff6_4.5.1+git230720-4ubuntu4_amd64.deb ... 169s Unpacking libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ... 169s Selecting previously unselected package libwebpdemux2:amd64. 169s Preparing to unpack .../024-libwebpdemux2_1.5.0-0.1_amd64.deb ... 169s Unpacking libwebpdemux2:amd64 (1.5.0-0.1) ... 169s Selecting previously unselected package libwebpmux3:amd64. 169s Preparing to unpack .../025-libwebpmux3_1.5.0-0.1_amd64.deb ... 169s Unpacking libwebpmux3:amd64 (1.5.0-0.1) ... 169s Selecting previously unselected package imagemagick-7-common. 169s Preparing to unpack .../026-imagemagick-7-common_8%3a7.1.1.43+dfsg1-1_all.deb ... 169s Unpacking imagemagick-7-common (8:7.1.1.43+dfsg1-1) ... 169s Selecting previously unselected package libmagickcore-7.q16-10:amd64. 169s Preparing to unpack .../027-libmagickcore-7.q16-10_8%3a7.1.1.43+dfsg1-1_amd64.deb ... 169s Unpacking libmagickcore-7.q16-10:amd64 (8:7.1.1.43+dfsg1-1) ... 169s Selecting previously unselected package libmagickwand-7.q16-10:amd64. 169s Preparing to unpack .../028-libmagickwand-7.q16-10_8%3a7.1.1.43+dfsg1-1_amd64.deb ... 169s Unpacking libmagickwand-7.q16-10:amd64 (8:7.1.1.43+dfsg1-1) ... 169s Selecting previously unselected package libisl23:amd64. 169s Preparing to unpack .../029-libisl23_0.27-1_amd64.deb ... 169s Unpacking libisl23:amd64 (0.27-1) ... 169s Selecting previously unselected package libmpc3:amd64. 169s Preparing to unpack .../030-libmpc3_1.3.1-1build2_amd64.deb ... 169s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 169s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 169s Preparing to unpack .../031-cpp-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 169s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 169s Selecting previously unselected package cpp-14. 169s Preparing to unpack .../032-cpp-14_14.2.0-17ubuntu3_amd64.deb ... 169s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 169s Selecting previously unselected package cpp-x86-64-linux-gnu. 169s Preparing to unpack .../033-cpp-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 169s Unpacking cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 169s Selecting previously unselected package cpp. 169s Preparing to unpack .../034-cpp_4%3a14.2.0-1ubuntu1_amd64.deb ... 169s Unpacking cpp (4:14.2.0-1ubuntu1) ... 169s Selecting previously unselected package libcc1-0:amd64. 169s Preparing to unpack .../035-libcc1-0_15-20250222-0ubuntu1_amd64.deb ... 169s Unpacking libcc1-0:amd64 (15-20250222-0ubuntu1) ... 169s Selecting previously unselected package libitm1:amd64. 169s Preparing to unpack .../036-libitm1_15-20250222-0ubuntu1_amd64.deb ... 169s Unpacking libitm1:amd64 (15-20250222-0ubuntu1) ... 169s Selecting previously unselected package libasan8:amd64. 170s Preparing to unpack .../037-libasan8_15-20250222-0ubuntu1_amd64.deb ... 170s Unpacking libasan8:amd64 (15-20250222-0ubuntu1) ... 170s Selecting previously unselected package liblsan0:amd64. 170s Preparing to unpack .../038-liblsan0_15-20250222-0ubuntu1_amd64.deb ... 170s Unpacking liblsan0:amd64 (15-20250222-0ubuntu1) ... 170s Selecting previously unselected package libtsan2:amd64. 170s Preparing to unpack .../039-libtsan2_15-20250222-0ubuntu1_amd64.deb ... 170s Unpacking libtsan2:amd64 (15-20250222-0ubuntu1) ... 170s Selecting previously unselected package libubsan1:amd64. 170s Preparing to unpack .../040-libubsan1_15-20250222-0ubuntu1_amd64.deb ... 170s Unpacking libubsan1:amd64 (15-20250222-0ubuntu1) ... 170s Selecting previously unselected package libhwasan0:amd64. 170s Preparing to unpack .../041-libhwasan0_15-20250222-0ubuntu1_amd64.deb ... 170s Unpacking libhwasan0:amd64 (15-20250222-0ubuntu1) ... 170s Selecting previously unselected package libquadmath0:amd64. 170s Preparing to unpack .../042-libquadmath0_15-20250222-0ubuntu1_amd64.deb ... 170s Unpacking libquadmath0:amd64 (15-20250222-0ubuntu1) ... 170s Selecting previously unselected package libgcc-14-dev:amd64. 170s Preparing to unpack .../043-libgcc-14-dev_14.2.0-17ubuntu3_amd64.deb ... 170s Unpacking libgcc-14-dev:amd64 (14.2.0-17ubuntu3) ... 170s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 170s Preparing to unpack .../044-gcc-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 170s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 170s Selecting previously unselected package gcc-14. 170s Preparing to unpack .../045-gcc-14_14.2.0-17ubuntu3_amd64.deb ... 170s Unpacking gcc-14 (14.2.0-17ubuntu3) ... 170s Selecting previously unselected package gcc-x86-64-linux-gnu. 170s Preparing to unpack .../046-gcc-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 170s Unpacking gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 170s Selecting previously unselected package gcc. 170s Preparing to unpack .../047-gcc_4%3a14.2.0-1ubuntu1_amd64.deb ... 170s Unpacking gcc (4:14.2.0-1ubuntu1) ... 170s Selecting previously unselected package libstdc++-14-dev:amd64. 170s Preparing to unpack .../048-libstdc++-14-dev_14.2.0-17ubuntu3_amd64.deb ... 170s Unpacking libstdc++-14-dev:amd64 (14.2.0-17ubuntu3) ... 171s Selecting previously unselected package g++-14-x86-64-linux-gnu. 171s Preparing to unpack .../049-g++-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 171s Unpacking g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 171s Selecting previously unselected package g++-14. 171s Preparing to unpack .../050-g++-14_14.2.0-17ubuntu3_amd64.deb ... 171s Unpacking g++-14 (14.2.0-17ubuntu3) ... 171s Selecting previously unselected package g++-x86-64-linux-gnu. 171s Preparing to unpack .../051-g++-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 171s Unpacking g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 171s Selecting previously unselected package g++. 171s Preparing to unpack .../052-g++_4%3a14.2.0-1ubuntu1_amd64.deb ... 171s Unpacking g++ (4:14.2.0-1ubuntu1) ... 171s Selecting previously unselected package build-essential. 171s Preparing to unpack .../053-build-essential_12.10ubuntu1_amd64.deb ... 171s Unpacking build-essential (12.10ubuntu1) ... 171s Selecting previously unselected package dctrl-tools. 171s Preparing to unpack .../054-dctrl-tools_2.24-3build3_amd64.deb ... 171s Unpacking dctrl-tools (2.24-3build3) ... 171s Selecting previously unselected package fontconfig. 171s Preparing to unpack .../055-fontconfig_2.15.0-2ubuntu1_amd64.deb ... 171s Unpacking fontconfig (2.15.0-2ubuntu1) ... 171s Selecting previously unselected package fonts-font-awesome. 171s Preparing to unpack .../056-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ... 171s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ... 171s Selecting previously unselected package fonts-glyphicons-halflings. 171s Preparing to unpack .../057-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ... 171s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ... 171s Selecting previously unselected package fonts-lmodern. 171s Preparing to unpack .../058-fonts-lmodern_2.005-1_all.deb ... 171s Unpacking fonts-lmodern (2.005-1) ... 171s Selecting previously unselected package fonts-mathjax. 171s Preparing to unpack .../059-fonts-mathjax_2.7.9+dfsg-1_all.deb ... 171s Unpacking fonts-mathjax (2.7.9+dfsg-1) ... 171s Selecting previously unselected package libgfortran5:amd64. 171s Preparing to unpack .../060-libgfortran5_15-20250222-0ubuntu1_amd64.deb ... 171s Unpacking libgfortran5:amd64 (15-20250222-0ubuntu1) ... 171s Selecting previously unselected package libgfortran-14-dev:amd64. 171s Preparing to unpack .../061-libgfortran-14-dev_14.2.0-17ubuntu3_amd64.deb ... 171s Unpacking libgfortran-14-dev:amd64 (14.2.0-17ubuntu3) ... 171s Selecting previously unselected package gfortran-14-x86-64-linux-gnu. 171s Preparing to unpack .../062-gfortran-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 171s Unpacking gfortran-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 172s Selecting previously unselected package gfortran-14. 172s Preparing to unpack .../063-gfortran-14_14.2.0-17ubuntu3_amd64.deb ... 172s Unpacking gfortran-14 (14.2.0-17ubuntu3) ... 172s Selecting previously unselected package gfortran-x86-64-linux-gnu. 172s Preparing to unpack .../064-gfortran-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 172s Unpacking gfortran-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 172s Selecting previously unselected package gfortran. 172s Preparing to unpack .../065-gfortran_4%3a14.2.0-1ubuntu1_amd64.deb ... 172s Unpacking gfortran (4:14.2.0-1ubuntu1) ... 172s Selecting previously unselected package icu-devtools. 172s Preparing to unpack .../066-icu-devtools_76.1-1ubuntu2_amd64.deb ... 172s Unpacking icu-devtools (76.1-1ubuntu2) ... 172s Selecting previously unselected package javascript-common. 172s Preparing to unpack .../067-javascript-common_12_all.deb ... 172s Unpacking javascript-common (12) ... 172s Selecting previously unselected package libio-string-perl. 172s Preparing to unpack .../068-libio-string-perl_1.08-4_all.deb ... 172s Unpacking libio-string-perl (1.08-4) ... 172s Selecting previously unselected package liblatex-tounicode-perl. 172s Preparing to unpack .../069-liblatex-tounicode-perl_0.55-1_all.deb ... 172s Unpacking liblatex-tounicode-perl (0.55-1) ... 172s Selecting previously unselected package libbibtex-parser-perl. 172s Preparing to unpack .../070-libbibtex-parser-perl_1.05+dfsg-1_all.deb ... 172s Unpacking libbibtex-parser-perl (1.05+dfsg-1) ... 172s Selecting previously unselected package libblas3:amd64. 172s Preparing to unpack .../071-libblas3_3.12.1-2_amd64.deb ... 172s Unpacking libblas3:amd64 (3.12.1-2) ... 172s Selecting previously unselected package libblas-dev:amd64. 172s Preparing to unpack .../072-libblas-dev_3.12.1-2_amd64.deb ... 172s Unpacking libblas-dev:amd64 (3.12.1-2) ... 172s Selecting previously unselected package libboost1.83-dev:amd64. 172s Preparing to unpack .../073-libboost1.83-dev_1.83.0-4.1ubuntu2_amd64.deb ... 172s Unpacking libboost1.83-dev:amd64 (1.83.0-4.1ubuntu2) ... 174s Selecting previously unselected package libboost-dev:amd64. 174s Preparing to unpack .../074-libboost-dev_1.83.0.2ubuntu1_amd64.deb ... 174s Unpacking libboost-dev:amd64 (1.83.0.2ubuntu1) ... 174s Selecting previously unselected package libbz2-dev:amd64. 174s Preparing to unpack .../075-libbz2-dev_1.0.8-6_amd64.deb ... 174s Unpacking libbz2-dev:amd64 (1.0.8-6) ... 174s Selecting previously unselected package libpixman-1-0:amd64. 174s Preparing to unpack .../076-libpixman-1-0_0.44.0-3_amd64.deb ... 174s Unpacking libpixman-1-0:amd64 (0.44.0-3) ... 174s Selecting previously unselected package libxcb-render0:amd64. 174s Preparing to unpack .../077-libxcb-render0_1.17.0-2_amd64.deb ... 174s Unpacking libxcb-render0:amd64 (1.17.0-2) ... 174s Selecting previously unselected package libxcb-shm0:amd64. 174s Preparing to unpack .../078-libxcb-shm0_1.17.0-2_amd64.deb ... 174s Unpacking libxcb-shm0:amd64 (1.17.0-2) ... 174s Selecting previously unselected package libxrender1:amd64. 174s Preparing to unpack .../079-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ... 174s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ... 174s Selecting previously unselected package libcairo2:amd64. 174s Preparing to unpack .../080-libcairo2_1.18.2-2_amd64.deb ... 174s Unpacking libcairo2:amd64 (1.18.2-2) ... 174s Selecting previously unselected package libdatrie1:amd64. 174s Preparing to unpack .../081-libdatrie1_0.2.13-3build1_amd64.deb ... 174s Unpacking libdatrie1:amd64 (0.2.13-3build1) ... 175s Selecting previously unselected package libdeflate-dev:amd64. 175s Preparing to unpack .../082-libdeflate-dev_1.23-1_amd64.deb ... 175s Unpacking libdeflate-dev:amd64 (1.23-1) ... 175s Selecting previously unselected package libgraphite2-3:amd64. 175s Preparing to unpack .../083-libgraphite2-3_1.3.14-2ubuntu1_amd64.deb ... 175s Unpacking libgraphite2-3:amd64 (1.3.14-2ubuntu1) ... 175s Selecting previously unselected package libharfbuzz0b:amd64. 175s Preparing to unpack .../084-libharfbuzz0b_10.2.0-1_amd64.deb ... 175s Unpacking libharfbuzz0b:amd64 (10.2.0-1) ... 175s Selecting previously unselected package x11-common. 175s Preparing to unpack .../085-x11-common_1%3a7.7+23ubuntu3_all.deb ... 175s Unpacking x11-common (1:7.7+23ubuntu3) ... 175s Selecting previously unselected package libice6:amd64. 175s Preparing to unpack .../086-libice6_2%3a1.1.1-1_amd64.deb ... 175s Unpacking libice6:amd64 (2:1.1.1-1) ... 175s Selecting previously unselected package libicu-dev:amd64. 175s Preparing to unpack .../087-libicu-dev_76.1-1ubuntu2_amd64.deb ... 175s Unpacking libicu-dev:amd64 (76.1-1ubuntu2) ... 175s Selecting previously unselected package libjpeg-turbo8-dev:amd64. 175s Preparing to unpack .../088-libjpeg-turbo8-dev_2.1.5-3ubuntu2_amd64.deb ... 175s Unpacking libjpeg-turbo8-dev:amd64 (2.1.5-3ubuntu2) ... 175s Selecting previously unselected package libjpeg8-dev:amd64. 175s Preparing to unpack .../089-libjpeg8-dev_8c-2ubuntu11_amd64.deb ... 175s Unpacking 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.../136-libxss1_1%3a1.2.3-1build3_amd64.deb ... 177s Unpacking libxss1:amd64 (1:1.2.3-1build3) ... 177s Selecting previously unselected package libtk8.6:amd64. 177s Preparing to unpack .../137-libtk8.6_8.6.16-1_amd64.deb ... 177s Unpacking libtk8.6:amd64 (8.6.16-1) ... 177s Selecting previously unselected package libxt6t64:amd64. 177s Preparing to unpack .../138-libxt6t64_1%3a1.2.1-1.2build1_amd64.deb ... 177s Unpacking libxt6t64:amd64 (1:1.2.1-1.2build1) ... 177s Selecting previously unselected package libxmu6:amd64. 177s Preparing to unpack .../139-libxmu6_2%3a1.1.3-3build2_amd64.deb ... 177s Unpacking libxmu6:amd64 (2:1.1.3-3build2) ... 177s Selecting previously unselected package libxpm4:amd64. 177s Preparing to unpack .../140-libxpm4_1%3a3.5.17-1build2_amd64.deb ... 177s Unpacking libxpm4:amd64 (1:3.5.17-1build2) ... 177s Selecting previously unselected package libxaw7:amd64. 177s Preparing to unpack .../141-libxaw7_2%3a1.0.16-1_amd64.deb ... 177s Unpacking libxaw7:amd64 (2:1.0.16-1) ... 177s Selecting previously unselected package libxi6:amd64. 177s Preparing to unpack .../142-libxi6_2%3a1.8.2-1_amd64.deb ... 177s Unpacking libxi6:amd64 (2:1.8.2-1) ... 177s Selecting previously unselected package libzzip-0-13t64:amd64. 177s Preparing to unpack .../143-libzzip-0-13t64_0.13.78+dfsg.1-0.1_amd64.deb ... 177s Unpacking libzzip-0-13t64:amd64 (0.13.78+dfsg.1-0.1) ... 177s Selecting previously unselected package zip. 178s Preparing to unpack .../144-zip_3.0-14ubuntu2_amd64.deb ... 178s Unpacking zip (3.0-14ubuntu2) ... 178s Selecting previously unselected package unzip. 178s Preparing to unpack .../145-unzip_6.0-28ubuntu6_amd64.deb ... 178s Unpacking unzip (6.0-28ubuntu6) ... 178s Selecting previously unselected package xdg-utils. 178s Preparing to unpack .../146-xdg-utils_1.2.1-2ubuntu1_all.deb ... 178s Unpacking xdg-utils (1.2.1-2ubuntu1) ... 178s Selecting previously unselected package r-base-core. 178s Preparing to unpack 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unselected package pandoc-data. 178s Preparing to unpack .../153-pandoc-data_3.1.11.1-3build1_all.deb ... 178s Unpacking pandoc-data (3.1.11.1-3build1) ... 178s Selecting previously unselected package pandoc. 178s Preparing to unpack .../154-pandoc_3.1.11.1+ds-2_amd64.deb ... 178s Unpacking pandoc (3.1.11.1+ds-2) ... 179s Selecting previously unselected package liblzma-dev:amd64. 179s Preparing to unpack .../155-liblzma-dev_5.6.4-1_amd64.deb ... 179s Unpacking liblzma-dev:amd64 (5.6.4-1) ... 179s Selecting previously unselected package pkgconf-bin. 179s Preparing to unpack .../156-pkgconf-bin_1.8.1-4_amd64.deb ... 179s Unpacking pkgconf-bin (1.8.1-4) ... 179s Selecting previously unselected package pkgconf:amd64. 179s Preparing to unpack .../157-pkgconf_1.8.1-4_amd64.deb ... 179s Unpacking pkgconf:amd64 (1.8.1-4) ... 179s Selecting previously unselected package libtirpc-dev:amd64. 179s Preparing to unpack .../158-libtirpc-dev_1.3.4+ds-1.3_amd64.deb ... 179s Unpacking libtirpc-dev:amd64 (1.3.4+ds-1.3) ... 179s Selecting previously unselected package r-base-dev. 179s Preparing to unpack .../159-r-base-dev_4.4.3-1_all.deb ... 179s Unpacking r-base-dev (4.4.3-1) ... 179s Selecting previously unselected package pkg-r-autopkgtest. 179s Preparing to unpack .../160-pkg-r-autopkgtest_20231212ubuntu1_all.deb ... 179s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ... 179s Selecting previously unselected package r-bioc-biocgenerics. 179s Preparing to unpack .../161-r-bioc-biocgenerics_0.52.0-2_all.deb ... 179s Unpacking r-bioc-biocgenerics (0.52.0-2) ... 179s Selecting previously unselected package r-bioc-biobase. 179s Preparing to unpack .../162-r-bioc-biobase_2.66.0-2_amd64.deb ... 179s Unpacking r-bioc-biobase (2.66.0-2) ... 179s Selecting previously unselected package r-bioc-s4vectors. 179s Preparing to unpack .../163-r-bioc-s4vectors_0.44.0+dfsg-2_amd64.deb ... 179s Unpacking r-bioc-s4vectors (0.44.0+dfsg-2) ... 179s Selecting previously unselected package r-bioc-iranges. 179s Preparing to unpack .../164-r-bioc-iranges_2.40.1-2_amd64.deb ... 179s Unpacking r-bioc-iranges (2.40.1-2) ... 179s Selecting previously unselected package r-cran-dbi. 179s Preparing to unpack .../165-r-cran-dbi_1.2.3-1_all.deb ... 179s Unpacking r-cran-dbi (1.2.3-1) ... 180s Selecting previously unselected package r-cran-bit. 180s Preparing to unpack .../166-r-cran-bit_4.6.0+dfsg-1_amd64.deb ... 180s Unpacking r-cran-bit (4.6.0+dfsg-1) ... 180s Selecting previously unselected package r-cran-bit64. 180s Preparing to unpack .../167-r-cran-bit64_4.6.0-1-1ubuntu2_amd64.deb ... 180s Unpacking r-cran-bit64 (4.6.0-1-1ubuntu2) ... 180s Selecting previously unselected package r-cran-rlang. 180s Preparing to unpack .../168-r-cran-rlang_1.1.5-1_amd64.deb ... 180s Unpacking r-cran-rlang (1.1.5-1) ... 180s Selecting previously unselected package r-cran-cli. 180s Preparing to unpack .../169-r-cran-cli_3.6.4-1_amd64.deb ... 180s Unpacking r-cran-cli (3.6.4-1) ... 180s Selecting previously unselected package r-cran-glue. 180s Preparing to unpack .../170-r-cran-glue_1.8.0-1_amd64.deb ... 180s Unpacking r-cran-glue (1.8.0-1) ... 180s Selecting previously unselected package r-cran-lifecycle. 180s Preparing to unpack .../171-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... 180s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... 180s Selecting previously unselected package r-cran-vctrs. 180s Preparing to unpack .../172-r-cran-vctrs_0.6.5-1_amd64.deb ... 180s Unpacking r-cran-vctrs (0.6.5-1) ... 180s Selecting previously unselected package r-cran-blob. 180s Preparing to unpack .../173-r-cran-blob_1.2.4-1_all.deb ... 180s Unpacking r-cran-blob (1.2.4-1) ... 180s Selecting previously unselected package r-cran-fastmap. 180s Preparing to unpack .../174-r-cran-fastmap_1.2.0-1_amd64.deb ... 180s Unpacking r-cran-fastmap (1.2.0-1) ... 180s Selecting previously unselected package r-cran-cachem. 180s Preparing to unpack .../175-r-cran-cachem_1.1.0-1_amd64.deb ... 180s Unpacking r-cran-cachem (1.1.0-1) ... 180s Selecting previously unselected package r-cran-memoise. 180s Preparing to unpack .../176-r-cran-memoise_2.0.1-1_all.deb ... 180s Unpacking r-cran-memoise (2.0.1-1) ... 180s Selecting previously unselected package r-cran-pkgconfig. 180s Preparing to unpack .../177-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 180s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 180s Selecting previously unselected package r-cran-plogr. 180s Preparing to unpack .../178-r-cran-plogr_0.2.0-3build1_all.deb ... 180s Unpacking r-cran-plogr (0.2.0-3build1) ... 180s Selecting previously unselected package r-cran-cpp11. 180s Preparing to unpack .../179-r-cran-cpp11_0.5.2-1_all.deb ... 180s Unpacking r-cran-cpp11 (0.5.2-1) ... 180s Selecting previously unselected package r-cran-rsqlite. 180s Preparing to unpack .../180-r-cran-rsqlite_2.3.9-1_amd64.deb ... 180s Unpacking r-cran-rsqlite (2.3.9-1) ... 180s Selecting previously unselected package r-cran-curl. 180s Preparing to unpack .../181-r-cran-curl_6.2.1+dfsg-1ubuntu1_amd64.deb ... 180s Unpacking r-cran-curl (6.2.1+dfsg-1ubuntu1) ... 180s Selecting previously unselected package r-cran-jsonlite. 180s Preparing to unpack .../182-r-cran-jsonlite_1.9.1+dfsg-1_amd64.deb ... 180s Unpacking r-cran-jsonlite (1.9.1+dfsg-1) ... 180s Selecting previously unselected package r-cran-mime. 180s Preparing to unpack .../183-r-cran-mime_0.12-2_amd64.deb ... 180s Unpacking r-cran-mime (0.12-2) ... 180s Selecting previously unselected package r-cran-sys. 180s Preparing to unpack .../184-r-cran-sys_3.4.3-1_amd64.deb ... 180s Unpacking r-cran-sys (3.4.3-1) ... 180s Selecting previously unselected package r-cran-askpass. 180s Preparing to unpack .../185-r-cran-askpass_1.2.1-1_amd64.deb ... 180s Unpacking r-cran-askpass (1.2.1-1) ... 180s Selecting previously unselected package r-cran-openssl. 180s Preparing to unpack .../186-r-cran-openssl_2.3.2+dfsg-1_amd64.deb ... 180s Unpacking r-cran-openssl (2.3.2+dfsg-1) ... 180s Selecting previously unselected package r-cran-r6. 181s Preparing to unpack .../187-r-cran-r6_2.6.1-1_all.deb ... 181s Unpacking r-cran-r6 (2.6.1-1) ... 181s Selecting previously unselected package r-cran-httr. 181s Preparing to unpack .../188-r-cran-httr_1.4.7+dfsg-1_all.deb ... 181s Unpacking r-cran-httr (1.4.7+dfsg-1) ... 181s Selecting previously unselected package r-cran-png. 181s Preparing to unpack .../189-r-cran-png_0.1-8-1build2_amd64.deb ... 181s Unpacking r-cran-png (0.1-8-1build2) ... 181s Selecting previously unselected package r-bioc-zlibbioc. 181s Preparing to unpack .../190-r-bioc-zlibbioc_1.52.0+dfsg-2_all.deb ... 181s Unpacking r-bioc-zlibbioc (1.52.0+dfsg-2) ... 181s Selecting previously unselected package r-bioc-xvector. 181s Preparing to unpack .../191-r-bioc-xvector_0.46.0-2_amd64.deb ... 181s Unpacking r-bioc-xvector (0.46.0-2) ... 181s Selecting previously unselected package r-bioc-ucsc.utils. 181s Preparing to unpack .../192-r-bioc-ucsc.utils_1.2.0+ds-2_all.deb ... 181s Unpacking r-bioc-ucsc.utils (1.2.0+ds-2) ... 181s Selecting previously unselected package r-bioc-genomeinfodbdata. 181s Preparing to unpack .../193-r-bioc-genomeinfodbdata_1.2.13-2_all.deb ... 181s Unpacking r-bioc-genomeinfodbdata (1.2.13-2) ... 181s Selecting previously unselected package r-bioc-genomeinfodb. 181s Preparing to unpack .../194-r-bioc-genomeinfodb_1.42.3+dfsg-1_all.deb ... 181s Unpacking r-bioc-genomeinfodb (1.42.3+dfsg-1) ... 181s Selecting previously unselected package r-cran-crayon. 181s Preparing to unpack .../195-r-cran-crayon_1.5.3-1_all.deb ... 181s Unpacking r-cran-crayon (1.5.3-1) ... 181s Selecting previously unselected package r-bioc-biostrings. 181s Preparing to unpack .../196-r-bioc-biostrings_2.74.1+dfsg-2_amd64.deb ... 181s Unpacking r-bioc-biostrings (2.74.1+dfsg-2) ... 181s Selecting previously unselected package r-bioc-keggrest. 181s Preparing to unpack .../197-r-bioc-keggrest_1.46.0+dfsg-2_all.deb ... 181s Unpacking r-bioc-keggrest (1.46.0+dfsg-2) ... 181s Selecting previously unselected package r-bioc-annotationdbi. 181s Preparing to unpack .../198-r-bioc-annotationdbi_1.68.0-2_all.deb ... 181s Unpacking r-bioc-annotationdbi (1.68.0-2) ... 181s Selecting previously unselected package r-cran-generics. 181s Preparing to unpack .../199-r-cran-generics_0.1.3-1_all.deb ... 181s Unpacking r-cran-generics (0.1.3-1) ... 181s Selecting previously unselected package r-cran-magrittr. 181s Preparing to unpack .../200-r-cran-magrittr_2.0.3-1_amd64.deb ... 181s Unpacking r-cran-magrittr (2.0.3-1) ... 181s Selecting previously unselected package r-cran-utf8. 181s Preparing to unpack .../201-r-cran-utf8_1.2.4-1_amd64.deb ... 181s Unpacking r-cran-utf8 (1.2.4-1) ... 181s Selecting previously unselected package r-cran-pillar. 181s Preparing to unpack .../202-r-cran-pillar_1.10.1+dfsg-1_all.deb ... 181s Unpacking r-cran-pillar (1.10.1+dfsg-1) ... 181s Selecting previously unselected package r-cran-fansi. 181s Preparing to unpack .../203-r-cran-fansi_1.0.5-1_amd64.deb ... 181s Unpacking r-cran-fansi (1.0.5-1) ... 181s Selecting previously unselected package r-cran-tibble. 181s Preparing to unpack .../204-r-cran-tibble_3.2.1+dfsg-3_amd64.deb ... 181s Unpacking r-cran-tibble (3.2.1+dfsg-3) ... 182s Selecting previously unselected package r-cran-withr. 182s Preparing to unpack .../205-r-cran-withr_3.0.2+dfsg-1_all.deb ... 182s Unpacking r-cran-withr (3.0.2+dfsg-1) ... 182s Selecting previously unselected package r-cran-tidyselect. 182s Preparing to unpack .../206-r-cran-tidyselect_1.2.1+dfsg-1_amd64.deb ... 182s Unpacking r-cran-tidyselect (1.2.1+dfsg-1) ... 182s Selecting previously unselected package r-cran-dplyr. 182s Preparing to unpack .../207-r-cran-dplyr_1.1.4-4_amd64.deb ... 182s Unpacking r-cran-dplyr (1.1.4-4) ... 182s Selecting previously unselected package r-cran-purrr. 182s Preparing to unpack .../208-r-cran-purrr_1.0.4-1_amd64.deb ... 182s Unpacking r-cran-purrr (1.0.4-1) ... 182s Selecting previously unselected package r-cran-stringi. 182s Preparing to unpack .../209-r-cran-stringi_1.8.4-1build1_amd64.deb ... 182s Unpacking r-cran-stringi (1.8.4-1build1) ... 182s Selecting previously unselected package r-cran-stringr. 182s Preparing to unpack .../210-r-cran-stringr_1.5.1-1_all.deb ... 182s Unpacking r-cran-stringr (1.5.1-1) ... 182s Selecting previously unselected package r-cran-tidyr. 182s Preparing to unpack .../211-r-cran-tidyr_1.3.1-1_amd64.deb ... 182s Unpacking r-cran-tidyr (1.3.1-1) ... 182s Selecting previously unselected package r-cran-dbplyr. 182s Preparing to unpack .../212-r-cran-dbplyr_2.5.0+dfsg-1_all.deb ... 182s Unpacking r-cran-dbplyr (2.5.0+dfsg-1) ... 182s Selecting previously unselected package r-cran-filelock. 182s Preparing to unpack .../213-r-cran-filelock_1.0.3-1_amd64.deb ... 182s Unpacking r-cran-filelock (1.0.3-1) ... 182s Selecting previously unselected package r-bioc-biocfilecache. 182s Preparing to unpack .../214-r-bioc-biocfilecache_2.14.0+dfsg-2_all.deb ... 182s Unpacking r-bioc-biocfilecache (2.14.0+dfsg-2) ... 182s Selecting previously unselected package r-cran-biocmanager. 182s Preparing to unpack .../215-r-cran-biocmanager_1.30.25+dfsg-1_all.deb ... 182s Unpacking r-cran-biocmanager (1.30.25+dfsg-1) ... 182s Selecting previously unselected package r-bioc-biocversion. 182s Preparing to unpack .../216-r-bioc-biocversion_3.20.0-2_all.deb ... 182s Unpacking r-bioc-biocversion (3.20.0-2) ... 182s Selecting previously unselected package r-cran-rappdirs. 182s Preparing to unpack .../217-r-cran-rappdirs_0.3.3-1_amd64.deb ... 182s Unpacking r-cran-rappdirs (0.3.3-1) ... 182s Selecting previously unselected package r-cran-yaml. 182s Preparing to unpack .../218-r-cran-yaml_2.3.10-1_amd64.deb ... 182s Unpacking r-cran-yaml (2.3.10-1) ... 182s Selecting previously unselected package r-bioc-annotationhub. 182s Preparing to unpack .../219-r-bioc-annotationhub_3.14.0+dfsg-2_all.deb ... 182s Unpacking r-bioc-annotationhub (3.14.0+dfsg-2) ... 182s Selecting previously unselected package r-bioc-biocio. 182s Preparing to unpack .../220-r-bioc-biocio_1.16.0+dfsg-2_all.deb ... 182s Unpacking r-bioc-biocio (1.16.0+dfsg-2) ... 182s Selecting previously unselected package r-cran-formatr. 182s Preparing to unpack .../221-r-cran-formatr_1.14-2_all.deb ... 182s Unpacking r-cran-formatr (1.14-2) ... 182s Selecting previously unselected package r-cran-lambda.r. 182s Preparing to unpack .../222-r-cran-lambda.r_1.2.4-2build1_all.deb ... 182s Unpacking r-cran-lambda.r (1.2.4-2build1) ... 182s Selecting previously unselected package r-cran-futile.options. 182s Preparing to unpack .../223-r-cran-futile.options_1.0.1-3build1_all.deb ... 182s Unpacking r-cran-futile.options (1.0.1-3build1) ... 182s Selecting previously unselected package r-cran-futile.logger. 182s Preparing to unpack .../224-r-cran-futile.logger_1.4.3-4build1_all.deb ... 182s Unpacking r-cran-futile.logger (1.4.3-4build1) ... 182s Selecting previously unselected package r-cran-snow. 182s Preparing to unpack .../225-r-cran-snow_1%3a0.4.4-2_all.deb ... 182s Unpacking r-cran-snow (1:0.4.4-2) ... 183s Selecting previously unselected package r-cran-codetools. 183s Preparing to unpack .../226-r-cran-codetools_0.2-20-1_all.deb ... 183s Unpacking r-cran-codetools (0.2-20-1) ... 183s Selecting previously unselected package r-cran-bh. 183s Preparing to unpack .../227-r-cran-bh_1.84.0-1_all.deb ... 183s Unpacking r-cran-bh (1.84.0-1) ... 183s Selecting previously unselected package r-bioc-biocparallel. 183s Preparing to unpack .../228-r-bioc-biocparallel_1.40.0-2_amd64.deb ... 183s Unpacking r-bioc-biocparallel (1.40.0-2) ... 183s Selecting previously unselected package r-cran-base64enc. 183s Preparing to unpack .../229-r-cran-base64enc_0.1-3-3_amd64.deb ... 183s Unpacking r-cran-base64enc (0.1-3-3) ... 183s Selecting previously unselected package r-cran-digest. 183s Preparing to unpack .../230-r-cran-digest_0.6.37-1_amd64.deb ... 183s Unpacking r-cran-digest (0.6.37-1) ... 183s Selecting previously unselected package r-cran-htmltools. 183s Preparing to unpack .../231-r-cran-htmltools_0.5.8.1-1_amd64.deb ... 183s Unpacking r-cran-htmltools (0.5.8.1-1) ... 183s Selecting previously unselected package r-cran-evaluate. 183s Preparing to unpack .../232-r-cran-evaluate_1.0.3-1_all.deb ... 183s Unpacking r-cran-evaluate (1.0.3-1) ... 183s Selecting previously unselected package r-cran-xfun. 183s Preparing to unpack .../233-r-cran-xfun_0.51+dfsg-1_amd64.deb ... 183s Unpacking r-cran-xfun (0.51+dfsg-1) ... 183s Selecting previously unselected package r-cran-highr. 183s Preparing to unpack .../234-r-cran-highr_0.11+dfsg-1_all.deb ... 183s Unpacking r-cran-highr (0.11+dfsg-1) ... 183s Selecting previously unselected package libjs-mathjax. 183s Preparing to unpack .../235-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 183s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 184s Selecting previously unselected package r-cran-knitr. 184s Preparing to unpack .../236-r-cran-knitr_1.49+dfsg-1_all.deb ... 184s Unpacking r-cran-knitr (1.49+dfsg-1) ... 184s Selecting previously unselected package r-cran-jquerylib. 184s Preparing to unpack .../237-r-cran-jquerylib_0.1.4+dfsg-4_all.deb ... 184s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ... 184s Selecting previously unselected package r-cran-fs. 184s Preparing to unpack .../238-r-cran-fs_1.6.5+dfsg-1_amd64.deb ... 184s Unpacking r-cran-fs (1.6.5+dfsg-1) ... 184s Selecting previously unselected package r-cran-sass. 184s Preparing to unpack .../239-r-cran-sass_0.4.9+dfsg-1_amd64.deb ... 184s Unpacking r-cran-sass (0.4.9+dfsg-1) ... 184s Selecting previously unselected package r-cran-bslib. 184s Preparing to unpack .../240-r-cran-bslib_0.8.0+dfsg-1_all.deb ... 184s Unpacking r-cran-bslib (0.8.0+dfsg-1) ... 184s Selecting previously unselected package r-cran-fontawesome. 184s Preparing to unpack .../241-r-cran-fontawesome_0.5.3-1_all.deb ... 184s Unpacking r-cran-fontawesome (0.5.3-1) ... 184s Selecting previously unselected package r-cran-tinytex. 184s Preparing to unpack .../242-r-cran-tinytex_0.56-1_all.deb ... 184s Unpacking r-cran-tinytex (0.56-1) ... 184s Selecting previously unselected package libjs-modernizr. 184s Preparing to unpack .../243-libjs-modernizr_3.13.0-0.1_all.deb ... 184s Unpacking libjs-modernizr (3.13.0-0.1) ... 184s Selecting previously unselected package r-cran-pkgkitten. 184s Preparing to unpack .../244-r-cran-pkgkitten_0.2.4-1_all.deb ... 184s Unpacking r-cran-pkgkitten (0.2.4-1) ... 184s Selecting previously unselected package r-cran-rcpp. 184s Preparing to unpack .../245-r-cran-rcpp_1.0.14-1_amd64.deb ... 184s Unpacking r-cran-rcpp (1.0.14-1) ... 184s Selecting previously unselected package r-cran-later. 184s Preparing to unpack .../246-r-cran-later_1.4.1+dfsg-1_amd64.deb ... 184s Unpacking r-cran-later (1.4.1+dfsg-1) ... 184s Selecting previously unselected package r-cran-promises. 184s Preparing to unpack .../247-r-cran-promises_1.3.2+dfsg-1_amd64.deb ... 184s Unpacking r-cran-promises (1.3.2+dfsg-1) ... 184s Selecting previously unselected package r-cran-httpuv. 184s Preparing to unpack .../248-r-cran-httpuv_1.6.15+dfsg-1_amd64.deb ... 184s Unpacking r-cran-httpuv (1.6.15+dfsg-1) ... 185s Selecting previously unselected package r-cran-xtable. 185s Preparing to unpack .../249-r-cran-xtable_1%3a1.8-4-2_all.deb ... 185s Unpacking r-cran-xtable (1:1.8-4-2) ... 185s Selecting previously unselected package r-cran-sourcetools. 185s Preparing to unpack .../250-r-cran-sourcetools_0.1.7-1-1_amd64.deb ... 185s Unpacking r-cran-sourcetools (0.1.7-1-1) ... 185s Selecting previously unselected package r-cran-commonmark. 185s Preparing to unpack .../251-r-cran-commonmark_1.9.2-2_amd64.deb ... 185s Unpacking r-cran-commonmark (1.9.2-2) ... 185s Selecting previously unselected package libjs-twitter-bootstrap-datepicker. 185s Preparing to unpack .../252-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ... 185s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 185s Selecting previously unselected package r-cran-shiny. 185s Preparing to unpack .../253-r-cran-shiny_1.10.0+dfsg-2_all.deb ... 185s Unpacking r-cran-shiny (1.10.0+dfsg-2) ... 185s Selecting previously unselected package r-cran-rmarkdown. 185s Preparing to unpack .../254-r-cran-rmarkdown_2.29+dfsg-1_all.deb ... 185s Unpacking r-cran-rmarkdown (2.29+dfsg-1) ... 185s Selecting previously unselected package r-cran-bookdown. 185s Preparing to unpack .../255-r-cran-bookdown_0.42+dfsg-1_all.deb ... 185s Unpacking r-cran-bookdown (0.42+dfsg-1) ... 185s Selecting previously unselected package tex-common. 185s Preparing to unpack .../256-tex-common_6.19_all.deb ... 185s Unpacking tex-common (6.19) ... 185s Selecting previously unselected package t1utils. 185s Preparing to unpack .../257-t1utils_1.41-4build3_amd64.deb ... 185s Unpacking t1utils (1.41-4build3) ... 185s Selecting previously unselected package texlive-binaries. 185s Preparing to unpack .../258-texlive-binaries_2024.20240313.70630+ds-6_amd64.deb ... 185s Unpacking texlive-binaries (2024.20240313.70630+ds-6) ... 185s Selecting previously unselected package texlive-base. 185s Preparing to unpack .../259-texlive-base_2024.20250114-1_all.deb ... 185s Unpacking texlive-base (2024.20250114-1) ... 186s Selecting previously unselected package texlive-latex-base. 186s Preparing to unpack .../260-texlive-latex-base_2024.20250114-1_all.deb ... 186s Unpacking texlive-latex-base (2024.20250114-1) ... 186s Selecting previously unselected package texlive-bibtex-extra. 187s Preparing to unpack .../261-texlive-bibtex-extra_2024.20250114-1_all.deb ... 187s Unpacking texlive-bibtex-extra (2024.20250114-1) ... 188s Selecting previously unselected package r-bioc-biocstyle. 188s Preparing to unpack .../262-r-bioc-biocstyle_2.34.0+dfsg-1_all.deb ... 188s Unpacking r-bioc-biocstyle (2.34.0+dfsg-1) ... 188s Selecting previously unselected package r-bioc-genomicranges. 188s Preparing to unpack .../263-r-bioc-genomicranges_1.58.0+dfsg-2_amd64.deb ... 188s Unpacking r-bioc-genomicranges (1.58.0+dfsg-2) ... 188s Selecting previously unselected package r-cran-xml. 188s Preparing to unpack .../264-r-cran-xml_3.99-0.18-1_amd64.deb ... 188s Unpacking r-cran-xml (3.99-0.18-1) ... 188s Selecting previously unselected package r-cran-bitops. 188s Preparing to unpack .../265-r-cran-bitops_1.0-9-1_amd64.deb ... 188s Unpacking r-cran-bitops (1.0-9-1) ... 188s Selecting previously unselected package r-bioc-rhtslib. 188s Preparing to unpack .../266-r-bioc-rhtslib_3.2.0+dfsg-2_amd64.deb ... 188s Unpacking r-bioc-rhtslib (3.2.0+dfsg-2) ... 188s Selecting previously unselected package r-bioc-rsamtools. 188s Preparing to unpack .../267-r-bioc-rsamtools_2.22.0+dfsg-2_amd64.deb ... 188s Unpacking r-bioc-rsamtools (2.22.0+dfsg-2) ... 188s Selecting previously unselected package r-cran-matrixstats. 188s Preparing to unpack .../268-r-cran-matrixstats_1.5.0-1_amd64.deb ... 188s Unpacking r-cran-matrixstats (1.5.0-1) ... 188s Selecting previously unselected package r-bioc-matrixgenerics. 188s Preparing to unpack .../269-r-bioc-matrixgenerics_1.18.1-1_all.deb ... 188s Unpacking r-bioc-matrixgenerics (1.18.1-1) ... 188s Selecting previously unselected package r-cran-lattice. 188s Preparing to unpack .../270-r-cran-lattice_0.22-6-1_amd64.deb ... 188s Unpacking r-cran-lattice (0.22-6-1) ... 188s Selecting previously unselected package r-cran-matrix. 188s Preparing to unpack .../271-r-cran-matrix_1.7-3-1_amd64.deb ... 188s Unpacking r-cran-matrix (1.7-3-1) ... 188s Selecting previously unselected package r-cran-abind. 189s Preparing to unpack .../272-r-cran-abind_1.4-8-1_all.deb ... 189s Unpacking r-cran-abind (1.4-8-1) ... 189s Selecting previously unselected package r-bioc-s4arrays. 189s Preparing to unpack .../273-r-bioc-s4arrays_1.6.0+dfsg-2_amd64.deb ... 189s Unpacking r-bioc-s4arrays (1.6.0+dfsg-2) ... 189s Selecting previously unselected package r-bioc-sparsearray. 189s Preparing to unpack .../274-r-bioc-sparsearray_1.6.2+dfsg-1_amd64.deb ... 189s Unpacking r-bioc-sparsearray (1.6.2+dfsg-1) ... 189s Selecting previously unselected package r-bioc-delayedarray. 189s Preparing to unpack .../275-r-bioc-delayedarray_0.32.0+dfsg-2_amd64.deb ... 189s Unpacking r-bioc-delayedarray (0.32.0+dfsg-2) ... 189s Selecting previously unselected package r-bioc-summarizedexperiment. 189s Preparing to unpack .../276-r-bioc-summarizedexperiment_1.36.0+dfsg-2_all.deb ... 189s Unpacking r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... 189s Selecting previously unselected package r-bioc-genomicalignments. 189s Preparing to unpack .../277-r-bioc-genomicalignments_1.42.0-2_amd64.deb ... 189s Unpacking r-bioc-genomicalignments (1.42.0-2) ... 189s Selecting previously unselected package r-cran-rcurl. 189s Preparing to unpack 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Setting up r-cran-sass (0.4.9+dfsg-1) ... 196s Setting up build-essential (12.10ubuntu1) ... 196s Setting up r-bioc-iranges (2.40.1-2) ... 196s Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... 196s Setting up r-cran-restfulr (0.0.15-1) ... 196s Setting up r-cran-vctrs (0.6.5-1) ... 196s Setting up r-cran-pillar (1.10.1+dfsg-1) ... 196s Setting up r-cran-openssl (2.3.2+dfsg-1) ... 196s Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ... 196s Setting up r-cran-stringr (1.5.1-1) ... 196s Setting up r-bioc-biocparallel (1.40.0-2) ... 196s Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ... 196s Setting up r-cran-munsell (0.5.1-1) ... 196s Setting up r-cran-tibble (3.2.1+dfsg-3) ... 196s Setting up r-cran-fontawesome (0.5.3-1) ... 196s Setting up r-cran-survival (3.8-3-1) ... 196s Setting up r-bioc-biocio (1.16.0+dfsg-2) ... 196s Setting up gfortran (4:14.2.0-1ubuntu1) ... 196s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode 196s 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 196s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode 196s 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 196s Setting up r-cran-jquerylib (0.1.4+dfsg-4) ... 196s Setting up r-cran-tidyselect (1.2.1+dfsg-1) ... 196s Setting up r-bioc-snpstats (1.56.0+dfsg-2) ... 196s Setting up texlive-bibtex-extra (2024.20250114-1) ... 196s Setting up r-cran-httr (1.4.7+dfsg-1) ... 196s Setting up r-cran-scales (1.3.0-1) ... 196s Setting up r-cran-memoise (2.0.1-1) ... 196s Setting up r-cran-promises (1.3.2+dfsg-1) ... 196s Setting up r-cran-purrr (1.0.4-1) ... 196s Setting up r-cran-blob (1.2.4-1) ... 196s Setting up r-bioc-xvector (0.46.0-2) ... 196s Setting up r-cran-dplyr (1.1.4-4) ... 196s Setting up r-cran-rsqlite (2.3.9-1) ... 196s Setting up r-base-dev (4.4.3-1) ... 196s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ... 196s Setting up r-bioc-sparsearray (1.6.2+dfsg-1) ... 196s Setting up r-cran-ggplot2 (3.5.1+dfsg-1) ... 196s Setting up r-cran-httpuv (1.6.15+dfsg-1) ... 196s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ... 196s Setting up r-cran-bslib (0.8.0+dfsg-1) ... 196s Setting up r-cran-tidyr (1.3.1-1) ... 196s Setting up pkg-r-autopkgtest (20231212ubuntu1) ... 196s Setting up r-cran-dbplyr (2.5.0+dfsg-1) ... 196s Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ... 196s Setting up r-bioc-biocfilecache (2.14.0+dfsg-2) ... 196s Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ... 196s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ... 196s Setting up r-cran-shiny (1.10.0+dfsg-2) ... 196s Setting up r-cran-rmarkdown (2.29+dfsg-1) ... 196s Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ... 196s Setting up r-cran-bookdown (0.42+dfsg-1) ... 196s Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... 196s Setting up r-bioc-keggrest (1.46.0+dfsg-2) ... 196s Setting up r-bioc-annotationdbi (1.68.0-2) ... 196s Setting up r-bioc-annotationhub (3.14.0+dfsg-2) ... 196s Setting up r-bioc-biocstyle (2.34.0+dfsg-1) ... 196s Setting up r-bioc-genomicalignments (1.42.0-2) ... 196s Setting up r-bioc-rtracklayer (1.66.0-2) ... 196s Setting up r-bioc-genomicfeatures (1.58.0+dfsg-2) ... 196s Setting up r-bioc-bsgenome (1.74.0-2) ... 196s Setting up r-bioc-variantannotation (1.52.0-2) ... 196s Setting up libheif-plugin-aomdec:amd64 (1.19.7-1) ... 196s Setting up libheif-plugin-libde265:amd64 (1.19.7-1) ... 196s Setting up libheif1:amd64 (1.19.7-1) ... 196s Setting up libmagickcore-7.q16-10:amd64 (8:7.1.1.43+dfsg1-1) ... 196s Setting up libmagickwand-7.q16-10:amd64 (8:7.1.1.43+dfsg1-1) ... 196s Setting up libmagick++-7.q16-5:amd64 (8:7.1.1.43+dfsg1-1) ... 196s Setting up r-cran-magick (2.8.5+dfsg-1build1) ... 196s Processing triggers for man-db (2.13.0-1) ... 197s Processing triggers for install-info (7.1.1-1) ... 198s Processing triggers for libc-bin (2.41-1ubuntu2) ... 198s Processing triggers for tex-common (6.19) ... 198s Running updmap-sys. This may take some time... done. 198s Running mktexlsr /var/lib/texmf ... done. 198s Building format(s) --all. 229s This may take some time... done. 230s autopkgtest [22:05:22]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 230s autopkgtest [22:05:22]: test pkg-r-autopkgtest: [----------------------- 230s Test: Try to load the R library VariantAnnotation 230s 230s R version 4.4.3 (2025-02-28) -- "Trophy Case" 230s Copyright (C) 2025 The R Foundation for Statistical Computing 230s Platform: x86_64-pc-linux-gnu 230s 230s R is free software and comes with ABSOLUTELY NO WARRANTY. 230s You are welcome to redistribute it under certain conditions. 230s Type 'license()' or 'licence()' for distribution details. 230s 230s R is a collaborative project with many contributors. 230s Type 'contributors()' for more information and 230s 'citation()' on how to cite R or R packages in publications. 230s 230s Type 'demo()' for some demos, 'help()' for on-line help, or 230s 'help.start()' for an HTML browser interface to help. 230s Type 'q()' to quit R. 230s 230s > library('VariantAnnotation') 230s Loading required package: BiocGenerics 230s 230s Attaching package: ‘BiocGenerics’ 230s 230s The following objects are masked from ‘package:stats’: 230s 230s IQR, mad, sd, var, xtabs 230s 230s The following objects are masked from ‘package:base’: 230s 230s anyDuplicated, aperm, append, as.data.frame, basename, cbind, 230s colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find, 230s get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply, 230s match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, 230s Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff, 230s table, tapply, union, unique, unsplit, which.max, which.min 230s 230s Loading required package: MatrixGenerics 230s Loading required package: matrixStats 230s 230s Attaching package: ‘MatrixGenerics’ 230s 230s The following objects are masked from ‘package:matrixStats’: 230s 230s colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse, 230s colCounts, colCummaxs, colCummins, colCumprods, colCumsums, 230s colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs, 230s colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats, 230s colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds, 230s colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads, 230s colWeightedMeans, colWeightedMedians, colWeightedSds, 230s colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet, 230s rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods, 230s rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps, 230s rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins, 230s rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks, 230s rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars, 230s rowWeightedMads, rowWeightedMeans, rowWeightedMedians, 230s rowWeightedSds, rowWeightedVars 230s 230s Loading required package: GenomeInfoDb 230s Loading required package: S4Vectors 230s Loading required package: stats4 231s 231s Attaching package: ‘S4Vectors’ 231s 231s The following object is masked from ‘package:utils’: 231s 231s findMatches 231s 231s The following objects are masked from ‘package:base’: 231s 231s expand.grid, I, unname 231s 231s Loading required package: IRanges 232s Loading required package: GenomicRanges 232s Loading required package: SummarizedExperiment 232s Loading required package: Biobase 232s Welcome to Bioconductor 232s 232s Vignettes contain introductory material; view with 232s 'browseVignettes()'. To cite Bioconductor, see 232s 'citation("Biobase")', and for packages 'citation("pkgname")'. 232s 232s 232s Attaching package: ‘Biobase’ 232s 232s The following object is masked from ‘package:MatrixGenerics’: 232s 232s rowMedians 232s 232s The following objects are masked from ‘package:matrixStats’: 232s 232s anyMissing, rowMedians 232s 235s Loading required package: Rsamtools 235s Loading required package: Biostrings 235s Loading required package: XVector 236s 236s Attaching package: ‘Biostrings’ 236s 236s The following object is masked from ‘package:base’: 236s 236s strsplit 236s 240s > 240s > 240s 240s Attaching package: ‘VariantAnnotation’ 240s 240s The following object is masked from ‘package:base’: 240s 240s tabulate 240s 240s Other tests are currently unsupported! 240s They will be progressively added. 240s autopkgtest [22:05:32]: test pkg-r-autopkgtest: -----------------------] 241s pkg-r-autopkgtest PASS 241s autopkgtest [22:05:33]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 241s autopkgtest [22:05:33]: @@@@@@@@@@@@@@@@@@@@ summary 241s pkg-r-autopkgtest PASS 261s nova [W] Skipping flock for amd64 261s Creating nova instance adt-plucky-amd64-r-bioc-variantannotation-20250315-220131-juju-7f2275-prod-proposed-migration-environment-15-e13003be-ffee-4b49-bf6c-d7c519932d0f from image adt/ubuntu-plucky-amd64-server-20250306.img (UUID 60d877d7-b74c-4f24-920d-f4570db0a338)... 261s nova [W] Timed out waiting for 071f53ff-ecf3-453d-910f-1d1aa9858563 to get deleted.