0s autopkgtest [12:00:15]: starting date and time: 2025-03-15 12:00:15+0000
  0s autopkgtest [12:00:15]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production'
  0s autopkgtest [12:00:15]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.jzejb354/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-gosemsim --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-4.secgroup --name adt-plucky-amd64-r-bioc-gosemsim-20250315-120015-juju-7f2275-prod-proposed-migration-environment-2-e4a9d5cd-1d17-45aa-b3b3-7fef8ba22322 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --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 [12:01:02]: testbed dpkg architecture: amd64
 47s autopkgtest [12:01:02]: testbed apt version: 2.9.31ubuntu1
 47s autopkgtest [12:01:02]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 48s autopkgtest [12:01:03]: testbed release detected to be: None
 48s autopkgtest [12:01:03]: 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 [46.2 kB]
 48s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB]
 48s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [410 kB]
 48s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [90.3 kB]
 48s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [64.9 kB]
 48s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1916 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 [181 kB]
 48s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [364 kB]
 48s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [17.0 kB]
 48s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [17.0 kB]
 48s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [8452 B]
 48s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [912 B]
 49s Fetched 1345 kB in 0s (5845 kB/s)
 49s Reading package lists...
 50s Reading package lists...
 50s Building dependency tree...
 50s Reading state information...
 50s Calculating upgrade...
 51s 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   python-apt-common python3 python3-apt python3-cffi-backend python3-dbus
 51s   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 85 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]
 51s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.83.4-1 [89.5 kB]
 51s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libapparmor1 amd64 4.1.0~beta5-0ubuntu8 [55.0 kB]
 51s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libestr0 amd64 0.1.11-2 [8340 B]
 51s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.84.0-1 [53.0 kB]
 51s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2ubuntu5 [772 kB]
 51s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python-apt-common all 2.9.9build1 [21.3 kB]
 51s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-apt amd64 2.9.9build1 [172 kB]
 51s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build2 [96.6 kB]
 51s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB]
 51s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB]
 51s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB]
 51s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB]
 51s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB]
 51s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 dosfstools amd64 4.2-1.2 [95.0 kB]
 51s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-genl-3-200 amd64 3.7.0-1 [12.2 kB]
 51s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-route-3-200 amd64 3.7.0-1 [191 kB]
 51s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-3-200 amd64 3.7.0-1 [64.9 kB]
 51s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 pci.ids all 0.0~2025.03.09-1 [285 kB]
 51s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 pciutils amd64 1:3.13.0-2 [110 kB]
 51s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libpci3 amd64 1:3.13.0-2 [39.8 kB]
 51s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 strace amd64 6.13+ds-1ubuntu1 [622 kB]
 51s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 xz-utils amd64 5.6.4-1 [278 kB]
 51s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libgprofng0 amd64 2.44-3ubuntu1 [886 kB]
 51s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf0 amd64 2.44-3ubuntu1 [96.5 kB]
 51s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf-nobfd0 amd64 2.44-3ubuntu1 [98.9 kB]
 51s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-x86-64-linux-gnu amd64 2.44-3ubuntu1 [1108 kB]
 51s 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]
 58s 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]
 58s 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]
 59s 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]
 60s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B]
 60s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB]
 60s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B]
 60s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB]
 60s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B]
 60s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB]
 60s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB]
 60s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB]
 60s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-libc-dev amd64 6.14.0-10.10 [1723 kB]
 60s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB]
 60s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB]
 60s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B]
 60s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB]
 60s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB]
 60s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB]
 60s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B]
 60s Preconfiguring packages ...
 60s Fetched 807 MB in 9s (90.9 MB/s)
 61s (Reading database ... 
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 109138 files and directories currently installed.)
 61s Preparing to unpack .../ncurses-bin_6.5+20250216-2_amd64.deb ...
 61s Unpacking ncurses-bin (6.5+20250216-2) over (6.5+20250216-1) ...
 61s Setting up ncurses-bin (6.5+20250216-2) ...
 61s (Reading database ... 
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(Reading database ... 109138 files and directories currently installed.)
 61s Preparing to unpack .../ncurses-base_6.5+20250216-2_all.deb ...
 61s Unpacking ncurses-base (6.5+20250216-2) over (6.5+20250216-1) ...
 61s Setting up ncurses-base (6.5+20250216-2) ...
 61s (Reading database ... 
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(Reading database ... 100%
(Reading database ... 109138 files and directories currently installed.)
 61s Preparing to unpack .../ncurses-term_6.5+20250216-2_all.deb ...
 61s Unpacking ncurses-term (6.5+20250216-2) over (6.5+20250216-1) ...
 61s Preparing to unpack .../liblz4-1_1.10.0-4_amd64.deb ...
 61s Unpacking liblz4-1:amd64 (1.10.0-4) over (1.10.0-3) ...
 61s Setting up liblz4-1:amd64 (1.10.0-4) ...
 61s (Reading database ... 
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(Reading database ... 109138 files and directories currently installed.)
 61s Preparing to unpack .../liblzma5_5.6.4-1_amd64.deb ...
 61s Unpacking liblzma5:amd64 (5.6.4-1) over (5.6.3-1) ...
 61s Setting up liblzma5:amd64 (5.6.4-1) ...
 62s (Reading database ... 
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 109138 files and directories currently installed.)
 62s Preparing to unpack .../libapt-pkg7.0_2.9.33_amd64.deb ...
 62s Unpacking libapt-pkg7.0:amd64 (2.9.33) over (2.9.31ubuntu1) ...
 62s Setting up libapt-pkg7.0:amd64 (2.9.33) ...
 62s (Reading database ... 
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 79s Setting up libbrotli1:amd64 (1.1.0-2build4) ...
 79s Setting up libsqlite3-0:amd64 (3.46.1-2) ...
 79s Setting up dosfstools (4.2-1.2) ...
 79s Setting up rsyslog (8.2412.0-2ubuntu2) ...
 79s info: The user `syslog' is already a member of `adm'.
 80s Setting up binutils-common:amd64 (2.44-3ubuntu1) ...
 80s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ...
 80s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ...
 80s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ...
 80s Setting up linux-headers-generic (6.14.0-10.10) ...
 80s Setting up libjemalloc2:amd64 (5.3.0-3) ...
 80s Setting up libsframe1:amd64 (2.44-3ubuntu1) ...
 80s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ...
 80s Setting up apparmor (4.1.0~beta5-0ubuntu8) ...
 80s Installing new version of config file /etc/apparmor.d/openvpn ...
 81s Reloading AppArmor profiles 
 82s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ...
 82s No schema files found: doing nothing.
 82s Setting up libglib2.0-data (2.84.0-1) ...
 82s Setting up libncurses6:amd64 (6.5+20250216-2) ...
 82s Setting up strace (6.13+ds-1ubuntu1) ...
 82s Setting up xz-utils (5.6.4-1) ...
 82s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ...
 82s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ...
 85s Setting up libncursesw6:amd64 (6.5+20250216-2) ...
 85s Setting up libpci3:amd64 (1:3.13.0-2) ...
 85s Setting up python-apt-common (2.9.9build1) ...
 85s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ...
 85s Setting up pnp.ids (0.393-3) ...
 85s Setting up libnl-3-200:amd64 (3.7.0-1) ...
 85s Setting up python3.13-minimal (3.13.2-2) ...
 85s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ...
 85s Setting up libbinutils:amd64 (2.44-3ubuntu1) ...
 85s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ...
 85s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ...
 85s Setting up rsync (3.4.1+ds1-3) ...
 86s rsync.service is a disabled or a static unit not running, not starting it.
 86s Setting up python3.13-gdbm (3.13.2-2) ...
 86s Setting up libpython3-stdlib:amd64 (3.13.2-2) ...
 86s Setting up ncurses-term (6.5+20250216-2) ...
 86s Setting up libctf0:amd64 (2.44-3ubuntu1) ...
 86s Setting up libpython3.13:amd64 (3.13.2-2) ...
 86s Setting up libdebuginfod1t64:amd64 (0.192-4) ...
 86s Setting up linux-headers-virtual (6.14.0-10.10) ...
 86s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ...
 86s Setting up python3.13 (3.13.2-2) ...
 87s Setting up htop (3.4.0-2) ...
 87s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ...
 89s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic
 89s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic
 89s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic
 89s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic
 89s Setting up libfwupd3:amd64 (2.0.6-4) ...
 89s Setting up python3 (3.13.2-2) ...
 89s Setting up python3-markupsafe (2.1.5-1build4) ...
 89s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ...
 92s Setting up libnl-route-3-200:amd64 (3.7.0-1) ...
 92s Setting up hwdata (0.393-3) ...
 92s Setting up python3-jinja2 (3.1.5-2ubuntu1) ...
 92s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ...
 92s Setting up linux-perf (6.14.0-10.10) ...
 92s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ...
 92s Setting up python3-gi (3.50.0-4build1) ...
 92s Setting up pciutils (1:3.13.0-2) ...
 92s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ...
 92s Setting up curl (8.12.1-3ubuntu1) ...
 92s Setting up linux-image-virtual (6.14.0-10.10) ...
 92s Setting up linux-tools-common (6.14.0-10.10) ...
 92s Setting up fwupd (2.0.6-4) ...
 92s fwupd-refresh.service is a disabled or a static unit not running, not starting it.
 92s fwupd.service is a disabled or a static unit not running, not starting it.
 93s Setting up python3-systemd (235-1build6) ...
 93s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ...
 93s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ...
 93s Setting up linux-image-generic (6.14.0-10.10) ...
 93s Setting up python3-dbus (1.3.2-5build5) ...
 93s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ...
 93s Setting up linux-generic (6.14.0-10.10) ...
 93s Setting up python3-apt (2.9.9build1) ...
 93s Setting up python3-yaml (6.0.2-1build2) ...
 93s Setting up python3-lazr.uri (1.0.6-6) ...
 93s Setting up binutils (2.44-3ubuntu1) ...
 93s Setting up cloud-init-base (25.1-0ubuntu3) ...
 95s Setting up linux-virtual (6.14.0-10.10) ...
 95s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ...
 95s Setting up cloud-init (25.1-0ubuntu3) ...
 95s Processing triggers for systemd (257.3-1ubuntu3) ...
 95s Processing triggers for man-db (2.13.0-1) ...
 96s Processing triggers for dbus (1.16.2-1ubuntu1) ...
 96s Processing triggers for libc-bin (2.41-1ubuntu1) ...
 96s Processing triggers for initramfs-tools (0.146ubuntu1) ...
 96s update-initramfs: Generating /boot/initrd.img-6.12.0-16-generic
 96s 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
117s /etc/kernel/postinst.d/zz-update-grub:
117s Sourcing file `/etc/default/grub'
117s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
117s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
117s 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
118s Found linux image: /boot/vmlinuz-6.12.0-16-generic
118s Found initrd image: /boot/initrd.img-6.12.0-16-generic
118s Found linux image: /boot/vmlinuz-6.11.0-8-generic
118s Found initrd image: /boot/initrd.img-6.11.0-8-generic
118s Warning: os-prober will not be executed to detect other bootable partitions.
118s Systems on them will not be added to the GRUB boot configuration.
118s Check GRUB_DISABLE_OS_PROBER documentation entry.
118s Adding boot menu entry for UEFI Firmware Settings ...
118s done
119s Reading package lists...
120s Building dependency tree...
120s Reading state information...
120s Solving dependencies...
120s The following packages will be REMOVED:
120s   libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib*
120s   libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic*
120s   linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic*
120s   linux-image-6.11.0-8-generic* linux-image-6.12.0-16-generic*
120s   linux-modules-6.11.0-8-generic* linux-modules-6.12.0-16-generic*
120s   linux-modules-extra-6.12.0-16-generic* linux-tools-6.11.0-8*
120s   linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16*
120s   linux-tools-6.12.0-16-generic*
120s 0 upgraded, 0 newly installed, 18 to remove and 5 not upgraded.
120s After this operation, 545 MB disk space will be freed.
120s (Reading database ... 
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(Reading database ... 148643 files and directories currently installed.)
120s Removing libnl-genl-3-200:amd64 (3.7.0-1) ...
121s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ...
121s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ...
121s Removing libpython3.12t64:amd64 (3.12.9-1) ...
121s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ...
121s Removing libnsl2:amd64 (1.3.0-3build3) ...
121s Removing libpython3.12-minimal:amd64 (3.12.9-1) ...
121s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ...
121s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ...
123s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ...
124s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ...
126s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ...
126s /etc/kernel/postrm.d/initramfs-tools:
126s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic
126s /etc/kernel/postrm.d/zz-update-grub:
126s Sourcing file `/etc/default/grub'
126s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
126s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
126s Generating grub configuration file ...
126s Found linux image: /boot/vmlinuz-6.14.0-10-generic
126s Found initrd image: /boot/initrd.img-6.14.0-10-generic
127s Found linux image: /boot/vmlinuz-6.12.0-16-generic
127s Found initrd image: /boot/initrd.img-6.12.0-16-generic
127s Warning: os-prober will not be executed to detect other bootable partitions.
127s Systems on them will not be added to the GRUB boot configuration.
127s Check GRUB_DISABLE_OS_PROBER documentation entry.
127s Adding boot menu entry for UEFI Firmware Settings ...
127s done
127s Removing linux-image-6.12.0-16-generic (6.12.0-16.16) ...
127s W: Removing the running kernel
127s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.14.0-10-generic
127s I: /boot/initrd.img.old is now a symlink to initrd.img-6.14.0-10-generic
127s /etc/kernel/postrm.d/initramfs-tools:
127s update-initramfs: Deleting /boot/initrd.img-6.12.0-16-generic
127s /etc/kernel/postrm.d/zz-update-grub:
127s Sourcing file `/etc/default/grub'
127s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
127s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
127s Generating grub configuration file ...
127s Found linux image: /boot/vmlinuz-6.14.0-10-generic
127s Found initrd image: /boot/initrd.img-6.14.0-10-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) ...
128s Removing linux-modules-extra-6.12.0-16-generic (6.12.0-16.16) ...
129s Removing linux-modules-6.12.0-16-generic (6.12.0-16.16) ...
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 ... 
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(Reading database ... 76972 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-extra-6.12.0-16-generic (6.12.0-16.16) ...
129s Purging configuration files for linux-modules-6.12.0-16-generic (6.12.0-16.16) ...
129s dpkg: warning: while removing linux-modules-6.12.0-16-generic, directory '/lib/modules/6.12.0-16-generic' not empty so not removed
129s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ...
129s Purging configuration files for linux-image-6.12.0-16-generic (6.12.0-16.16) ...
130s rmdir: failed to remove '/lib/modules/6.12.0-16-generic': Directory not empty
130s autopkgtest [12:02:25]: upgrading testbed (apt dist-upgrade and autopurge)
130s Reading package lists...
130s Building dependency tree...
130s Reading state information...
131s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
131s Starting 2 pkgProblemResolver with broken count: 0
131s Done
131s Entering ResolveByKeep
131s 
132s Calculating upgrade...
132s The following packages will be upgraded:
132s   libc-bin libc-dev-bin libc6 libc6-dev locales
132s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
132s Need to get 10.5 MB of archives.
132s After this operation, 1024 B of additional disk space will be used.
132s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu2 [2183 kB]
132s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu2 [24.7 kB]
132s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu2 [3327 kB]
132s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu2 [700 kB]
132s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu2 [4246 kB]
132s Preconfiguring packages ...
133s Fetched 10.5 MB in 0s (28.9 MB/s)
133s (Reading database ... 
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(Reading database ... 76968 files and directories currently installed.)
133s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_amd64.deb ...
133s Unpacking libc6-dev:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
133s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_amd64.deb ...
133s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ...
133s 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 ... 
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(Reading database ... 76968 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 ... 
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(Reading database ... 76968 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) ...
134s Setting up locales (2.41-1ubuntu2) ...
134s Generating locales (this might take a while)...
136s   en_US.UTF-8... done
136s Generation complete.
136s Setting up libc-dev-bin (2.41-1ubuntu2) ...
136s Setting up libc6-dev:amd64 (2.41-1ubuntu2) ...
136s Processing triggers for man-db (2.13.0-1) ...
136s Processing triggers for systemd (257.3-1ubuntu3) ...
137s Reading package lists...
138s Building dependency tree...
138s Reading state information...
138s Starting pkgProblemResolver with broken count: 0
138s Starting 2 pkgProblemResolver with broken count: 0
138s Done
138s Solving dependencies...
139s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
139s autopkgtest [12:02:34]: rebooting testbed after setup commands that affected boot
142s autopkgtest-virt-ssh: WARNING: ssh connection failed. Retrying in 3 seconds...
154s autopkgtest [12:02:49]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 16:07:00 UTC 2025
155s autopkgtest [12:02:50]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-gosemsim
156s Get:1 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-gosemsim 2.32.0-2 (dsc) [2221 B]
156s Get:2 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-gosemsim 2.32.0-2 (tar) [611 kB]
156s Get:3 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-gosemsim 2.32.0-2 (diff) [6008 B]
156s gpgv: Signature made Mon Jan 13 13:56:43 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-gosemsim_2.32.0-2.dsc: no acceptable signature found
156s autopkgtest [12:02:51]: testing package r-bioc-gosemsim version 2.32.0-2
157s autopkgtest [12:02:52]: build not needed
161s autopkgtest [12:02:56]: test pkg-r-autopkgtest: preparing testbed
161s Reading package lists...
161s Building dependency tree...
161s Reading state information...
161s Starting pkgProblemResolver with broken count: 0
161s Starting 2 pkgProblemResolver with broken count: 0
161s Done
162s The following NEW packages will be installed:
162s   build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu
162s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
162s   fonts-font-awesome fonts-glyphicons-halflings fonts-mathjax g++ g++-14
162s   g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14
162s   gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-14
162s   gfortran-14-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools
162s   javascript-common libasan8 libblas-dev libblas3 libbz2-dev libcairo2
162s   libcc1-0 libdatrie1 libdeflate-dev libdeflate0 libfontconfig1 libgcc-14-dev
162s   libgfortran-14-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b
162s   libhwasan0 libice6 libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev
162s   libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-bootstrap
162s   libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery
162s   libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json
162s   libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js
162s   libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker
162s   liblapack-dev liblapack3 liblerc4 liblsan0 liblua5.4-0 liblzma-dev libmpc3
162s   libncurses-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
162s   libpaper-utils libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev
162s   libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev libquadmath0
162s   libreadline-dev libsharpyuv0 libsm6 libstdc++-14-dev libtcl8.6 libthai-data
162s   libthai0 libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7
162s   libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64 littler
162s   node-bootstrap-sass node-html5shiv node-normalize.css pandoc pandoc-data
162s   pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev
162s   r-bioc-annotationdbi r-bioc-annotationhub r-bioc-biobase
162s   r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocversion
162s   r-bioc-biostrings r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-go.db
162s   r-bioc-gosemsim r-bioc-iranges r-bioc-keggrest r-bioc-org.hs.eg.db
162s   r-bioc-s4vectors r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc
162s   r-cran-askpass r-cran-base64enc r-cran-biocmanager r-cran-bit r-cran-bit64
162s   r-cran-bitops r-cran-blob r-cran-brio r-cran-bslib r-cran-cachem
162s   r-cran-callr r-cran-catools r-cran-cli r-cran-clipr r-cran-commonmark
162s   r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-dbi r-cran-dbplyr r-cran-desc
162s   r-cran-diffobj r-cran-digest r-cran-dplyr r-cran-evaluate r-cran-fansi
162s   r-cran-fastmap r-cran-filelock r-cran-fontawesome r-cran-fs r-cran-gdata
162s   r-cran-generics r-cran-glue r-cran-gplots r-cran-gtools r-cran-highr
162s   r-cran-hms r-cran-htmltools r-cran-httpuv r-cran-httr r-cran-jquerylib
162s   r-cran-jsonlite r-cran-kernsmooth r-cran-knitr r-cran-later r-cran-lifecycle
162s   r-cran-littler r-cran-magrittr r-cran-mass r-cran-memoise r-cran-mime
162s   r-cran-openssl r-cran-pillar r-cran-pkgbuild r-cran-pkgconfig
162s   r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-png r-cran-praise
162s   r-cran-prettyunits r-cran-processx r-cran-progress r-cran-promises r-cran-ps
162s   r-cran-purrr r-cran-r.methodss3 r-cran-r.oo r-cran-r.utils r-cran-r6
162s   r-cran-rappdirs r-cran-rcpp r-cran-readr r-cran-rlang r-cran-rmarkdown
162s   r-cran-rocr r-cran-rprojroot r-cran-rsqlite r-cran-sass r-cran-shiny
162s   r-cran-sourcetools r-cran-stringi r-cran-stringr r-cran-sys r-cran-testthat
162s   r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-tinytex r-cran-tzdb
162s   r-cran-utf8 r-cran-vctrs r-cran-vroom r-cran-waldo r-cran-withr r-cran-xfun
162s   r-cran-xtable r-cran-yaml r-cran-yulab.utils unzip x11-common xdg-utils zip
162s   zlib1g-dev
162s 0 upgraded, 244 newly installed, 0 to remove and 0 not upgraded.
162s Need to get 357 MB of archives.
162s After this operation, 1332 MB of additional disk space will be used.
162s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB]
162s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB]
162s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [11.9 MB]
163s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-17ubuntu3 [1030 B]
163s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [5586 B]
163s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.2.0-1ubuntu1 [22.4 kB]
163s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 15-20250222-0ubuntu1 [47.0 kB]
163s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250222-0ubuntu1 [148 kB]
163s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 15-20250222-0ubuntu1 [28.6 kB]
163s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 15-20250222-0ubuntu1 [3055 kB]
163s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 15-20250222-0ubuntu1 [1355 kB]
163s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 15-20250222-0ubuntu1 [2756 kB]
163s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 15-20250222-0ubuntu1 [1205 kB]
163s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 15-20250222-0ubuntu1 [1677 kB]
163s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 15-20250222-0ubuntu1 [152 kB]
163s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-17ubuntu3 [2816 kB]
164s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [23.3 MB]
164s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-17ubuntu3 [536 kB]
164s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1208 B]
164s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.2.0-1ubuntu1 [5004 B]
164s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-17ubuntu3 [2486 kB]
164s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [13.4 MB]
165s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-17ubuntu3 [21.8 kB]
165s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [968 B]
165s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.2.0-1ubuntu1 [1100 B]
165s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B]
165s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 dctrl-tools amd64 2.24-3build3 [106 kB]
165s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB]
165s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB]
165s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-2ubuntu1 [37.4 kB]
165s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-2ubuntu1 [164 kB]
165s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-2ubuntu1 [180 kB]
165s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB]
165s Get:34 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB]
165s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB]
165s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250222-0ubuntu1 [919 kB]
165s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran-14-dev amd64 14.2.0-17ubuntu3 [966 kB]
165s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [12.6 MB]
166s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-14 amd64 14.2.0-17ubuntu3 [13.6 kB]
166s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1022 B]
166s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran amd64 4:14.2.0-1ubuntu1 [1174 B]
166s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 icu-devtools amd64 76.1-1ubuntu2 [237 kB]
166s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 javascript-common all 12 [5216 B]
166s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB]
166s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas-dev amd64 3.12.1-2 [338 kB]
166s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libbz2-dev amd64 1.0.8-6 [33.8 kB]
166s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB]
166s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB]
166s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B]
166s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB]
166s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB]
166s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB]
166s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB]
166s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate-dev amd64 1.23-1 [71.7 kB]
166s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB]
166s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB]
166s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB]
166s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB]
166s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libicu-dev amd64 76.1-1ubuntu2 [12.6 MB]
166s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB]
166s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8-dev amd64 2.1.5-3ubuntu2 [324 kB]
166s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
166s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B]
166s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B]
166s Get:65 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB]
166s Get:66 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB]
166s Get:67 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB]
166s Get:68 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-d3 all 3.5.17-4 [132 kB]
166s Get:69 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB]
166s Get:70 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB]
166s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
166s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB]
166s Get:73 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB]
166s Get:74 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B]
166s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB]
166s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB]
166s Get:77 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-json all 0~20221030+~1.0.8-1 [20.6 kB]
166s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB]
166s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB]
166s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack-dev amd64 3.12.1-2 [6489 kB]
167s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB]
167s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 liblua5.4-0 amd64 5.4.7-1 [196 kB]
167s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses-dev amd64 6.5+20250216-2 [424 kB]
167s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai-data all 0.1.29-2build1 [158 kB]
167s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB]
167s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 libpango-1.0-0 amd64 1.56.1-1 [255 kB]
167s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangoft2-1.0-0 amd64 1.56.1-1 [52.6 kB]
167s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangocairo-1.0-0 amd64 1.56.1-1 [29.1 kB]
167s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper2 amd64 2.2.5-0.3 [17.4 kB]
167s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper-utils amd64 2.2.5-0.3 [15.5 kB]
167s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-16-0 amd64 10.45-1 [268 kB]
167s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-32-0 amd64 10.45-1 [251 kB]
167s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-posix3 amd64 10.45-1 [7204 B]
167s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-dev amd64 10.45-1 [908 kB]
167s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 libpkgconf3 amd64 1.8.1-4 [32.3 kB]
167s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB]
167s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 libpng-dev amd64 1.6.47-1 [298 kB]
167s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 libreadline-dev amd64 8.2-6 [184 kB]
167s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB]
167s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB]
167s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB]
167s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB]
167s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB]
167s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB]
167s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB]
167s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B]
167s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB]
167s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB]
167s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 zip amd64 3.0-14ubuntu2 [185 kB]
167s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 unzip amd64 6.0-28ubuntu6 [181 kB]
167s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB]
167s Get:112 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-base-core amd64 4.4.3-1 [28.9 MB]
168s Get:113 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-littler amd64 0.3.20-2 [96.6 kB]
168s Get:114 http://ftpmaster.internal/ubuntu plucky/universe amd64 littler all 0.3.20-2 [2554 B]
168s Get:115 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB]
168s Get:116 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB]
168s Get:117 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB]
168s Get:118 http://ftpmaster.internal/ubuntu plucky/universe amd64 pandoc-data all 3.1.11.1-3build1 [78.8 kB]
168s Get:119 http://ftpmaster.internal/ubuntu plucky/universe amd64 pandoc amd64 3.1.11.1+ds-2 [27.2 MB]
170s Get:120 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma-dev amd64 5.6.4-1 [189 kB]
170s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf-bin amd64 1.8.1-4 [21.6 kB]
170s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf amd64 1.8.1-4 [16.8 kB]
170s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [193 kB]
170s Get:124 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-base-dev all 4.4.3-1 [4176 B]
170s Get:125 http://ftpmaster.internal/ubuntu plucky/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
170s Get:126 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocgenerics all 0.52.0-2 [624 kB]
170s Get:127 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biobase amd64 2.66.0-2 [2332 kB]
170s Get:128 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-s4vectors amd64 0.44.0+dfsg-2 [2065 kB]
170s Get:129 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-iranges amd64 2.40.1-2 [2310 kB]
170s Get:130 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-dbi all 1.2.3-1 [853 kB]
170s Get:131 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bit amd64 4.6.0+dfsg-1 [466 kB]
171s Get:132 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bit64 amd64 4.6.0-1-1ubuntu2 [501 kB]
171s Get:133 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rlang amd64 1.1.5-1 [1719 kB]
171s Get:134 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB]
171s Get:135 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB]
171s Get:136 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
171s Get:137 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB]
171s Get:138 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-blob all 1.2.4-1 [49.8 kB]
171s Get:139 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB]
171s Get:140 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB]
171s Get:141 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB]
171s Get:142 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
171s Get:143 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-plogr all 0.2.0-3build1 [15.1 kB]
171s Get:144 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cpp11 all 0.5.2-1 [233 kB]
171s Get:145 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rsqlite amd64 2.3.9-1 [1467 kB]
171s Get:146 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-curl amd64 6.2.1+dfsg-1ubuntu1 [197 kB]
171s Get:147 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB]
171s Get:148 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB]
171s Get:149 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sys amd64 3.4.3-1 [45.3 kB]
171s Get:150 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-askpass amd64 1.2.1-1 [24.9 kB]
171s Get:151 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-openssl amd64 2.3.2+dfsg-1 [407 kB]
171s Get:152 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB]
171s Get:153 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB]
171s Get:154 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-png amd64 0.1-8-1build2 [40.6 kB]
171s Get:155 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB]
171s Get:156 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-xvector amd64 0.46.0-2 [620 kB]
171s Get:157 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB]
171s Get:158 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB]
171s Get:159 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB]
172s Get:160 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB]
172s Get:161 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biostrings amd64 2.74.1+dfsg-2 [13.3 MB]
172s Get:162 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-keggrest all 1.46.0+dfsg-2 [183 kB]
172s Get:163 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-annotationdbi all 1.68.0-2 [4857 kB]
172s Get:164 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-generics all 0.1.3-1 [81.3 kB]
172s Get:165 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB]
172s Get:166 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-utf8 amd64 1.2.4-1 [140 kB]
172s Get:167 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pillar all 1.10.1+dfsg-1 [453 kB]
172s Get:168 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fansi amd64 1.0.5-1 [619 kB]
172s Get:169 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tibble amd64 3.2.1+dfsg-3 [419 kB]
172s Get:170 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-withr all 3.0.2+dfsg-1 [214 kB]
172s Get:171 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tidyselect amd64 1.2.1+dfsg-1 [222 kB]
172s Get:172 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-dplyr amd64 1.1.4-4 [1536 kB]
172s Get:173 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-purrr amd64 1.0.4-1 [552 kB]
172s Get:174 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-stringi amd64 1.8.4-1build1 [927 kB]
172s Get:175 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB]
172s Get:176 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tidyr amd64 1.3.1-1 [1156 kB]
173s Get:177 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-dbplyr all 2.5.0+dfsg-1 [1233 kB]
173s Get:178 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-filelock amd64 1.0.3-1 [29.6 kB]
173s Get:179 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocfilecache all 2.14.0+dfsg-2 [300 kB]
173s Get:180 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB]
173s Get:181 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocversion all 3.20.0-2 [11.1 kB]
173s Get:182 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rappdirs amd64 0.3.3-1 [47.5 kB]
173s Get:183 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB]
173s Get:184 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-annotationhub all 3.14.0+dfsg-2 [447 kB]
173s Get:185 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-go.db all 3.20.0-2 [16.5 MB]
173s Get:186 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-digest amd64 0.6.37-1 [200 kB]
173s Get:187 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-r.methodss3 all 1.8.2-1 [84.0 kB]
173s Get:188 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-r.oo all 1.27.0-1 [979 kB]
173s Get:189 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-r.utils all 2.13.0-1 [1423 kB]
173s Get:190 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fs amd64 1.6.5+dfsg-1 [246 kB]
173s Get:191 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-yulab.utils all 0.2.0-1 [120 kB]
173s Get:192 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB]
173s Get:193 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rcpp amd64 1.0.14-1 [1998 kB]
174s Get:194 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-gosemsim amd64 2.32.0-2 [1101 kB]
174s Get:195 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-org.hs.eg.db all 3.20.0-3 [63.1 MB]
177s Get:196 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-base64enc amd64 0.1-3-3 [27.6 kB]
177s Get:197 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bitops amd64 1.0-9-1 [30.3 kB]
177s Get:198 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-brio amd64 1.1.5-1 [39.0 kB]
177s Get:199 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB]
177s Get:200 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB]
177s Get:201 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB]
177s Get:202 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bslib all 0.8.0+dfsg-1 [4294 kB]
177s Get:203 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-ps amd64 1.9.0-1 [408 kB]
178s Get:204 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-processx amd64 3.8.6-1 [365 kB]
178s Get:205 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-callr all 3.7.6-1 [458 kB]
178s Get:206 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-catools amd64 1.18.3-1 [209 kB]
178s Get:207 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-clipr all 0.8.0-1 [53.5 kB]
178s Get:208 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-commonmark amd64 1.9.2-2 [137 kB]
178s Get:209 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-desc all 1.4.3-1 [359 kB]
178s Get:210 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-diffobj amd64 0.3.5-1 [1117 kB]
178s Get:211 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-evaluate all 1.0.3-1 [114 kB]
178s Get:212 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fontawesome all 0.5.3-1 [1331 kB]
178s Get:213 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-gtools amd64 3.9.5-1 [340 kB]
178s Get:214 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-gdata all 3.0.1-1 [491 kB]
178s Get:215 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-mass amd64 7.3-64-1 [1114 kB]
178s Get:216 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-kernsmooth amd64 2.23-26-1 [94.5 kB]
178s Get:217 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-gplots all 3.2.0-1 [484 kB]
178s Get:218 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xfun amd64 0.51+dfsg-1 [574 kB]
178s Get:219 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-highr all 0.11+dfsg-1 [38.5 kB]
178s Get:220 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-hms all 1.1.3-1 [96.5 kB]
178s Get:221 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-later amd64 1.4.1+dfsg-1 [154 kB]
178s Get:222 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-promises amd64 1.3.2+dfsg-1 [291 kB]
178s Get:223 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB]
178s Get:224 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB]
178s Get:225 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-knitr all 1.49+dfsg-1 [859 kB]
179s Get:226 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgbuild all 1.4.6-1 [213 kB]
179s Get:227 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rprojroot all 2.0.4-2 [125 kB]
179s Get:228 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgload all 1.4.0-1 [247 kB]
179s Get:229 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-praise all 1.0.0-4build1 [20.3 kB]
179s Get:230 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-prettyunits all 1.2.0-1 [162 kB]
179s Get:231 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-progress all 1.2.3-1 [91.9 kB]
179s Get:232 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tzdb amd64 0.4.0-2 [521 kB]
179s Get:233 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-vroom amd64 1.6.5-1 [848 kB]
179s Get:234 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-readr amd64 2.1.5-1 [766 kB]
179s Get:235 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tinytex all 0.56-1 [148 kB]
179s Get:236 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-modernizr all 3.13.0-0.1 [101 kB]
179s Get:237 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB]
179s Get:238 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB]
179s Get:239 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB]
179s Get:240 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-shiny all 1.10.0+dfsg-2 [3124 kB]
179s Get:241 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rmarkdown all 2.29+dfsg-1 [1501 kB]
179s Get:242 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rocr all 1.0-11-3 [456 kB]
179s Get:243 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-waldo all 0.6.1-2 [150 kB]
179s Get:244 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-testthat amd64 3.2.3-1 [1651 kB]
180s Preconfiguring packages ...
180s Fetched 357 MB in 17s (20.9 MB/s)
180s Selecting previously unselected package libisl23:amd64.
180s (Reading database ... 
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(Reading database ... 76968 files and directories currently installed.)
180s Preparing to unpack .../000-libisl23_0.27-1_amd64.deb ...
180s Unpacking libisl23:amd64 (0.27-1) ...
180s Selecting previously unselected package libmpc3:amd64.
180s Preparing to unpack .../001-libmpc3_1.3.1-1build2_amd64.deb ...
180s Unpacking libmpc3:amd64 (1.3.1-1build2) ...
180s Selecting previously unselected package cpp-14-x86-64-linux-gnu.
180s Preparing to unpack .../002-cpp-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ...
180s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
180s Selecting previously unselected package cpp-14.
180s Preparing to unpack .../003-cpp-14_14.2.0-17ubuntu3_amd64.deb ...
180s Unpacking cpp-14 (14.2.0-17ubuntu3) ...
180s Selecting previously unselected package cpp-x86-64-linux-gnu.
180s Preparing to unpack .../004-cpp-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ...
180s Unpacking cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
180s Selecting previously unselected package cpp.
180s Preparing to unpack .../005-cpp_4%3a14.2.0-1ubuntu1_amd64.deb ...
180s Unpacking cpp (4:14.2.0-1ubuntu1) ...
180s Selecting previously unselected package libcc1-0:amd64.
180s Preparing to unpack .../006-libcc1-0_15-20250222-0ubuntu1_amd64.deb ...
180s Unpacking libcc1-0:amd64 (15-20250222-0ubuntu1) ...
180s Selecting previously unselected package libgomp1:amd64.
180s Preparing to unpack .../007-libgomp1_15-20250222-0ubuntu1_amd64.deb ...
180s Unpacking libgomp1:amd64 (15-20250222-0ubuntu1) ...
180s Selecting previously unselected package libitm1:amd64.
181s Preparing to unpack .../008-libitm1_15-20250222-0ubuntu1_amd64.deb ...
181s Unpacking libitm1:amd64 (15-20250222-0ubuntu1) ...
181s Selecting previously unselected package libasan8:amd64.
181s Preparing to unpack .../009-libasan8_15-20250222-0ubuntu1_amd64.deb ...
181s Unpacking libasan8:amd64 (15-20250222-0ubuntu1) ...
181s Selecting previously unselected package liblsan0:amd64.
181s Preparing to unpack .../010-liblsan0_15-20250222-0ubuntu1_amd64.deb ...
181s Unpacking liblsan0:amd64 (15-20250222-0ubuntu1) ...
181s Selecting previously unselected package libtsan2:amd64.
181s Preparing to unpack .../011-libtsan2_15-20250222-0ubuntu1_amd64.deb ...
181s Unpacking libtsan2:amd64 (15-20250222-0ubuntu1) ...
181s Selecting previously unselected package libubsan1:amd64.
181s Preparing to unpack .../012-libubsan1_15-20250222-0ubuntu1_amd64.deb ...
181s Unpacking libubsan1:amd64 (15-20250222-0ubuntu1) ...
181s Selecting previously unselected package libhwasan0:amd64.
181s Preparing to unpack .../013-libhwasan0_15-20250222-0ubuntu1_amd64.deb ...
181s Unpacking libhwasan0:amd64 (15-20250222-0ubuntu1) ...
181s Selecting previously unselected package libquadmath0:amd64.
181s Preparing to unpack .../014-libquadmath0_15-20250222-0ubuntu1_amd64.deb ...
181s Unpacking libquadmath0:amd64 (15-20250222-0ubuntu1) ...
181s Selecting previously unselected package libgcc-14-dev:amd64.
181s Preparing to unpack .../015-libgcc-14-dev_14.2.0-17ubuntu3_amd64.deb ...
181s Unpacking libgcc-14-dev:amd64 (14.2.0-17ubuntu3) ...
181s Selecting previously unselected package gcc-14-x86-64-linux-gnu.
181s Preparing to unpack .../016-gcc-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ...
181s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
181s Selecting previously unselected package gcc-14.
181s Preparing to unpack .../017-gcc-14_14.2.0-17ubuntu3_amd64.deb ...
181s Unpacking gcc-14 (14.2.0-17ubuntu3) ...
181s Selecting previously unselected package gcc-x86-64-linux-gnu.
181s Preparing to unpack .../018-gcc-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ...
181s Unpacking gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
181s Selecting previously unselected package gcc.
181s Preparing to unpack .../019-gcc_4%3a14.2.0-1ubuntu1_amd64.deb ...
181s Unpacking gcc (4:14.2.0-1ubuntu1) ...
181s Selecting previously unselected package libstdc++-14-dev:amd64.
181s Preparing to unpack .../020-libstdc++-14-dev_14.2.0-17ubuntu3_amd64.deb ...
181s Unpacking libstdc++-14-dev:amd64 (14.2.0-17ubuntu3) ...
182s Selecting previously unselected package g++-14-x86-64-linux-gnu.
182s Preparing to unpack .../021-g++-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ...
182s Unpacking g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
182s Selecting previously unselected package g++-14.
182s Preparing to unpack .../022-g++-14_14.2.0-17ubuntu3_amd64.deb ...
182s Unpacking g++-14 (14.2.0-17ubuntu3) ...
182s Selecting previously unselected package g++-x86-64-linux-gnu.
182s Preparing to unpack .../023-g++-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ...
182s Unpacking g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
182s Selecting previously unselected package g++.
182s Preparing to unpack .../024-g++_4%3a14.2.0-1ubuntu1_amd64.deb ...
182s Unpacking g++ (4:14.2.0-1ubuntu1) ...
182s Selecting previously unselected package build-essential.
182s Preparing to unpack .../025-build-essential_12.10ubuntu1_amd64.deb ...
182s Unpacking build-essential (12.10ubuntu1) ...
182s Selecting previously unselected package dctrl-tools.
182s Preparing to unpack .../026-dctrl-tools_2.24-3build3_amd64.deb ...
182s Unpacking dctrl-tools (2.24-3build3) ...
182s Selecting previously unselected package fonts-dejavu-mono.
182s Preparing to unpack .../027-fonts-dejavu-mono_2.37-8_all.deb ...
182s Unpacking fonts-dejavu-mono (2.37-8) ...
182s Selecting previously unselected package fonts-dejavu-core.
182s Preparing to unpack .../028-fonts-dejavu-core_2.37-8_all.deb ...
182s Unpacking fonts-dejavu-core (2.37-8) ...
182s Selecting previously unselected package fontconfig-config.
182s Preparing to unpack .../029-fontconfig-config_2.15.0-2ubuntu1_amd64.deb ...
182s Unpacking fontconfig-config (2.15.0-2ubuntu1) ...
182s Selecting previously unselected package libfontconfig1:amd64.
182s Preparing to unpack .../030-libfontconfig1_2.15.0-2ubuntu1_amd64.deb ...
182s Unpacking libfontconfig1:amd64 (2.15.0-2ubuntu1) ...
182s Selecting previously unselected package fontconfig.
182s Preparing to unpack .../031-fontconfig_2.15.0-2ubuntu1_amd64.deb ...
182s Unpacking fontconfig (2.15.0-2ubuntu1) ...
182s Selecting previously unselected package fonts-font-awesome.
182s Preparing to unpack .../032-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1_all.deb ...
182s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ...
182s Selecting previously unselected package fonts-glyphicons-halflings.
182s Preparing to unpack .../033-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-3_all.deb ...
182s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ...
182s Selecting previously unselected package fonts-mathjax.
182s Preparing to unpack .../034-fonts-mathjax_2.7.9+dfsg-1_all.deb ...
182s Unpacking fonts-mathjax (2.7.9+dfsg-1) ...
183s Selecting previously unselected package libgfortran5:amd64.
183s Preparing to unpack .../035-libgfortran5_15-20250222-0ubuntu1_amd64.deb ...
183s Unpacking libgfortran5:amd64 (15-20250222-0ubuntu1) ...
183s Selecting previously unselected package libgfortran-14-dev:amd64.
183s Preparing to unpack .../036-libgfortran-14-dev_14.2.0-17ubuntu3_amd64.deb ...
183s Unpacking libgfortran-14-dev:amd64 (14.2.0-17ubuntu3) ...
183s Selecting previously unselected package gfortran-14-x86-64-linux-gnu.
183s Preparing to unpack .../037-gfortran-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ...
183s Unpacking gfortran-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
183s Selecting previously unselected package gfortran-14.
183s Preparing to unpack .../038-gfortran-14_14.2.0-17ubuntu3_amd64.deb ...
183s Unpacking gfortran-14 (14.2.0-17ubuntu3) ...
183s Selecting previously unselected package gfortran-x86-64-linux-gnu.
183s Preparing to unpack .../039-gfortran-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ...
183s Unpacking gfortran-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
183s Selecting previously unselected package gfortran.
183s Preparing to unpack .../040-gfortran_4%3a14.2.0-1ubuntu1_amd64.deb ...
183s Unpacking gfortran (4:14.2.0-1ubuntu1) ...
183s Selecting previously unselected package icu-devtools.
183s Preparing to unpack .../041-icu-devtools_76.1-1ubuntu2_amd64.deb ...
183s Unpacking icu-devtools (76.1-1ubuntu2) ...
183s Selecting previously unselected package javascript-common.
183s Preparing to unpack .../042-javascript-common_12_all.deb ...
183s Unpacking javascript-common (12) ...
183s Selecting previously unselected package libblas3:amd64.
183s Preparing to unpack .../043-libblas3_3.12.1-2_amd64.deb ...
183s Unpacking libblas3:amd64 (3.12.1-2) ...
183s Selecting previously unselected package libblas-dev:amd64.
183s Preparing to unpack .../044-libblas-dev_3.12.1-2_amd64.deb ...
183s Unpacking libblas-dev:amd64 (3.12.1-2) ...
183s Selecting previously unselected package libbz2-dev:amd64.
183s Preparing to unpack .../045-libbz2-dev_1.0.8-6_amd64.deb ...
183s Unpacking libbz2-dev:amd64 (1.0.8-6) ...
183s Selecting previously unselected package libpixman-1-0:amd64.
183s Preparing to unpack .../046-libpixman-1-0_0.44.0-3_amd64.deb ...
183s Unpacking libpixman-1-0:amd64 (0.44.0-3) ...
183s Selecting previously unselected package libxcb-render0:amd64.
183s Preparing to unpack .../047-libxcb-render0_1.17.0-2_amd64.deb ...
183s Unpacking libxcb-render0:amd64 (1.17.0-2) ...
183s Selecting previously unselected package libxcb-shm0:amd64.
183s Preparing to unpack .../048-libxcb-shm0_1.17.0-2_amd64.deb ...
183s Unpacking libxcb-shm0:amd64 (1.17.0-2) ...
183s Selecting previously unselected package libxrender1:amd64.
183s Preparing to unpack .../049-libxrender1_1%3a0.9.10-1.1build1_amd64.deb ...
183s Unpacking libxrender1:amd64 (1:0.9.10-1.1build1) ...
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185s Selecting previously unselected package libpangocairo-1.0-0:amd64.
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185s Selecting previously unselected package libpng-dev:amd64.
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188s Selecting previously unselected package r-cran-rsqlite.
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188s Selecting previously unselected package r-cran-mime.
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188s Selecting previously unselected package r-cran-askpass.
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188s Selecting previously unselected package r-cran-openssl.
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189s Selecting previously unselected package r-cran-r6.
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189s Selecting previously unselected package r-cran-httr.
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189s Selecting previously unselected package r-cran-png.
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189s Selecting previously unselected package r-bioc-zlibbioc.
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189s Unpacking r-bioc-zlibbioc (1.52.0+dfsg-2) ...
189s Selecting previously unselected package r-bioc-xvector.
189s Preparing to unpack .../155-r-bioc-xvector_0.46.0-2_amd64.deb ...
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189s Selecting previously unselected package r-bioc-ucsc.utils.
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189s Selecting previously unselected package r-bioc-genomeinfodbdata.
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189s Selecting previously unselected package r-cran-crayon.
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189s Selecting previously unselected package r-bioc-biostrings.
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189s Selecting previously unselected package r-bioc-keggrest.
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189s Selecting previously unselected package r-bioc-annotationdbi.
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189s Selecting previously unselected package r-cran-generics.
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189s Selecting previously unselected package r-cran-magrittr.
189s Preparing to unpack .../164-r-cran-magrittr_2.0.3-1_amd64.deb ...
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189s Selecting previously unselected package r-cran-utf8.
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189s Preparing to unpack .../166-r-cran-pillar_1.10.1+dfsg-1_all.deb ...
189s Unpacking r-cran-pillar (1.10.1+dfsg-1) ...
189s Selecting previously unselected package r-cran-fansi.
189s Preparing to unpack .../167-r-cran-fansi_1.0.5-1_amd64.deb ...
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189s Selecting previously unselected package r-cran-tibble.
189s Preparing to unpack .../168-r-cran-tibble_3.2.1+dfsg-3_amd64.deb ...
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189s Selecting previously unselected package r-cran-withr.
189s Preparing to unpack .../169-r-cran-withr_3.0.2+dfsg-1_all.deb ...
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189s Selecting previously unselected package r-cran-tidyselect.
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189s Selecting previously unselected package r-cran-dplyr.
189s Preparing to unpack .../171-r-cran-dplyr_1.1.4-4_amd64.deb ...
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189s Selecting previously unselected package r-cran-purrr.
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190s Selecting previously unselected package r-cran-stringi.
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190s Selecting previously unselected package r-cran-tidyr.
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190s Selecting previously unselected package r-cran-dbplyr.
190s Preparing to unpack .../176-r-cran-dbplyr_2.5.0+dfsg-1_all.deb ...
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190s Selecting previously unselected package r-cran-filelock.
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190s Selecting previously unselected package r-bioc-biocfilecache.
190s Preparing to unpack .../178-r-bioc-biocfilecache_2.14.0+dfsg-2_all.deb ...
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190s Selecting previously unselected package r-cran-biocmanager.
190s Preparing to unpack .../179-r-cran-biocmanager_1.30.25+dfsg-1_all.deb ...
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190s Selecting previously unselected package r-bioc-biocversion.
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190s Selecting previously unselected package r-cran-rappdirs.
190s Preparing to unpack .../181-r-cran-rappdirs_0.3.3-1_amd64.deb ...
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190s Selecting previously unselected package r-cran-yaml.
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190s Selecting previously unselected package r-bioc-annotationhub.
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190s Selecting previously unselected package r-bioc-go.db.
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190s Selecting previously unselected package r-cran-digest.
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190s Selecting previously unselected package r-cran-r.methodss3.
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190s Selecting previously unselected package r-cran-r.oo.
190s Preparing to unpack .../187-r-cran-r.oo_1.27.0-1_all.deb ...
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190s Selecting previously unselected package r-cran-r.utils.
190s Preparing to unpack .../188-r-cran-r.utils_2.13.0-1_all.deb ...
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191s Selecting previously unselected package r-cran-fs.
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191s Selecting previously unselected package r-cran-yulab.utils.
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191s Selecting previously unselected package r-cran-pkgkitten.
191s Preparing to unpack .../191-r-cran-pkgkitten_0.2.4-1_all.deb ...
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191s Selecting previously unselected package r-cran-rcpp.
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191s Selecting previously unselected package r-bioc-gosemsim.
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191s Selecting previously unselected package r-bioc-org.hs.eg.db.
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192s Selecting previously unselected package r-cran-base64enc.
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192s Selecting previously unselected package r-cran-bitops.
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192s Selecting previously unselected package r-cran-brio.
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192s Preparing to unpack .../198-r-cran-htmltools_0.5.8.1-1_amd64.deb ...
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192s Selecting previously unselected package r-cran-jquerylib.
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192s Selecting previously unselected package r-cran-sass.
192s Preparing to unpack .../200-r-cran-sass_0.4.9+dfsg-1_amd64.deb ...
192s Unpacking r-cran-sass (0.4.9+dfsg-1) ...
192s Selecting previously unselected package r-cran-bslib.
192s Preparing to unpack .../201-r-cran-bslib_0.8.0+dfsg-1_all.deb ...
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195s Setting up libjs-json (0~20221030+~1.0.8-1) ...
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196s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
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196s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ...
196s Setting up libpcre2-posix3:amd64 (10.45-1) ...
196s Setting up libjs-highlight.js (9.18.5+dfsg1-2) ...
196s Setting up libhwasan0:amd64 (15-20250222-0ubuntu1) ...
196s Setting up libasan8:amd64 (15-20250222-0ubuntu1) ...
196s Setting up liblua5.4-0:amd64 (5.4.7-1) ...
196s Setting up libharfbuzz0b:amd64 (10.2.0-1) ...
196s Setting up libthai-data (0.1.29-2build1) ...
196s Setting up node-bootstrap-sass (3.4.3-2) ...
196s Setting up libjs-prettify (2015.12.04+dfsg-1.1) ...
196s Setting up libxss1:amd64 (1:1.2.3-1build3) ...
196s Setting up libjs-bootstrap4 (4.6.1+dfsg1-4) ...
196s Setting up libpaper2:amd64 (2.2.5-0.3) ...
196s Setting up pandoc-data (3.1.11.1-3build1) ...
196s Setting up libtsan2:amd64 (15-20250222-0ubuntu1) ...
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196s Setting up libisl23:amd64 (0.27-1) ...
196s Setting up libdeflate-dev:amd64 (1.23-1) ...
196s Setting up node-normalize.css (8.0.1-5) ...
196s Setting up libicu-dev:amd64 (76.1-1ubuntu2) ...
196s Setting up fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1) ...
196s Setting up xdg-utils (1.2.1-2ubuntu1) ...
196s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
196s Setting up libcc1-0:amd64 (15-20250222-0ubuntu1) ...
196s Setting up liblsan0:amd64 (15-20250222-0ubuntu1) ...
196s Setting up libblas-dev:amd64 (3.12.1-2) ...
196s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode
196s Setting up dctrl-tools (2.24-3build3) ...
196s Setting up libjs-bootstrap (3.4.1+dfsg-3) ...
196s Setting up libitm1:amd64 (15-20250222-0ubuntu1) ...
196s Setting up libbz2-dev:amd64 (1.0.8-6) ...
196s Setting up libjs-jquery-selectize.js (0.12.6+dfsg-1.1) ...
196s Setting up libjpeg8:amd64 (8c-2ubuntu11) ...
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196s Setting up libjpeg-turbo8-dev:amd64 (2.1.5-3ubuntu2) ...
196s Setting up liblapack3:amd64 (3.12.1-2) ...
196s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
196s Setting up libpcre2-dev:amd64 (10.45-1) ...
196s Setting up fontconfig-config (2.15.0-2ubuntu1) ...
196s Setting up libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ...
196s Setting up libpng-dev:amd64 (1.6.47-1) ...
196s Setting up libpaper-utils (2.2.5-0.3) ...
196s Setting up libjs-jquery-datatables (1.11.5+dfsg-2) ...
196s Setting up pkgconf:amd64 (1.8.1-4) ...
196s Setting up libthai0:amd64 (0.1.29-2build1) ...
196s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ...
196s Setting up pandoc (3.1.11.1+ds-2) ...
196s Setting up liblapack-dev:amd64 (3.12.1-2) ...
196s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode
196s Setting up cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
196s Setting up cpp-14 (14.2.0-17ubuntu3) ...
196s Setting up libtiff6:amd64 (4.5.1+git230720-4ubuntu4) ...
196s Setting up libfontconfig1:amd64 (2.15.0-2ubuntu1) ...
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196s Setting up libjpeg8-dev:amd64 (8c-2ubuntu11) ...
196s Setting up libstdc++-14-dev:amd64 (14.2.0-17ubuntu3) ...
196s Setting up libsm6:amd64 (2:1.2.4-1) ...
196s Setting up cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
196s Setting up libgfortran-14-dev:amd64 (14.2.0-17ubuntu3) ...
196s Setting up fontconfig (2.15.0-2ubuntu1) ...
198s Regenerating fonts cache... done.
198s Setting up libxft2:amd64 (2.3.6-1build1) ...
198s Setting up libtk8.6:amd64 (8.6.16-1) ...
198s Setting up libpango-1.0-0:amd64 (1.56.1-1) ...
198s Setting up libjpeg-dev:amd64 (8c-2ubuntu11) ...
198s Setting up libcairo2:amd64 (1.18.2-2) ...
198s Setting up libxt6t64:amd64 (1:1.2.1-1.2build1) ...
198s Setting up cpp (4:14.2.0-1ubuntu1) ...
198s Setting up gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
198s Setting up libpangoft2-1.0-0:amd64 (1.56.1-1) ...
198s Setting up libpangocairo-1.0-0:amd64 (1.56.1-1) ...
198s Setting up gcc-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
198s Setting up gcc-14 (14.2.0-17ubuntu3) ...
198s Setting up gfortran-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
198s Setting up r-base-core (4.4.3-1) ...
198s Creating config file /etc/R/Renviron with new version
198s Setting up r-cran-crayon (1.5.3-1) ...
198s Setting up r-cran-sourcetools (0.1.7-1-1) ...
198s Setting up r-cran-ps (1.9.0-1) ...
198s Setting up g++-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ...
198s Setting up g++-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
198s Setting up r-cran-clipr (0.8.0-1) ...
198s Setting up r-cran-commonmark (1.9.2-2) ...
198s Setting up g++-14 (14.2.0-17ubuntu3) ...
198s Setting up r-cran-r6 (2.6.1-1) ...
198s Setting up r-cran-pkgkitten (0.2.4-1) ...
198s Setting up gfortran-14 (14.2.0-17ubuntu3) ...
198s Setting up r-cran-magrittr (2.0.3-1) ...
198s Setting up r-cran-rappdirs (0.3.3-1) ...
198s Setting up r-cran-filelock (1.0.3-1) ...
198s Setting up r-bioc-genomeinfodbdata (1.2.13-2) ...
198s Setting up r-cran-littler (0.3.20-2) ...
198s Setting up r-cran-fs (1.6.5+dfsg-1) ...
198s Setting up r-cran-rcpp (1.0.14-1) ...
198s Setting up r-cran-curl (6.2.1+dfsg-1ubuntu1) ...
198s Setting up r-cran-brio (1.1.5-1) ...
198s Setting up r-cran-diffobj (0.3.5-1) ...
198s Setting up r-bioc-biocgenerics (0.52.0-2) ...
198s Setting up r-cran-rlang (1.1.5-1) ...
198s Setting up littler (0.3.20-2) ...
198s Setting up r-cran-xfun (0.51+dfsg-1) ...
198s Setting up r-cran-sys (3.4.3-1) ...
198s Setting up r-cran-plogr (0.2.0-3build1) ...
198s Setting up r-cran-withr (3.0.2+dfsg-1) ...
198s Setting up r-cran-processx (3.8.6-1) ...
198s Setting up r-cran-mime (0.12-2) ...
198s Setting up r-cran-praise (1.0.0-4build1) ...
198s Setting up r-cran-generics (0.1.3-1) ...
198s Setting up r-cran-base64enc (0.1-3-3) ...
198s Setting up r-cran-digest (0.6.37-1) ...
198s Setting up r-cran-yaml (2.3.10-1) ...
198s Setting up r-cran-evaluate (1.0.3-1) ...
198s Setting up r-cran-dbi (1.2.3-1) ...
198s Setting up r-cran-highr (0.11+dfsg-1) ...
198s Setting up r-cran-prettyunits (1.2.0-1) ...
198s Setting up r-cran-fansi (1.0.5-1) ...
198s Setting up r-cran-mass (7.3-64-1) ...
198s Setting up r-cran-gtools (3.9.5-1) ...
198s Setting up r-cran-glue (1.8.0-1) ...
198s Setting up r-cran-bit (4.6.0+dfsg-1) ...
198s Setting up gfortran-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ...
198s Setting up r-cran-xtable (1:1.8-4-2) ...
198s Setting up r-cran-cli (3.6.4-1) ...
198s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
198s Setting up r-cran-bitops (1.0-9-1) ...
198s Setting up r-bioc-biocversion (3.20.0-2) ...
198s Setting up r-cran-rprojroot (2.0.4-2) ...
198s Setting up r-cran-bit64 (4.6.0-1-1ubuntu2) ...
198s Setting up r-cran-biocmanager (1.30.25+dfsg-1) ...
198s Setting up gcc (4:14.2.0-1ubuntu1) ...
198s Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ...
198s Setting up r-cran-askpass (1.2.1-1) ...
198s Setting up r-cran-fastmap (1.2.0-1) ...
198s Setting up r-cran-png (0.1-8-1build2) ...
198s Setting up r-cran-r.methodss3 (1.8.2-1) ...
198s Setting up r-bioc-biobase (2.66.0-2) ...
198s Setting up r-cran-jsonlite (1.9.1+dfsg-1) ...
198s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
198s Setting up r-cran-utf8 (1.2.4-1) ...
198s Setting up r-cran-stringi (1.8.4-1build1) ...
198s Setting up r-cran-cpp11 (0.5.2-1) ...
198s Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ...
198s Setting up r-cran-waldo (0.6.1-2) ...
198s Setting up r-cran-later (1.4.1+dfsg-1) ...
198s Setting up r-cran-htmltools (0.5.8.1-1) ...
198s Setting up r-cran-tinytex (0.56-1) ...
198s Setting up r-cran-kernsmooth (2.23-26-1) ...
198s Setting up r-cran-knitr (1.49+dfsg-1) ...
198s Setting up g++ (4:14.2.0-1ubuntu1) ...
198s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
198s Setting up r-cran-cachem (1.1.0-1) ...
198s Setting up r-cran-sass (0.4.9+dfsg-1) ...
198s Setting up build-essential (12.10ubuntu1) ...
198s Setting up r-cran-catools (1.18.3-1) ...
198s Setting up r-bioc-iranges (2.40.1-2) ...
198s Setting up r-cran-tzdb (0.4.0-2) ...
198s Setting up r-cran-gdata (3.0.1-1) ...
198s Setting up r-cran-vctrs (0.6.5-1) ...
198s Setting up r-cran-pillar (1.10.1+dfsg-1) ...
198s Setting up r-cran-openssl (2.3.2+dfsg-1) ...
198s Setting up r-cran-stringr (1.5.1-1) ...
198s Setting up r-cran-callr (3.7.6-1) ...
198s Setting up r-cran-desc (1.4.3-1) ...
198s Setting up r-cran-tibble (3.2.1+dfsg-3) ...
198s Setting up r-cran-fontawesome (0.5.3-1) ...
198s Setting up r-cran-r.oo (1.27.0-1) ...
198s Setting up r-cran-yulab.utils (0.2.0-1) ...
198s Setting up gfortran (4:14.2.0-1ubuntu1) ...
198s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
198s 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
198s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
198s 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
198s Setting up r-cran-jquerylib (0.1.4+dfsg-4) ...
198s Setting up r-cran-tidyselect (1.2.1+dfsg-1) ...
198s Setting up r-cran-httr (1.4.7+dfsg-1) ...
198s Setting up r-cran-hms (1.1.3-1) ...
198s Setting up r-cran-memoise (2.0.1-1) ...
198s Setting up r-cran-promises (1.3.2+dfsg-1) ...
198s Setting up r-cran-purrr (1.0.4-1) ...
198s Setting up r-cran-blob (1.2.4-1) ...
198s Setting up r-bioc-xvector (0.46.0-2) ...
198s Setting up r-cran-pkgbuild (1.4.6-1) ...
198s Setting up r-cran-dplyr (1.1.4-4) ...
198s Setting up r-cran-gplots (3.2.0-1) ...
198s Setting up r-cran-rsqlite (2.3.9-1) ...
198s Setting up r-cran-progress (1.2.3-1) ...
198s Setting up r-cran-pkgload (1.4.0-1) ...
198s Setting up r-cran-r.utils (2.13.0-1) ...
198s Setting up r-cran-rocr (1.0-11-3) ...
198s Setting up r-cran-vroom (1.6.5-1) ...
198s Setting up r-base-dev (4.4.3-1) ...
198s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ...
198s Setting up r-cran-httpuv (1.6.15+dfsg-1) ...
198s Setting up r-cran-testthat (3.2.3-1) ...
198s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ...
198s Setting up r-cran-bslib (0.8.0+dfsg-1) ...
198s Setting up r-cran-readr (2.1.5-1) ...
198s Setting up r-cran-tidyr (1.3.1-1) ...
198s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
198s Setting up r-cran-dbplyr (2.5.0+dfsg-1) ...
198s Setting up r-bioc-biocfilecache (2.14.0+dfsg-2) ...
198s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ...
198s Setting up r-cran-shiny (1.10.0+dfsg-2) ...
198s Setting up r-cran-rmarkdown (2.29+dfsg-1) ...
198s Setting up r-bioc-keggrest (1.46.0+dfsg-2) ...
198s Setting up r-bioc-annotationdbi (1.68.0-2) ...
198s Setting up r-bioc-go.db (3.20.0-2) ...
198s Setting up r-bioc-annotationhub (3.14.0+dfsg-2) ...
198s Setting up r-bioc-org.hs.eg.db (3.20.0-3) ...
198s Setting up r-bioc-gosemsim (2.32.0-2) ...
198s Processing triggers for man-db (2.13.0-1) ...
200s Processing triggers for install-info (7.1.1-1) ...
200s Processing triggers for libc-bin (2.41-1ubuntu2) ...
201s autopkgtest [12:03:36]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
201s autopkgtest [12:03:36]: test pkg-r-autopkgtest: [-----------------------
201s Test: Try to load the R library GOSemSim
201s 
201s R version 4.4.3 (2025-02-28) -- "Trophy Case"
201s Copyright (C) 2025 The R Foundation for Statistical Computing
201s Platform: x86_64-pc-linux-gnu
201s 
201s R is free software and comes with ABSOLUTELY NO WARRANTY.
201s You are welcome to redistribute it under certain conditions.
201s Type 'license()' or 'licence()' for distribution details.
201s 
201s R is a collaborative project with many contributors.
201s Type 'contributors()' for more information and
201s 'citation()' on how to cite R or R packages in publications.
201s 
201s Type 'demo()' for some demos, 'help()' for on-line help, or
201s 'help.start()' for an HTML browser interface to help.
201s Type 'q()' to quit R.
201s 
201s > library('GOSemSim')
204s 
204s GOSemSim v2.32.0 Learn more at https://yulab-smu.top/contribution-knowledge-mining/
204s 
204s Please cite:
204s 
204s Guangchuang Yu, Fei Li, Yide Qin, Xiaochen Bo, Yibo Wu and Shengqi
204s Wang. GOSemSim: an R package for measuring semantic similarity among GO
204s terms and gene products. Bioinformatics. 2010, 26(7):976-978
204s > 
204s > 
204s Other tests are currently unsupported!
204s They will be progressively added.
205s autopkgtest [12:03:40]: test pkg-r-autopkgtest: -----------------------]
205s autopkgtest [12:03:40]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
205s pkg-r-autopkgtest    PASS
205s autopkgtest [12:03:40]: @@@@@@@@@@@@@@@@@@@@ summary
205s pkg-r-autopkgtest    PASS
222s nova [W] Skipping flock for amd64
222s Creating nova instance adt-plucky-amd64-r-bioc-gosemsim-20250315-120015-juju-7f2275-prod-proposed-migration-environment-2-e4a9d5cd-1d17-45aa-b3b3-7fef8ba22322 from image adt/ubuntu-plucky-amd64-server-20250306.img (UUID 60d877d7-b74c-4f24-920d-f4570db0a338)...
222s nova [W] Timed out waiting for 72d1ba38-6825-4995-9551-0061d26925dc to get deleted.