0s autopkgtest [21:59:16]: starting date and time: 2025-03-15 21:59:16+0000 1s autopkgtest [21:59:17]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 1s autopkgtest [21:59:17]: host juju-7f2275-prod-proposed-migration-environment-15; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.iyrni4ao/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-grohmm --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 builder-cpu2-ram4-disk20 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-15@bos03-10.secgroup --name adt-plucky-amd64-r-bioc-grohmm-20250315-215916-juju-7f2275-prod-proposed-migration-environment-15-58794a0e-c5bb-4ee7-a7a4-121c4f7bf511 --image adt/ubuntu-plucky-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-15 --net-id=net_prod-proposed-migration-amd64 -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/ 57s autopkgtest [22:00:13]: testbed dpkg architecture: amd64 57s autopkgtest [22:00:13]: testbed apt version: 2.9.31ubuntu1 58s autopkgtest [22:00:14]: @@@@@@@@@@@@@@@@@@@@ test bed setup 58s autopkgtest [22:00:14]: testbed release detected to be: None 59s autopkgtest [22:00:15]: updating testbed package index (apt update) 59s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 60s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 60s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 60s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 60s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [369 kB] 60s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [44.1 kB] 60s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [14.5 kB] 60s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main i386 Packages [67.4 kB] 60s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 Packages [85.7 kB] 60s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 c-n-f Metadata [1852 B] 60s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/restricted amd64 c-n-f Metadata [116 B] 60s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe i386 Packages [174 kB] 60s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 Packages [342 kB] 60s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe amd64 c-n-f Metadata [15.3 kB] 60s Get:15 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse i386 Packages [8544 B] 60s Get:16 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 Packages [16.1 kB] 60s Get:17 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse amd64 c-n-f Metadata [628 B] 60s Fetched 1265 kB in 1s (1438 kB/s) 61s Reading package lists... 62s + lsb_release --codename --short 62s + RELEASE=plucky 62s + cat 62s + [ plucky != trusty ] 62s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y --allow-downgrades -o Dpkg::Options::=--force-confnew dist-upgrade 62s Reading package lists... 62s Building dependency tree... 62s Reading state information... 63s Calculating upgrade... 63s Calculating upgrade... 63s The following package was automatically installed and is no longer required: 63s libnl-genl-3-200 63s Use 'sudo apt autoremove' to remove it. 63s The following NEW packages will be installed: 63s bpftool libdebuginfod-common libdebuginfod1t64 linux-headers-6.14.0-10 63s linux-headers-6.14.0-10-generic linux-image-6.14.0-10-generic 63s linux-modules-6.14.0-10-generic linux-modules-extra-6.14.0-10-generic 63s linux-perf linux-tools-6.14.0-10 linux-tools-6.14.0-10-generic pnp.ids 63s The following packages will be upgraded: 63s apparmor apt apt-utils binutils binutils-common binutils-x86-64-linux-gnu 63s cloud-init cloud-init-base curl dosfstools exfatprogs fwupd gcc-15-base 63s gir1.2-girepository-2.0 gir1.2-glib-2.0 htop hwdata initramfs-tools 63s initramfs-tools-bin initramfs-tools-core libapparmor1 libapt-pkg7.0 63s libassuan9 libatomic1 libaudit-common libaudit1 libbinutils libbrotli1 63s libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libctf-nobfd0 libctf0 63s libcurl3t64-gnutls libcurl4t64 libestr0 libftdi1-2 libfwupd3 libgcc-s1 63s libgirepository-1.0-1 libglib2.0-0t64 libglib2.0-data libgpgme11t64 63s libgprofng0 libjemalloc2 liblz4-1 liblzma5 libmm-glib0 libncurses6 63s libncursesw6 libnewt0.52 libnl-3-200 libnl-genl-3-200 libnl-route-3-200 63s libnss-systemd libpam-systemd libparted2t64 libpci3 libpython3-stdlib 63s libpython3.13 libpython3.13-minimal libpython3.13-stdlib libseccomp2 63s libselinux1 libsemanage-common libsemanage2 libsframe1 libsqlite3-0 63s libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libudev1 libxml2 63s linux-firmware linux-generic linux-headers-generic linux-headers-virtual 63s linux-image-generic linux-image-virtual linux-libc-dev linux-tools-common 63s linux-virtual locales media-types ncurses-base ncurses-bin ncurses-term 63s parted pci.ids pciutils pinentry-curses python-apt-common python3 63s python3-apt python3-bcrypt python3-cffi-backend python3-dbus python3-gi 63s python3-jinja2 python3-lazr.uri python3-markupsafe python3-minimal 63s python3-newt python3-rpds-py python3-systemd python3-yaml python3.13 63s python3.13-gdbm python3.13-minimal rsync rsyslog strace systemd 63s systemd-cryptsetup systemd-resolved systemd-sysv systemd-timesyncd 63s ubuntu-kernel-accessories ubuntu-minimal ubuntu-standard udev whiptail 63s xz-utils 63s 126 upgraded, 12 newly installed, 0 to remove and 0 not upgraded. 63s Need to get 829 MB of archives. 63s After this operation, 325 MB of additional disk space will be used. 63s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-bin amd64 6.5+20250216-2 [194 kB] 64s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libc-dev-bin amd64 2.41-1ubuntu1 [24.7 kB] 64s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 libc6-dev amd64 2.41-1ubuntu1 [2182 kB] 64s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 locales all 2.41-1ubuntu1 [4246 kB] 64s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 libc6 amd64 2.41-1ubuntu1 [3327 kB] 64s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 libc-bin amd64 2.41-1ubuntu1 [701 kB] 64s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-libc-dev amd64 6.14.0-10.10 [1723 kB] 64s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libatomic1 amd64 15-20250222-0ubuntu1 [10.4 kB] 64s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-15-base amd64 15-20250222-0ubuntu1 [53.4 kB] 64s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-s1 amd64 15-20250222-0ubuntu1 [77.8 kB] 64s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++6 amd64 15-20250222-0ubuntu1 [798 kB] 64s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-base all 6.5+20250216-2 [25.9 kB] 64s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 ncurses-term all 6.5+20250216-2 [276 kB] 64s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 liblz4-1 amd64 1.10.0-4 [66.4 kB] 64s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma5 amd64 5.6.4-1 [157 kB] 64s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libsystemd0 amd64 257.3-1ubuntu3 [595 kB] 64s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 libnss-systemd amd64 257.3-1ubuntu3 [199 kB] 64s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-sysv amd64 257.3-1ubuntu3 [11.9 kB] 64s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-resolved amd64 257.3-1ubuntu3 [345 kB] 64s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 libpam-systemd amd64 257.3-1ubuntu3 [302 kB] 64s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libsystemd-shared amd64 257.3-1ubuntu3 [2371 kB] 64s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd amd64 257.3-1ubuntu3 [3052 kB] 65s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-timesyncd amd64 257.3-1ubuntu3 [42.1 kB] 65s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 systemd-cryptsetup amd64 257.3-1ubuntu3 [124 kB] 65s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 udev amd64 257.3-1ubuntu3 [1404 kB] 65s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 libudev1 amd64 257.3-1ubuntu3 [215 kB] 65s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit-common all 1:4.0.2-2ubuntu2 [6628 B] 65s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 libcap-ng0 amd64 0.8.5-4build1 [15.6 kB] 65s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 libaudit1 amd64 1:4.0.2-2ubuntu2 [54.0 kB] 65s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 libseccomp2 amd64 2.5.5-1ubuntu6 [53.5 kB] 65s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libselinux1 amd64 3.7-3ubuntu3 [87.3 kB] 65s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 libapparmor1 amd64 4.1.0~beta5-0ubuntu8 [55.0 kB] 65s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 libapt-pkg7.0 amd64 2.9.33 [1138 kB] 65s Get:34 http://ftpmaster.internal/ubuntu plucky/main amd64 apt amd64 2.9.33 [1439 kB] 65s Get:35 http://ftpmaster.internal/ubuntu plucky/main amd64 apt-utils amd64 2.9.33 [222 kB] 65s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-minimal amd64 3.13.2-2 [27.7 kB] 65s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 python3 amd64 3.13.2-2 [24.0 kB] 65s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13 amd64 3.13.2-2 [2341 kB] 65s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 media-types all 13.0.0 [29.9 kB] 65s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses6 amd64 6.5+20250216-2 [126 kB] 65s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 libncursesw6 amd64 6.5+20250216-2 [165 kB] 65s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 libtinfo6 amd64 6.5+20250216-2 [119 kB] 65s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 libsqlite3-0 amd64 3.46.1-2 [715 kB] 65s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13 amd64 3.13.2-2 [735 kB] 65s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-minimal amd64 3.13.2-2 [2365 kB] 65s Get:46 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-minimal amd64 3.13.2-2 [883 kB] 65s Get:47 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3.13-stdlib amd64 3.13.2-2 [2066 kB] 65s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.4 kB] 65s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 rsync amd64 3.4.1+ds1-3 [482 kB] 65s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod-common all 0.192-4 [15.4 kB] 65s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage-common all 3.7-2.1build1 [7268 B] 65s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libsemanage2 amd64 3.7-2.1build1 [106 kB] 65s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libassuan9 amd64 3.0.2-2 [43.1 kB] 65s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-girepository-2.0 amd64 1.83.4-1 [25.3 kB] 65s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 gir1.2-glib-2.0 amd64 2.84.0-1 [184 kB] 65s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1669 kB] 65s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libgirepository-1.0-1 amd64 1.83.4-1 [89.5 kB] 65s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libestr0 amd64 0.1.11-2 [8340 B] 65s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libglib2.0-data all 2.84.0-1 [53.0 kB] 65s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-newt amd64 0.52.24-4ubuntu2 [21.1 kB] 65s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libnewt0.52 amd64 0.52.24-4ubuntu2 [55.7 kB] 65s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2ubuntu5 [772 kB] 65s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 python-apt-common all 2.9.9build1 [21.3 kB] 65s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-apt amd64 2.9.9build1 [172 kB] 65s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-cffi-backend amd64 1.17.1-2build2 [96.6 kB] 65s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-dbus amd64 1.3.2-5build5 [102 kB] 65s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-gi amd64 3.50.0-4build1 [252 kB] 65s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-yaml amd64 6.0.2-1build2 [144 kB] 65s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 rsyslog amd64 8.2412.0-2ubuntu2 [555 kB] 66s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 whiptail amd64 0.52.24-4ubuntu2 [19.1 kB] 66s Get:71 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-minimal amd64 1.549 [11.5 kB] 66s Get:72 http://ftpmaster.internal/ubuntu plucky/main amd64 apparmor amd64 4.1.0~beta5-0ubuntu8 [701 kB] 66s Get:73 http://ftpmaster.internal/ubuntu plucky/main amd64 dosfstools amd64 4.2-1.2 [95.0 kB] 66s Get:74 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-genl-3-200 amd64 3.7.0-1 [12.2 kB] 66s Get:75 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-route-3-200 amd64 3.7.0-1 [191 kB] 66s Get:76 http://ftpmaster.internal/ubuntu plucky/main amd64 libnl-3-200 amd64 3.7.0-1 [64.9 kB] 66s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 parted amd64 3.6-5 [53.9 kB] 66s Get:78 http://ftpmaster.internal/ubuntu plucky/main amd64 libparted2t64 amd64 3.6-5 [158 kB] 66s Get:79 http://ftpmaster.internal/ubuntu plucky/main amd64 pci.ids all 0.0~2025.03.09-1 [285 kB] 66s Get:80 http://ftpmaster.internal/ubuntu plucky/main amd64 pciutils amd64 1:3.13.0-2 [110 kB] 66s Get:81 http://ftpmaster.internal/ubuntu plucky/main amd64 libpci3 amd64 1:3.13.0-2 [39.8 kB] 66s Get:82 http://ftpmaster.internal/ubuntu plucky/main amd64 strace amd64 6.13+ds-1ubuntu1 [622 kB] 66s Get:83 http://ftpmaster.internal/ubuntu plucky/main amd64 xz-utils amd64 5.6.4-1 [278 kB] 66s Get:84 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-standard amd64 1.549 [11.5 kB] 66s Get:85 http://ftpmaster.internal/ubuntu plucky/main amd64 libgprofng0 amd64 2.44-3ubuntu1 [886 kB] 66s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf0 amd64 2.44-3ubuntu1 [96.5 kB] 66s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 libctf-nobfd0 amd64 2.44-3ubuntu1 [98.9 kB] 66s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-x86-64-linux-gnu amd64 2.44-3ubuntu1 [1108 kB] 66s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 libbinutils amd64 2.44-3ubuntu1 [585 kB] 66s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils amd64 2.44-3ubuntu1 [208 kB] 66s Get:91 http://ftpmaster.internal/ubuntu plucky/main amd64 binutils-common amd64 2.44-3ubuntu1 [215 kB] 66s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libsframe1 amd64 2.44-3ubuntu1 [14.8 kB] 66s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 hwdata all 0.393-3 [1562 B] 66s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 pnp.ids all 0.393-3 [29.5 kB] 66s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-common all 6.14.0-10.10 [295 kB] 66s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 bpftool amd64 7.6.0+6.14.0-10.10 [1147 kB] 66s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-markupsafe amd64 2.1.5-1build4 [13.4 kB] 66s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 66s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init-base all 25.1-0ubuntu3 [616 kB] 66s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libbrotli1 amd64 1.1.0-2build4 [365 kB] 66s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 curl amd64 8.12.1-3ubuntu1 [258 kB] 66s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl4t64 amd64 8.12.1-3ubuntu1 [437 kB] 67s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 exfatprogs amd64 1.2.8-1 [76.3 kB] 67s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libcurl3t64-gnutls amd64 8.12.1-3ubuntu1 [432 kB] 67s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 fwupd amd64 2.0.6-4 [5408 kB] 67s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 libfwupd3 amd64 2.0.6-4 [136 kB] 67s Get:107 http://ftpmaster.internal/ubuntu plucky/main amd64 libmm-glib0 amd64 1.23.4-0ubuntu3 [251 kB] 67s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 htop amd64 3.4.0-2 [195 kB] 67s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-firmware amd64 20250310.git9e1370d3-0ubuntu1 [571 MB] 92s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools all 0.146ubuntu1 [7920 B] 92s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-core all 0.146ubuntu1 [51.9 kB] 92s Get:112 http://ftpmaster.internal/ubuntu plucky/main amd64 initramfs-tools-bin amd64 0.146ubuntu1 [26.2 kB] 92s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 libdebuginfod1t64 amd64 0.192-4 [21.0 kB] 92s Get:114 http://ftpmaster.internal/ubuntu plucky/main amd64 libftdi1-2 amd64 1.5-8build1 [30.2 kB] 92s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 libgpgme11t64 amd64 1.24.2-1ubuntu2 [155 kB] 92s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 libjemalloc2 amd64 5.3.0-3 [277 kB] 92s Get:117 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-6.14.0-10-generic amd64 6.14.0-10.10 [41.2 MB] 93s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-6.14.0-10-generic amd64 6.14.0-10.10 [15.3 MB] 94s Get:119 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-modules-extra-6.14.0-10-generic amd64 6.14.0-10.10 [120 MB] 98s Get:120 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-generic amd64 6.14.0-10.10 [1730 B] 98s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-generic amd64 6.14.0-10.10 [11.1 kB] 98s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-virtual amd64 6.14.0-10.10 [1722 B] 98s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-image-virtual amd64 6.14.0-10.10 [11.1 kB] 98s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-virtual amd64 6.14.0-10.10 [1642 B] 98s Get:125 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10 all 6.14.0-10.10 [14.2 MB] 99s Get:126 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-6.14.0-10-generic amd64 6.14.0-10.10 [3915 kB] 99s Get:127 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-headers-generic amd64 6.14.0-10.10 [11.0 kB] 99s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-perf amd64 6.14.0-10.10 [4122 kB] 99s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10 amd64 6.14.0-10.10 [1394 kB] 99s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 linux-tools-6.14.0-10-generic amd64 6.14.0-10.10 [830 B] 99s Get:131 http://ftpmaster.internal/ubuntu plucky/main amd64 pinentry-curses amd64 1.3.1-2ubuntu3 [42.3 kB] 99s Get:132 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-lazr.uri all 1.0.6-6 [13.7 kB] 99s Get:133 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-rpds-py amd64 0.21.0-2ubuntu2 [278 kB] 99s Get:134 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-systemd amd64 235-1build6 [43.9 kB] 99s Get:135 http://ftpmaster.internal/ubuntu plucky/main amd64 python3.13-gdbm amd64 3.13.2-2 [31.9 kB] 99s Get:136 http://ftpmaster.internal/ubuntu plucky/main amd64 ubuntu-kernel-accessories amd64 1.549 [11.2 kB] 99s Get:137 http://ftpmaster.internal/ubuntu plucky/main amd64 cloud-init all 25.1-0ubuntu3 [2100 B] 99s Get:138 http://ftpmaster.internal/ubuntu plucky/main amd64 python3-bcrypt amd64 4.2.0-2.1build1 [221 kB] 100s Preconfiguring packages ... 100s Fetched 829 MB in 36s (22.9 MB/s) 100s (Reading database ... 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.../23-parted_3.6-5_amd64.deb ... 110s Unpacking parted (3.6-5) over (3.6-4build1) ... 111s Preparing to unpack .../24-libparted2t64_3.6-5_amd64.deb ... 111s Adding 'diversion of /lib/x86_64-linux-gnu/libparted.so.2 to /lib/x86_64-linux-gnu/libparted.so.2.usr-is-merged by libparted2t64' 111s Adding 'diversion of /lib/x86_64-linux-gnu/libparted.so.2.0.5 to /lib/x86_64-linux-gnu/libparted.so.2.0.5.usr-is-merged by libparted2t64' 111s Unpacking libparted2t64:amd64 (3.6-5) over (3.6-4build1) ... 111s Preparing to unpack .../25-pci.ids_0.0~2025.03.09-1_all.deb ... 111s Unpacking pci.ids (0.0~2025.03.09-1) over (0.0~2025.02.12-1) ... 111s Preparing to unpack .../26-pciutils_1%3a3.13.0-2_amd64.deb ... 111s Unpacking pciutils (1:3.13.0-2) over (1:3.13.0-1) ... 111s Preparing to unpack .../27-libpci3_1%3a3.13.0-2_amd64.deb ... 111s Unpacking libpci3:amd64 (1:3.13.0-2) over (1:3.13.0-1) ... 111s Preparing to unpack .../28-strace_6.13+ds-1ubuntu1_amd64.deb ... 111s Unpacking strace 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(1.0.6-6) over (1.0.6-5) ... 122s Preparing to unpack .../79-python3-rpds-py_0.21.0-2ubuntu2_amd64.deb ... 122s Unpacking python3-rpds-py (0.21.0-2ubuntu2) over (0.21.0-2ubuntu1) ... 122s Preparing to unpack .../80-python3-systemd_235-1build6_amd64.deb ... 122s Unpacking python3-systemd (235-1build6) over (235-1build5) ... 122s Preparing to unpack .../81-python3.13-gdbm_3.13.2-2_amd64.deb ... 122s Unpacking python3.13-gdbm (3.13.2-2) over (3.13.2-1) ... 122s Preparing to unpack .../82-ubuntu-kernel-accessories_1.549_amd64.deb ... 122s Unpacking ubuntu-kernel-accessories (1.549) over (1.548) ... 122s Preparing to unpack .../83-cloud-init_25.1-0ubuntu3_all.deb ... 122s Unpacking cloud-init (25.1-0ubuntu3) over (25.1-0ubuntu2) ... 122s Preparing to unpack .../84-python3-bcrypt_4.2.0-2.1build1_amd64.deb ... 122s Unpacking python3-bcrypt (4.2.0-2.1build1) over (4.2.0-2.1) ... 122s Setting up linux-headers-6.14.0-10 (6.14.0-10.10) ... 122s Setting up media-types (13.0.0) ... 122s Installing new version of config file /etc/mime.types ... 122s Setting up linux-headers-6.14.0-10-generic (6.14.0-10.10) ... 122s Setting up ubuntu-kernel-accessories (1.549) ... 122s Setting up libapparmor1:amd64 (4.1.0~beta5-0ubuntu8) ... 122s Setting up pci.ids (0.0~2025.03.09-1) ... 122s Setting up libnewt0.52:amd64 (0.52.24-4ubuntu2) ... 122s Setting up apt-utils (2.9.33) ... 122s Setting up libdebuginfod-common (0.192-4) ... 122s Setting up exfatprogs (1.2.8-1) ... 122s Setting up linux-firmware (20250310.git9e1370d3-0ubuntu1) ... 122s Setting up bpftool (7.6.0+6.14.0-10.10) ... 122s Setting up libestr0:amd64 (0.1.11-2) ... 122s Setting up libbrotli1:amd64 (1.1.0-2build4) ... 122s Setting up libsqlite3-0:amd64 (3.46.1-2) ... 122s Setting up dosfstools (4.2-1.2) ... 122s Setting up rsyslog (8.2412.0-2ubuntu2) ... 123s info: The user `syslog' is already a member of `adm'. 124s Setting up binutils-common:amd64 (2.44-3ubuntu1) ... 124s Setting up libcurl3t64-gnutls:amd64 (8.12.1-3ubuntu1) ... 124s Setting up linux-libc-dev:amd64 (6.14.0-10.10) ... 124s Setting up libctf-nobfd0:amd64 (2.44-3ubuntu1) ... 124s Setting up systemd (257.3-1ubuntu3) ... 124s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 124s Created symlink '/run/systemd/system/tmp.mount' → '/dev/null'. 124s /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. 124s Setting up libparted2t64:amd64 (3.6-5) ... 124s Removing 'diversion of /lib/x86_64-linux-gnu/libparted.so.2 to /lib/x86_64-linux-gnu/libparted.so.2.usr-is-merged by libparted2t64' 124s Removing 'diversion of /lib/x86_64-linux-gnu/libparted.so.2.0.5 to /lib/x86_64-linux-gnu/libparted.so.2.0.5.usr-is-merged by libparted2t64' 124s Setting up linux-headers-generic (6.14.0-10.10) ... 124s Setting up libjemalloc2:amd64 (5.3.0-3) ... 124s Setting up locales (2.41-1ubuntu1) ... 124s Installing new version of config file /etc/locale.alias ... 125s Generating locales (this might take a while)... 127s en_US.UTF-8... done 127s Generation complete. 127s Setting up libsframe1:amd64 (2.44-3ubuntu1) ... 127s Setting up libpython3.13-minimal:amd64 (3.13.2-2) ... 127s Setting up apparmor (4.1.0~beta5-0ubuntu8) ... 127s Installing new version of config file /etc/apparmor.d/fusermount3 ... 127s Installing new version of config file /etc/apparmor.d/lsusb ... 127s Installing new version of config file /etc/apparmor.d/openvpn ... 128s Reloading AppArmor profiles 129s Setting up libftdi1-2:amd64 (1.5-8build1) ... 129s Setting up libglib2.0-data (2.84.0-1) ... 129s Setting up systemd-cryptsetup (257.3-1ubuntu3) ... 129s Setting up libncurses6:amd64 (6.5+20250216-2) ... 129s Setting up strace (6.13+ds-1ubuntu1) ... 129s Setting up xz-utils (5.6.4-1) ... 129s Setting up systemd-timesyncd (257.3-1ubuntu3) ... 130s systemd-time-wait-sync.service is a disabled or a static unit not running, not starting it. 130s Setting up libatomic1:amd64 (15-20250222-0ubuntu1) ... 130s Setting up udev (257.3-1ubuntu3) ... 131s Setting up linux-modules-6.14.0-10-generic (6.14.0-10.10) ... 133s Setting up libncursesw6:amd64 (6.5+20250216-2) ... 133s Setting up libpci3:amd64 (1:3.13.0-2) ... 133s Setting up whiptail (0.52.24-4ubuntu2) ... 133s Setting up python-apt-common (2.9.9build1) ... 133s Setting up pnp.ids (0.393-3) ... 133s Setting up libnl-3-200:amd64 (3.7.0-1) ... 133s Setting up python3.13-minimal (3.13.2-2) ... 134s Setting up libgpgme11t64:amd64 (1.24.2-1ubuntu2) ... 134s Setting up libbinutils:amd64 (2.44-3ubuntu1) ... 134s Setting up libc-dev-bin (2.41-1ubuntu1) ... 134s Setting up libpython3.13-stdlib:amd64 (3.13.2-2) ... 134s Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2ubuntu5) ... 134s Setting up rsync (3.4.1+ds1-3) ... 134s rsync.service is a disabled or a static unit not running, not starting it. 134s Setting up python3.13-gdbm (3.13.2-2) ... 134s Setting up libpython3-stdlib:amd64 (3.13.2-2) ... 134s Setting up systemd-resolved (257.3-1ubuntu3) ... 135s Setting up initramfs-tools-bin (0.146ubuntu1) ... 135s Setting up ncurses-term (6.5+20250216-2) ... 135s Setting up libctf0:amd64 (2.44-3ubuntu1) ... 135s Setting up libpython3.13:amd64 (3.13.2-2) ... 135s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 135s Setting up libdebuginfod1t64:amd64 (0.192-4) ... 135s Setting up systemd-sysv (257.3-1ubuntu3) ... 135s Setting up linux-headers-virtual (6.14.0-10.10) ... 135s Setting up libcurl4t64:amd64 (8.12.1-3ubuntu1) ... 135s Setting up python3.13 (3.13.2-2) ... 136s Setting up htop (3.4.0-2) ... 136s Setting up linux-image-6.14.0-10-generic (6.14.0-10.10) ... 138s I: /boot/vmlinuz.old is now a symlink to vmlinuz-6.12.0-16-generic 138s I: /boot/initrd.img.old is now a symlink to initrd.img-6.12.0-16-generic 138s I: /boot/vmlinuz is now a symlink to vmlinuz-6.14.0-10-generic 138s I: /boot/initrd.img is now a symlink to initrd.img-6.14.0-10-generic 138s Setting up parted (3.6-5) ... 138s Setting up libnss-systemd:amd64 (257.3-1ubuntu3) ... 138s Setting up python3 (3.13.2-2) ... 138s Setting up python3-newt:amd64 (0.52.24-4ubuntu2) ... 138s Setting up python3-markupsafe (2.1.5-1build4) ... 138s Setting up linux-modules-extra-6.14.0-10-generic (6.14.0-10.10) ... 141s Setting up libnl-route-3-200:amd64 (3.7.0-1) ... 141s Setting up hwdata (0.393-3) ... 141s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 141s Setting up libglib2.0-0t64:amd64 (2.84.0-1) ... 141s No schema files found: doing nothing. 141s Setting up libgprofng0:amd64 (2.44-3ubuntu1) ... 141s Setting up linux-perf (6.14.0-10.10) ... 141s Setting up gir1.2-glib-2.0:amd64 (2.84.0-1) ... 141s Setting up pciutils (1:3.13.0-2) ... 141s Setting up python3-rpds-py (0.21.0-2ubuntu2) ... 141s Setting up libmm-glib0:amd64 (1.23.4-0ubuntu3) ... 141s Setting up libnl-genl-3-200:amd64 (3.7.0-1) ... 141s Setting up libpam-systemd:amd64 (257.3-1ubuntu3) ... 141s Setting up libc6-dev:amd64 (2.41-1ubuntu1) ... 141s Setting up libgirepository-1.0-1:amd64 (1.83.4-1) ... 141s Setting up curl (8.12.1-3ubuntu1) ... 141s Setting up linux-image-virtual (6.14.0-10.10) ... 141s Setting up initramfs-tools-core (0.146ubuntu1) ... 141s Setting up linux-tools-common (6.14.0-10.10) ... 141s Setting up python3-systemd (235-1build6) ... 141s Setting up python3-cffi-backend:amd64 (1.17.1-2build2) ... 141s Setting up binutils-x86-64-linux-gnu (2.44-3ubuntu1) ... 141s Setting up linux-image-generic (6.14.0-10.10) ... 141s Setting up python3-dbus (1.3.2-5build5) ... 141s Setting up linux-tools-6.14.0-10 (6.14.0-10.10) ... 141s Setting up initramfs-tools (0.146ubuntu1) ... 141s Installing new version of config file /etc/kernel/postinst.d/initramfs-tools ... 141s Installing new version of config file /etc/kernel/postrm.d/initramfs-tools ... 141s update-initramfs: deferring update (trigger activated) 141s Setting up linux-generic (6.14.0-10.10) ... 141s Setting up ubuntu-minimal (1.549) ... 141s Setting up python3-apt (2.9.9build1) ... 141s Setting up python3-bcrypt (4.2.0-2.1build1) ... 142s Setting up python3-yaml (6.0.2-1build2) ... 142s Setting up libfwupd3:amd64 (2.0.6-4) ... 142s Setting up python3-lazr.uri (1.0.6-6) ... 142s Setting up binutils (2.44-3ubuntu1) ... 142s Setting up ubuntu-standard (1.549) ... 142s Setting up cloud-init-base (25.1-0ubuntu3) ... 143s Setting up linux-virtual (6.14.0-10.10) ... 143s Setting up gir1.2-girepository-2.0:amd64 (1.83.4-1) ... 143s Setting up python3-gi (3.50.0-4build1) ... 143s Setting up linux-tools-6.14.0-10-generic (6.14.0-10.10) ... 143s Setting up fwupd (2.0.6-4) ... 144s fwupd-refresh.service is a disabled or a static unit not running, not starting it. 144s fwupd.service is a disabled or a static unit not running, not starting it. 144s Setting up cloud-init (25.1-0ubuntu3) ... 144s Processing triggers for man-db (2.13.0-1) ... 146s Processing triggers for dbus (1.16.2-1ubuntu1) ... 146s Processing triggers for shared-mime-info (2.4-5) ... 146s Warning: program compiled against libxml 212 using older 209 146s Processing triggers for libc-bin (2.41-1ubuntu1) ... 146s Processing triggers for linux-image-6.14.0-10-generic (6.14.0-10.10) ... 146s /etc/kernel/postinst.d/initramfs-tools: 146s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 146s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 156s /etc/kernel/postinst.d/zz-update-grub: 156s Sourcing file `/etc/default/grub' 156s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 156s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 156s Generating grub configuration file ... 157s Found linux image: /boot/vmlinuz-6.14.0-10-generic 157s Found initrd image: /boot/initrd.img-6.14.0-10-generic 157s Found linux image: /boot/vmlinuz-6.12.0-16-generic 157s Found initrd image: /boot/initrd.img-6.12.0-16-generic 157s Found linux image: /boot/vmlinuz-6.11.0-8-generic 157s Found initrd image: /boot/initrd.img-6.11.0-8-generic 157s Warning: os-prober will not be executed to detect other bootable partitions. 157s Systems on them will not be added to the GRUB boot configuration. 157s Check GRUB_DISABLE_OS_PROBER documentation entry. 157s Adding boot menu entry for UEFI Firmware Settings ... 157s done 157s Processing triggers for initramfs-tools (0.146ubuntu1) ... 157s update-initramfs: Generating /boot/initrd.img-6.14.0-10-generic 157s W: No lz4 in /usr/bin:/sbin:/bin, using gzip 168s + rm /etc/apt/preferences.d/force-downgrade-to-release.pref 168s + /usr/lib/apt/apt-helper analyze-pattern ?true 168s + uname -r 168s + sed s/\./\\./g 168s + running_kernel_pattern=^linux-.*6\.12\.0-16-generic.* 168s + + tail -n+2 168s + grep -v ^linux-.*6\.12\.0-16-generic.* 168s apt list ?obsolete 168s + cut -d/ -f1 169s + obsolete_pkgs=linux-headers-6.11.0-8-generic 169s linux-headers-6.11.0-8 169s linux-headers-6.12.0-16 169s linux-image-6.11.0-8-generic 169s linux-modules-6.11.0-8-generic 169s linux-tools-6.11.0-8-generic 169s linux-tools-6.11.0-8 169s linux-tools-6.12.0-16 169s + DEBIAN_FRONTEND=noninteractive eatmydata apt-get -y purge --autoremove linux-headers-6.11.0-8-generic linux-headers-6.11.0-8 linux-headers-6.12.0-16 linux-image-6.11.0-8-generic linux-modules-6.11.0-8-generic linux-tools-6.11.0-8-generic linux-tools-6.11.0-8 linux-tools-6.12.0-16 169s Reading package lists... 169s Building dependency tree... 169s Reading state information... 169s Solving dependencies... 169s The following packages will be REMOVED: 169s libnl-genl-3-200* libnsl2* libpython3.12-minimal* libpython3.12-stdlib* 169s libpython3.12t64* linux-headers-6.11.0-8* linux-headers-6.11.0-8-generic* 169s linux-headers-6.12.0-16* linux-headers-6.12.0-16-generic* 169s linux-image-6.11.0-8-generic* linux-modules-6.11.0-8-generic* 169s linux-tools-6.11.0-8* linux-tools-6.11.0-8-generic* linux-tools-6.12.0-16* 169s linux-tools-6.12.0-16-generic* 170s 0 upgraded, 0 newly installed, 15 to remove and 5 not upgraded. 170s After this operation, 371 MB disk space will be freed. 170s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 148643 files and directories currently installed.) 170s Removing libnl-genl-3-200:amd64 (3.7.0-1) ... 170s Removing linux-tools-6.11.0-8-generic (6.11.0-8.8) ... 170s Removing linux-tools-6.11.0-8 (6.11.0-8.8) ... 170s Removing libpython3.12t64:amd64 (3.12.9-1) ... 170s Removing libpython3.12-stdlib:amd64 (3.12.9-1) ... 170s Removing libnsl2:amd64 (1.3.0-3build3) ... 170s Removing libpython3.12-minimal:amd64 (3.12.9-1) ... 170s Removing linux-headers-6.11.0-8-generic (6.11.0-8.8) ... 171s Removing linux-headers-6.11.0-8 (6.11.0-8.8) ... 173s Removing linux-headers-6.12.0-16-generic (6.12.0-16.16) ... 173s Removing linux-headers-6.12.0-16 (6.12.0-16.16) ... 175s Removing linux-image-6.11.0-8-generic (6.11.0-8.8) ... 175s /etc/kernel/postrm.d/initramfs-tools: 175s update-initramfs: Deleting /boot/initrd.img-6.11.0-8-generic 176s /etc/kernel/postrm.d/zz-update-grub: 176s Sourcing file `/etc/default/grub' 176s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg' 176s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg' 176s Generating grub configuration file ... 176s Found linux image: /boot/vmlinuz-6.14.0-10-generic 176s Found initrd image: /boot/initrd.img-6.14.0-10-generic 176s Found linux image: /boot/vmlinuz-6.12.0-16-generic 176s Found initrd image: /boot/initrd.img-6.12.0-16-generic 176s Warning: os-prober will not be executed to detect other bootable partitions. 176s Systems on them will not be added to the GRUB boot configuration. 176s Check GRUB_DISABLE_OS_PROBER documentation entry. 176s Adding boot menu entry for UEFI Firmware Settings ... 176s done 176s Removing linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 176s Removing linux-tools-6.12.0-16-generic (6.12.0-16.16) ... 176s Removing linux-tools-6.12.0-16 (6.12.0-16.16) ... 176s Processing triggers for libc-bin (2.41-1ubuntu1) ... 177s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84830 files and directories currently installed.) 177s Purging configuration files for linux-image-6.11.0-8-generic (6.11.0-8.8) ... 177s Purging configuration files for libpython3.12-minimal:amd64 (3.12.9-1) ... 177s Purging configuration files for linux-modules-6.11.0-8-generic (6.11.0-8.8) ... 177s + grep -q trusty /etc/lsb-release 177s + [ ! -d /usr/share/doc/unattended-upgrades ] 177s + [ ! -d /usr/share/doc/lxd ] 177s + [ ! -d /usr/share/doc/lxd-client ] 177s + [ ! -d /usr/share/doc/snapd ] 177s + type iptables 177s + cat 177s + chmod 755 /etc/rc.local 177s + . /etc/rc.local 177s + iptables -w -t mangle -A FORWARD -p tcp --tcp-flags SYN,RST SYN -j TCPMSS --clamp-mss-to-pmtu 177s + iptables -A OUTPUT -d 10.255.255.1/32 -p tcp -j DROP 177s + iptables -A OUTPUT -d 10.255.255.2/32 -p tcp -j DROP 177s + uname -m 177s + [ x86_64 = ppc64le ] 177s + [ -d /run/systemd/system ] 177s + systemd-detect-virt --quiet --vm 177s + mkdir -p /etc/systemd/system/systemd-random-seed.service.d/ 177s + cat 177s + grep -q lz4 /etc/initramfs-tools/initramfs.conf 177s + echo COMPRESS=lz4 177s autopkgtest [22:02:13]: upgrading testbed (apt dist-upgrade and autopurge) 177s Reading package lists... 177s Building dependency tree... 177s Reading state information... 178s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 178s Starting 2 pkgProblemResolver with broken count: 0 178s Done 178s Entering ResolveByKeep 178s 179s Calculating upgrade... 179s The following packages will be upgraded: 179s libc-bin libc-dev-bin libc6 libc6-dev locales 179s 5 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 179s Need to get 10.5 MB of archives. 179s After this operation, 1024 B of additional disk space will be used. 179s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6-dev amd64 2.41-1ubuntu2 [2183 kB] 179s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-dev-bin amd64 2.41-1ubuntu2 [24.7 kB] 179s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc6 amd64 2.41-1ubuntu2 [3327 kB] 180s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 libc-bin amd64 2.41-1ubuntu2 [700 kB] 180s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main amd64 locales all 2.41-1ubuntu2 [4246 kB] 180s Preconfiguring packages ... 180s Fetched 10.5 MB in 1s (9529 kB/s) 180s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 180s Preparing to unpack .../libc6-dev_2.41-1ubuntu2_amd64.deb ... 180s Unpacking libc6-dev:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 180s Preparing to unpack .../libc-dev-bin_2.41-1ubuntu2_amd64.deb ... 180s Unpacking libc-dev-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 180s Preparing to unpack .../libc6_2.41-1ubuntu2_amd64.deb ... 181s Unpacking libc6:amd64 (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 181s Setting up libc6:amd64 (2.41-1ubuntu2) ... 181s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 181s Preparing to unpack .../libc-bin_2.41-1ubuntu2_amd64.deb ... 181s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 181s Setting up libc-bin (2.41-1ubuntu2) ... 181s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 181s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 181s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 181s Setting up locales (2.41-1ubuntu2) ... 182s Generating locales (this might take a while)... 183s en_US.UTF-8... done 183s Generation complete. 183s Setting up libc-dev-bin (2.41-1ubuntu2) ... 183s Setting up libc6-dev:amd64 (2.41-1ubuntu2) ... 183s Processing triggers for man-db (2.13.0-1) ... 184s Processing triggers for systemd (257.3-1ubuntu3) ... 185s Reading package lists... 185s Building dependency tree... 185s Reading state information... 186s Starting pkgProblemResolver with broken count: 0 186s Starting 2 pkgProblemResolver with broken count: 0 186s Done 186s Solving dependencies... 186s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 186s autopkgtest [22:02:22]: rebooting testbed after setup commands that affected boot 209s autopkgtest [22:02:45]: testbed running kernel: Linux 6.14.0-10-generic #10-Ubuntu SMP PREEMPT_DYNAMIC Wed Mar 12 16:07:00 UTC 2025 212s autopkgtest [22:02:48]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-grohmm 214s Get:1 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-grohmm 1.40.3-2 (dsc) [2214 B] 214s Get:2 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-grohmm 1.40.3-2 (tar) [4365 kB] 214s Get:3 http://ftpmaster.internal/ubuntu plucky/universe r-bioc-grohmm 1.40.3-2 (diff) [3640 B] 215s gpgv: Signature made Mon Jan 13 20:23:01 2025 UTC 215s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 215s gpgv: issuer "crusoe@debian.org" 215s gpgv: Can't check signature: No public key 215s dpkg-source: warning: cannot verify inline signature for ./r-bioc-grohmm_1.40.3-2.dsc: no acceptable signature found 215s autopkgtest [22:02:51]: testing package r-bioc-grohmm version 1.40.3-2 216s autopkgtest [22:02:52]: build not needed 223s autopkgtest [22:02:59]: test pkg-r-autopkgtest: preparing testbed 223s Reading package lists... 223s Building dependency tree... 223s Reading state information... 224s Starting pkgProblemResolver with broken count: 0 224s Starting 2 pkgProblemResolver with broken count: 0 224s Done 224s The following NEW packages will be installed: 224s build-essential cpp cpp-14 cpp-14-x86-64-linux-gnu cpp-x86-64-linux-gnu 224s dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono 224s fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax 224s g++ g++-14 g++-14-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-14 224s gcc-14-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-14 224s gfortran-14-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools 224s javascript-common libasan8 libbibtex-parser-perl libblas-dev libblas3 224s libboost-dev libboost1.83-dev libbz2-dev libcairo2 libcc1-0 libdatrie1 224s libdeflate-dev libdeflate0 libfontconfig1 libgcc-14-dev libgfortran-14-dev 224s libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libice6 224s libicu-dev libio-string-perl libisl23 libitm1 libjbig0 libjpeg-dev 224s libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-bootstrap 224s libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js libjs-jquery 224s libjs-jquery-datatables libjs-jquery-selectize.js libjs-jquery-ui libjs-json 224s libjs-lunr libjs-mathjax libjs-microplugin.js libjs-modernizr 224s libjs-popper.js libjs-prettify libjs-sifter.js 225s libjs-twitter-bootstrap-datepicker libkpathsea6 liblapack-dev liblapack3 225s liblatex-tounicode-perl liblerc4 liblsan0 liblua5.4-0 liblzma-dev libmpc3 225s libmpfi0 libncurses-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 225s libpaper-utils libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev 225s libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev libpotrace0 libptexenc1 225s libquadmath0 libreadline-dev libsharpyuv0 libsm6 libstdc++-14-dev 225s libsynctex2 libtcl8.6 libteckit0 libtexlua53-5 libthai-data libthai0 225s libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7 libxaw7 225s libxcb-render0 libxcb-shm0 libxft2 libxi6 libxmu6 libxpm4 libxrender1 225s libxss1 libxt6t64 libzzip-0-13t64 littler node-bootstrap-sass node-html5shiv 225s node-normalize.css pandoc pandoc-data pkg-r-autopkgtest pkgconf pkgconf-bin 225s r-base-core r-base-dev r-bioc-annotationdbi r-bioc-biobase 225s r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel r-bioc-biocstyle 225s r-bioc-biocversion r-bioc-biostrings r-bioc-delayedarray r-bioc-edger 225s r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments 225s r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-grohmm r-bioc-iranges 225s r-bioc-keggrest r-bioc-limma r-bioc-matrixgenerics r-bioc-org.hs.eg.db 225s r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays 225s r-bioc-s4vectors r-bioc-sparsearray r-bioc-summarizedexperiment 225s r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass 225s r-cran-base64enc r-cran-bh r-cran-biocmanager r-cran-bit r-cran-bit64 225s r-cran-bitops r-cran-blob r-cran-bookdown r-cran-bslib r-cran-cachem 225s r-cran-cli r-cran-codetools r-cran-commonmark r-cran-cpp11 r-cran-crayon 225s r-cran-curl r-cran-dbi r-cran-digest r-cran-evaluate r-cran-fastmap 225s r-cran-fontawesome r-cran-formatr r-cran-fs r-cran-futile.logger 225s r-cran-futile.options r-cran-glue r-cran-highr r-cran-htmltools 225s r-cran-httpuv r-cran-httr r-cran-jquerylib r-cran-jsonlite r-cran-knitr 225s r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lifecycle r-cran-littler 225s r-cran-locfit r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats 225s r-cran-memoise r-cran-mime r-cran-openssl r-cran-pkgconfig r-cran-pkgkitten 225s r-cran-plogr r-cran-png r-cran-promises r-cran-r6 r-cran-rappdirs 225s r-cran-rcpp r-cran-rcurl r-cran-restfulr r-cran-rjson r-cran-rlang 225s r-cran-rmarkdown r-cran-rsqlite r-cran-sass r-cran-shiny r-cran-snow 225s r-cran-sourcetools r-cran-statmod r-cran-sys r-cran-tinytex r-cran-vctrs 225s r-cran-withr r-cran-xfun r-cran-xml r-cran-xtable r-cran-yaml t1utils 225s tex-common texlive-base texlive-bibtex-extra texlive-binaries 225s texlive-latex-base unzip x11-common xdg-utils zip zlib1g-dev 225s 0 upgraded, 258 newly installed, 0 to remove and 0 not upgraded. 225s Need to get 492 MB of archives. 225s After this operation, 1723 MB of additional disk space will be used. 225s Get:1 http://ftpmaster.internal/ubuntu plucky/main amd64 libisl23 amd64 0.27-1 [685 kB] 225s Get:2 http://ftpmaster.internal/ubuntu plucky/main amd64 libmpc3 amd64 1.3.1-1build2 [55.3 kB] 225s Get:3 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [11.9 MB] 226s Get:4 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-14 amd64 14.2.0-17ubuntu3 [1030 B] 226s Get:5 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [5586 B] 226s Get:6 http://ftpmaster.internal/ubuntu plucky/main amd64 cpp amd64 4:14.2.0-1ubuntu1 [22.4 kB] 226s Get:7 http://ftpmaster.internal/ubuntu plucky/main amd64 libcc1-0 amd64 15-20250222-0ubuntu1 [47.0 kB] 226s Get:8 http://ftpmaster.internal/ubuntu plucky/main amd64 libgomp1 amd64 15-20250222-0ubuntu1 [148 kB] 226s Get:9 http://ftpmaster.internal/ubuntu plucky/main amd64 libitm1 amd64 15-20250222-0ubuntu1 [28.6 kB] 226s Get:10 http://ftpmaster.internal/ubuntu plucky/main amd64 libasan8 amd64 15-20250222-0ubuntu1 [3055 kB] 226s Get:11 http://ftpmaster.internal/ubuntu plucky/main amd64 liblsan0 amd64 15-20250222-0ubuntu1 [1355 kB] 226s Get:12 http://ftpmaster.internal/ubuntu plucky/main amd64 libtsan2 amd64 15-20250222-0ubuntu1 [2756 kB] 226s Get:13 http://ftpmaster.internal/ubuntu plucky/main amd64 libubsan1 amd64 15-20250222-0ubuntu1 [1205 kB] 226s Get:14 http://ftpmaster.internal/ubuntu plucky/main amd64 libhwasan0 amd64 15-20250222-0ubuntu1 [1677 kB] 227s Get:15 http://ftpmaster.internal/ubuntu plucky/main amd64 libquadmath0 amd64 15-20250222-0ubuntu1 [152 kB] 227s Get:16 http://ftpmaster.internal/ubuntu plucky/main amd64 libgcc-14-dev amd64 14.2.0-17ubuntu3 [2816 kB] 227s Get:17 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [23.3 MB] 228s Get:18 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-14 amd64 14.2.0-17ubuntu3 [536 kB] 228s Get:19 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1208 B] 228s Get:20 http://ftpmaster.internal/ubuntu plucky/main amd64 gcc amd64 4:14.2.0-1ubuntu1 [5004 B] 228s Get:21 http://ftpmaster.internal/ubuntu plucky/main amd64 libstdc++-14-dev amd64 14.2.0-17ubuntu3 [2486 kB] 228s Get:22 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [13.4 MB] 229s Get:23 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-14 amd64 14.2.0-17ubuntu3 [21.8 kB] 229s Get:24 http://ftpmaster.internal/ubuntu plucky/main amd64 g++-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [968 B] 229s Get:25 http://ftpmaster.internal/ubuntu plucky/main amd64 g++ amd64 4:14.2.0-1ubuntu1 [1100 B] 229s Get:26 http://ftpmaster.internal/ubuntu plucky/main amd64 build-essential amd64 12.10ubuntu1 [4928 B] 229s Get:27 http://ftpmaster.internal/ubuntu plucky/main amd64 dctrl-tools amd64 2.24-3build3 [106 kB] 229s Get:28 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB] 229s Get:29 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-dejavu-core all 2.37-8 [835 kB] 229s Get:30 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig-config amd64 2.15.0-2ubuntu1 [37.4 kB] 229s Get:31 http://ftpmaster.internal/ubuntu plucky/main amd64 libfontconfig1 amd64 2.15.0-2ubuntu1 [164 kB] 229s Get:32 http://ftpmaster.internal/ubuntu plucky/main amd64 fontconfig amd64 2.15.0-2ubuntu1 [180 kB] 229s Get:33 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB] 229s Get:34 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB] 229s Get:35 http://ftpmaster.internal/ubuntu plucky/universe amd64 fonts-lmodern all 2.005-1 [4799 kB] 230s Get:36 http://ftpmaster.internal/ubuntu plucky/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB] 230s Get:37 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran5 amd64 15-20250222-0ubuntu1 [919 kB] 230s Get:38 http://ftpmaster.internal/ubuntu plucky/main amd64 libgfortran-14-dev amd64 14.2.0-17ubuntu3 [966 kB] 230s Get:39 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.2.0-17ubuntu3 [12.6 MB] 230s Get:40 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-14 amd64 14.2.0-17ubuntu3 [13.6 kB] 230s Get:41 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1ubuntu1 [1022 B] 230s Get:42 http://ftpmaster.internal/ubuntu plucky/main amd64 gfortran amd64 4:14.2.0-1ubuntu1 [1174 B] 230s Get:43 http://ftpmaster.internal/ubuntu plucky/main amd64 icu-devtools amd64 76.1-1ubuntu2 [237 kB] 230s Get:44 http://ftpmaster.internal/ubuntu plucky/main amd64 javascript-common all 12 [5216 B] 230s Get:45 http://ftpmaster.internal/ubuntu plucky/main amd64 libio-string-perl all 1.08-4 [11.1 kB] 230s Get:46 http://ftpmaster.internal/ubuntu plucky/universe amd64 liblatex-tounicode-perl all 0.55-1 [28.8 kB] 230s Get:47 http://ftpmaster.internal/ubuntu plucky/universe amd64 libbibtex-parser-perl all 1.05+dfsg-1 [16.5 kB] 230s Get:48 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas3 amd64 3.12.1-2 [359 kB] 231s Get:49 http://ftpmaster.internal/ubuntu plucky/main amd64 libblas-dev amd64 3.12.1-2 [338 kB] 231s Get:50 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost1.83-dev amd64 1.83.0-4.1ubuntu2 [10.7 MB] 231s Get:51 http://ftpmaster.internal/ubuntu plucky/main amd64 libboost-dev amd64 1.83.0.2ubuntu1 [4468 B] 231s Get:52 http://ftpmaster.internal/ubuntu plucky/main amd64 libbz2-dev amd64 1.0.8-6 [33.8 kB] 231s Get:53 http://ftpmaster.internal/ubuntu plucky/main amd64 libpixman-1-0 amd64 0.44.0-3 [427 kB] 231s Get:54 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-render0 amd64 1.17.0-2 [16.2 kB] 231s Get:55 http://ftpmaster.internal/ubuntu plucky/main amd64 libxcb-shm0 amd64 1.17.0-2 [5758 B] 231s Get:56 http://ftpmaster.internal/ubuntu plucky/main amd64 libxrender1 amd64 1:0.9.10-1.1build1 [19.0 kB] 231s Get:57 http://ftpmaster.internal/ubuntu plucky/main amd64 libcairo2 amd64 1.18.2-2 [569 kB] 231s Get:58 http://ftpmaster.internal/ubuntu plucky/main amd64 libdatrie1 amd64 0.2.13-3build1 [19.0 kB] 231s Get:59 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate0 amd64 1.23-1 [64.1 kB] 231s Get:60 http://ftpmaster.internal/ubuntu plucky/main amd64 libdeflate-dev amd64 1.23-1 [71.7 kB] 231s Get:61 http://ftpmaster.internal/ubuntu plucky/main amd64 libgraphite2-3 amd64 1.3.14-2ubuntu1 [73.1 kB] 231s Get:62 http://ftpmaster.internal/ubuntu plucky/main amd64 libharfbuzz0b amd64 10.2.0-1 [543 kB] 231s Get:63 http://ftpmaster.internal/ubuntu plucky/main amd64 x11-common all 1:7.7+23ubuntu3 [21.7 kB] 231s Get:64 http://ftpmaster.internal/ubuntu plucky/main amd64 libice6 amd64 2:1.1.1-1 [44.1 kB] 231s Get:65 http://ftpmaster.internal/ubuntu plucky/main amd64 libicu-dev amd64 76.1-1ubuntu2 [12.6 MB] 232s Get:66 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8 amd64 2.1.5-3ubuntu2 [179 kB] 232s Get:67 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-turbo8-dev amd64 2.1.5-3ubuntu2 [324 kB] 232s Get:68 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B] 232s Get:69 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B] 232s Get:70 http://ftpmaster.internal/ubuntu plucky/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B] 232s Get:71 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB] 232s Get:72 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB] 232s Get:73 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB] 232s Get:74 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-d3 all 3.5.17-4 [132 kB] 232s Get:75 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB] 232s Get:76 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB] 232s Get:77 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] 232s Get:78 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB] 232s Get:79 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB] 232s Get:80 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B] 232s Get:81 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB] 232s Get:82 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] 232s Get:83 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-json all 0~20221030+~1.0.8-1 [20.6 kB] 232s Get:84 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-lunr all 2.3.9~dfsg-2 [66.8 kB] 232s Get:85 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB] 232s Get:86 http://ftpmaster.internal/ubuntu plucky/main amd64 libkpathsea6 amd64 2024.20240313.70630+ds-6 [67.3 kB] 232s Get:87 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack3 amd64 3.12.1-2 [3179 kB] 232s Get:88 http://ftpmaster.internal/ubuntu plucky/main amd64 liblapack-dev amd64 3.12.1-2 [6489 kB] 233s Get:89 http://ftpmaster.internal/ubuntu plucky/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu1 [271 kB] 233s Get:90 http://ftpmaster.internal/ubuntu plucky/main amd64 liblua5.4-0 amd64 5.4.7-1 [196 kB] 233s Get:91 http://ftpmaster.internal/ubuntu plucky/universe amd64 libmpfi0 amd64 1.5.4+ds-4 [35.5 kB] 233s Get:92 http://ftpmaster.internal/ubuntu plucky/main amd64 libncurses-dev amd64 6.5+20250216-2 [424 kB] 233s Get:93 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai-data all 0.1.29-2build1 [158 kB] 233s Get:94 http://ftpmaster.internal/ubuntu plucky/main amd64 libthai0 amd64 0.1.29-2build1 [18.9 kB] 233s Get:95 http://ftpmaster.internal/ubuntu plucky/main amd64 libpango-1.0-0 amd64 1.56.2-1 [255 kB] 233s Get:96 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangoft2-1.0-0 amd64 1.56.2-1 [52.6 kB] 233s Get:97 http://ftpmaster.internal/ubuntu plucky/main amd64 libpangocairo-1.0-0 amd64 1.56.2-1 [29.1 kB] 233s Get:98 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper2 amd64 2.2.5-0.3 [17.4 kB] 233s Get:99 http://ftpmaster.internal/ubuntu plucky/main amd64 libpaper-utils amd64 2.2.5-0.3 [15.5 kB] 233s Get:100 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-16-0 amd64 10.45-1 [268 kB] 233s Get:101 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-32-0 amd64 10.45-1 [251 kB] 233s Get:102 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-posix3 amd64 10.45-1 [7204 B] 233s Get:103 http://ftpmaster.internal/ubuntu plucky/main amd64 libpcre2-dev amd64 10.45-1 [908 kB] 233s Get:104 http://ftpmaster.internal/ubuntu plucky/main amd64 libpkgconf3 amd64 1.8.1-4 [32.3 kB] 233s Get:105 http://ftpmaster.internal/ubuntu plucky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu1 [895 kB] 234s Get:106 http://ftpmaster.internal/ubuntu plucky/main amd64 libpng-dev amd64 1.6.47-1 [298 kB] 234s Get:107 http://ftpmaster.internal/ubuntu plucky/universe amd64 libpotrace0 amd64 1.16-2build1 [17.7 kB] 234s Get:108 http://ftpmaster.internal/ubuntu plucky/main amd64 libptexenc1 amd64 2024.20240313.70630+ds-6 [43.7 kB] 234s Get:109 http://ftpmaster.internal/ubuntu plucky/main amd64 libreadline-dev amd64 8.2-6 [184 kB] 234s Get:110 http://ftpmaster.internal/ubuntu plucky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [25.9 kB] 234s Get:111 http://ftpmaster.internal/ubuntu plucky/main amd64 libsm6 amd64 2:1.2.4-1 [17.4 kB] 234s Get:112 http://ftpmaster.internal/ubuntu plucky/main amd64 libsynctex2 amd64 2024.20240313.70630+ds-6 [62.5 kB] 234s Get:113 http://ftpmaster.internal/ubuntu plucky/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1086 kB] 234s Get:114 http://ftpmaster.internal/ubuntu plucky/universe amd64 libteckit0 amd64 2.5.12+ds1-1 [411 kB] 234s Get:115 http://ftpmaster.internal/ubuntu plucky/main amd64 libtexlua53-5 amd64 2024.20240313.70630+ds-6 [145 kB] 234s Get:116 http://ftpmaster.internal/ubuntu plucky/main amd64 libjbig0 amd64 2.1-6.1ubuntu2 [29.7 kB] 234s Get:117 http://ftpmaster.internal/ubuntu plucky/main amd64 libwebp7 amd64 1.5.0-0.1 [378 kB] 234s Get:118 http://ftpmaster.internal/ubuntu plucky/main amd64 libtiff6 amd64 4.5.1+git230720-4ubuntu4 [200 kB] 234s Get:119 http://ftpmaster.internal/ubuntu plucky/main amd64 libxft2 amd64 2.3.6-1build1 [45.3 kB] 234s Get:120 http://ftpmaster.internal/ubuntu plucky/main amd64 libxss1 amd64 1:1.2.3-1build3 [7204 B] 234s Get:121 http://ftpmaster.internal/ubuntu plucky/main amd64 libtk8.6 amd64 8.6.16-1 [868 kB] 234s Get:122 http://ftpmaster.internal/ubuntu plucky/main amd64 libxt6t64 amd64 1:1.2.1-1.2build1 [171 kB] 234s Get:123 http://ftpmaster.internal/ubuntu plucky/main amd64 libxmu6 amd64 2:1.1.3-3build2 [47.6 kB] 234s Get:124 http://ftpmaster.internal/ubuntu plucky/main amd64 libxpm4 amd64 1:3.5.17-1build2 [36.5 kB] 234s Get:125 http://ftpmaster.internal/ubuntu plucky/main amd64 libxaw7 amd64 2:1.0.16-1 [207 kB] 234s Get:126 http://ftpmaster.internal/ubuntu plucky/main amd64 libxi6 amd64 2:1.8.2-1 [32.4 kB] 234s Get:127 http://ftpmaster.internal/ubuntu plucky/universe amd64 libzzip-0-13t64 amd64 0.13.78+dfsg.1-0.1 [30.0 kB] 234s Get:128 http://ftpmaster.internal/ubuntu plucky/main amd64 zip amd64 3.0-14ubuntu2 [185 kB] 234s Get:129 http://ftpmaster.internal/ubuntu plucky/main amd64 unzip amd64 6.0-28ubuntu6 [181 kB] 234s Get:130 http://ftpmaster.internal/ubuntu plucky/main amd64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB] 234s Get:131 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-base-core amd64 4.4.3-1 [28.9 MB] 236s Get:132 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-littler amd64 0.3.20-2 [96.6 kB] 236s Get:133 http://ftpmaster.internal/ubuntu plucky/universe amd64 littler all 0.3.20-2 [2554 B] 236s Get:134 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB] 236s Get:135 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB] 236s Get:136 http://ftpmaster.internal/ubuntu plucky/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB] 236s Get:137 http://ftpmaster.internal/ubuntu plucky/universe amd64 pandoc-data all 3.1.11.1-3build1 [78.8 kB] 237s Get:138 http://ftpmaster.internal/ubuntu plucky/universe amd64 pandoc amd64 3.1.11.1+ds-2 [27.2 MB] 239s Get:139 http://ftpmaster.internal/ubuntu plucky/main amd64 liblzma-dev amd64 5.6.4-1 [189 kB] 239s Get:140 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf-bin amd64 1.8.1-4 [21.6 kB] 239s Get:141 http://ftpmaster.internal/ubuntu plucky/main amd64 pkgconf amd64 1.8.1-4 [16.8 kB] 239s Get:142 http://ftpmaster.internal/ubuntu plucky/main amd64 libtirpc-dev amd64 1.3.4+ds-1.3 [193 kB] 239s Get:143 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-base-dev all 4.4.3-1 [4176 B] 239s Get:144 http://ftpmaster.internal/ubuntu plucky/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B] 239s Get:145 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocgenerics all 0.52.0-2 [624 kB] 239s Get:146 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biobase amd64 2.66.0-2 [2332 kB] 239s Get:147 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-s4vectors amd64 0.44.0+dfsg-2 [2065 kB] 239s Get:148 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-iranges amd64 2.40.1-2 [2310 kB] 239s Get:149 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-dbi all 1.2.3-1 [853 kB] 239s Get:150 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bit amd64 4.6.0+dfsg-1 [466 kB] 239s Get:151 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bit64 amd64 4.6.0-1-1ubuntu2 [501 kB] 239s Get:152 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rlang amd64 1.1.5-1 [1719 kB] 239s Get:153 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB] 239s Get:154 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB] 239s Get:155 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB] 239s Get:156 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB] 239s Get:157 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-blob all 1.2.4-1 [49.8 kB] 239s Get:158 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB] 239s Get:159 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB] 239s Get:160 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB] 239s Get:161 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB] 239s Get:162 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-plogr all 0.2.0-3build1 [15.1 kB] 239s Get:163 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-cpp11 all 0.5.2-1 [233 kB] 239s Get:164 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rsqlite amd64 2.3.9-1 [1467 kB] 239s Get:165 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-curl amd64 6.2.1+dfsg-1ubuntu1 [197 kB] 239s Get:166 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB] 239s Get:167 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB] 239s Get:168 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sys amd64 3.4.3-1 [45.3 kB] 239s Get:169 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-askpass amd64 1.2.1-1 [24.9 kB] 239s Get:170 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-openssl amd64 2.3.2+dfsg-1 [407 kB] 239s Get:171 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB] 239s Get:172 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] 239s Get:173 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-png amd64 0.1-8-1build2 [40.6 kB] 239s Get:174 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB] 239s Get:175 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-xvector amd64 0.46.0-2 [620 kB] 239s Get:176 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB] 239s Get:177 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB] 240s Get:178 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB] 240s Get:179 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB] 240s Get:180 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biostrings amd64 2.74.1+dfsg-2 [13.3 MB] 241s Get:181 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-keggrest all 1.46.0+dfsg-2 [183 kB] 241s Get:182 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-annotationdbi all 1.68.0-2 [4857 kB] 241s Get:183 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocio all 1.16.0+dfsg-2 [209 kB] 241s Get:184 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-formatr all 1.14-2 [152 kB] 241s Get:185 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-lambda.r all 1.2.4-2build1 [119 kB] 241s Get:186 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-futile.options all 1.0.1-3build1 [20.2 kB] 241s Get:187 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-futile.logger all 1.4.3-4build1 [99.3 kB] 241s Get:188 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-snow all 1:0.4.4-2 [97.6 kB] 241s Get:189 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-codetools all 0.2-20-1 [90.5 kB] 241s Get:190 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bh all 1.84.0-1 [5962 B] 241s Get:191 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocparallel amd64 1.40.0-2 [1337 kB] 241s Get:192 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-base64enc amd64 0.1-3-3 [27.6 kB] 241s Get:193 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-digest amd64 0.6.37-1 [200 kB] 241s Get:194 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB] 241s Get:195 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-evaluate all 1.0.3-1 [114 kB] 241s Get:196 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xfun amd64 0.51+dfsg-1 [574 kB] 241s Get:197 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-highr all 0.11+dfsg-1 [38.5 kB] 241s Get:198 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB] 241s Get:199 http://ftpmaster.internal/ubuntu plucky/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB] 241s Get:200 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-knitr all 1.49+dfsg-1 [859 kB] 241s Get:201 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB] 241s Get:202 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fs amd64 1.6.5+dfsg-1 [246 kB] 241s Get:203 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rappdirs amd64 0.3.3-1 [47.5 kB] 241s Get:204 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB] 242s Get:205 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bslib all 0.8.0+dfsg-1 [4294 kB] 242s Get:206 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-fontawesome all 0.5.3-1 [1331 kB] 242s Get:207 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-tinytex all 0.56-1 [148 kB] 242s Get:208 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-modernizr all 3.13.0-0.1 [101 kB] 242s Get:209 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB] 242s Get:210 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rcpp amd64 1.0.14-1 [1998 kB] 242s Get:211 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-later amd64 1.4.1+dfsg-1 [154 kB] 242s Get:212 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB] 242s Get:213 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-promises amd64 1.3.2+dfsg-1 [291 kB] 242s Get:214 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB] 242s Get:215 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB] 242s Get:216 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB] 242s Get:217 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-withr all 3.0.2+dfsg-1 [214 kB] 242s Get:218 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-commonmark amd64 1.9.2-2 [137 kB] 242s Get:219 http://ftpmaster.internal/ubuntu plucky/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB] 242s Get:220 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-shiny all 1.10.0+dfsg-2 [3124 kB] 243s Get:221 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rmarkdown all 2.29+dfsg-1 [1501 kB] 243s Get:222 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bookdown all 0.42+dfsg-1 [1409 kB] 243s Get:223 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB] 243s Get:224 http://ftpmaster.internal/ubuntu plucky/universe amd64 tex-common all 6.19 [29.8 kB] 243s Get:225 http://ftpmaster.internal/ubuntu plucky/main amd64 t1utils amd64 1.41-4build3 [61.3 kB] 243s Get:226 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-binaries amd64 2024.20240313.70630+ds-6 [9789 kB] 243s Get:227 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-base all 2024.20250114-1 [22.5 MB] 244s Get:228 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-latex-base all 2024.20250114-1 [1264 kB] 244s Get:229 http://ftpmaster.internal/ubuntu plucky/universe amd64 texlive-bibtex-extra all 2024.20250114-1 [79.5 MB] 246s Get:230 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocversion all 3.20.0-2 [11.1 kB] 246s Get:231 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-biocstyle all 2.34.0+dfsg-1 [451 kB] 246s Get:232 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-lattice amd64 0.22-6-1 [1340 kB] 246s Get:233 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-matrix amd64 1.7-3-1 [4349 kB] 246s Get:234 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-matrixstats amd64 1.5.0-1 [542 kB] 246s Get:235 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-matrixgenerics all 1.18.1-1 [450 kB] 246s Get:236 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-abind all 1.4-8-1 [66.9 kB] 246s Get:237 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-s4arrays amd64 1.6.0+dfsg-2 [698 kB] 246s Get:238 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-sparsearray amd64 1.6.2+dfsg-1 [1392 kB] 246s Get:239 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-delayedarray amd64 0.32.0+dfsg-2 [2064 kB] 246s Get:240 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-statmod amd64 1.5.0-1 [295 kB] 246s Get:241 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-limma amd64 3.62.2+dfsg-1 [1969 kB] 246s Get:242 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-locfit amd64 1.5-9.12-1 [552 kB] 246s Get:243 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-edger amd64 4.4.2+dfsg-1 [1120 kB] 246s Get:244 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomicranges amd64 1.58.0+dfsg-2 [2083 kB] 246s Get:245 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1109 kB] 246s Get:246 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-bitops amd64 1.0-9-1 [30.3 kB] 246s Get:247 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-rhtslib amd64 3.2.0+dfsg-2 [1499 kB] 246s Get:248 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-rsamtools amd64 2.22.0+dfsg-2 [3745 kB] 246s Get:249 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomicalignments amd64 1.42.0-2 [2165 kB] 246s Get:250 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-xml amd64 3.99-0.18-1 [1748 kB] 246s Get:251 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rcurl amd64 1.98-1.16+dfsg-1 [807 kB] 246s Get:252 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-rjson amd64 0.2.23-1 [104 kB] 246s Get:253 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-restfulr amd64 0.0.15-1 [380 kB] 246s Get:254 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-rtracklayer amd64 1.66.0-2 [5227 kB] 246s Get:255 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-genomicfeatures all 1.58.0+dfsg-2 [937 kB] 246s Get:256 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-cran-mass amd64 7.3-64-1 [1114 kB] 246s Get:257 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-grohmm amd64 1.40.3-2 [4458 kB] 246s Get:258 http://ftpmaster.internal/ubuntu plucky/universe amd64 r-bioc-org.hs.eg.db all 3.20.0-3 [63.1 MB] 249s Preconfiguring packages ... 249s Fetched 492 MB in 23s (21.0 MB/s) 249s Selecting previously unselected package libisl23:amd64. 249s (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 84827 files and directories currently installed.) 249s Preparing to unpack .../000-libisl23_0.27-1_amd64.deb ... 249s Unpacking libisl23:amd64 (0.27-1) ... 249s Selecting previously unselected package libmpc3:amd64. 249s Preparing to unpack .../001-libmpc3_1.3.1-1build2_amd64.deb ... 249s Unpacking libmpc3:amd64 (1.3.1-1build2) ... 249s Selecting previously unselected package cpp-14-x86-64-linux-gnu. 249s Preparing to unpack .../002-cpp-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 249s Unpacking cpp-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 249s Selecting previously unselected package cpp-14. 249s Preparing to unpack .../003-cpp-14_14.2.0-17ubuntu3_amd64.deb ... 249s Unpacking cpp-14 (14.2.0-17ubuntu3) ... 249s Selecting previously unselected package cpp-x86-64-linux-gnu. 249s Preparing to unpack .../004-cpp-x86-64-linux-gnu_4%3a14.2.0-1ubuntu1_amd64.deb ... 249s Unpacking cpp-x86-64-linux-gnu (4:14.2.0-1ubuntu1) ... 249s Selecting previously unselected package cpp. 249s Preparing to unpack .../005-cpp_4%3a14.2.0-1ubuntu1_amd64.deb ... 249s Unpacking cpp (4:14.2.0-1ubuntu1) ... 249s Selecting previously unselected package libcc1-0:amd64. 249s Preparing to unpack .../006-libcc1-0_15-20250222-0ubuntu1_amd64.deb ... 249s Unpacking libcc1-0:amd64 (15-20250222-0ubuntu1) ... 249s Selecting previously unselected package libgomp1:amd64. 249s Preparing to unpack .../007-libgomp1_15-20250222-0ubuntu1_amd64.deb ... 249s Unpacking libgomp1:amd64 (15-20250222-0ubuntu1) ... 249s Selecting previously unselected package libitm1:amd64. 249s Preparing to unpack .../008-libitm1_15-20250222-0ubuntu1_amd64.deb ... 249s Unpacking libitm1:amd64 (15-20250222-0ubuntu1) ... 249s Selecting previously unselected package libasan8:amd64. 249s Preparing to unpack .../009-libasan8_15-20250222-0ubuntu1_amd64.deb ... 249s Unpacking libasan8:amd64 (15-20250222-0ubuntu1) ... 250s Selecting previously unselected package liblsan0:amd64. 250s Preparing to unpack .../010-liblsan0_15-20250222-0ubuntu1_amd64.deb ... 250s Unpacking liblsan0:amd64 (15-20250222-0ubuntu1) ... 250s Selecting previously unselected package libtsan2:amd64. 250s Preparing to unpack .../011-libtsan2_15-20250222-0ubuntu1_amd64.deb ... 250s Unpacking libtsan2:amd64 (15-20250222-0ubuntu1) ... 250s Selecting previously unselected package libubsan1:amd64. 250s Preparing to unpack .../012-libubsan1_15-20250222-0ubuntu1_amd64.deb ... 250s Unpacking libubsan1:amd64 (15-20250222-0ubuntu1) ... 250s Selecting previously unselected package libhwasan0:amd64. 250s Preparing to unpack .../013-libhwasan0_15-20250222-0ubuntu1_amd64.deb ... 250s Unpacking libhwasan0:amd64 (15-20250222-0ubuntu1) ... 250s Selecting previously unselected package libquadmath0:amd64. 250s Preparing to unpack .../014-libquadmath0_15-20250222-0ubuntu1_amd64.deb ... 250s Unpacking libquadmath0:amd64 (15-20250222-0ubuntu1) ... 250s Selecting previously unselected package libgcc-14-dev:amd64. 250s Preparing to unpack .../015-libgcc-14-dev_14.2.0-17ubuntu3_amd64.deb ... 250s Unpacking libgcc-14-dev:amd64 (14.2.0-17ubuntu3) ... 250s Selecting previously unselected package gcc-14-x86-64-linux-gnu. 250s Preparing to unpack .../016-gcc-14-x86-64-linux-gnu_14.2.0-17ubuntu3_amd64.deb ... 250s Unpacking gcc-14-x86-64-linux-gnu (14.2.0-17ubuntu3) ... 250s Selecting previously unselected package gcc-14. 250s 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previously unselected package libkpathsea6:amd64. 256s Preparing to unpack .../085-libkpathsea6_2024.20240313.70630+ds-6_amd64.deb ... 256s Unpacking libkpathsea6:amd64 (2024.20240313.70630+ds-6) ... 256s Selecting previously unselected package liblapack3:amd64. 256s Preparing to unpack .../086-liblapack3_3.12.1-2_amd64.deb ... 256s Unpacking liblapack3:amd64 (3.12.1-2) ... 256s Selecting previously unselected package liblapack-dev:amd64. 256s Preparing to unpack .../087-liblapack-dev_3.12.1-2_amd64.deb ... 256s Unpacking liblapack-dev:amd64 (3.12.1-2) ... 256s Selecting previously unselected package liblerc4:amd64. 256s Preparing to unpack .../088-liblerc4_4.0.0+ds-5ubuntu1_amd64.deb ... 256s Unpacking liblerc4:amd64 (4.0.0+ds-5ubuntu1) ... 256s Selecting previously unselected package liblua5.4-0:amd64. 256s Preparing to unpack .../089-liblua5.4-0_5.4.7-1_amd64.deb ... 256s Unpacking liblua5.4-0:amd64 (5.4.7-1) ... 256s Selecting previously unselected package libmpfi0:amd64. 256s 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previously unselected package libpotrace0:amd64. 257s Preparing to unpack .../106-libpotrace0_1.16-2build1_amd64.deb ... 257s Unpacking libpotrace0:amd64 (1.16-2build1) ... 257s Selecting previously unselected package libptexenc1:amd64. 257s Preparing to unpack .../107-libptexenc1_2024.20240313.70630+ds-6_amd64.deb ... 257s Unpacking libptexenc1:amd64 (2024.20240313.70630+ds-6) ... 257s Selecting previously unselected package libreadline-dev:amd64. 257s Preparing to unpack .../108-libreadline-dev_8.2-6_amd64.deb ... 257s Unpacking libreadline-dev:amd64 (8.2-6) ... 257s Selecting previously unselected package libsharpyuv0:amd64. 257s Preparing to unpack .../109-libsharpyuv0_1.5.0-0.1_amd64.deb ... 257s Unpacking libsharpyuv0:amd64 (1.5.0-0.1) ... 257s Selecting previously unselected package libsm6:amd64. 257s Preparing to unpack .../110-libsm6_2%3a1.2.4-1_amd64.deb ... 257s Unpacking libsm6:amd64 (2:1.2.4-1) ... 257s Selecting previously unselected package libsynctex2:amd64. 257s 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(1:1.2.1-1.2build1) ... 257s Selecting previously unselected package libxmu6:amd64. 257s Preparing to unpack .../122-libxmu6_2%3a1.1.3-3build2_amd64.deb ... 257s Unpacking libxmu6:amd64 (2:1.1.3-3build2) ... 257s Selecting previously unselected package libxpm4:amd64. 257s Preparing to unpack .../123-libxpm4_1%3a3.5.17-1build2_amd64.deb ... 257s Unpacking libxpm4:amd64 (1:3.5.17-1build2) ... 257s Selecting previously unselected package libxaw7:amd64. 257s Preparing to unpack .../124-libxaw7_2%3a1.0.16-1_amd64.deb ... 257s Unpacking libxaw7:amd64 (2:1.0.16-1) ... 257s Selecting previously unselected package libxi6:amd64. 257s Preparing to unpack .../125-libxi6_2%3a1.8.2-1_amd64.deb ... 257s Unpacking libxi6:amd64 (2:1.8.2-1) ... 257s Selecting previously unselected package libzzip-0-13t64:amd64. 257s Preparing to unpack .../126-libzzip-0-13t64_0.13.78+dfsg.1-0.1_amd64.deb ... 257s Unpacking libzzip-0-13t64:amd64 (0.13.78+dfsg.1-0.1) ... 257s Selecting previously unselected package zip. 257s Preparing to unpack .../127-zip_3.0-14ubuntu2_amd64.deb ... 257s Unpacking zip (3.0-14ubuntu2) ... 257s Selecting previously unselected package unzip. 257s Preparing to unpack .../128-unzip_6.0-28ubuntu6_amd64.deb ... 257s Unpacking unzip (6.0-28ubuntu6) ... 258s Selecting previously unselected package xdg-utils. 258s Preparing to unpack .../129-xdg-utils_1.2.1-2ubuntu1_all.deb ... 258s Unpacking xdg-utils (1.2.1-2ubuntu1) ... 258s Selecting previously unselected package r-base-core. 258s Preparing to unpack .../130-r-base-core_4.4.3-1_amd64.deb ... 258s Unpacking r-base-core (4.4.3-1) ... 258s Selecting previously unselected package r-cran-littler. 258s Preparing to unpack .../131-r-cran-littler_0.3.20-2_amd64.deb ... 258s Unpacking r-cran-littler (0.3.20-2) ... 258s Selecting previously unselected package littler. 258s Preparing to unpack .../132-littler_0.3.20-2_all.deb ... 258s Unpacking littler (0.3.20-2) ... 258s Selecting previously unselected package node-bootstrap-sass. 258s Preparing to unpack .../133-node-bootstrap-sass_3.4.3-2_all.deb ... 258s Unpacking node-bootstrap-sass (3.4.3-2) ... 258s Selecting previously unselected package node-html5shiv. 258s Preparing to unpack .../134-node-html5shiv_3.7.3+dfsg-5_all.deb ... 258s Unpacking node-html5shiv (3.7.3+dfsg-5) ... 258s Selecting previously unselected package node-normalize.css. 258s Preparing to unpack .../135-node-normalize.css_8.0.1-5_all.deb ... 258s Unpacking node-normalize.css (8.0.1-5) ... 258s Selecting previously unselected package pandoc-data. 258s Preparing to unpack .../136-pandoc-data_3.1.11.1-3build1_all.deb ... 258s Unpacking pandoc-data (3.1.11.1-3build1) ... 258s Selecting previously unselected package pandoc. 258s Preparing to unpack .../137-pandoc_3.1.11.1+ds-2_amd64.deb ... 258s Unpacking pandoc (3.1.11.1+ds-2) ... 260s Selecting previously unselected package liblzma-dev:amd64. 260s Preparing to unpack .../138-liblzma-dev_5.6.4-1_amd64.deb ... 260s Unpacking liblzma-dev:amd64 (5.6.4-1) ... 260s Selecting previously unselected package pkgconf-bin. 260s Preparing to unpack .../139-pkgconf-bin_1.8.1-4_amd64.deb ... 260s Unpacking pkgconf-bin (1.8.1-4) ... 260s Selecting previously unselected package pkgconf:amd64. 260s Preparing to unpack .../140-pkgconf_1.8.1-4_amd64.deb ... 260s Unpacking pkgconf:amd64 (1.8.1-4) ... 260s Selecting previously unselected package libtirpc-dev:amd64. 260s Preparing to unpack .../141-libtirpc-dev_1.3.4+ds-1.3_amd64.deb ... 260s Unpacking libtirpc-dev:amd64 (1.3.4+ds-1.3) ... 260s Selecting previously unselected package r-base-dev. 260s Preparing to unpack .../142-r-base-dev_4.4.3-1_all.deb ... 260s Unpacking r-base-dev (4.4.3-1) ... 260s Selecting previously unselected package pkg-r-autopkgtest. 260s Preparing to unpack .../143-pkg-r-autopkgtest_20231212ubuntu1_all.deb ... 260s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ... 260s Selecting previously unselected package r-bioc-biocgenerics. 260s Preparing to unpack .../144-r-bioc-biocgenerics_0.52.0-2_all.deb ... 260s Unpacking r-bioc-biocgenerics (0.52.0-2) ... 260s Selecting previously unselected package r-bioc-biobase. 260s Preparing to unpack .../145-r-bioc-biobase_2.66.0-2_amd64.deb ... 260s Unpacking r-bioc-biobase (2.66.0-2) ... 260s Selecting previously unselected package r-bioc-s4vectors. 260s Preparing to unpack .../146-r-bioc-s4vectors_0.44.0+dfsg-2_amd64.deb ... 260s Unpacking r-bioc-s4vectors (0.44.0+dfsg-2) ... 260s Selecting previously unselected package r-bioc-iranges. 260s Preparing to unpack .../147-r-bioc-iranges_2.40.1-2_amd64.deb ... 260s Unpacking r-bioc-iranges (2.40.1-2) ... 260s Selecting previously unselected package r-cran-dbi. 260s Preparing to unpack .../148-r-cran-dbi_1.2.3-1_all.deb ... 260s Unpacking r-cran-dbi (1.2.3-1) ... 260s Selecting previously unselected package r-cran-bit. 260s Preparing to unpack .../149-r-cran-bit_4.6.0+dfsg-1_amd64.deb ... 260s Unpacking r-cran-bit (4.6.0+dfsg-1) ... 260s Selecting previously unselected package r-cran-bit64. 260s Preparing to unpack .../150-r-cran-bit64_4.6.0-1-1ubuntu2_amd64.deb ... 260s Unpacking r-cran-bit64 (4.6.0-1-1ubuntu2) ... 260s Selecting previously unselected package r-cran-rlang. 260s Preparing to unpack .../151-r-cran-rlang_1.1.5-1_amd64.deb ... 260s Unpacking r-cran-rlang (1.1.5-1) ... 260s Selecting previously unselected package r-cran-cli. 260s Preparing to unpack .../152-r-cran-cli_3.6.4-1_amd64.deb ... 260s Unpacking r-cran-cli (3.6.4-1) ... 260s Selecting previously unselected package r-cran-glue. 260s Preparing to unpack .../153-r-cran-glue_1.8.0-1_amd64.deb ... 260s Unpacking r-cran-glue (1.8.0-1) ... 260s Selecting previously unselected package r-cran-lifecycle. 260s Preparing to unpack .../154-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ... 260s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ... 260s Selecting previously unselected package r-cran-vctrs. 260s Preparing to unpack .../155-r-cran-vctrs_0.6.5-1_amd64.deb ... 260s Unpacking r-cran-vctrs (0.6.5-1) ... 260s Selecting previously unselected package r-cran-blob. 260s Preparing to unpack .../156-r-cran-blob_1.2.4-1_all.deb ... 260s Unpacking r-cran-blob (1.2.4-1) ... 260s Selecting previously unselected package r-cran-fastmap. 260s Preparing to unpack .../157-r-cran-fastmap_1.2.0-1_amd64.deb ... 260s Unpacking r-cran-fastmap (1.2.0-1) ... 260s Selecting previously unselected package r-cran-cachem. 260s Preparing to unpack .../158-r-cran-cachem_1.1.0-1_amd64.deb ... 260s Unpacking r-cran-cachem (1.1.0-1) ... 260s Selecting previously unselected package r-cran-memoise. 260s Preparing to unpack .../159-r-cran-memoise_2.0.1-1_all.deb ... 260s Unpacking r-cran-memoise (2.0.1-1) ... 260s Selecting previously unselected package r-cran-pkgconfig. 260s Preparing to unpack .../160-r-cran-pkgconfig_2.0.3-2build1_all.deb ... 260s Unpacking r-cran-pkgconfig (2.0.3-2build1) ... 260s Selecting previously unselected package r-cran-plogr. 260s Preparing to unpack .../161-r-cran-plogr_0.2.0-3build1_all.deb ... 260s Unpacking r-cran-plogr (0.2.0-3build1) ... 260s Selecting previously unselected package r-cran-cpp11. 260s Preparing to unpack .../162-r-cran-cpp11_0.5.2-1_all.deb ... 260s Unpacking r-cran-cpp11 (0.5.2-1) ... 260s Selecting previously unselected package r-cran-rsqlite. 260s Preparing to unpack .../163-r-cran-rsqlite_2.3.9-1_amd64.deb ... 260s Unpacking r-cran-rsqlite (2.3.9-1) ... 260s Selecting previously unselected package r-cran-curl. 260s Preparing to unpack .../164-r-cran-curl_6.2.1+dfsg-1ubuntu1_amd64.deb ... 260s Unpacking r-cran-curl (6.2.1+dfsg-1ubuntu1) ... 260s Selecting previously unselected package r-cran-jsonlite. 260s Preparing to unpack .../165-r-cran-jsonlite_1.9.1+dfsg-1_amd64.deb ... 260s Unpacking r-cran-jsonlite (1.9.1+dfsg-1) ... 260s Selecting previously unselected package r-cran-mime. 260s Preparing to unpack .../166-r-cran-mime_0.12-2_amd64.deb ... 260s Unpacking r-cran-mime (0.12-2) ... 260s Selecting previously unselected package r-cran-sys. 260s Preparing to unpack .../167-r-cran-sys_3.4.3-1_amd64.deb ... 260s Unpacking r-cran-sys (3.4.3-1) ... 260s Selecting previously unselected package r-cran-askpass. 260s Preparing to unpack .../168-r-cran-askpass_1.2.1-1_amd64.deb ... 260s Unpacking r-cran-askpass (1.2.1-1) ... 260s Selecting previously unselected package r-cran-openssl. 260s Preparing to unpack .../169-r-cran-openssl_2.3.2+dfsg-1_amd64.deb ... 260s Unpacking r-cran-openssl (2.3.2+dfsg-1) ... 260s Selecting previously unselected package r-cran-r6. 260s Preparing to unpack .../170-r-cran-r6_2.6.1-1_all.deb ... 260s Unpacking r-cran-r6 (2.6.1-1) ... 260s Selecting previously unselected package r-cran-httr. 260s Preparing to unpack .../171-r-cran-httr_1.4.7+dfsg-1_all.deb ... 260s Unpacking r-cran-httr (1.4.7+dfsg-1) ... 260s Selecting previously unselected package r-cran-png. 260s Preparing to unpack .../172-r-cran-png_0.1-8-1build2_amd64.deb ... 260s Unpacking r-cran-png (0.1-8-1build2) ... 260s Selecting previously unselected package r-bioc-zlibbioc. 260s Preparing to unpack .../173-r-bioc-zlibbioc_1.52.0+dfsg-2_all.deb ... 260s Unpacking r-bioc-zlibbioc (1.52.0+dfsg-2) ... 260s Selecting previously unselected package r-bioc-xvector. 260s Preparing to unpack .../174-r-bioc-xvector_0.46.0-2_amd64.deb ... 260s Unpacking r-bioc-xvector (0.46.0-2) ... 260s Selecting previously unselected package r-bioc-ucsc.utils. 260s Preparing to unpack .../175-r-bioc-ucsc.utils_1.2.0+ds-2_all.deb ... 260s Unpacking r-bioc-ucsc.utils (1.2.0+ds-2) ... 260s Selecting previously unselected package r-bioc-genomeinfodbdata. 260s Preparing to unpack .../176-r-bioc-genomeinfodbdata_1.2.13-2_all.deb ... 260s Unpacking r-bioc-genomeinfodbdata (1.2.13-2) ... 261s Selecting previously unselected package r-bioc-genomeinfodb. 261s Preparing to unpack .../177-r-bioc-genomeinfodb_1.42.3+dfsg-1_all.deb ... 261s Unpacking r-bioc-genomeinfodb (1.42.3+dfsg-1) ... 261s Selecting previously unselected package r-cran-crayon. 261s Preparing to unpack .../178-r-cran-crayon_1.5.3-1_all.deb ... 261s Unpacking r-cran-crayon (1.5.3-1) ... 261s Selecting previously unselected package r-bioc-biostrings. 261s Preparing to unpack .../179-r-bioc-biostrings_2.74.1+dfsg-2_amd64.deb ... 261s Unpacking r-bioc-biostrings (2.74.1+dfsg-2) ... 261s Selecting previously unselected package r-bioc-keggrest. 261s Preparing to unpack .../180-r-bioc-keggrest_1.46.0+dfsg-2_all.deb ... 261s Unpacking r-bioc-keggrest (1.46.0+dfsg-2) ... 261s Selecting previously unselected package r-bioc-annotationdbi. 261s Preparing to unpack .../181-r-bioc-annotationdbi_1.68.0-2_all.deb ... 261s Unpacking r-bioc-annotationdbi (1.68.0-2) ... 261s Selecting previously unselected package r-bioc-biocio. 261s Preparing to unpack .../182-r-bioc-biocio_1.16.0+dfsg-2_all.deb ... 261s Unpacking r-bioc-biocio (1.16.0+dfsg-2) ... 261s Selecting previously unselected package r-cran-formatr. 261s Preparing to unpack .../183-r-cran-formatr_1.14-2_all.deb ... 261s Unpacking r-cran-formatr (1.14-2) ... 261s Selecting previously unselected package r-cran-lambda.r. 261s Preparing to unpack .../184-r-cran-lambda.r_1.2.4-2build1_all.deb ... 261s Unpacking r-cran-lambda.r (1.2.4-2build1) ... 261s Selecting previously unselected package r-cran-futile.options. 261s Preparing to unpack .../185-r-cran-futile.options_1.0.1-3build1_all.deb ... 261s Unpacking r-cran-futile.options (1.0.1-3build1) ... 261s Selecting previously unselected package r-cran-futile.logger. 261s Preparing to unpack .../186-r-cran-futile.logger_1.4.3-4build1_all.deb ... 261s Unpacking r-cran-futile.logger (1.4.3-4build1) ... 261s Selecting previously unselected package r-cran-snow. 261s Preparing to unpack .../187-r-cran-snow_1%3a0.4.4-2_all.deb ... 261s Unpacking r-cran-snow (1:0.4.4-2) ... 261s Selecting previously unselected package r-cran-codetools. 261s Preparing to unpack .../188-r-cran-codetools_0.2-20-1_all.deb ... 261s Unpacking r-cran-codetools (0.2-20-1) ... 261s Selecting previously unselected package r-cran-bh. 261s Preparing to unpack .../189-r-cran-bh_1.84.0-1_all.deb ... 261s Unpacking r-cran-bh (1.84.0-1) ... 261s Selecting previously unselected package r-bioc-biocparallel. 261s Preparing to unpack .../190-r-bioc-biocparallel_1.40.0-2_amd64.deb ... 261s Unpacking r-bioc-biocparallel (1.40.0-2) ... 261s Selecting previously unselected package r-cran-base64enc. 261s Preparing to unpack .../191-r-cran-base64enc_0.1-3-3_amd64.deb ... 261s Unpacking r-cran-base64enc (0.1-3-3) ... 261s Selecting previously unselected package r-cran-digest. 261s Preparing to unpack .../192-r-cran-digest_0.6.37-1_amd64.deb ... 261s Unpacking r-cran-digest (0.6.37-1) ... 261s Selecting previously unselected package r-cran-htmltools. 261s Preparing to unpack .../193-r-cran-htmltools_0.5.8.1-1_amd64.deb ... 261s Unpacking r-cran-htmltools (0.5.8.1-1) ... 261s Selecting previously unselected package r-cran-evaluate. 261s Preparing to unpack .../194-r-cran-evaluate_1.0.3-1_all.deb ... 261s Unpacking r-cran-evaluate (1.0.3-1) ... 261s Selecting previously unselected package r-cran-xfun. 261s Preparing to unpack .../195-r-cran-xfun_0.51+dfsg-1_amd64.deb ... 261s Unpacking r-cran-xfun (0.51+dfsg-1) ... 261s Selecting previously unselected package r-cran-highr. 261s Preparing to unpack .../196-r-cran-highr_0.11+dfsg-1_all.deb ... 261s Unpacking r-cran-highr (0.11+dfsg-1) ... 261s Selecting previously unselected package r-cran-yaml. 261s Preparing to unpack .../197-r-cran-yaml_2.3.10-1_amd64.deb ... 261s Unpacking r-cran-yaml (2.3.10-1) ... 261s Selecting previously unselected package libjs-mathjax. 261s Preparing to unpack .../198-libjs-mathjax_2.7.9+dfsg-1_all.deb ... 261s Unpacking libjs-mathjax (2.7.9+dfsg-1) ... 262s Selecting previously unselected package r-cran-knitr. 262s Preparing to unpack .../199-r-cran-knitr_1.49+dfsg-1_all.deb ... 262s Unpacking r-cran-knitr (1.49+dfsg-1) ... 262s Selecting previously unselected package r-cran-jquerylib. 262s Preparing to unpack .../200-r-cran-jquerylib_0.1.4+dfsg-4_all.deb ... 262s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ... 262s Selecting previously unselected package r-cran-fs. 262s Preparing to unpack .../201-r-cran-fs_1.6.5+dfsg-1_amd64.deb ... 262s Unpacking r-cran-fs (1.6.5+dfsg-1) ... 262s Selecting previously unselected package r-cran-rappdirs. 262s Preparing to unpack .../202-r-cran-rappdirs_0.3.3-1_amd64.deb ... 262s Unpacking r-cran-rappdirs (0.3.3-1) ... 262s Selecting previously unselected package r-cran-sass. 262s Preparing to unpack .../203-r-cran-sass_0.4.9+dfsg-1_amd64.deb ... 262s Unpacking r-cran-sass (0.4.9+dfsg-1) ... 262s Selecting previously unselected package r-cran-bslib. 263s Preparing to unpack .../204-r-cran-bslib_0.8.0+dfsg-1_all.deb ... 263s Unpacking r-cran-bslib (0.8.0+dfsg-1) ... 263s Selecting previously unselected package r-cran-fontawesome. 263s Preparing to unpack .../205-r-cran-fontawesome_0.5.3-1_all.deb ... 263s Unpacking r-cran-fontawesome (0.5.3-1) ... 263s Selecting previously unselected package r-cran-tinytex. 263s Preparing to unpack .../206-r-cran-tinytex_0.56-1_all.deb ... 263s Unpacking r-cran-tinytex (0.56-1) ... 263s Selecting previously unselected package libjs-modernizr. 263s Preparing to unpack .../207-libjs-modernizr_3.13.0-0.1_all.deb ... 263s Unpacking libjs-modernizr (3.13.0-0.1) ... 263s Selecting previously unselected package r-cran-pkgkitten. 263s Preparing to unpack .../208-r-cran-pkgkitten_0.2.4-1_all.deb ... 263s Unpacking r-cran-pkgkitten (0.2.4-1) ... 263s Selecting previously unselected package r-cran-rcpp. 263s Preparing to unpack .../209-r-cran-rcpp_1.0.14-1_amd64.deb ... 263s Unpacking r-cran-rcpp (1.0.14-1) ... 263s Selecting previously unselected package r-cran-later. 263s Preparing to unpack .../210-r-cran-later_1.4.1+dfsg-1_amd64.deb ... 263s Unpacking r-cran-later (1.4.1+dfsg-1) ... 263s Selecting previously unselected package r-cran-magrittr. 263s Preparing to unpack .../211-r-cran-magrittr_2.0.3-1_amd64.deb ... 263s Unpacking r-cran-magrittr (2.0.3-1) ... 263s Selecting previously unselected package r-cran-promises. 263s Preparing to unpack .../212-r-cran-promises_1.3.2+dfsg-1_amd64.deb ... 263s Unpacking r-cran-promises (1.3.2+dfsg-1) ... 263s Selecting previously unselected package r-cran-httpuv. 263s Preparing to unpack .../213-r-cran-httpuv_1.6.15+dfsg-1_amd64.deb ... 263s Unpacking r-cran-httpuv (1.6.15+dfsg-1) ... 263s Selecting previously unselected package r-cran-xtable. 263s Preparing to unpack .../214-r-cran-xtable_1%3a1.8-4-2_all.deb ... 263s Unpacking r-cran-xtable (1:1.8-4-2) ... 263s Selecting previously unselected package r-cran-sourcetools. 263s Preparing to unpack .../215-r-cran-sourcetools_0.1.7-1-1_amd64.deb ... 263s Unpacking r-cran-sourcetools (0.1.7-1-1) ... 263s Selecting previously unselected package r-cran-withr. 263s Preparing to unpack .../216-r-cran-withr_3.0.2+dfsg-1_all.deb ... 263s Unpacking r-cran-withr (3.0.2+dfsg-1) ... 263s Selecting previously unselected package r-cran-commonmark. 263s Preparing to unpack .../217-r-cran-commonmark_1.9.2-2_amd64.deb ... 263s Unpacking r-cran-commonmark (1.9.2-2) ... 263s Selecting previously unselected package libjs-twitter-bootstrap-datepicker. 263s Preparing to unpack .../218-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ... 263s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ... 263s Selecting previously unselected package r-cran-shiny. 263s Preparing to unpack .../219-r-cran-shiny_1.10.0+dfsg-2_all.deb ... 263s Unpacking r-cran-shiny (1.10.0+dfsg-2) ... 263s Selecting previously unselected package r-cran-rmarkdown. 263s Preparing to unpack .../220-r-cran-rmarkdown_2.29+dfsg-1_all.deb ... 263s Unpacking r-cran-rmarkdown (2.29+dfsg-1) ... 264s Selecting previously unselected package r-cran-bookdown. 264s Preparing to unpack .../221-r-cran-bookdown_0.42+dfsg-1_all.deb ... 264s Unpacking r-cran-bookdown (0.42+dfsg-1) ... 264s Selecting previously unselected package r-cran-biocmanager. 264s Preparing to unpack .../222-r-cran-biocmanager_1.30.25+dfsg-1_all.deb ... 264s Unpacking r-cran-biocmanager (1.30.25+dfsg-1) ... 264s Selecting previously unselected package tex-common. 264s Preparing to unpack .../223-tex-common_6.19_all.deb ... 264s Unpacking tex-common (6.19) ... 264s Selecting previously unselected package t1utils. 264s Preparing to unpack .../224-t1utils_1.41-4build3_amd64.deb ... 264s Unpacking t1utils (1.41-4build3) ... 264s Selecting previously unselected package texlive-binaries. 264s Preparing to unpack .../225-texlive-binaries_2024.20240313.70630+ds-6_amd64.deb ... 264s Unpacking texlive-binaries (2024.20240313.70630+ds-6) ... 264s Selecting previously unselected package texlive-base. 264s Preparing to unpack .../226-texlive-base_2024.20250114-1_all.deb ... 264s Unpacking texlive-base (2024.20250114-1) ... 265s Selecting previously unselected package texlive-latex-base. 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r-bioc-sparsearray (1.6.2+dfsg-1) ... 267s Selecting previously unselected package r-bioc-delayedarray. 267s Preparing to unpack .../238-r-bioc-delayedarray_0.32.0+dfsg-2_amd64.deb ... 267s Unpacking r-bioc-delayedarray (0.32.0+dfsg-2) ... 267s Selecting previously unselected package r-cran-statmod. 267s Preparing to unpack .../239-r-cran-statmod_1.5.0-1_amd64.deb ... 267s Unpacking r-cran-statmod (1.5.0-1) ... 268s Selecting previously unselected package r-bioc-limma. 268s Preparing to unpack .../240-r-bioc-limma_3.62.2+dfsg-1_amd64.deb ... 268s Unpacking r-bioc-limma (3.62.2+dfsg-1) ... 268s Selecting previously unselected package r-cran-locfit. 268s Preparing to unpack .../241-r-cran-locfit_1.5-9.12-1_amd64.deb ... 268s Unpacking r-cran-locfit (1.5-9.12-1) ... 268s Selecting previously unselected package r-bioc-edger. 268s Preparing to unpack .../242-r-bioc-edger_4.4.2+dfsg-1_amd64.deb ... 268s Unpacking r-bioc-edger (4.4.2+dfsg-1) ... 268s Selecting previously unselected package 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r-bioc-limma (3.62.2+dfsg-1) ... 275s Setting up r-cran-later (1.4.1+dfsg-1) ... 275s Setting up r-cran-matrix (1.7-3-1) ... 275s Setting up r-cran-htmltools (0.5.8.1-1) ... 275s Setting up r-cran-tinytex (0.56-1) ... 275s Setting up r-cran-knitr (1.49+dfsg-1) ... 275s Setting up g++ (4:14.2.0-1ubuntu1) ... 275s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode 275s Setting up r-cran-cachem (1.1.0-1) ... 275s Setting up r-cran-sass (0.4.9+dfsg-1) ... 275s Setting up build-essential (12.10ubuntu1) ... 275s Setting up r-bioc-iranges (2.40.1-2) ... 275s Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... 275s Setting up r-cran-restfulr (0.0.15-1) ... 275s Setting up r-cran-vctrs (0.6.5-1) ... 275s Setting up r-cran-openssl (2.3.2+dfsg-1) ... 275s Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ... 275s Setting up r-bioc-biocparallel (1.40.0-2) ... 275s Setting up r-bioc-edger (4.4.2+dfsg-1) ... 275s Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ... 275s Setting up r-cran-fontawesome (0.5.3-1) ... 275s Setting up r-bioc-biocio (1.16.0+dfsg-2) ... 275s Setting up gfortran (4:14.2.0-1ubuntu1) ... 275s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode 275s 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 275s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode 275s 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 275s Setting up r-cran-jquerylib (0.1.4+dfsg-4) ... 275s Setting up texlive-bibtex-extra (2024.20250114-1) ... 275s Setting up r-cran-httr (1.4.7+dfsg-1) ... 275s Setting up r-cran-memoise (2.0.1-1) ... 275s Setting up r-cran-promises (1.3.2+dfsg-1) ... 275s Setting up r-cran-blob (1.2.4-1) ... 275s Setting up r-bioc-xvector (0.46.0-2) ... 275s Setting up r-cran-rsqlite (2.3.9-1) ... 275s Setting up r-base-dev (4.4.3-1) ... 275s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ... 275s Setting up r-bioc-sparsearray (1.6.2+dfsg-1) ... 275s Setting up r-cran-httpuv (1.6.15+dfsg-1) ... 275s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ... 275s Setting up r-cran-bslib (0.8.0+dfsg-1) ... 275s Setting up pkg-r-autopkgtest (20231212ubuntu1) ... 275s Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ... 275s Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ... 275s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ... 275s Setting up r-cran-shiny (1.10.0+dfsg-2) ... 275s Setting up r-cran-rmarkdown (2.29+dfsg-1) ... 275s Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ... 275s Setting up r-cran-bookdown (0.42+dfsg-1) ... 275s Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... 275s Setting up r-bioc-keggrest (1.46.0+dfsg-2) ... 275s Setting up r-bioc-annotationdbi (1.68.0-2) ... 275s Setting up r-bioc-biocstyle (2.34.0+dfsg-1) ... 275s Setting up r-bioc-genomicalignments (1.42.0-2) ... 275s Setting up r-bioc-org.hs.eg.db (3.20.0-3) ... 275s Setting up r-bioc-rtracklayer (1.66.0-2) ... 275s Setting up r-bioc-genomicfeatures (1.58.0+dfsg-2) ... 275s Setting up r-bioc-grohmm (1.40.3-2) ... 275s Processing triggers for libc-bin (2.41-1ubuntu2) ... 275s Processing triggers for man-db (2.13.0-1) ... 277s Processing triggers for install-info (7.1.1-1) ... 277s Processing triggers for tex-common (6.19) ... 277s Running updmap-sys. This may take some time... done. 277s Running mktexlsr /var/lib/texmf ... done. 278s Building format(s) --all. 305s This may take some time... done. 306s autopkgtest [22:04:22]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest 306s autopkgtest [22:04:22]: test pkg-r-autopkgtest: [----------------------- 306s Test: Try to load the R library groHMM 306s 306s R version 4.4.3 (2025-02-28) -- "Trophy Case" 306s Copyright (C) 2025 The R Foundation for Statistical Computing 306s Platform: x86_64-pc-linux-gnu 306s 306s R is free software and comes with ABSOLUTELY NO WARRANTY. 306s You are welcome to redistribute it under certain conditions. 306s Type 'license()' or 'licence()' for distribution details. 306s 306s R is a collaborative project with many contributors. 306s Type 'contributors()' for more information and 306s 'citation()' on how to cite R or R packages in publications. 306s 306s Type 'demo()' for some demos, 'help()' for on-line help, or 306s 'help.start()' for an HTML browser interface to help. 306s Type 'q()' to quit R. 306s 306s > library('groHMM') 306s Loading required package: MASS 306s Loading required package: parallel 306s Loading required package: S4Vectors 306s Loading required package: stats4 306s Loading required package: BiocGenerics 306s 306s Attaching package: ‘BiocGenerics’ 306s 306s The following objects are masked from ‘package:stats’: 306s 306s IQR, mad, sd, var, xtabs 306s 306s The following objects are masked from ‘package:base’: 306s 306s anyDuplicated, aperm, append, as.data.frame, basename, cbind, 306s colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find, 306s get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply, 306s match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, 306s Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff, 306s table, tapply, union, unique, unsplit, which.max, which.min 306s 307s 307s Attaching package: ‘S4Vectors’ 307s 307s The following object is masked from ‘package:utils’: 307s 307s findMatches 307s 307s The following objects are masked from ‘package:base’: 307s 307s expand.grid, I, unname 307s 307s Loading required package: IRanges 308s Loading required package: GenomeInfoDb 308s Loading required package: GenomicRanges 308s Loading required package: GenomicAlignments 308s Loading required package: SummarizedExperiment 308s Loading required package: MatrixGenerics 308s Loading required package: matrixStats 308s 308s Attaching package: ‘MatrixGenerics’ 308s 308s The following objects are masked from ‘package:matrixStats’: 308s 308s colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse, 308s colCounts, colCummaxs, colCummins, colCumprods, colCumsums, 308s colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs, 308s colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats, 308s colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds, 308s colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads, 308s colWeightedMeans, colWeightedMedians, colWeightedSds, 308s colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet, 308s rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods, 308s rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps, 308s rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins, 308s rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks, 308s rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars, 308s rowWeightedMads, rowWeightedMeans, rowWeightedMedians, 308s rowWeightedSds, rowWeightedVars 308s 308s Loading required package: Biobase 309s Welcome to Bioconductor 309s 309s Vignettes contain introductory material; view with 309s 'browseVignettes()'. To cite Bioconductor, see 309s 'citation("Biobase")', and for packages 'citation("pkgname")'. 309s 309s 309s Attaching package: ‘Biobase’ 309s 309s The following object is masked from ‘package:MatrixGenerics’: 309s 309s rowMedians 309s 309s The following objects are masked from ‘package:matrixStats’: 309s 309s anyMissing, rowMedians 309s 311s Loading required package: Biostrings 311s Loading required package: XVector 312s 312s Attaching package: ‘Biostrings’ 312s 312s The following object is masked from ‘package:base’: 312s 312s strsplit 312s 312s Loading required package: Rsamtools 312s Loading required package: rtracklayer 314s > 314s > 314s Other tests are currently unsupported! 314s They will be progressively added. 314s autopkgtest [22:04:30]: test pkg-r-autopkgtest: -----------------------] 315s autopkgtest [22:04:31]: test pkg-r-autopkgtest: - - - - - - - - - - results - - - - - - - - - - 315s pkg-r-autopkgtest PASS 315s autopkgtest [22:04:31]: @@@@@@@@@@@@@@@@@@@@ summary 315s pkg-r-autopkgtest PASS 333s nova [W] Skipping flock for amd64 333s Creating nova instance adt-plucky-amd64-r-bioc-grohmm-20250315-215916-juju-7f2275-prod-proposed-migration-environment-15-58794a0e-c5bb-4ee7-a7a4-121c4f7bf511 from image adt/ubuntu-plucky-amd64-server-20250304.img (UUID 9c7d4da5-d95f-4c85-ac1f-51eb37e75c4c)... 333s nova [W] Timed out waiting for 17f830fd-9bb1-459f-8f87-3bc55583221f to get deleted.