0s autopkgtest [04:09:56]: starting date and time: 2026-02-10 04:09:56+0000
  0s autopkgtest [04:09:56]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op
  0s autopkgtest [04:09:56]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.gym0d8fx/out --timeout-copy=6000 --needs-internet=try --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-cran-ggplot2 --apt-upgrade r-bioc-deseq2 --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-cran-ggplot2/4.0.2+dfsg-1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-amd64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@sto01-16.secgroup --name adt-resolute-amd64-r-bioc-deseq2-20260210-040955-juju-7f2275-prod-proposed-migration-environment-2-341624db-2bd3-41a0-bfa8-f2bcd9cce6da --image adt/ubuntu-resolute-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-autopkgtest-workers-amd64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/
  3s Creating nova instance adt-resolute-amd64-r-bioc-deseq2-20260210-040955-juju-7f2275-prod-proposed-migration-environment-2-341624db-2bd3-41a0-bfa8-f2bcd9cce6da from image adt/ubuntu-resolute-amd64-server-20260204.img (UUID fedf54b4-458b-493e-8072-6425c19717b4)...
 72s autopkgtest [04:11:08]: testbed dpkg architecture: amd64
 72s autopkgtest [04:11:08]: testbed apt version: 3.1.14
 72s autopkgtest [04:11:08]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 72s autopkgtest [04:11:08]: testbed release detected to be: None
 73s autopkgtest [04:11:09]: updating testbed package index (apt update)
 73s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB]
 73s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
 73s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
 73s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
 73s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [181 kB]
 73s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [31.1 kB]
 73s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1735 kB]
 74s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [220 kB]
 74s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [268 kB]
 74s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [5980 B]
 74s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [120 B]
 74s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [768 kB]
 74s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [1791 kB]
 74s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [32.6 kB]
 74s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [5020 B]
 74s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [26.4 kB]
 74s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [996 B]
 75s Fetched 5189 kB in 1s (5316 kB/s)
 75s Reading package lists...
 76s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease
 76s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
 76s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
 76s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
 77s Reading package lists...
 77s Reading package lists...
 77s Building dependency tree...
 77s Reading state information...
 77s Calculating upgrade...
 77s The following package was automatically installed and is no longer required:
 77s   libpython3.13
 77s Use 'sudo apt autoremove' to remove it.
 77s The following NEW packages will be installed:
 77s   gcc-16-base libpython3.14 libpython3.14-minimal libpython3.14-stdlib
 77s   linux-headers-6.19.0-3 linux-headers-6.19.0-3-generic
 77s   linux-image-6.19.0-3-generic linux-modules-6.19.0-3-generic
 77s   linux-tools-6.19.0-3 linux-tools-6.19.0-3-generic
 77s The following packages will be upgraded:
 77s   3cpio amd64-microcode apt bpftool busybox-initramfs busybox-static
 77s   cryptsetup-bin dash dbus dbus-bin dbus-daemon dbus-session-bus-common
 77s   dbus-system-bus-common dbus-user-session debianutils dmsetup dracut-install
 77s   ethtool findutils gir1.2-girepository-3.0 gir1.2-glib-2.0 hwdata iproute2
 77s   iptables less libapt-pkg7.0 libatomic1 libattr1 libbpf1 libbsd0
 77s   libcryptsetup12 libdbus-1-3 libdevmapper1.02.1 libdrm-amdgpu1 libdrm-common
 77s   libdrm2 libevent-core-2.1-7t64 libgcc-s1 libgdbm-compat4t64 libgdbm6t64
 77s   libgirepository-2.0-0 libglib2.0-0t64 libglib2.0-data libgpm2 libgudev-1.0-0
 77s   libidn2-0 libip4tc2 libip6tc2 libjansson4 libkeyutils1 liblsof0
 77s   libmaxminddb0 libnetfilter-conntrack3 libnpth0t64 libonig5 libpcap0.8t64
 77s   libpci3 libsensors-config libsensors5 libstdc++6 libusb-1.0-0 libwrap0
 77s   libxau6 libxkbcommon0 libxtables12 linux-generic linux-headers-generic
 77s   linux-headers-virtual linux-image-generic linux-image-virtual linux-perf
 77s   linux-tools-common linux-virtual lsof man-db mawk patch pciutils pnp.ids
 77s   pollinate python3-linkify-it python3-markdown-it python3-referencing sed
 77s   shared-mime-info tar tcpdump ubuntu-kernel-accessories ubuntu-standard wget
 77s 90 upgraded, 10 newly installed, 0 to remove and 0 not upgraded.
 77s Need to get 237 MB of archives.
 77s After this operation, 339 MB of additional disk space will be used.
 77s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 debianutils amd64 5.23.2build1 [93.3 kB]
 77s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 dash amd64 0.5.12-12ubuntu3 [96.0 kB]
 77s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 findutils amd64 4.10.0-3build2 [307 kB]
 77s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 sed amd64 4.9-2build3 [195 kB]
 77s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 tar amd64 1.35+dfsg-3.1build2 [257 kB]
 77s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libattr1 amd64 1:2.5.2-3build2 [11.4 kB]
 77s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-16-base amd64 16-20260208-1ubuntu1 [59.7 kB]
 77s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-s1 amd64 16-20260208-1ubuntu1 [80.3 kB]
 77s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libbsd0 amd64 0.12.2-2build2 [42.3 kB]
 77s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 mawk amd64 1.3.4.20260129-1 [133 kB]
 77s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 libstdc++6 amd64 16-20260208-1ubuntu1 [844 kB]
 78s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libapt-pkg7.0 amd64 3.1.15 [1151 kB]
 78s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 apt amd64 3.1.15 [1479 kB]
 78s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-system-bus-common all 1.16.2-2ubuntu3 [55.8 kB]
 78s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-session-bus-common all 1.16.2-2ubuntu3 [54.4 kB]
 78s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-user-session amd64 1.16.2-2ubuntu3 [9696 B]
 78s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-daemon amd64 1.16.2-2ubuntu3 [119 kB]
 78s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-bin amd64 1.16.2-2ubuntu3 [40.1 kB]
 78s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus amd64 1.16.2-2ubuntu3 [24.2 kB]
 78s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libdbus-1-3 amd64 1.16.2-2ubuntu3 [185 kB]
 78s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libdevmapper1.02.1 amd64 2:1.02.205-2ubuntu3 [142 kB]
 78s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 dmsetup amd64 2:1.02.205-2ubuntu3 [79.4 kB]
 78s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 ethtool amd64 1:6.15-3build1 [318 kB]
 78s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-girepository-3.0 amd64 2.87.2-2 [25.2 kB]
 78s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libgirepository-2.0-0 amd64 2.87.2-2 [76.1 kB]
 78s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libatomic1 amd64 16-20260208-1ubuntu1 [11.4 kB]
 78s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-glib-2.0 amd64 2.87.2-2 [182 kB]
 78s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-0t64 amd64 2.87.2-2 [1613 kB]
 78s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libbpf1 amd64 1:1.6.2-1build1 [184 kB]
 78s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 iptables amd64 1.8.11-2ubuntu3 [381 kB]
 78s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libip4tc2 amd64 1.8.11-2ubuntu3 [24.2 kB]
 78s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 libip6tc2 amd64 1.8.11-2ubuntu3 [24.4 kB]
 78s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libnetfilter-conntrack3 amd64 1.1.1-1 [47.5 kB]
 78s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 libxtables12 amd64 1.8.11-2ubuntu3 [36.6 kB]
 78s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 iproute2 amd64 6.18.0-1ubuntu1 [1178 kB]
 78s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 less amd64 668-1build1 [172 kB]
 78s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libcryptsetup12 amd64 2:2.8.0-1ubuntu3 [283 kB]
 78s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-data all 2.87.2-2 [58.2 kB]
 78s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 libidn2-0 amd64 2.3.8-4build1 [67.6 kB]
 78s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 libkeyutils1 amd64 1.6.3-6ubuntu3 [10.6 kB]
 78s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB]
 78s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-markdown-it all 3.0.0-3build1 [54.4 kB]
 78s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 shared-mime-info amd64 2.4-5build3 [476 kB]
 78s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-static amd64 1:1.37.0-7ubuntu1 [1034 kB]
 78s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-common all 2.4.131-1 [9774 B]
 78s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm2 amd64 2.4.131-1 [42.3 kB]
 78s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm6t64 amd64 1.26-1build1 [36.5 kB]
 78s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libgpm2 amd64 1.20.7-12build1 [14.4 kB]
 78s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 libjansson4 amd64 2.14-2build4 [33.2 kB]
 78s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 lsof amd64 4.99.4+dfsg-2build2 [239 kB]
 78s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsof0 amd64 4.99.4+dfsg-2build2 [56.5 kB]
 78s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 libmaxminddb0 amd64 1.12.2-1build2 [18.9 kB]
 78s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcap0.8t64 amd64 1.10.5-2ubuntu3 [154 kB]
 78s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 pciutils amd64 1:3.14.0-1build2 [95.5 kB]
 78s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libpci3 amd64 1:3.14.0-1build2 [38.1 kB]
 78s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors-config all 1:3.6.2-2build1 [6862 B]
 78s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors5 amd64 1:3.6.2-2build1 [28.9 kB]
 78s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 libusb-1.0-0 amd64 2:1.0.29-2build1 [56.9 kB]
 78s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libxau6 amd64 1:1.0.11-1build2 [7502 B]
 78s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 libxkbcommon0 amd64 1.13.1-1 [159 kB]
 79s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 man-db amd64 2.13.1-1build1 [1392 kB]
 79s Get:62 http://ftpmaster.internal/ubuntu resolute/main amd64 tcpdump amd64 4.99.5-2ubuntu3 [477 kB]
 79s Get:63 http://ftpmaster.internal/ubuntu resolute/main amd64 wget amd64 1.25.0-2ubuntu4 [353 kB]
 79s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-standard amd64 1.564 [13.3 kB]
 79s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 3cpio amd64 0.14.0-1ubuntu1 [285 kB]
 79s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 bpftool amd64 7.7.0+6.19.0-3.3 [1229 kB]
 79s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-initramfs amd64 1:1.37.0-7ubuntu1 [191 kB]
 79s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 cryptsetup-bin amd64 2:2.8.0-1ubuntu3 [228 kB]
 79s Get:69 http://ftpmaster.internal/ubuntu resolute/main amd64 dracut-install amd64 109-11ubuntu1 [45.8 kB]
 79s Get:70 http://ftpmaster.internal/ubuntu resolute/main amd64 hwdata all 0.394-1build1 [1566 B]
 79s Get:71 http://ftpmaster.internal/ubuntu resolute/main amd64 pnp.ids all 0.394-1build1 [29.6 kB]
 79s Get:72 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-amdgpu1 amd64 2.4.131-1 [23.2 kB]
 79s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10build2 [93.1 kB]
 79s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm-compat4t64 amd64 1.26-1build1 [6796 B]
 79s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libgudev-1.0-0 amd64 1:238-7build1 [15.9 kB]
 79s Get:76 http://ftpmaster.internal/ubuntu resolute/main amd64 libnpth0t64 amd64 1.8-3build1 [9302 B]
 79s Get:77 http://ftpmaster.internal/ubuntu resolute/main amd64 libonig5 amd64 6.9.10-1build1 [174 kB]
 79s Get:78 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-minimal amd64 3.14.2-1 [920 kB]
 79s Get:79 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-stdlib amd64 3.14.2-1 [2398 kB]
 79s Get:80 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14 amd64 3.14.2-1 [2568 kB]
 79s Get:81 http://ftpmaster.internal/ubuntu resolute/main amd64 libwrap0 amd64 7.6.q-36build2 [48.5 kB]
 79s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-modules-6.19.0-3-generic amd64 6.19.0-3.3 [171 MB]
 82s Get:83 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-6.19.0-3-generic amd64 6.19.0-3.3+1 [16.8 MB]
 82s Get:84 http://ftpmaster.internal/ubuntu resolute/main amd64 amd64-microcode amd64 3.20251202.1ubuntu1 [459 kB]
 82s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-generic amd64 6.19.0-3.3 [1698 B]
 82s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-generic amd64 6.19.0-3.3 [12.2 kB]
 82s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-virtual amd64 6.19.0-3.3 [1700 B]
 82s Get:88 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-virtual amd64 6.19.0-3.3 [12.1 kB]
 82s Get:89 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-virtual amd64 6.19.0-3.3 [1646 B]
 82s Get:90 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3 all 6.19.0-3.3 [14.9 MB]
 82s Get:91 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3-generic amd64 6.19.0-3.3 [4330 kB]
 82s Get:92 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-generic amd64 6.19.0-3.3 [12.0 kB]
 82s Get:93 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-perf amd64 6.19.0-3.3 [4480 kB]
 82s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-common all 6.19.0-3.3 [345 kB]
 82s Get:95 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3 amd64 6.19.0-3.3 [1455 kB]
 82s Get:96 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3-generic amd64 6.19.0-3.3 [1612 B]
 82s Get:97 http://ftpmaster.internal/ubuntu resolute/main amd64 patch amd64 2.8-2build1 [95.7 kB]
 82s Get:98 http://ftpmaster.internal/ubuntu resolute/main amd64 pollinate all 4.33-4ubuntu5 [14.0 kB]
 82s Get:99 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-referencing all 0.36.2-1ubuntu2 [22.2 kB]
 82s Get:100 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-kernel-accessories amd64 1.564 [13.1 kB]
 82s dpkg-preconfigure: unable to re-open stdin: No such file or directory
 82s Fetched 237 MB in 5s (47.9 MB/s)
 83s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 83s Preparing to unpack .../debianutils_5.23.2build1_amd64.deb ...
 83s Unpacking debianutils (5.23.2build1) over (5.23.2) ...
 83s Setting up debianutils (5.23.2build1) ...
 83s (Reading database ... 
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 83s Preparing to unpack .../dash_0.5.12-12ubuntu3_amd64.deb ...
 83s Unpacking dash (0.5.12-12ubuntu3) over (0.5.12-12ubuntu2) ...
 83s Setting up dash (0.5.12-12ubuntu3) ...
 83s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 83s Preparing to unpack .../findutils_4.10.0-3build2_amd64.deb ...
 83s Unpacking findutils (4.10.0-3build2) over (4.10.0-3build1) ...
 83s Setting up findutils (4.10.0-3build2) ...
 83s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 83s Preparing to unpack .../sed_4.9-2build3_amd64.deb ...
 83s Unpacking sed (4.9-2build3) over (4.9-2build2) ...
 83s Setting up sed (4.9-2build3) ...
 83s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
 83s Preparing to unpack .../tar_1.35+dfsg-3.1build2_amd64.deb ...
 83s Unpacking tar (1.35+dfsg-3.1build2) over (1.35+dfsg-3.1build1) ...
 83s Setting up tar (1.35+dfsg-3.1build2) ...
 83s (Reading database ... 
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 93s man-db.service is a disabled or a static unit not running, not starting it.
 93s Setting up libjansson4:amd64 (2.14-2build4) ...
 93s Setting up libglib2.0-data (2.87.2-2) ...
 93s Setting up pollinate (4.33-4ubuntu5) ...
103s Setting up busybox-static (1:1.37.0-7ubuntu1) ...
103s Setting up libwrap0:amd64 (7.6.q-36build2) ...
103s Setting up linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
104s I: /boot/vmlinuz is now a symlink to vmlinuz-6.19.0-3-generic
104s I: /boot/initrd.img is now a symlink to initrd.img-6.19.0-3-generic
104s Setting up libdbus-1-3:amd64 (1.16.2-2ubuntu3) ...
104s Setting up libatomic1:amd64 (16-20260208-1ubuntu1) ...
104s Setting up patch (2.8-2build1) ...
104s Setting up libsensors5:amd64 (1:3.6.2-2build1) ...
104s Setting up busybox-initramfs (1:1.37.0-7ubuntu1) ...
104s Setting up libxtables12:amd64 (1.8.11-2ubuntu3) ...
104s Setting up lsof (4.99.4+dfsg-2build2) ...
104s Setting up libpci3:amd64 (1:3.14.0-1build2) ...
104s Setting up libdevmapper1.02.1:amd64 (2:1.02.205-2ubuntu3) ...
104s Setting up dracut-install (109-11ubuntu1) ...
104s Setting up dmsetup (2:1.02.205-2ubuntu3) ...
104s Setting up libnetfilter-conntrack3:amd64 (1.1.1-1) ...
104s Setting up pnp.ids (0.394-1build1) ...
104s Setting up dbus-session-bus-common (1.16.2-2ubuntu3) ...
104s Setting up python3-linkify-it (2.0.3-1ubuntu3) ...
104s Setting up libpcap0.8t64:amd64 (1.10.5-2ubuntu3) ...
104s Setting up libcryptsetup12:amd64 (2:2.8.0-1ubuntu3) ...
104s Setting up mawk (1.3.4.20260129-1) ...
104s Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10build2) ...
104s Setting up libusb-1.0-0:amd64 (2:1.0.29-2build1) ...
104s Setting up linux-image-virtual (6.19.0-3.3) ...
104s Setting up dbus-system-bus-common (1.16.2-2ubuntu3) ...
105s Setting up libbsd0:amd64 (0.12.2-2build2) ...
105s Setting up libdrm-common (2.4.131-1) ...
105s Setting up libstdc++6:amd64 (16-20260208-1ubuntu1) ...
105s Setting up dbus-bin (1.16.2-2ubuntu3) ...
105s Setting up libonig5:amd64 (6.9.10-1build1) ...
105s Setting up libbpf1:amd64 (1:1.6.2-1build1) ...
105s Setting up ethtool (1:6.15-3build1) ...
105s Setting up python3-referencing (0.36.2-1ubuntu2) ...
105s Setting up libxkbcommon0:amd64 (1.13.1-1) ...
105s Setting up cryptsetup-bin (2:2.8.0-1ubuntu3) ...
105s Setting up linux-headers-6.19.0-3-generic (6.19.0-3.3) ...
105s Setting up tcpdump (4.99.5-2ubuntu3) ...
105s Setting up linux-image-generic (6.19.0-3.3) ...
105s Setting up wget (1.25.0-2ubuntu4) ...
105s Setting up libpython3.14-stdlib:amd64 (3.14.2-1) ...
105s Setting up iptables (1.8.11-2ubuntu3) ...
105s Setting up iproute2 (6.18.0-1ubuntu1) ...
105s Setting up linux-headers-generic (6.19.0-3.3) ...
105s Setting up dbus-daemon (1.16.2-2ubuntu3) ...
105s Setting up hwdata (0.394-1build1) ...
105s Setting up dbus-user-session (1.16.2-2ubuntu3) ...
105s Setting up libglib2.0-0t64:amd64 (2.87.2-2) ...
105s No schema files found: doing nothing.
105s Setting up dbus (1.16.2-2ubuntu3) ...
105s A reboot is required to replace the running dbus-daemon.
105s Please reboot the system when convenient.
105s Setting up shared-mime-info (2.4-5build3) ...
106s Setting up gir1.2-glib-2.0:amd64 (2.87.2-2) ...
106s Setting up pciutils (1:3.14.0-1build2) ...
106s Setting up python3-markdown-it (3.0.0-3build1) ...
106s Setting up libdrm2:amd64 (2.4.131-1) ...
106s Setting up libpython3.14:amd64 (3.14.2-1) ...
106s Setting up libapt-pkg7.0:amd64 (3.1.15) ...
106s Setting up linux-tools-common (6.19.0-3.3) ...
106s Setting up libgudev-1.0-0:amd64 (1:238-7build1) ...
106s Setting up libdrm-amdgpu1:amd64 (2.4.131-1) ...
106s Setting up apt (3.1.15) ...
106s Setting up linux-headers-virtual (6.19.0-3.3) ...
106s Setting up linux-generic (6.19.0-3.3) ...
106s Setting up libgirepository-2.0-0:amd64 (2.87.2-2) ...
106s Setting up linux-tools-6.19.0-3 (6.19.0-3.3) ...
106s Setting up ubuntu-standard (1.564) ...
106s Setting up gir1.2-girepository-3.0:amd64 (2.87.2-2) ...
106s Setting up linux-virtual (6.19.0-3.3) ...
106s Setting up linux-perf (6.19.0-3.3) ...
106s Setting up linux-tools-6.19.0-3-generic (6.19.0-3.3) ...
106s Processing triggers for debianutils (5.23.2build1) ...
107s Processing triggers for install-info (7.2-5) ...
107s Processing triggers for initramfs-tools (0.150ubuntu7) ...
107s update-initramfs: Generating /boot/initrd.img-6.18.0-9-generic
112s Processing triggers for libc-bin (2.42-2ubuntu4) ...
112s Processing triggers for linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
112s /etc/kernel/postinst.d/initramfs-tools:
112s update-initramfs: Generating /boot/initrd.img-6.19.0-3-generic
116s /etc/kernel/postinst.d/zz-update-grub:
116s Sourcing file `/etc/default/grub'
116s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
116s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
116s Generating grub configuration file ...
116s Found linux image: /boot/vmlinuz-6.19.0-3-generic
116s Found initrd image: /boot/initrd.img-6.19.0-3-generic
116s Found linux image: /boot/vmlinuz-6.18.0-9-generic
116s Found initrd image: /boot/initrd.img-6.18.0-9-generic
116s Warning: os-prober will not be executed to detect other bootable partitions.
116s Systems on them will not be added to the GRUB boot configuration.
116s Check GRUB_DISABLE_OS_PROBER documentation entry.
116s Adding boot menu entry for UEFI Firmware Settings ...
116s done
116s autopkgtest [04:11:52]: upgrading testbed (apt dist-upgrade and autopurge)
117s Reading package lists...
117s Building dependency tree...
117s Reading state information...
117s Calculating upgrade...
117s The following package was automatically installed and is no longer required:
117s   libpython3.13
117s Use 'sudo apt autoremove' to remove it.
117s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
118s Reading package lists...
118s Building dependency tree...
118s Reading state information...
118s Solving dependencies...
118s The following packages will be REMOVED:
118s   libpython3.13*
118s 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded.
118s After this operation, 7599 kB disk space will be freed.
118s (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 ... 125273 files and directories currently installed.)
118s Removing libpython3.13:amd64 (3.13.11-1) ...
118s Processing triggers for libc-bin (2.42-2ubuntu4) ...
118s autopkgtest [04:11:54]: rebooting testbed after setup commands that affected boot
147s autopkgtest [04:12:23]: testbed running kernel: Linux 6.19.0-3-generic #3-Ubuntu SMP PREEMPT_DYNAMIC Fri Jan 23 20:01:24 UTC 2026
149s autopkgtest [04:12:25]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-deseq2
150s Get:1 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-deseq2 1.46.0+dfsg-2 (dsc) [2408 B]
150s Get:2 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-deseq2 1.46.0+dfsg-2 (tar) [597 kB]
150s Get:3 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-deseq2 1.46.0+dfsg-2 (diff) [5208 B]
151s gpgv: Signature made Mon Jan 13 07:59:02 2025 UTC
151s gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
151s gpgv:                issuer "crusoe@debian.org"
151s gpgv: Can't check signature: No public key
151s dpkg-source: warning: cannot verify inline signature for ./r-bioc-deseq2_1.46.0+dfsg-2.dsc: no acceptable signature found
151s autopkgtest [04:12:27]: testing package r-bioc-deseq2 version 1.46.0+dfsg-2
151s autopkgtest [04:12:27]: build not needed
153s autopkgtest [04:12:29]: test pkg-r-autopkgtest: preparing testbed
153s Reading package lists...
153s Building dependency tree...
153s Reading state information...
154s Solving dependencies...
154s The following NEW packages will be installed:
154s   build-essential comerr-dev cpp cpp-15 cpp-15-x86-64-linux-gnu
154s   cpp-x86-64-linux-gnu dctrl-tools fontconfig fontconfig-config
154s   fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome
154s   fonts-glyphicons-halflings fonts-mathjax g++ g++-15 g++-15-x86-64-linux-gnu
154s   g++-x86-64-linux-gnu gcc gcc-15 gcc-15-x86-64-linux-gnu gcc-x86-64-linux-gnu
154s   gfortran gfortran-15 gfortran-15-x86-64-linux-gnu gfortran-x86-64-linux-gnu
154s   hdf5-helpers icu-devtools javascript-common krb5-multidev libaec-dev libaec0
154s   libasan8 libblas-dev libblas3 libblosc1 libboost-dev libboost1.90-dev
154s   libbrotli-dev libbz2-dev libc-dev-bin libc6-dev libcairo2 libcc1-0
154s   libcrypt-dev libcurl4-openssl-dev libdatrie1 libdeflate-dev libdeflate0
154s   libevent-2.1-7t64 libfontconfig1 libgcc-15-dev libgfortran-15-dev
154s   libgfortran5 libgmp-dev libgmpxx4ldbl libgnutls-dane0t64
154s   libgnutls-openssl27t64 libgnutls28-dev libgomp1 libgraphite2-3 libgssrpc4t64
154s   libharfbuzz0b libhdf5-310 libhdf5-cpp-310 libhdf5-dev libhdf5-fortran-310
154s   libhdf5-hl-310 libhdf5-hl-cpp-310 libhdf5-hl-fortran-310 libhnswlib-dev
154s   libhwasan0 libice6 libicu-dev libidn2-dev libisl23 libitm1 libjbig0
154s   libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev
154s   libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim libjs-highlight.js
154s   libjs-jquery libjs-jquery-datatables libjs-jquery-selectize.js
154s   libjs-jquery-ui libjs-json libjs-mathjax libjs-microplugin.js
154s   libjs-modernizr libjs-popper.js libjs-prettify libjs-sifter.js
154s   libjs-twitter-bootstrap-datepicker libkadm5clnt-mit12 libkadm5srv-mit12
154s   libkdb5-10t64 libkrb5-dev liblapack-dev liblapack3 libldap-dev liblerc4
154s   liblsan0 liblua5.4-0 liblzma-dev libmpc3 libncurses-dev libnghttp2-dev
154s   libp11-kit-dev libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
154s   libpaper-utils libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev
154s   libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev libpsl-dev libquadmath0
154s   libreadline-dev librtmp-dev libsharpyuv0 libsm6 libsnappy1v5 libssh2-1-dev
154s   libssl-dev libstdc++-15-dev libsz2 libtasn1-6-dev libtcl8.6 libthai-data
154s   libthai0 libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libunbound8
154s   libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64
154s   libzstd-dev linux-libc-dev nettle-dev node-bootstrap-sass node-html5shiv
154s   node-normalize.css pandoc pandoc-data pkg-r-autopkgtest pkgconf pkgconf-bin
154s   r-base-core r-base-dev r-bioc-annotationdbi r-bioc-annotationfilter
154s   r-bioc-annotationhub r-bioc-assorthead r-bioc-beachmat r-bioc-biobase
154s   r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel
154s   r-bioc-biocversion r-bioc-biomart r-bioc-biostrings r-bioc-delayedarray
154s   r-bioc-delayedmatrixstats r-bioc-deseq2 r-bioc-ensembldb r-bioc-genomeinfodb
154s   r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures
154s   r-bioc-genomicranges r-bioc-glmgampoi r-bioc-hdf5array r-bioc-iranges
154s   r-bioc-keggrest r-bioc-matrixgenerics r-bioc-protgenerics r-bioc-rhdf5
154s   r-bioc-rhdf5filters r-bioc-rhdf5lib r-bioc-rhtslib r-bioc-rsamtools
154s   r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors
154s   r-bioc-singlecellexperiment r-bioc-sparsearray r-bioc-sparsematrixstats
154s   r-bioc-summarizedexperiment r-bioc-txdbmaker r-bioc-tximeta r-bioc-tximport
154s   r-bioc-tximportdata r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc
154s   r-cran-abind r-cran-askpass r-cran-base64enc r-cran-bh r-cran-biocmanager
154s   r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-brio r-cran-bslib
154s   r-cran-cachem r-cran-callr r-cran-cli r-cran-clipr r-cran-codetools
154s   r-cran-commonmark r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-dbi
154s   r-cran-dbplyr r-cran-desc r-cran-diffobj r-cran-digest r-cran-dplyr
154s   r-cran-evaluate r-cran-fansi r-cran-farver r-cran-fastmap r-cran-filelock
154s   r-cran-fontawesome r-cran-formatr r-cran-fs r-cran-futile.logger
154s   r-cran-futile.options r-cran-generics r-cran-ggplot2 r-cran-glue
154s   r-cran-gtable r-cran-highr r-cran-hms r-cran-htmltools r-cran-httpuv
154s   r-cran-httr r-cran-httr2 r-cran-isoband r-cran-jquerylib r-cran-jsonlite
154s   r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice
154s   r-cran-lazyeval r-cran-lifecycle r-cran-littler r-cran-locfit
154s   r-cran-magrittr r-cran-matrix r-cran-matrixstats r-cran-memoise r-cran-mime
154s   r-cran-openssl r-cran-pbapply r-cran-pheatmap r-cran-pillar r-cran-pkgbuild
154s   r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload r-cran-plogr r-cran-png
154s   r-cran-praise r-cran-prettyunits r-cran-processx r-cran-progress
154s   r-cran-promises r-cran-ps r-cran-purrr r-cran-r6 r-cran-rappdirs
154s   r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo r-cran-rcurl
154s   r-cran-readr r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown
154s   r-cran-rprojroot r-cran-rsqlite r-cran-s7 r-cran-sass r-cran-scales
154s   r-cran-shiny r-cran-snow r-cran-sourcetools r-cran-stringi r-cran-stringr
154s   r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect
154s   r-cran-tinytex r-cran-tzdb r-cran-utf8 r-cran-vctrs r-cran-viridislite
154s   r-cran-vroom r-cran-waldo r-cran-withr r-cran-xfun r-cran-xml r-cran-xml2
154s   r-cran-xtable r-cran-yaml rpcsvc-proto unzip x11-common xdg-utils zip
154s   zlib1g-dev
154s 0 upgraded, 340 newly installed, 0 to remove and 0 not upgraded.
154s Need to get 370 MB of archives.
154s After this operation, 1249 MB of additional disk space will be used.
154s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 libc-dev-bin amd64 2.42-2ubuntu4 [23.3 kB]
154s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-libc-dev amd64 6.19.0-3.3 [1846 kB]
154s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libcrypt-dev amd64 1:4.5.1-1 [122 kB]
154s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 rpcsvc-proto amd64 1.4.3-1build1 [68.3 kB]
154s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 libc6-dev amd64 2.42-2ubuntu4 [2207 kB]
154s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libisl23 amd64 0.27-1build1 [691 kB]
154s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 libmpc3 amd64 1.3.1-2 [54.8 kB]
154s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [12.9 MB]
155s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15 amd64 15.2.0-12ubuntu1 [1034 B]
155s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [5746 B]
155s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp amd64 4:15.2.0-4ubuntu1 [22.4 kB]
155s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libcc1-0 amd64 16-20260208-1ubuntu1 [51.2 kB]
155s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 16-20260208-1ubuntu1 [162 kB]
155s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libitm1 amd64 16-20260208-1ubuntu1 [30.2 kB]
155s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 libasan8 amd64 16-20260208-1ubuntu1 [3182 kB]
155s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsan0 amd64 16-20260208-1ubuntu1 [1392 kB]
155s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 libtsan2 amd64 16-20260208-1ubuntu1 [2838 kB]
155s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 libubsan1 amd64 16-20260208-1ubuntu1 [1238 kB]
155s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 libhwasan0 amd64 16-20260208-1ubuntu1 [1729 kB]
155s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libquadmath0 amd64 16-20260208-1ubuntu1 [155 kB]
155s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-15-dev amd64 15.2.0-12ubuntu1 [2866 kB]
155s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [25.4 MB]
155s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15 amd64 15.2.0-12ubuntu1 [530 kB]
155s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1208 B]
155s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc amd64 4:15.2.0-4ubuntu1 [5024 B]
155s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libstdc++-15-dev amd64 15.2.0-12ubuntu1 [2553 kB]
155s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [14.4 MB]
156s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15 amd64 15.2.0-12ubuntu1 [25.3 kB]
156s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [966 B]
156s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 g++ amd64 4:15.2.0-4ubuntu1 [1100 B]
156s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 build-essential amd64 12.12ubuntu2 [5256 B]
156s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 dctrl-tools amd64 2.24-3build4 [104 kB]
156s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-mono all 2.37-8build1 [502 kB]
156s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-core all 2.37-8build1 [834 kB]
156s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.17.1-3ubuntu1 [38.5 kB]
156s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.17.1-3ubuntu1 [144 kB]
156s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig amd64 2.17.1-3ubuntu1 [180 kB]
156s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1build1 [531 kB]
156s Get:39 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-6 [119 kB]
156s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-mathjax all 2.7.9+dfsg-1build1 [2283 kB]
156s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 16-20260208-1ubuntu1 [957 kB]
156s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran-15-dev amd64 15.2.0-12ubuntu1 [973 kB]
156s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [13.6 MB]
156s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15 amd64 15.2.0-12ubuntu1 [18.1 kB]
156s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1014 B]
156s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran amd64 4:15.2.0-4ubuntu1 [1172 B]
156s Get:47 http://ftpmaster.internal/ubuntu resolute/universe amd64 hdf5-helpers amd64 1.14.6+repack-2 [17.3 kB]
156s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 icu-devtools amd64 78.2-1ubuntu1 [214 kB]
156s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 javascript-common all 12+nmu1build1 [4864 B]
156s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 comerr-dev amd64 2.1-1.47.2-3ubuntu2 [45.0 kB]
156s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 libgssrpc4t64 amd64 1.22.1-2 [57.9 kB]
156s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 libkadm5clnt-mit12 amd64 1.22.1-2 [40.2 kB]
156s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libkdb5-10t64 amd64 1.22.1-2 [41.6 kB]
156s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 libkadm5srv-mit12 amd64 1.22.1-2 [55.0 kB]
156s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 krb5-multidev amd64 1.22.1-2 [126 kB]
156s Get:56 http://ftpmaster.internal/ubuntu resolute/universe amd64 libaec0 amd64 1.1.5-1 [22.5 kB]
156s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7ubuntu1 [260 kB]
156s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas-dev amd64 3.12.1-7ubuntu1 [235 kB]
156s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libsnappy1v5 amd64 1.2.2-2 [30.8 kB]
156s Get:60 http://ftpmaster.internal/ubuntu resolute/universe amd64 libblosc1 amd64 1.21.5+ds-2 [35.8 kB]
156s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 libboost1.90-dev amd64 1.90.0-2ubuntu1 [11.5 MB]
156s Get:62 http://ftpmaster.internal/ubuntu resolute/main amd64 libboost-dev amd64 1.90.0.0ubuntu3 [4764 B]
156s Get:63 http://ftpmaster.internal/ubuntu resolute/main amd64 libbrotli-dev amd64 1.1.0-2build6 [355 kB]
156s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 libbz2-dev amd64 1.0.8-6build2 [36.2 kB]
156s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 libpixman-1-0 amd64 0.46.4-1 [287 kB]
156s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-render0 amd64 1.17.0-2ubuntu1 [16.2 kB]
156s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-shm0 amd64 1.17.0-2ubuntu1 [5808 B]
156s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB]
157s Get:69 http://ftpmaster.internal/ubuntu resolute/main amd64 libcairo2 amd64 1.18.4-3 [579 kB]
157s Get:70 http://ftpmaster.internal/ubuntu resolute/main amd64 libidn2-dev amd64 2.3.8-4build1 [121 kB]
157s Get:71 http://ftpmaster.internal/ubuntu resolute/main amd64 libkrb5-dev amd64 1.22.1-2 [11.9 kB]
157s Get:72 http://ftpmaster.internal/ubuntu resolute/main amd64 libldap-dev amd64 2.6.10+dfsg-1ubuntu5 [315 kB]
157s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 libpkgconf3 amd64 1.8.1-4build1 [32.8 kB]
157s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf-bin amd64 1.8.1-4build1 [21.7 kB]
157s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf amd64 1.8.1-4build1 [16.8 kB]
157s Get:76 http://ftpmaster.internal/ubuntu resolute/main amd64 libnghttp2-dev amd64 1.64.0-1.1ubuntu1 [120 kB]
157s Get:77 http://ftpmaster.internal/ubuntu resolute/main amd64 libpsl-dev amd64 0.21.2-1.1build2 [78.7 kB]
157s Get:78 http://ftpmaster.internal/ubuntu resolute/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5ubuntu1 [9956 B]
157s Get:79 http://ftpmaster.internal/ubuntu resolute/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5ubuntu1 [342 kB]
157s Get:80 http://ftpmaster.internal/ubuntu resolute/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10build2 [145 kB]
157s Get:81 http://ftpmaster.internal/ubuntu resolute/main amd64 libunbound8 amd64 1.24.2-1ubuntu1 [462 kB]
157s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 libgnutls-dane0t64 amd64 3.8.10-3ubuntu1 [24.5 kB]
157s Get:83 http://ftpmaster.internal/ubuntu resolute/main amd64 libgnutls-openssl27t64 amd64 3.8.10-3ubuntu1 [24.8 kB]
157s Get:84 http://ftpmaster.internal/ubuntu resolute/main amd64 libp11-kit-dev amd64 0.25.10-1 [29.3 kB]
157s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 libtasn1-6-dev amd64 4.21.0-2 [92.4 kB]
157s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 nettle-dev amd64 3.10.2-1 [1176 kB]
157s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 libgnutls28-dev amd64 3.8.10-3ubuntu1 [1096 kB]
157s Get:88 http://ftpmaster.internal/ubuntu resolute/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu2 [898 kB]
157s Get:89 http://ftpmaster.internal/ubuntu resolute/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [69.2 kB]
157s Get:90 http://ftpmaster.internal/ubuntu resolute/main amd64 libssl-dev amd64 3.5.3-1ubuntu2 [2936 kB]
157s Get:91 http://ftpmaster.internal/ubuntu resolute/main amd64 libssh2-1-dev amd64 1.11.1-1build1 [288 kB]
157s Get:92 http://ftpmaster.internal/ubuntu resolute/main amd64 libzstd-dev amd64 1.5.7+dfsg-3 [376 kB]
157s Get:93 http://ftpmaster.internal/ubuntu resolute/main amd64 libcurl4-openssl-dev amd64 8.18.0-1ubuntu1 [543 kB]
157s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 libdatrie1 amd64 0.2.14-1 [19.8 kB]
157s Get:95 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2build1 [51.6 kB]
157s Get:96 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate-dev amd64 1.23-2build1 [58.8 kB]
157s Get:97 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-11ubuntu1 [73.7 kB]
157s Get:98 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 12.3.2-1 [519 kB]
157s Get:99 http://ftpmaster.internal/ubuntu resolute/universe amd64 libsz2 amd64 1.1.5-1 [17.9 kB]
157s Get:100 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-310 amd64 1.14.6+repack-2 [1433 kB]
157s Get:101 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-cpp-310 amd64 1.14.6+repack-2 [125 kB]
157s Get:102 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-fortran-310 amd64 1.14.6+repack-2 [106 kB]
157s Get:103 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-hl-310 amd64 1.14.6+repack-2 [59.9 kB]
157s Get:104 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-hl-fortran-310 amd64 1.14.6+repack-2 [32.1 kB]
157s Get:105 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-hl-cpp-310 amd64 1.14.6+repack-2 [11.9 kB]
157s Get:106 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu3 [156 kB]
157s Get:107 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8-dev amd64 2.1.5-4ubuntu3 [300 kB]
157s Get:108 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu12 [2142 B]
157s Get:109 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8-dev amd64 8c-2ubuntu12 [1480 B]
157s Get:110 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-dev amd64 8c-2ubuntu12 [1480 B]
157s Get:111 http://ftpmaster.internal/ubuntu resolute/universe amd64 libaec-dev amd64 1.1.5-1 [23.5 kB]
157s Get:112 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhdf5-dev amd64 1.14.6+repack-2 [3386 kB]
157s Get:113 http://ftpmaster.internal/ubuntu resolute/universe amd64 libhnswlib-dev all 0.8.0-1build4 [24.4 kB]
157s Get:114 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB]
157s Get:115 http://ftpmaster.internal/ubuntu resolute/main amd64 libice6 amd64 2:1.1.1-1build1 [44.0 kB]
157s Get:116 http://ftpmaster.internal/ubuntu resolute/main amd64 libicu-dev amd64 78.2-1ubuntu1 [12.5 MB]
158s Get:117 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap all 3.4.1+dfsg-6 [129 kB]
158s Get:118 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-popper.js all 1.16.1+ds-6build1 [53.8 kB]
158s Get:119 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap4 all 4.6.2+dfsg-1 [532 kB]
158s Get:120 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-d3 all 3.5.17-4build1 [136 kB]
158s Get:121 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB]
158s Get:122 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-highlight.js all 10.7.3+dfsg-2 [144 kB]
158s Get:123 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1build1 [321 kB]
158s Get:124 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2build1 [145 kB]
158s Get:125 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB]
158s Get:126 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-2 [3946 B]
158s Get:127 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB]
158s Get:128 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1build1 [251 kB]
158s Get:129 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-json all 0~20221030+~1.0.8-1build1 [20.6 kB]
158s Get:130 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-prettify all 2015.12.04+dfsg-3 [41.4 kB]
158s Get:131 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7ubuntu1 [2739 kB]
158s Get:132 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack-dev amd64 3.12.1-7ubuntu1 [5433 kB]
158s Get:133 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu2 [207 kB]
158s Get:134 http://ftpmaster.internal/ubuntu resolute/main amd64 liblua5.4-0 amd64 5.4.8-1 [174 kB]
158s Get:135 http://ftpmaster.internal/ubuntu resolute/main amd64 libncurses-dev amd64 6.6+20251231-1 [389 kB]
158s Get:136 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai-data all 0.1.30-1 [155 kB]
158s Get:137 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai0 amd64 0.1.30-1 [19.2 kB]
158s Get:138 http://ftpmaster.internal/ubuntu resolute/main amd64 libpango-1.0-0 amd64 1.57.0-1 [241 kB]
158s Get:139 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangoft2-1.0-0 amd64 1.57.0-1 [53.3 kB]
158s Get:140 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangocairo-1.0-0 amd64 1.57.0-1 [29.0 kB]
158s Get:141 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper2 amd64 2.2.5-0.3build1 [17.3 kB]
158s Get:142 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper-utils amd64 2.2.5-0.3build1 [15.6 kB]
158s Get:143 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-16-0 amd64 10.46-1 [243 kB]
158s Get:144 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-32-0 amd64 10.46-1 [230 kB]
158s Get:145 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-posix3 amd64 10.46-1 [7354 B]
158s Get:146 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-dev amd64 10.46-1 [832 kB]
158s Get:147 http://ftpmaster.internal/ubuntu resolute/main amd64 libpng-dev amd64 1.6.54-1 [273 kB]
158s Get:148 http://ftpmaster.internal/ubuntu resolute/main amd64 libreadline-dev amd64 8.3-3 [189 kB]
158s Get:149 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1build1 [17.6 kB]
158s Get:150 http://ftpmaster.internal/ubuntu resolute/main amd64 libsm6 amd64 2:1.2.6-1build1 [16.9 kB]
158s Get:151 http://ftpmaster.internal/ubuntu resolute/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1build1 [1003 kB]
158s Get:152 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu3 [30.0 kB]
158s Get:153 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1build1 [264 kB]
158s Get:154 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB]
158s Get:155 http://ftpmaster.internal/ubuntu resolute/main amd64 libxft2 amd64 2.3.6-1build2 [45.1 kB]
158s Get:156 http://ftpmaster.internal/ubuntu resolute/main amd64 libxss1 amd64 1:1.2.3-1build4 [7084 B]
158s Get:157 http://ftpmaster.internal/ubuntu resolute/main amd64 libtk8.6 amd64 8.6.17-1 [823 kB]
158s Get:158 http://ftpmaster.internal/ubuntu resolute/main amd64 libxt6t64 amd64 1:1.2.1-1.3 [173 kB]
158s Get:159 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB]
158s Get:160 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB]
158s Get:161 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-normalize.css all 8.0.1-5.1 [10.4 kB]
158s Get:162 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc-data all 3.1.11.1-3build1 [78.8 kB]
158s Get:163 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc amd64 3.1.11.1+ds-4 [27.2 MB]
158s Get:164 http://ftpmaster.internal/ubuntu resolute/main amd64 zip amd64 3.0-15ubuntu3 [175 kB]
158s Get:165 http://ftpmaster.internal/ubuntu resolute/main amd64 unzip amd64 6.0-29ubuntu1 [180 kB]
158s Get:166 http://ftpmaster.internal/ubuntu resolute/main amd64 xdg-utils all 1.2.1-2ubuntu2 [66.1 kB]
158s Get:167 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-core amd64 4.5.2-1ubuntu2 [28.8 MB]
159s Get:168 http://ftpmaster.internal/ubuntu resolute/main amd64 liblzma-dev amd64 5.8.2-2 [179 kB]
159s Get:169 http://ftpmaster.internal/ubuntu resolute/main amd64 libtirpc-dev amd64 1.3.6+ds-1 [195 kB]
159s Get:170 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-dev all 4.5.2-1ubuntu2 [1880 B]
159s Get:171 http://ftpmaster.internal/ubuntu resolute/universe amd64 pkg-r-autopkgtest all 20250812 [6158 B]
159s Get:172 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocgenerics all 0.52.0-2 [624 kB]
159s Get:173 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biobase amd64 2.66.0-2 [2332 kB]
159s Get:174 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-s4vectors amd64 0.44.0+dfsg-2 [2065 kB]
159s Get:175 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-iranges amd64 2.40.1-3 [2309 kB]
159s Get:176 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dbi all 1.2.3-1build1 [855 kB]
159s Get:177 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bit amd64 4.6.0+dfsg-1 [466 kB]
159s Get:178 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bit64 amd64 4.6.0-1-4 [491 kB]
159s Get:179 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rlang amd64 1.1.5-3 [1721 kB]
159s Get:180 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB]
159s Get:181 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB]
159s Get:182 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lifecycle all 1.0.5+dfsg-1 [120 kB]
159s Get:183 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB]
159s Get:184 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-blob all 1.3.0-1 [54.1 kB]
159s Get:185 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB]
159s Get:186 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB]
159s Get:187 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-memoise all 2.0.1-1build1 [54.5 kB]
159s Get:188 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgconfig all 2.0.3-2build2 [20.4 kB]
159s Get:189 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-plogr all 0.2.0-3build2 [15.8 kB]
159s Get:190 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cpp11 all 0.5.3-1 [242 kB]
160s Get:191 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rsqlite amd64 2.3.9-1 [1467 kB]
160s Get:192 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-curl amd64 7.0.0+dfsg-1 [202 kB]
160s Get:193 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB]
160s Get:194 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB]
160s Get:195 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sys amd64 3.4.3-1 [45.3 kB]
160s Get:196 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-askpass amd64 1.2.1-1 [24.9 kB]
160s Get:197 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-openssl amd64 2.3.2+dfsg-1 [407 kB]
160s Get:198 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB]
160s Get:199 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB]
160s Get:200 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-png amd64 0.1-8-1build2 [40.6 kB]
160s Get:201 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB]
160s Get:202 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-xvector amd64 0.46.0-2 [620 kB]
160s Get:203 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB]
160s Get:204 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB]
160s Get:205 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB]
160s Get:206 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB]
160s Get:207 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biostrings amd64 2.74.1+dfsg-2 [13.3 MB]
160s Get:208 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-keggrest all 1.46.0+dfsg-3 [183 kB]
160s Get:209 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-annotationdbi all 1.68.0-2 [4857 kB]
160s Get:210 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomicranges amd64 1.58.0+dfsg-2 [2083 kB]
160s Get:211 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lazyeval amd64 0.2.2-1build2 [146 kB]
160s Get:212 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-annotationfilter all 1.30.0+dfsg-2 [247 kB]
160s Get:213 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-generics all 0.1.4-1 [84.0 kB]
160s Get:214 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB]
160s Get:215 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-utf8 amd64 1.2.4-1 [140 kB]
160s Get:216 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pillar all 1.11.1+dfsg-1 [456 kB]
160s Get:217 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fansi amd64 1.0.6-2 [626 kB]
160s Get:218 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tibble amd64 3.2.1+dfsg-3 [419 kB]
160s Get:219 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-withr all 3.0.2+dfsg-1 [214 kB]
160s Get:220 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tidyselect amd64 1.2.1+dfsg-1 [222 kB]
160s Get:221 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dplyr amd64 1.1.4-4 [1536 kB]
161s Get:222 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-purrr amd64 1.0.4-1 [552 kB]
161s Get:223 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-stringi amd64 1.8.4-1build2 [908 kB]
161s Get:224 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB]
161s Get:225 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tidyr amd64 1.3.1-1 [1156 kB]
161s Get:226 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dbplyr all 2.5.1+dfsg-1 [1237 kB]
161s Get:227 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-filelock amd64 1.0.3-1 [29.6 kB]
161s Get:228 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocfilecache all 2.14.0+dfsg-2 [300 kB]
161s Get:229 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB]
161s Get:230 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocversion all 3.20.0-2 [11.1 kB]
161s Get:231 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rappdirs amd64 0.3.3-1build1 [49.3 kB]
161s Get:232 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB]
161s Get:233 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-annotationhub all 3.14.0+dfsg-2 [447 kB]
161s Get:234 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-assorthead all 1.0.1+ds-2 [194 kB]
161s Get:235 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lattice amd64 0.22-7-1 [1367 kB]
161s Get:236 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrix amd64 1.7-4-1 [4220 kB]
161s Get:237 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrixstats amd64 1.5.0-1 [542 kB]
161s Get:238 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-matrixgenerics all 1.18.1-1 [450 kB]
161s Get:239 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-abind all 1.4-8-1build1 [67.0 kB]
161s Get:240 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-s4arrays amd64 1.6.0+dfsg-2 [698 kB]
161s Get:241 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-sparsearray amd64 1.6.2+dfsg-2 [1391 kB]
161s Get:242 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-delayedarray amd64 0.32.0+dfsg-2 [2064 kB]
161s Get:243 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-littler amd64 0.3.22-1 [85.5 kB]
161s Get:244 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB]
161s Get:245 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcpp amd64 1.1.0-1 [2021 kB]
161s Get:246 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-beachmat amd64 2.22.0+ds-3 [958 kB]
161s Get:247 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocio all 1.16.0+dfsg-2 [209 kB]
161s Get:248 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-formatr all 1.14-2 [152 kB]
161s Get:249 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lambda.r all 1.2.4-2build2 [118 kB]
161s Get:250 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-futile.options all 1.0.1-3build2 [20.5 kB]
161s Get:251 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-futile.logger all 1.4.3-4build2 [98.4 kB]
161s Get:252 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-snow all 1:0.4.4-2build1 [98.7 kB]
161s Get:253 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-codetools all 0.2-20-1build1 [91.1 kB]
161s Get:254 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bh all 1.84.0-1 [5962 B]
161s Get:255 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocparallel amd64 1.40.0-2 [1337 kB]
161s Get:256 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-hms all 1.1.4-1 [102 kB]
161s Get:257 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-prettyunits all 1.2.0-1 [162 kB]
161s Get:258 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-progress all 1.2.3-1 [91.9 kB]
161s Get:259 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httr2 all 1.1.1-2 [752 kB]
161s Get:260 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-digest amd64 0.6.39-1 [203 kB]
161s Get:261 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xml2 amd64 1.4.1-1 [329 kB]
161s Get:262 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biomart all 2.62.1+dfsg-1 [444 kB]
161s Get:263 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-sparsematrixstats amd64 1.18.0+dfsg-2 [877 kB]
161s Get:264 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-delayedmatrixstats all 1.28.1+ds-1 [502 kB]
161s Get:265 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1109 kB]
162s Get:266 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-locfit amd64 1.5-9.12-1 [552 kB]
162s Get:267 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-gtable all 0.3.6+dfsg-1 [199 kB]
162s Get:268 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-isoband amd64 0.2.7-1 [1481 kB]
162s Get:269 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-s7 amd64 0.2.0-1 [328 kB]
162s Get:270 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-farver amd64 2.1.2-1 [1355 kB]
162s Get:271 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-labeling all 0.4.3-1 [62.1 kB]
162s Get:272 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcolorbrewer all 1.1-3-1build2 [54.0 kB]
162s Get:273 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-viridislite all 0.4.3-1 [1088 kB]
162s Get:274 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-scales all 1.4.0-1 [725 kB]
162s Get:275 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 r-cran-ggplot2 all 4.0.2+dfsg-1 [4941 kB]
162s Get:276 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcpparmadillo amd64 15.2.3-1-1 [919 kB]
162s Get:277 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-deseq2 amd64 1.46.0+dfsg-2 [1250 kB]
162s Get:278 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xml amd64 3.99-0.20-1 [1751 kB]
162s Get:279 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bitops amd64 1.0-9-1 [30.3 kB]
162s Get:280 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-rhtslib amd64 3.2.0+dfsg-2 [1499 kB]
162s Get:281 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-rsamtools amd64 2.22.0+dfsg-2 [3745 kB]
162s Get:282 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomicalignments amd64 1.42.0-2 [2165 kB]
162s Get:283 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcurl amd64 1.98-1.16+dfsg-1 [807 kB]
162s Get:284 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rjson amd64 0.2.23-1 [104 kB]
162s Get:285 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-restfulr amd64 0.0.15-1 [380 kB]
162s Get:286 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-rtracklayer amd64 1.66.0-3 [5225 kB]
163s Get:287 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomicfeatures all 1.58.0+dfsg-2 [937 kB]
163s Get:288 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-protgenerics all 1.38.0-2 [239 kB]
163s Get:289 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-ensembldb all 2.30.0+dfsg-3 [1520 kB]
163s Get:290 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-rhdf5lib amd64 1.28.0+dfsg-3 [97.2 kB]
163s Get:291 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-rhdf5filters amd64 1.18.1+dfsg-1 [137 kB]
163s Get:292 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-rhdf5 amd64 2.50.2+dfsg-1build1 [822 kB]
163s Get:293 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-hdf5array amd64 1.34.0-2build1 [8792 kB]
163s Get:294 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-singlecellexperiment all 1.28.1+ds-2 [829 kB]
163s Get:295 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-glmgampoi amd64 1.18.0+dfsg-2 [1240 kB]
163s Get:296 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-txdbmaker all 1.2.1+ds-2 [875 kB]
163s Get:297 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-tximport all 1.34.0+dfsg-2 [90.4 kB]
163s Get:298 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-tximeta all 1.24.0+dfsg-2 [436 kB]
163s Get:299 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-tximportdata all 1.34.0+ds-2 [9562 B]
163s Get:300 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-base64enc amd64 0.1-3-3build1 [28.5 kB]
163s Get:301 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-brio amd64 1.1.5-1 [39.0 kB]
163s Get:302 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB]
163s Get:303 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-5 [13.7 kB]
163s Get:304 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fs amd64 1.6.5+dfsg-1 [246 kB]
163s Get:305 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB]
163s Get:306 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bslib all 0.9.0+dfsg-3build1 [4560 kB]
163s Get:307 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ps amd64 1.9.0-1 [408 kB]
163s Get:308 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-processx amd64 3.8.6-1 [365 kB]
163s Get:309 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-callr all 3.7.6-1 [458 kB]
163s Get:310 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-clipr all 0.8.0-1build1 [54.0 kB]
163s Get:311 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-commonmark amd64 1.9.5-1 [138 kB]
163s Get:312 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-desc all 1.4.3-1 [359 kB]
163s Get:313 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-diffobj amd64 0.3.5-1build1 [1156 kB]
163s Get:314 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-evaluate all 1.0.5-1 [117 kB]
163s Get:315 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fontawesome all 0.5.3-1 [1331 kB]
163s Get:316 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xfun amd64 0.55+dfsg-1 [587 kB]
163s Get:317 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-highr all 0.11+dfsg-1 [38.5 kB]
163s Get:318 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-later amd64 1.4.1+dfsg-1 [154 kB]
163s Get:319 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-promises amd64 1.3.2+dfsg-1 [291 kB]
163s Get:320 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB]
163s Get:321 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-mathjax all 2.7.9+dfsg-1build1 [6017 kB]
164s Get:322 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-knitr all 1.51+dfsg-1 [847 kB]
164s Get:323 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pbapply all 1.7-2-1 [102 kB]
164s Get:324 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pheatmap all 1.0.13-1 [79.6 kB]
164s Get:325 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgbuild all 1.4.8-1 [219 kB]
164s Get:326 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rprojroot all 2.1.1-1 [131 kB]
164s Get:327 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgload all 1.4.1-1 [252 kB]
164s Get:328 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-praise all 1.0.0-4build2 [20.9 kB]
164s Get:329 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tzdb amd64 0.5.0-1 [538 kB]
164s Get:330 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-vroom amd64 1.7.0-1 [910 kB]
164s Get:331 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-readr amd64 2.1.6-1 [818 kB]
164s Get:332 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tinytex all 0.58-1 [148 kB]
164s Get:333 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-modernizr all 3.13.0-0.1build1 [100 kB]
164s Get:334 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xtable all 1:1.8-4-2build1 [691 kB]
164s Get:335 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB]
164s Get:336 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB]
164s Get:337 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-shiny all 1.10.0+dfsg-2 [3124 kB]
164s Get:338 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rmarkdown all 2.30+dfsg-1 [1501 kB]
164s Get:339 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-waldo all 0.6.2-1 [153 kB]
164s Get:340 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-testthat amd64 3.2.3-1 [1651 kB]
164s Preconfiguring packages ...
164s Fetched 370 MB in 10s (37.0 MB/s)
164s Selecting previously unselected package libc-dev-bin.
164s (Reading database ... 
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(Reading database ... 65%
(Reading database ... 70%
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 125269 files and directories currently installed.)
164s Preparing to unpack .../000-libc-dev-bin_2.42-2ubuntu4_amd64.deb ...
164s Unpacking libc-dev-bin (2.42-2ubuntu4) ...
165s Selecting previously unselected package linux-libc-dev:amd64.
165s Preparing to unpack .../001-linux-libc-dev_6.19.0-3.3_amd64.deb ...
165s Unpacking linux-libc-dev:amd64 (6.19.0-3.3) ...
165s Selecting previously unselected package libcrypt-dev:amd64.
165s Preparing to unpack .../002-libcrypt-dev_1%3a4.5.1-1_amd64.deb ...
165s Unpacking libcrypt-dev:amd64 (1:4.5.1-1) ...
165s Selecting previously unselected package rpcsvc-proto.
165s Preparing to unpack .../003-rpcsvc-proto_1.4.3-1build1_amd64.deb ...
165s Unpacking rpcsvc-proto (1.4.3-1build1) ...
165s Selecting previously unselected package libc6-dev:amd64.
165s Preparing to unpack .../004-libc6-dev_2.42-2ubuntu4_amd64.deb ...
165s Unpacking libc6-dev:amd64 (2.42-2ubuntu4) ...
165s Selecting previously unselected package libisl23:amd64.
165s Preparing to unpack .../005-libisl23_0.27-1build1_amd64.deb ...
165s Unpacking libisl23:amd64 (0.27-1build1) ...
165s Selecting previously unselected package libmpc3:amd64.
165s Preparing to unpack .../006-libmpc3_1.3.1-2_amd64.deb ...
165s Unpacking libmpc3:amd64 (1.3.1-2) ...
165s Selecting previously unselected package cpp-15-x86-64-linux-gnu.
165s Preparing to unpack .../007-cpp-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
165s Unpacking cpp-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
165s Selecting previously unselected package cpp-15.
165s Preparing to unpack .../008-cpp-15_15.2.0-12ubuntu1_amd64.deb ...
165s Unpacking cpp-15 (15.2.0-12ubuntu1) ...
165s Selecting previously unselected package cpp-x86-64-linux-gnu.
165s Preparing to unpack .../009-cpp-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
165s Unpacking cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
165s Selecting previously unselected package cpp.
165s Preparing to unpack .../010-cpp_4%3a15.2.0-4ubuntu1_amd64.deb ...
165s Unpacking cpp (4:15.2.0-4ubuntu1) ...
165s Selecting previously unselected package libcc1-0:amd64.
165s Preparing to unpack .../011-libcc1-0_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libcc1-0:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libgomp1:amd64.
165s Preparing to unpack .../012-libgomp1_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libgomp1:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libitm1:amd64.
165s Preparing to unpack .../013-libitm1_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libitm1:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libasan8:amd64.
165s Preparing to unpack .../014-libasan8_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libasan8:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package liblsan0:amd64.
165s Preparing to unpack .../015-liblsan0_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking liblsan0:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libtsan2:amd64.
165s Preparing to unpack .../016-libtsan2_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libtsan2:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libubsan1:amd64.
165s Preparing to unpack .../017-libubsan1_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libubsan1:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libhwasan0:amd64.
165s Preparing to unpack .../018-libhwasan0_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libhwasan0:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libquadmath0:amd64.
165s Preparing to unpack .../019-libquadmath0_16-20260208-1ubuntu1_amd64.deb ...
165s Unpacking libquadmath0:amd64 (16-20260208-1ubuntu1) ...
165s Selecting previously unselected package libgcc-15-dev:amd64.
165s Preparing to unpack .../020-libgcc-15-dev_15.2.0-12ubuntu1_amd64.deb ...
165s Unpacking libgcc-15-dev:amd64 (15.2.0-12ubuntu1) ...
165s Selecting previously unselected package gcc-15-x86-64-linux-gnu.
165s Preparing to unpack .../021-gcc-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
165s Unpacking gcc-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
165s Selecting previously unselected package gcc-15.
165s Preparing to unpack .../022-gcc-15_15.2.0-12ubuntu1_amd64.deb ...
165s Unpacking gcc-15 (15.2.0-12ubuntu1) ...
165s Selecting previously unselected package gcc-x86-64-linux-gnu.
165s Preparing to unpack .../023-gcc-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
165s Unpacking gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
165s Selecting previously unselected package gcc.
165s Preparing to unpack .../024-gcc_4%3a15.2.0-4ubuntu1_amd64.deb ...
165s Unpacking gcc (4:15.2.0-4ubuntu1) ...
166s Selecting previously unselected package libstdc++-15-dev:amd64.
166s Preparing to unpack .../025-libstdc++-15-dev_15.2.0-12ubuntu1_amd64.deb ...
166s Unpacking libstdc++-15-dev:amd64 (15.2.0-12ubuntu1) ...
166s Selecting previously unselected package g++-15-x86-64-linux-gnu.
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170s Selecting previously unselected package pandoc-data.
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170s Selecting previously unselected package r-base-core.
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171s Selecting previously unselected package liblzma-dev:amd64.
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171s Selecting previously unselected package r-bioc-biocgenerics.
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171s Selecting previously unselected package r-cran-dbi.
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171s Selecting previously unselected package r-bioc-zlibbioc.
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171s Selecting previously unselected package r-bioc-annotationdbi.
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172s Selecting previously unselected package r-bioc-genomicranges.
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172s Selecting previously unselected package r-bioc-annotationfilter.
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172s Selecting previously unselected package r-cran-generics.
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172s Selecting previously unselected package r-cran-fansi.
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172s Selecting previously unselected package r-cran-dplyr.
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172s Selecting previously unselected package r-cran-purrr.
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172s Selecting previously unselected package r-cran-stringi.
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172s Selecting previously unselected package r-cran-tidyr.
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172s Selecting previously unselected package r-cran-dbplyr.
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172s Selecting previously unselected package r-cran-filelock.
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172s Selecting previously unselected package r-bioc-biocfilecache.
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172s Selecting previously unselected package r-cran-biocmanager.
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172s Unpacking r-cran-biocmanager (1.30.25+dfsg-1) ...
172s Selecting previously unselected package r-bioc-biocversion.
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172s Unpacking r-bioc-biocversion (3.20.0-2) ...
172s Selecting previously unselected package r-cran-rappdirs.
172s Preparing to unpack .../230-r-cran-rappdirs_0.3.3-1build1_amd64.deb ...
172s Unpacking r-cran-rappdirs (0.3.3-1build1) ...
172s Selecting previously unselected package r-cran-yaml.
172s Preparing to unpack .../231-r-cran-yaml_2.3.10-1_amd64.deb ...
172s Unpacking r-cran-yaml (2.3.10-1) ...
172s Selecting previously unselected package r-bioc-annotationhub.
172s Preparing to unpack .../232-r-bioc-annotationhub_3.14.0+dfsg-2_all.deb ...
172s Unpacking r-bioc-annotationhub (3.14.0+dfsg-2) ...
172s Selecting previously unselected package r-bioc-assorthead.
172s Preparing to unpack .../233-r-bioc-assorthead_1.0.1+ds-2_all.deb ...
172s Unpacking r-bioc-assorthead (1.0.1+ds-2) ...
172s Selecting previously unselected package r-cran-lattice.
172s Preparing to unpack .../234-r-cran-lattice_0.22-7-1_amd64.deb ...
172s Unpacking r-cran-lattice (0.22-7-1) ...
172s Selecting previously unselected package r-cran-matrix.
172s Preparing to unpack .../235-r-cran-matrix_1.7-4-1_amd64.deb ...
172s Unpacking r-cran-matrix (1.7-4-1) ...
172s Selecting previously unselected package r-cran-matrixstats.
172s Preparing to unpack .../236-r-cran-matrixstats_1.5.0-1_amd64.deb ...
172s Unpacking r-cran-matrixstats (1.5.0-1) ...
172s Selecting previously unselected package r-bioc-matrixgenerics.
172s Preparing to unpack .../237-r-bioc-matrixgenerics_1.18.1-1_all.deb ...
172s Unpacking r-bioc-matrixgenerics (1.18.1-1) ...
172s Selecting previously unselected package r-cran-abind.
172s Preparing to unpack .../238-r-cran-abind_1.4-8-1build1_all.deb ...
172s Unpacking r-cran-abind (1.4-8-1build1) ...
172s Selecting previously unselected package r-bioc-s4arrays.
172s Preparing to unpack .../239-r-bioc-s4arrays_1.6.0+dfsg-2_amd64.deb ...
172s Unpacking r-bioc-s4arrays (1.6.0+dfsg-2) ...
172s Selecting previously unselected package r-bioc-sparsearray.
172s Preparing to unpack .../240-r-bioc-sparsearray_1.6.2+dfsg-2_amd64.deb ...
172s Unpacking r-bioc-sparsearray (1.6.2+dfsg-2) ...
172s Selecting previously unselected package r-bioc-delayedarray.
172s Preparing to unpack .../241-r-bioc-delayedarray_0.32.0+dfsg-2_amd64.deb ...
172s Unpacking r-bioc-delayedarray (0.32.0+dfsg-2) ...
172s Selecting previously unselected package r-cran-littler.
172s Preparing to unpack .../242-r-cran-littler_0.3.22-1_amd64.deb ...
172s Unpacking r-cran-littler (0.3.22-1) ...
172s Selecting previously unselected package r-cran-pkgkitten.
172s Preparing to unpack .../243-r-cran-pkgkitten_0.2.4-1_all.deb ...
172s Unpacking r-cran-pkgkitten (0.2.4-1) ...
172s Selecting previously unselected package r-cran-rcpp.
172s Preparing to unpack .../244-r-cran-rcpp_1.1.0-1_amd64.deb ...
172s Unpacking r-cran-rcpp (1.1.0-1) ...
172s Selecting previously unselected package r-bioc-beachmat.
172s Preparing to unpack .../245-r-bioc-beachmat_2.22.0+ds-3_amd64.deb ...
172s Unpacking r-bioc-beachmat (2.22.0+ds-3) ...
172s Selecting previously unselected package r-bioc-biocio.
172s Preparing to unpack .../246-r-bioc-biocio_1.16.0+dfsg-2_all.deb ...
172s Unpacking r-bioc-biocio (1.16.0+dfsg-2) ...
172s Selecting previously unselected package r-cran-formatr.
172s Preparing to unpack .../247-r-cran-formatr_1.14-2_all.deb ...
172s Unpacking r-cran-formatr (1.14-2) ...
172s Selecting previously unselected package r-cran-lambda.r.
172s Preparing to unpack .../248-r-cran-lambda.r_1.2.4-2build2_all.deb ...
172s Unpacking r-cran-lambda.r (1.2.4-2build2) ...
172s Selecting previously unselected package r-cran-futile.options.
173s Preparing to unpack .../249-r-cran-futile.options_1.0.1-3build2_all.deb ...
173s Unpacking r-cran-futile.options (1.0.1-3build2) ...
173s Selecting previously unselected package r-cran-futile.logger.
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173s Unpacking r-cran-futile.logger (1.4.3-4build2) ...
173s Selecting previously unselected package r-cran-snow.
173s Preparing to unpack .../251-r-cran-snow_1%3a0.4.4-2build1_all.deb ...
173s Unpacking r-cran-snow (1:0.4.4-2build1) ...
173s Selecting previously unselected package r-cran-codetools.
173s Preparing to unpack .../252-r-cran-codetools_0.2-20-1build1_all.deb ...
173s Unpacking r-cran-codetools (0.2-20-1build1) ...
173s Selecting previously unselected package r-cran-bh.
173s Preparing to unpack .../253-r-cran-bh_1.84.0-1_all.deb ...
173s Unpacking r-cran-bh (1.84.0-1) ...
173s Selecting previously unselected package r-bioc-biocparallel.
173s Preparing to unpack .../254-r-bioc-biocparallel_1.40.0-2_amd64.deb ...
173s Unpacking r-bioc-biocparallel (1.40.0-2) ...
173s Selecting previously unselected package r-cran-hms.
173s Preparing to unpack .../255-r-cran-hms_1.1.4-1_all.deb ...
173s Unpacking r-cran-hms (1.1.4-1) ...
173s Selecting previously unselected package r-cran-prettyunits.
173s Preparing to unpack .../256-r-cran-prettyunits_1.2.0-1_all.deb ...
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173s Selecting previously unselected package r-cran-progress.
173s Preparing to unpack .../257-r-cran-progress_1.2.3-1_all.deb ...
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173s Selecting previously unselected package r-cran-httr2.
173s Preparing to unpack .../258-r-cran-httr2_1.1.1-2_all.deb ...
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173s Selecting previously unselected package r-cran-digest.
173s Preparing to unpack .../259-r-cran-digest_0.6.39-1_amd64.deb ...
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173s Selecting previously unselected package r-cran-xml2.
173s Preparing to unpack .../260-r-cran-xml2_1.4.1-1_amd64.deb ...
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173s Selecting previously unselected package r-bioc-biomart.
173s Preparing to unpack .../261-r-bioc-biomart_2.62.1+dfsg-1_all.deb ...
173s Unpacking r-bioc-biomart (2.62.1+dfsg-1) ...
173s Selecting previously unselected package r-bioc-sparsematrixstats.
173s Preparing to unpack .../262-r-bioc-sparsematrixstats_1.18.0+dfsg-2_amd64.deb ...
173s Unpacking r-bioc-sparsematrixstats (1.18.0+dfsg-2) ...
173s Selecting previously unselected package r-bioc-delayedmatrixstats.
173s Preparing to unpack .../263-r-bioc-delayedmatrixstats_1.28.1+ds-1_all.deb ...
173s Unpacking r-bioc-delayedmatrixstats (1.28.1+ds-1) ...
173s Selecting previously unselected package r-bioc-summarizedexperiment.
173s Preparing to unpack .../264-r-bioc-summarizedexperiment_1.36.0+dfsg-2_all.deb ...
173s Unpacking r-bioc-summarizedexperiment (1.36.0+dfsg-2) ...
173s Selecting previously unselected package r-cran-locfit.
173s Preparing to unpack .../265-r-cran-locfit_1.5-9.12-1_amd64.deb ...
173s Unpacking r-cran-locfit (1.5-9.12-1) ...
173s Selecting previously unselected package r-cran-gtable.
173s Preparing to unpack .../266-r-cran-gtable_0.3.6+dfsg-1_all.deb ...
173s Unpacking r-cran-gtable (0.3.6+dfsg-1) ...
173s Selecting previously unselected package r-cran-isoband.
173s Preparing to unpack .../267-r-cran-isoband_0.2.7-1_amd64.deb ...
173s Unpacking r-cran-isoband (0.2.7-1) ...
173s Selecting previously unselected package r-cran-s7.
173s Preparing to unpack .../268-r-cran-s7_0.2.0-1_amd64.deb ...
173s Unpacking r-cran-s7 (0.2.0-1) ...
173s Selecting previously unselected package r-cran-farver.
173s Preparing to unpack .../269-r-cran-farver_2.1.2-1_amd64.deb ...
173s Unpacking r-cran-farver (2.1.2-1) ...
173s Selecting previously unselected package r-cran-labeling.
173s Preparing to unpack .../270-r-cran-labeling_0.4.3-1_all.deb ...
173s Unpacking r-cran-labeling (0.4.3-1) ...
173s Selecting previously unselected package r-cran-rcolorbrewer.
173s Preparing to unpack .../271-r-cran-rcolorbrewer_1.1-3-1build2_all.deb ...
173s Unpacking r-cran-rcolorbrewer (1.1-3-1build2) ...
173s Selecting previously unselected package r-cran-viridislite.
173s Preparing to unpack .../272-r-cran-viridislite_0.4.3-1_all.deb ...
173s Unpacking r-cran-viridislite (0.4.3-1) ...
173s Selecting previously unselected package r-cran-scales.
173s Preparing to unpack .../273-r-cran-scales_1.4.0-1_all.deb ...
173s Unpacking r-cran-scales (1.4.0-1) ...
173s Selecting previously unselected package r-cran-ggplot2.
173s Preparing to unpack .../274-r-cran-ggplot2_4.0.2+dfsg-1_all.deb ...
173s Unpacking r-cran-ggplot2 (4.0.2+dfsg-1) ...
173s Selecting previously unselected package r-cran-rcpparmadillo.
173s Preparing to unpack .../275-r-cran-rcpparmadillo_15.2.3-1-1_amd64.deb ...
173s Unpacking r-cran-rcpparmadillo (15.2.3-1-1) ...
173s Selecting previously unselected package r-bioc-deseq2.
173s Preparing to unpack .../276-r-bioc-deseq2_1.46.0+dfsg-2_amd64.deb ...
173s Unpacking r-bioc-deseq2 (1.46.0+dfsg-2) ...
173s Selecting previously unselected package r-cran-xml.
173s Preparing to unpack .../277-r-cran-xml_3.99-0.20-1_amd64.deb ...
173s Unpacking r-cran-xml (3.99-0.20-1) ...
173s Selecting previously unselected package r-cran-bitops.
173s Preparing to unpack .../278-r-cran-bitops_1.0-9-1_amd64.deb ...
173s Unpacking r-cran-bitops (1.0-9-1) ...
173s Selecting previously unselected package r-bioc-rhtslib.
173s Preparing to unpack .../279-r-bioc-rhtslib_3.2.0+dfsg-2_amd64.deb ...
173s Unpacking r-bioc-rhtslib (3.2.0+dfsg-2) ...
173s Selecting previously unselected package r-bioc-rsamtools.
173s Preparing to unpack .../280-r-bioc-rsamtools_2.22.0+dfsg-2_amd64.deb ...
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173s Selecting previously unselected package r-bioc-genomicalignments.
173s Preparing to unpack .../281-r-bioc-genomicalignments_1.42.0-2_amd64.deb ...
173s Unpacking r-bioc-genomicalignments (1.42.0-2) ...
173s Selecting previously unselected package r-cran-rcurl.
173s Preparing to unpack .../282-r-cran-rcurl_1.98-1.16+dfsg-1_amd64.deb ...
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173s Selecting previously unselected package r-cran-rjson.
173s Preparing to unpack .../283-r-cran-rjson_0.2.23-1_amd64.deb ...
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173s Selecting previously unselected package r-cran-restfulr.
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173s Selecting previously unselected package r-bioc-rtracklayer.
173s Preparing to unpack .../285-r-bioc-rtracklayer_1.66.0-3_amd64.deb ...
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173s Selecting previously unselected package r-bioc-genomicfeatures.
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174s Selecting previously unselected package r-bioc-protgenerics.
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174s Selecting previously unselected package r-bioc-ensembldb.
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174s Selecting previously unselected package r-bioc-rhdf5lib.
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174s Selecting previously unselected package r-bioc-rhdf5filters.
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174s Selecting previously unselected package r-bioc-rhdf5.
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174s Selecting previously unselected package r-bioc-hdf5array.
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174s Unpacking r-bioc-hdf5array (1.34.0-2build1) ...
174s Selecting previously unselected package r-bioc-singlecellexperiment.
174s Preparing to unpack .../293-r-bioc-singlecellexperiment_1.28.1+ds-2_all.deb ...
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174s Selecting previously unselected package r-bioc-glmgampoi.
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174s Selecting previously unselected package r-bioc-txdbmaker.
174s Preparing to unpack .../295-r-bioc-txdbmaker_1.2.1+ds-2_all.deb ...
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174s Selecting previously unselected package r-bioc-tximport.
174s Preparing to unpack .../296-r-bioc-tximport_1.34.0+dfsg-2_all.deb ...
174s Unpacking r-bioc-tximport (1.34.0+dfsg-2) ...
174s Selecting previously unselected package r-bioc-tximeta.
174s Preparing to unpack .../297-r-bioc-tximeta_1.24.0+dfsg-2_all.deb ...
174s Unpacking r-bioc-tximeta (1.24.0+dfsg-2) ...
174s Selecting previously unselected package r-bioc-tximportdata.
174s Preparing to unpack .../298-r-bioc-tximportdata_1.34.0+ds-2_all.deb ...
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174s Selecting previously unselected package r-cran-base64enc.
174s Preparing to unpack .../299-r-cran-base64enc_0.1-3-3build1_amd64.deb ...
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174s Selecting previously unselected package r-cran-brio.
174s Preparing to unpack .../300-r-cran-brio_1.1.5-1_amd64.deb ...
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174s Selecting previously unselected package r-cran-htmltools.
174s Preparing to unpack .../301-r-cran-htmltools_0.5.8.1-1_amd64.deb ...
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174s Selecting previously unselected package r-cran-jquerylib.
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174s Unpacking r-cran-jquerylib (0.1.4+dfsg-5) ...
174s Selecting previously unselected package r-cran-fs.
174s Preparing to unpack .../303-r-cran-fs_1.6.5+dfsg-1_amd64.deb ...
174s Unpacking r-cran-fs (1.6.5+dfsg-1) ...
174s Selecting previously unselected package r-cran-sass.
174s Preparing to unpack .../304-r-cran-sass_0.4.9+dfsg-1_amd64.deb ...
174s Unpacking r-cran-sass (0.4.9+dfsg-1) ...
174s Selecting previously unselected package r-cran-bslib.
174s Preparing to unpack .../305-r-cran-bslib_0.9.0+dfsg-3build1_all.deb ...
174s Unpacking r-cran-bslib (0.9.0+dfsg-3build1) ...
174s Selecting previously unselected package r-cran-ps.
174s Preparing to unpack .../306-r-cran-ps_1.9.0-1_amd64.deb ...
174s Unpacking r-cran-ps (1.9.0-1) ...
174s Selecting previously unselected package r-cran-processx.
174s Preparing to unpack .../307-r-cran-processx_3.8.6-1_amd64.deb ...
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174s Selecting previously unselected package r-cran-callr.
174s Preparing to unpack .../308-r-cran-callr_3.7.6-1_all.deb ...
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174s Selecting previously unselected package r-cran-clipr.
174s Preparing to unpack .../309-r-cran-clipr_0.8.0-1build1_all.deb ...
174s Unpacking r-cran-clipr (0.8.0-1build1) ...
174s Selecting previously unselected package r-cran-commonmark.
174s Preparing to unpack .../310-r-cran-commonmark_1.9.5-1_amd64.deb ...
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174s Selecting previously unselected package r-cran-desc.
174s Preparing to unpack .../311-r-cran-desc_1.4.3-1_all.deb ...
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174s Selecting previously unselected package r-cran-diffobj.
174s Preparing to unpack .../312-r-cran-diffobj_0.3.5-1build1_amd64.deb ...
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174s Selecting previously unselected package r-cran-evaluate.
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174s Selecting previously unselected package r-cran-fontawesome.
174s Preparing to unpack .../314-r-cran-fontawesome_0.5.3-1_all.deb ...
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174s Selecting previously unselected package r-cran-xfun.
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174s Selecting previously unselected package r-cran-highr.
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174s Selecting previously unselected package r-cran-later.
174s Preparing to unpack .../317-r-cran-later_1.4.1+dfsg-1_amd64.deb ...
174s Unpacking r-cran-later (1.4.1+dfsg-1) ...
174s Selecting previously unselected package r-cran-promises.
174s Preparing to unpack .../318-r-cran-promises_1.3.2+dfsg-1_amd64.deb ...
174s Unpacking r-cran-promises (1.3.2+dfsg-1) ...
174s Selecting previously unselected package r-cran-httpuv.
174s Preparing to unpack .../319-r-cran-httpuv_1.6.15+dfsg-1_amd64.deb ...
174s Unpacking r-cran-httpuv (1.6.15+dfsg-1) ...
174s Selecting previously unselected package libjs-mathjax.
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174s Unpacking libjs-mathjax (2.7.9+dfsg-1build1) ...
175s Selecting previously unselected package r-cran-knitr.
175s Preparing to unpack .../321-r-cran-knitr_1.51+dfsg-1_all.deb ...
175s Unpacking r-cran-knitr (1.51+dfsg-1) ...
175s Selecting previously unselected package r-cran-pbapply.
175s Preparing to unpack .../322-r-cran-pbapply_1.7-2-1_all.deb ...
175s Unpacking r-cran-pbapply (1.7-2-1) ...
175s Selecting previously unselected package r-cran-pheatmap.
175s Preparing to unpack .../323-r-cran-pheatmap_1.0.13-1_all.deb ...
175s Unpacking r-cran-pheatmap (1.0.13-1) ...
175s Selecting previously unselected package r-cran-pkgbuild.
175s Preparing to unpack .../324-r-cran-pkgbuild_1.4.8-1_all.deb ...
175s Unpacking r-cran-pkgbuild (1.4.8-1) ...
175s Selecting previously unselected package r-cran-rprojroot.
175s Preparing to unpack .../325-r-cran-rprojroot_2.1.1-1_all.deb ...
175s Unpacking r-cran-rprojroot (2.1.1-1) ...
175s Selecting previously unselected package r-cran-pkgload.
175s Preparing to unpack .../326-r-cran-pkgload_1.4.1-1_all.deb ...
175s Unpacking r-cran-pkgload (1.4.1-1) ...
175s Selecting previously unselected package r-cran-praise.
175s Preparing to unpack .../327-r-cran-praise_1.0.0-4build2_all.deb ...
175s Unpacking r-cran-praise (1.0.0-4build2) ...
175s Selecting previously unselected package r-cran-tzdb.
175s Preparing to unpack .../328-r-cran-tzdb_0.5.0-1_amd64.deb ...
175s Unpacking r-cran-tzdb (0.5.0-1) ...
175s Selecting previously unselected package r-cran-vroom.
175s Preparing to unpack .../329-r-cran-vroom_1.7.0-1_amd64.deb ...
175s Unpacking r-cran-vroom (1.7.0-1) ...
175s Selecting previously unselected package r-cran-readr.
175s Preparing to unpack .../330-r-cran-readr_2.1.6-1_amd64.deb ...
175s Unpacking r-cran-readr (2.1.6-1) ...
175s Selecting previously unselected package r-cran-tinytex.
175s Preparing to unpack .../331-r-cran-tinytex_0.58-1_all.deb ...
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178s Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ...
178s Setting up r-cran-restfulr (0.0.15-1) ...
178s Setting up r-bioc-sparsematrixstats (1.18.0+dfsg-2) ...
178s Setting up r-cran-vctrs (0.6.5-1) ...
178s Setting up r-cran-pillar (1.11.1+dfsg-1) ...
178s Setting up r-cran-pheatmap (1.0.13-1) ...
178s Setting up r-cran-openssl (2.3.2+dfsg-1) ...
178s Setting up r-base-dev (4.5.2-1ubuntu2) ...
178s Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ...
178s Setting up r-cran-stringr (1.5.1-1) ...
178s Setting up r-bioc-biocparallel (1.40.0-2) ...
178s Setting up r-cran-callr (3.7.6-1) ...
178s Setting up r-cran-ggplot2 (4.0.2+dfsg-1) ...
178s Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ...
178s Setting up r-cran-desc (1.4.3-1) ...
178s Setting up r-cran-xml2 (1.4.1-1) ...
178s Setting up r-cran-tibble (3.2.1+dfsg-3) ...
178s Setting up r-bioc-rhdf5lib (1.28.0+dfsg-3) ...
178s Setting up r-cran-fontawesome (0.5.3-1) ...
178s Setting up r-bioc-biocio (1.16.0+dfsg-2) ...
178s Setting up r-bioc-rhdf5filters (1.18.1+dfsg-1) ...
178s Setting up r-cran-jquerylib (0.1.4+dfsg-5) ...
178s Setting up r-cran-tidyselect (1.2.1+dfsg-1) ...
178s Setting up r-cran-httr2 (1.1.1-2) ...
178s Setting up r-cran-httr (1.4.7+dfsg-1) ...
178s Setting up r-cran-hms (1.1.4-1) ...
178s Setting up r-cran-memoise (2.0.1-1build1) ...
178s Setting up r-cran-promises (1.3.2+dfsg-1) ...
178s Setting up r-cran-purrr (1.0.4-1) ...
178s Setting up r-cran-blob (1.3.0-1) ...
178s Setting up pkg-r-autopkgtest (20250812) ...
178s Setting up r-bioc-xvector (0.46.0-2) ...
178s Setting up r-cran-pkgbuild (1.4.8-1) ...
178s Setting up r-cran-dplyr (1.1.4-4) ...
178s Setting up r-cran-rsqlite (2.3.9-1) ...
178s Setting up r-cran-progress (1.2.3-1) ...
178s Setting up r-cran-pkgload (1.4.1-1) ...
178s Setting up r-cran-vroom (1.7.0-1) ...
178s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ...
178s Setting up r-bioc-sparsearray (1.6.2+dfsg-2) ...
178s Setting up r-bioc-rhdf5 (2.50.2+dfsg-1build1) ...
178s Setting up r-cran-httpuv (1.6.15+dfsg-1) ...
178s Setting up r-cran-testthat (3.2.3-1) ...
178s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ...
178s Setting up r-cran-bslib (0.9.0+dfsg-3build1) ...
178s Setting up r-cran-readr (2.1.6-1) ...
178s Setting up r-cran-tidyr (1.3.1-1) ...
178s Setting up r-cran-dbplyr (2.5.1+dfsg-1) ...
178s Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ...
178s Setting up r-bioc-hdf5array (1.34.0-2build1) ...
178s Setting up r-bioc-biocfilecache (2.14.0+dfsg-2) ...
178s Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ...
178s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ...
178s Setting up r-bioc-delayedmatrixstats (1.28.1+ds-1) ...
178s Setting up r-bioc-annotationfilter (1.30.0+dfsg-2) ...
178s Setting up r-cran-shiny (1.10.0+dfsg-2) ...
178s Setting up r-cran-rmarkdown (2.30+dfsg-1) ...
178s Setting up r-bioc-beachmat (2.22.0+ds-3) ...
178s Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ...
178s Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ...
178s Setting up r-bioc-keggrest (1.46.0+dfsg-3) ...
178s Setting up r-bioc-deseq2 (1.46.0+dfsg-2) ...
178s Setting up r-bioc-annotationdbi (1.68.0-2) ...
178s Setting up r-bioc-annotationhub (3.14.0+dfsg-2) ...
178s Setting up r-bioc-biomart (2.62.1+dfsg-1) ...
178s Setting up r-bioc-genomicalignments (1.42.0-2) ...
178s Setting up r-bioc-rtracklayer (1.66.0-3) ...
178s Setting up r-bioc-singlecellexperiment (1.28.1+ds-2) ...
178s Setting up r-bioc-genomicfeatures (1.58.0+dfsg-2) ...
178s Setting up r-bioc-glmgampoi (1.18.0+dfsg-2) ...
178s Setting up r-bioc-txdbmaker (1.2.1+ds-2) ...
178s Setting up r-bioc-ensembldb (2.30.0+dfsg-3) ...
178s Setting up r-bioc-tximeta (1.24.0+dfsg-2) ...
178s Processing triggers for man-db (2.13.1-1build1) ...
179s Processing triggers for install-info (7.2-5) ...
179s Processing triggers for libc-bin (2.42-2ubuntu4) ...
180s autopkgtest [04:12:56]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
180s autopkgtest [04:12:56]: test pkg-r-autopkgtest: [-----------------------
180s Test: Try to load the R library DESeq2
180s 
180s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
180s Copyright (C) 2025 The R Foundation for Statistical Computing
180s Platform: x86_64-pc-linux-gnu
180s 
180s R is free software and comes with ABSOLUTELY NO WARRANTY.
180s You are welcome to redistribute it under certain conditions.
180s Type 'license()' or 'licence()' for distribution details.
180s 
180s R is a collaborative project with many contributors.
180s Type 'contributors()' for more information and
180s 'citation()' on how to cite R or R packages in publications.
180s 
180s Type 'demo()' for some demos, 'help()' for on-line help, or
180s 'help.start()' for an HTML browser interface to help.
180s Type 'q()' to quit R.
180s 
180s > library('DESeq2')
180s Loading required package: S4Vectors
180s Loading required package: stats4
180s Loading required package: BiocGenerics
180s 
180s Attaching package: ‘BiocGenerics’
180s 
180s The following objects are masked from ‘package:stats’:
180s 
180s     IQR, mad, sd, var, xtabs
180s 
180s The following objects are masked from ‘package:base’:
180s 
180s     anyDuplicated, aperm, append, as.data.frame, basename, cbind,
180s     colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
180s     get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply,
180s     match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
180s     Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff,
180s     table, tapply, union, unique, unsplit, which.max, which.min
180s 
181s 
181s Attaching package: ‘S4Vectors’
181s 
181s The following object is masked from ‘package:utils’:
181s 
181s     findMatches
181s 
181s The following objects are masked from ‘package:base’:
181s 
181s     expand.grid, I, unname
181s 
181s Loading required package: IRanges
181s Loading required package: GenomicRanges
181s Loading required package: GenomeInfoDb
181s Loading required package: SummarizedExperiment
181s Loading required package: MatrixGenerics
181s Loading required package: matrixStats
182s 
182s Attaching package: ‘MatrixGenerics’
182s 
182s The following objects are masked from ‘package:matrixStats’:
182s 
182s     colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
182s     colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
182s     colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
182s     colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
182s     colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
182s     colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
182s     colWeightedMeans, colWeightedMedians, colWeightedSds,
182s     colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
182s     rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
182s     rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
182s     rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
182s     rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
182s     rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
182s     rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
182s     rowWeightedSds, rowWeightedVars
182s 
182s Loading required package: Biobase
182s Welcome to Bioconductor
182s 
182s     Vignettes contain introductory material; view with
182s     'browseVignettes()'. To cite Bioconductor, see
182s     'citation("Biobase")', and for packages 'citation("pkgname")'.
182s 
182s 
182s Attaching package: ‘Biobase’
182s 
182s The following object is masked from ‘package:MatrixGenerics’:
182s 
182s     rowMedians
182s 
182s The following objects are masked from ‘package:matrixStats’:
182s 
182s     anyMissing, rowMedians
182s 
185s > 
185s Test: Run tests for DESeq2
185s Start: testthat.R
185s 
185s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
185s Copyright (C) 2025 The R Foundation for Statistical Computing
185s Platform: x86_64-pc-linux-gnu
185s 
185s R is free software and comes with ABSOLUTELY NO WARRANTY.
185s You are welcome to redistribute it under certain conditions.
185s Type 'license()' or 'licence()' for distribution details.
185s 
185s R is a collaborative project with many contributors.
185s Type 'contributors()' for more information and
185s 'citation()' on how to cite R or R packages in publications.
185s 
185s Type 'demo()' for some demos, 'help()' for on-line help, or
185s 'help.start()' for an HTML browser interface to help.
185s Type 'q()' to quit R.
185s 
185s > library("testthat")
185s > library("DESeq2")
185s Loading required package: S4Vectors
185s Loading required package: stats4
185s Loading required package: BiocGenerics
185s 
185s Attaching package: ‘BiocGenerics’
185s 
185s The following objects are masked from ‘package:stats’:
185s 
185s     IQR, mad, sd, var, xtabs
185s 
185s The following objects are masked from ‘package:base’:
185s 
185s     anyDuplicated, aperm, append, as.data.frame, basename, cbind,
185s     colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
185s     get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply,
185s     match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
185s     Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff,
185s     table, tapply, union, unique, unsplit, which.max, which.min
185s 
185s 
185s Attaching package: ‘S4Vectors’
185s 
185s The following object is masked from ‘package:utils’:
185s 
185s     findMatches
185s 
185s The following objects are masked from ‘package:base’:
185s 
185s     expand.grid, I, unname
185s 
185s Loading required package: IRanges
186s Loading required package: GenomicRanges
186s Loading required package: GenomeInfoDb
186s Loading required package: SummarizedExperiment
186s Loading required package: MatrixGenerics
186s Loading required package: matrixStats
186s 
186s Attaching package: ‘MatrixGenerics’
186s 
186s The following objects are masked from ‘package:matrixStats’:
186s 
186s     colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
186s     colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
186s     colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
186s     colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
186s     colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
186s     colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
186s     colWeightedMeans, colWeightedMedians, colWeightedSds,
186s     colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
186s     rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
186s     rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
186s     rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
186s     rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
186s     rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
186s     rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
186s     rowWeightedSds, rowWeightedVars
186s 
186s Loading required package: Biobase
187s Welcome to Bioconductor
187s 
187s     Vignettes contain introductory material; view with
187s     'browseVignettes()'. To cite Bioconductor, see
187s     'citation("Biobase")', and for packages 'citation("pkgname")'.
187s 
187s 
187s Attaching package: ‘Biobase’
187s 
187s The following object is masked from ‘package:MatrixGenerics’:
187s 
187s     rowMedians
187s 
187s The following objects are masked from ‘package:matrixStats’:
187s 
187s     anyMissing, rowMedians
187s 
189s > test_check("DESeq2")
245s [ FAIL 0 | WARN 1 | SKIP 6 | PASS 208 ]
245s 
245s ══ Skipped tests (6) ═══════════════════════════════════════════════════════════
245s • {apeglm} is not installed (2): 'test_design_matrix.R:3:3',
245s   'test_lfcShrink.R:3:3'
245s • empty test (3): 'test_LRT.R:14:1', 'test_results.R:151:1',
245s   'test_weights.R:101:1'
245s • This test fails on autopkgtest infrastructure (1): 'test_dispersions.R:3:3'
245s 
245s [ FAIL 0 | WARN 1 | SKIP 6 | PASS 208 ]
245s > 
246s autopkgtest [04:14:02]: test pkg-r-autopkgtest: -----------------------]
246s pkg-r-autopkgtest    PASS
246s autopkgtest [04:14:02]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
247s autopkgtest [04:14:03]: @@@@@@@@@@@@@@@@@@@@ summary
247s pkg-r-autopkgtest    PASS