0s autopkgtest [04:07:57]: starting date and time: 2026-02-10 04:07:57+0000
  0s autopkgtest [04:07:57]: git checkout: 4b346b80 nova: make wait_reboot return success even when a no-op
  0s autopkgtest [04:07:57]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.kx2x22dp/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-degreport --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@sto01-7.secgroup --name adt-resolute-amd64-r-bioc-degreport-20260210-040757-juju-7f2275-prod-proposed-migration-environment-2-e4e08f08-8cd4-428e-92bb-0075459ad863 --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-degreport-20260210-040757-juju-7f2275-prod-proposed-migration-environment-2-e4e08f08-8cd4-428e-92bb-0075459ad863 from image adt/ubuntu-resolute-amd64-server-20260204.img (UUID fedf54b4-458b-493e-8072-6425c19717b4)...
118s autopkgtest [04:09:55]: testbed dpkg architecture: amd64
118s autopkgtest [04:09:55]: testbed apt version: 3.1.14
118s autopkgtest [04:09:55]: @@@@@@@@@@@@@@@@@@@@ test bed setup
118s autopkgtest [04:09:55]: testbed release detected to be: None
119s autopkgtest [04:09:56]: updating testbed package index (apt update)
119s Get:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease [124 kB]
119s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
119s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
119s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
119s Get:5 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse Sources [31.1 kB]
119s Get:6 http://ftpmaster.internal/ubuntu resolute-proposed/universe Sources [1735 kB]
120s Get:7 http://ftpmaster.internal/ubuntu resolute-proposed/main Sources [181 kB]
120s Get:8 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 Packages [268 kB]
120s Get:9 http://ftpmaster.internal/ubuntu resolute-proposed/main i386 Packages [220 kB]
120s Get:10 http://ftpmaster.internal/ubuntu resolute-proposed/main amd64 c-n-f Metadata [5980 B]
120s Get:11 http://ftpmaster.internal/ubuntu resolute-proposed/restricted amd64 c-n-f Metadata [120 B]
120s Get:12 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 Packages [1791 kB]
120s Get:13 http://ftpmaster.internal/ubuntu resolute-proposed/universe i386 Packages [768 kB]
120s Get:14 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 c-n-f Metadata [32.6 kB]
120s Get:15 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse i386 Packages [5020 B]
120s Get:16 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 Packages [26.4 kB]
120s Get:17 http://ftpmaster.internal/ubuntu resolute-proposed/multiverse amd64 c-n-f Metadata [996 B]
121s Fetched 5189 kB in 1s (5473 kB/s)
121s Reading package lists...
122s Hit:1 http://ftpmaster.internal/ubuntu resolute-proposed InRelease
122s Hit:2 http://ftpmaster.internal/ubuntu resolute InRelease
122s Hit:3 http://ftpmaster.internal/ubuntu resolute-updates InRelease
122s Hit:4 http://ftpmaster.internal/ubuntu resolute-security InRelease
122s Reading package lists...
122s Reading package lists...
122s Building dependency tree...
122s Reading state information...
123s Calculating upgrade...
123s The following package was automatically installed and is no longer required:
123s   libpython3.13
123s Use 'sudo apt autoremove' to remove it.
123s The following NEW packages will be installed:
123s   gcc-16-base libpython3.14 libpython3.14-minimal libpython3.14-stdlib
123s   linux-headers-6.19.0-3 linux-headers-6.19.0-3-generic
123s   linux-image-6.19.0-3-generic linux-modules-6.19.0-3-generic
123s   linux-tools-6.19.0-3 linux-tools-6.19.0-3-generic
123s The following packages will be upgraded:
123s   3cpio amd64-microcode apt bpftool busybox-initramfs busybox-static
123s   cryptsetup-bin dash dbus dbus-bin dbus-daemon dbus-session-bus-common
123s   dbus-system-bus-common dbus-user-session debianutils dmsetup dracut-install
123s   ethtool findutils gir1.2-girepository-3.0 gir1.2-glib-2.0 hwdata iproute2
123s   iptables less libapt-pkg7.0 libatomic1 libattr1 libbpf1 libbsd0
123s   libcryptsetup12 libdbus-1-3 libdevmapper1.02.1 libdrm-amdgpu1 libdrm-common
123s   libdrm2 libevent-core-2.1-7t64 libgcc-s1 libgdbm-compat4t64 libgdbm6t64
123s   libgirepository-2.0-0 libglib2.0-0t64 libglib2.0-data libgpm2 libgudev-1.0-0
123s   libidn2-0 libip4tc2 libip6tc2 libjansson4 libkeyutils1 liblsof0
123s   libmaxminddb0 libnetfilter-conntrack3 libnpth0t64 libonig5 libpcap0.8t64
123s   libpci3 libsensors-config libsensors5 libstdc++6 libusb-1.0-0 libwrap0
123s   libxau6 libxkbcommon0 libxtables12 linux-generic linux-headers-generic
123s   linux-headers-virtual linux-image-generic linux-image-virtual linux-perf
123s   linux-tools-common linux-virtual lsof man-db mawk patch pciutils pnp.ids
123s   pollinate python3-linkify-it python3-markdown-it python3-referencing sed
123s   shared-mime-info tar tcpdump ubuntu-kernel-accessories ubuntu-standard wget
123s 90 upgraded, 10 newly installed, 0 to remove and 0 not upgraded.
123s Need to get 237 MB of archives.
123s After this operation, 339 MB of additional disk space will be used.
123s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 debianutils amd64 5.23.2build1 [93.3 kB]
123s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 dash amd64 0.5.12-12ubuntu3 [96.0 kB]
123s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 findutils amd64 4.10.0-3build2 [307 kB]
123s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 sed amd64 4.9-2build3 [195 kB]
123s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 tar amd64 1.35+dfsg-3.1build2 [257 kB]
123s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libattr1 amd64 1:2.5.2-3build2 [11.4 kB]
123s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-16-base amd64 16-20260208-1ubuntu1 [59.7 kB]
123s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-s1 amd64 16-20260208-1ubuntu1 [80.3 kB]
123s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 libbsd0 amd64 0.12.2-2build2 [42.3 kB]
123s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 mawk amd64 1.3.4.20260129-1 [133 kB]
123s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 libstdc++6 amd64 16-20260208-1ubuntu1 [844 kB]
123s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libapt-pkg7.0 amd64 3.1.15 [1151 kB]
123s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 apt amd64 3.1.15 [1479 kB]
123s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-system-bus-common all 1.16.2-2ubuntu3 [55.8 kB]
123s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-session-bus-common all 1.16.2-2ubuntu3 [54.4 kB]
123s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-user-session amd64 1.16.2-2ubuntu3 [9696 B]
123s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-daemon amd64 1.16.2-2ubuntu3 [119 kB]
123s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus-bin amd64 1.16.2-2ubuntu3 [40.1 kB]
123s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 dbus amd64 1.16.2-2ubuntu3 [24.2 kB]
123s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libdbus-1-3 amd64 1.16.2-2ubuntu3 [185 kB]
123s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libdevmapper1.02.1 amd64 2:1.02.205-2ubuntu3 [142 kB]
123s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 dmsetup amd64 2:1.02.205-2ubuntu3 [79.4 kB]
123s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 ethtool amd64 1:6.15-3build1 [318 kB]
123s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-girepository-3.0 amd64 2.87.2-2 [25.2 kB]
123s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 libgirepository-2.0-0 amd64 2.87.2-2 [76.1 kB]
123s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libatomic1 amd64 16-20260208-1ubuntu1 [11.4 kB]
123s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 gir1.2-glib-2.0 amd64 2.87.2-2 [182 kB]
123s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-0t64 amd64 2.87.2-2 [1613 kB]
123s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 libbpf1 amd64 1:1.6.2-1build1 [184 kB]
123s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 iptables amd64 1.8.11-2ubuntu3 [381 kB]
123s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 libip4tc2 amd64 1.8.11-2ubuntu3 [24.2 kB]
123s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 libip6tc2 amd64 1.8.11-2ubuntu3 [24.4 kB]
123s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 libnetfilter-conntrack3 amd64 1.1.1-1 [47.5 kB]
123s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 libxtables12 amd64 1.8.11-2ubuntu3 [36.6 kB]
123s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 iproute2 amd64 6.18.0-1ubuntu1 [1178 kB]
123s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 less amd64 668-1build1 [172 kB]
123s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 libcryptsetup12 amd64 2:2.8.0-1ubuntu3 [283 kB]
123s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 libglib2.0-data all 2.87.2-2 [58.2 kB]
123s Get:39 http://ftpmaster.internal/ubuntu resolute/main amd64 libidn2-0 amd64 2.3.8-4build1 [67.6 kB]
123s Get:40 http://ftpmaster.internal/ubuntu resolute/main amd64 libkeyutils1 amd64 1.6.3-6ubuntu3 [10.6 kB]
123s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-linkify-it all 2.0.3-1ubuntu3 [19.4 kB]
123s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-markdown-it all 3.0.0-3build1 [54.4 kB]
123s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 shared-mime-info amd64 2.4-5build3 [476 kB]
123s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-static amd64 1:1.37.0-7ubuntu1 [1034 kB]
123s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-common all 2.4.131-1 [9774 B]
123s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm2 amd64 2.4.131-1 [42.3 kB]
123s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm6t64 amd64 1.26-1build1 [36.5 kB]
123s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 libgpm2 amd64 1.20.7-12build1 [14.4 kB]
123s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 libjansson4 amd64 2.14-2build4 [33.2 kB]
123s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 lsof amd64 4.99.4+dfsg-2build2 [239 kB]
123s Get:51 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsof0 amd64 4.99.4+dfsg-2build2 [56.5 kB]
123s Get:52 http://ftpmaster.internal/ubuntu resolute/main amd64 libmaxminddb0 amd64 1.12.2-1build2 [18.9 kB]
123s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcap0.8t64 amd64 1.10.5-2ubuntu3 [154 kB]
123s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 pciutils amd64 1:3.14.0-1build2 [95.5 kB]
123s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libpci3 amd64 1:3.14.0-1build2 [38.1 kB]
123s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors-config all 1:3.6.2-2build1 [6862 B]
123s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 libsensors5 amd64 1:3.6.2-2build1 [28.9 kB]
123s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 libusb-1.0-0 amd64 2:1.0.29-2build1 [56.9 kB]
123s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libxau6 amd64 1:1.0.11-1build2 [7502 B]
123s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 libxkbcommon0 amd64 1.13.1-1 [159 kB]
123s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 man-db amd64 2.13.1-1build1 [1392 kB]
123s Get:62 http://ftpmaster.internal/ubuntu resolute/main amd64 tcpdump amd64 4.99.5-2ubuntu3 [477 kB]
123s Get:63 http://ftpmaster.internal/ubuntu resolute/main amd64 wget amd64 1.25.0-2ubuntu4 [353 kB]
123s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-standard amd64 1.564 [13.3 kB]
123s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 3cpio amd64 0.14.0-1ubuntu1 [285 kB]
123s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 bpftool amd64 7.7.0+6.19.0-3.3 [1229 kB]
123s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 busybox-initramfs amd64 1:1.37.0-7ubuntu1 [191 kB]
123s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 cryptsetup-bin amd64 2:2.8.0-1ubuntu3 [228 kB]
123s Get:69 http://ftpmaster.internal/ubuntu resolute/main amd64 dracut-install amd64 109-11ubuntu1 [45.8 kB]
123s Get:70 http://ftpmaster.internal/ubuntu resolute/main amd64 hwdata all 0.394-1build1 [1566 B]
123s Get:71 http://ftpmaster.internal/ubuntu resolute/main amd64 pnp.ids all 0.394-1build1 [29.6 kB]
123s Get:72 http://ftpmaster.internal/ubuntu resolute/main amd64 libdrm-amdgpu1 amd64 2.4.131-1 [23.2 kB]
123s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10build2 [93.1 kB]
123s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 libgdbm-compat4t64 amd64 1.26-1build1 [6796 B]
123s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libgudev-1.0-0 amd64 1:238-7build1 [15.9 kB]
123s Get:76 http://ftpmaster.internal/ubuntu resolute/main amd64 libnpth0t64 amd64 1.8-3build1 [9302 B]
123s Get:77 http://ftpmaster.internal/ubuntu resolute/main amd64 libonig5 amd64 6.9.10-1build1 [174 kB]
123s Get:78 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-minimal amd64 3.14.2-1 [920 kB]
123s Get:79 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14-stdlib amd64 3.14.2-1 [2398 kB]
124s Get:80 http://ftpmaster.internal/ubuntu resolute/main amd64 libpython3.14 amd64 3.14.2-1 [2568 kB]
124s Get:81 http://ftpmaster.internal/ubuntu resolute/main amd64 libwrap0 amd64 7.6.q-36build2 [48.5 kB]
124s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-modules-6.19.0-3-generic amd64 6.19.0-3.3 [171 MB]
126s 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]
126s Get:84 http://ftpmaster.internal/ubuntu resolute/main amd64 amd64-microcode amd64 3.20251202.1ubuntu1 [459 kB]
126s Get:85 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-generic amd64 6.19.0-3.3 [1698 B]
126s Get:86 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-generic amd64 6.19.0-3.3 [12.2 kB]
126s Get:87 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-virtual amd64 6.19.0-3.3 [1700 B]
126s Get:88 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-image-virtual amd64 6.19.0-3.3 [12.1 kB]
126s Get:89 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-virtual amd64 6.19.0-3.3 [1646 B]
126s Get:90 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3 all 6.19.0-3.3 [14.9 MB]
126s Get:91 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-6.19.0-3-generic amd64 6.19.0-3.3 [4330 kB]
126s Get:92 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-headers-generic amd64 6.19.0-3.3 [12.0 kB]
126s Get:93 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-perf amd64 6.19.0-3.3 [4480 kB]
127s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-common all 6.19.0-3.3 [345 kB]
127s Get:95 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3 amd64 6.19.0-3.3 [1455 kB]
127s Get:96 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-tools-6.19.0-3-generic amd64 6.19.0-3.3 [1612 B]
127s Get:97 http://ftpmaster.internal/ubuntu resolute/main amd64 patch amd64 2.8-2build1 [95.7 kB]
127s Get:98 http://ftpmaster.internal/ubuntu resolute/main amd64 pollinate all 4.33-4ubuntu5 [14.0 kB]
127s Get:99 http://ftpmaster.internal/ubuntu resolute/main amd64 python3-referencing all 0.36.2-1ubuntu2 [22.2 kB]
127s Get:100 http://ftpmaster.internal/ubuntu resolute/main amd64 ubuntu-kernel-accessories amd64 1.564 [13.1 kB]
127s dpkg-preconfigure: unable to re-open stdin: No such file or directory
127s Fetched 237 MB in 4s (61.9 MB/s)
127s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
127s Preparing to unpack .../debianutils_5.23.2build1_amd64.deb ...
127s Unpacking debianutils (5.23.2build1) over (5.23.2) ...
127s Setting up debianutils (5.23.2build1) ...
127s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
127s Preparing to unpack .../dash_0.5.12-12ubuntu3_amd64.deb ...
127s Unpacking dash (0.5.12-12ubuntu3) over (0.5.12-12ubuntu2) ...
127s Setting up dash (0.5.12-12ubuntu3) ...
127s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
127s Preparing to unpack .../findutils_4.10.0-3build2_amd64.deb ...
127s Unpacking findutils (4.10.0-3build2) over (4.10.0-3build1) ...
127s Setting up findutils (4.10.0-3build2) ...
127s (Reading database ... 
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(Reading database ... 83957 files and directories currently installed.)
127s Preparing to unpack .../sed_4.9-2build3_amd64.deb ...
127s Unpacking sed (4.9-2build3) over (4.9-2build2) ...
127s Setting up sed (4.9-2build3) ...
127s (Reading database ... 
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(Reading database ... 90%
(Reading database ... 95%
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(Reading database ... 83957 files and directories currently installed.)
127s Preparing to unpack .../tar_1.35+dfsg-3.1build2_amd64.deb ...
127s Unpacking tar (1.35+dfsg-3.1build2) over (1.35+dfsg-3.1build1) ...
127s Setting up tar (1.35+dfsg-3.1build2) ...
127s (Reading database ... 
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136s Setting up libjansson4:amd64 (2.14-2build4) ...
136s Setting up libglib2.0-data (2.87.2-2) ...
136s Setting up pollinate (4.33-4ubuntu5) ...
147s Setting up busybox-static (1:1.37.0-7ubuntu1) ...
147s Setting up libwrap0:amd64 (7.6.q-36build2) ...
147s Setting up linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
148s I: /boot/vmlinuz is now a symlink to vmlinuz-6.19.0-3-generic
148s I: /boot/initrd.img is now a symlink to initrd.img-6.19.0-3-generic
148s Setting up libdbus-1-3:amd64 (1.16.2-2ubuntu3) ...
148s Setting up libatomic1:amd64 (16-20260208-1ubuntu1) ...
148s Setting up patch (2.8-2build1) ...
148s Setting up libsensors5:amd64 (1:3.6.2-2build1) ...
148s Setting up busybox-initramfs (1:1.37.0-7ubuntu1) ...
148s Setting up libxtables12:amd64 (1.8.11-2ubuntu3) ...
148s Setting up lsof (4.99.4+dfsg-2build2) ...
148s Setting up libpci3:amd64 (1:3.14.0-1build2) ...
148s Setting up libdevmapper1.02.1:amd64 (2:1.02.205-2ubuntu3) ...
148s Setting up dracut-install (109-11ubuntu1) ...
148s Setting up dmsetup (2:1.02.205-2ubuntu3) ...
148s Setting up libnetfilter-conntrack3:amd64 (1.1.1-1) ...
148s Setting up pnp.ids (0.394-1build1) ...
148s Setting up dbus-session-bus-common (1.16.2-2ubuntu3) ...
148s Setting up python3-linkify-it (2.0.3-1ubuntu3) ...
148s Setting up libpcap0.8t64:amd64 (1.10.5-2ubuntu3) ...
148s Setting up libcryptsetup12:amd64 (2:2.8.0-1ubuntu3) ...
148s Setting up mawk (1.3.4.20260129-1) ...
148s Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10build2) ...
148s Setting up libusb-1.0-0:amd64 (2:1.0.29-2build1) ...
148s Setting up linux-image-virtual (6.19.0-3.3) ...
148s Setting up dbus-system-bus-common (1.16.2-2ubuntu3) ...
148s Setting up libbsd0:amd64 (0.12.2-2build2) ...
148s Setting up libdrm-common (2.4.131-1) ...
148s Setting up libstdc++6:amd64 (16-20260208-1ubuntu1) ...
148s Setting up dbus-bin (1.16.2-2ubuntu3) ...
148s Setting up libonig5:amd64 (6.9.10-1build1) ...
148s Setting up libbpf1:amd64 (1:1.6.2-1build1) ...
148s Setting up ethtool (1:6.15-3build1) ...
148s Setting up python3-referencing (0.36.2-1ubuntu2) ...
148s Setting up libxkbcommon0:amd64 (1.13.1-1) ...
148s Setting up cryptsetup-bin (2:2.8.0-1ubuntu3) ...
148s Setting up linux-headers-6.19.0-3-generic (6.19.0-3.3) ...
148s Setting up tcpdump (4.99.5-2ubuntu3) ...
148s Setting up linux-image-generic (6.19.0-3.3) ...
148s Setting up wget (1.25.0-2ubuntu4) ...
148s Setting up libpython3.14-stdlib:amd64 (3.14.2-1) ...
148s Setting up iptables (1.8.11-2ubuntu3) ...
148s Setting up iproute2 (6.18.0-1ubuntu1) ...
148s Setting up linux-headers-generic (6.19.0-3.3) ...
148s Setting up dbus-daemon (1.16.2-2ubuntu3) ...
148s Setting up hwdata (0.394-1build1) ...
148s Setting up dbus-user-session (1.16.2-2ubuntu3) ...
148s Setting up libglib2.0-0t64:amd64 (2.87.2-2) ...
148s No schema files found: doing nothing.
148s Setting up dbus (1.16.2-2ubuntu3) ...
148s A reboot is required to replace the running dbus-daemon.
148s Please reboot the system when convenient.
149s Setting up shared-mime-info (2.4-5build3) ...
149s Setting up gir1.2-glib-2.0:amd64 (2.87.2-2) ...
149s Setting up pciutils (1:3.14.0-1build2) ...
149s Setting up python3-markdown-it (3.0.0-3build1) ...
149s Setting up libdrm2:amd64 (2.4.131-1) ...
149s Setting up libpython3.14:amd64 (3.14.2-1) ...
149s Setting up libapt-pkg7.0:amd64 (3.1.15) ...
149s Setting up linux-tools-common (6.19.0-3.3) ...
149s Setting up libgudev-1.0-0:amd64 (1:238-7build1) ...
149s Setting up libdrm-amdgpu1:amd64 (2.4.131-1) ...
149s Setting up apt (3.1.15) ...
150s Setting up linux-headers-virtual (6.19.0-3.3) ...
150s Setting up linux-generic (6.19.0-3.3) ...
150s Setting up libgirepository-2.0-0:amd64 (2.87.2-2) ...
150s Setting up linux-tools-6.19.0-3 (6.19.0-3.3) ...
150s Setting up ubuntu-standard (1.564) ...
150s Setting up gir1.2-girepository-3.0:amd64 (2.87.2-2) ...
150s Setting up linux-virtual (6.19.0-3.3) ...
150s Setting up linux-perf (6.19.0-3.3) ...
150s Setting up linux-tools-6.19.0-3-generic (6.19.0-3.3) ...
150s Processing triggers for debianutils (5.23.2build1) ...
150s Processing triggers for install-info (7.2-5) ...
150s Processing triggers for initramfs-tools (0.150ubuntu7) ...
150s update-initramfs: Generating /boot/initrd.img-6.18.0-9-generic
155s Processing triggers for libc-bin (2.42-2ubuntu4) ...
155s Processing triggers for linux-image-6.19.0-3-generic (6.19.0-3.3+1) ...
155s /etc/kernel/postinst.d/initramfs-tools:
155s update-initramfs: Generating /boot/initrd.img-6.19.0-3-generic
158s /etc/kernel/postinst.d/zz-update-grub:
158s Sourcing file `/etc/default/grub'
158s Sourcing file `/etc/default/grub.d/50-cloudimg-settings.cfg'
158s Sourcing file `/etc/default/grub.d/90-autopkgtest.cfg'
158s Generating grub configuration file ...
158s Found linux image: /boot/vmlinuz-6.19.0-3-generic
158s Found initrd image: /boot/initrd.img-6.19.0-3-generic
158s Found linux image: /boot/vmlinuz-6.18.0-9-generic
158s Found initrd image: /boot/initrd.img-6.18.0-9-generic
159s Warning: os-prober will not be executed to detect other bootable partitions.
159s Systems on them will not be added to the GRUB boot configuration.
159s Check GRUB_DISABLE_OS_PROBER documentation entry.
159s Adding boot menu entry for UEFI Firmware Settings ...
159s done
159s autopkgtest [04:10:36]: upgrading testbed (apt dist-upgrade and autopurge)
159s Reading package lists...
160s Building dependency tree...
160s Reading state information...
160s Calculating upgrade...
160s The following package was automatically installed and is no longer required:
160s   libpython3.13
160s Use 'sudo apt autoremove' to remove it.
160s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
160s Reading package lists...
160s Building dependency tree...
160s Reading state information...
160s Solving dependencies...
160s The following packages will be REMOVED:
160s   libpython3.13*
160s 0 upgraded, 0 newly installed, 1 to remove and 0 not upgraded.
160s After this operation, 7599 kB disk space will be freed.
160s (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%
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(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 125273 files and directories currently installed.)
160s Removing libpython3.13:amd64 (3.13.11-1) ...
160s Processing triggers for libc-bin (2.42-2ubuntu4) ...
161s autopkgtest [04:10:37]: rebooting testbed after setup commands that affected boot
188s autopkgtest [04:11:05]: testbed running kernel: Linux 6.19.0-3-generic #3-Ubuntu SMP PREEMPT_DYNAMIC Fri Jan 23 20:01:24 UTC 2026
190s autopkgtest [04:11:07]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-degreport
193s Get:1 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-degreport 1.42.0+dfsg-2 (dsc) [2622 B]
193s Get:2 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-degreport 1.42.0+dfsg-2 (tar) [11.2 MB]
193s Get:3 http://ftpmaster.internal/ubuntu resolute/universe r-bioc-degreport 1.42.0+dfsg-2 (diff) [3880 B]
193s gpgv: Signature made Mon Jan 13 13:36:51 2025 UTC
193s gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
193s gpgv:                issuer "crusoe@debian.org"
193s gpgv: Can't check signature: No public key
193s dpkg-source: warning: cannot verify inline signature for ./r-bioc-degreport_1.42.0+dfsg-2.dsc: no acceptable signature found
193s autopkgtest [04:11:10]: testing package r-bioc-degreport version 1.42.0+dfsg-2
194s autopkgtest [04:11:11]: build not needed
197s autopkgtest [04:11:14]: test pkg-r-autopkgtest: preparing testbed
197s Reading package lists...
197s Building dependency tree...
197s Reading state information...
197s Solving dependencies...
197s The following NEW packages will be installed:
197s   build-essential cpp cpp-15 cpp-15-x86-64-linux-gnu cpp-x86-64-linux-gnu
197s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
197s   fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax
197s   g++ g++-15 g++-15-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-15
197s   gcc-15-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-15
197s   gfortran-15-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools
197s   javascript-common libasan8 libbibtex-parser-perl libblas-dev libblas3
197s   libboost-dev libboost1.90-dev libbz2-dev libc-dev-bin libc6-dev libcairo2
197s   libcc1-0 libcrypt-dev libdatrie1 libdeflate-dev libdeflate0 libfontconfig1
197s   libgcc-15-dev libgfortran-15-dev libgfortran5 libgomp1 libgraphite2-3
197s   libharfbuzz0b libhwasan0 libice6 libicu-dev libio-string-perl libisl23
197s   libitm1 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8
197s   libjpeg8-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim
197s   libjs-highlight.js libjs-jquery libjs-jquery-datatables
197s   libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-lunr
197s   libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js
197s   libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker
197s   libkpathsea6 liblapack-dev liblapack3 liblatex-tounicode-perl liblerc4
197s   liblsan0 liblua5.4-0 liblzma-dev libmpc3 libmpfi0 libncurses-dev
197s   libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
197s   libpaper2 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3
197s   libpixman-1-0 libpkgconf3 libpng-dev libpotrace0 libptexenc1 libquadmath0
197s   libreadline-dev libsharpyuv0 libsm6 libstdc++-15-dev libsynctex2 libtcl8.6
197s   libteckit0 libtexlua53-5 libthai-data libthai0 libtiff6 libtirpc-dev
197s   libtk8.6 libtsan2 libubsan1 libwebp7 libxaw7 libxcb-render0 libxcb-shm0
197s   libxft2 libxi6 libxmu6 libxpm4 libxrender1 libxss1 libxt6t64 libzstd-dev
197s   libzzip-0-13t64 linux-libc-dev node-bootstrap-sass node-html5shiv
197s   node-normalize.css pandoc pandoc-data pkg-r-autopkgtest pkgconf pkgconf-bin
197s   r-base-core r-base-dev r-bioc-all r-bioc-annotationdbi r-bioc-biobase
197s   r-bioc-biocgenerics r-bioc-biocparallel r-bioc-biocstyle r-bioc-biocversion
197s   r-bioc-biostrings r-bioc-complexheatmap r-bioc-consensusclusterplus
197s   r-bioc-degreport r-bioc-delayedarray r-bioc-deseq2 r-bioc-edger
197s   r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicranges
197s   r-bioc-iranges r-bioc-keggrest r-bioc-limma r-bioc-matrixgenerics
197s   r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray
197s   r-bioc-summarizedexperiment r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc
197s   r-cran-abind r-cran-askpass r-cran-backports r-cran-base64enc r-cran-bh
197s   r-cran-biocmanager r-cran-bit r-cran-bit64 r-cran-blob r-cran-bookdown
197s   r-cran-brio r-cran-broom r-cran-bslib r-cran-cachem r-cran-callr
197s   r-cran-circlize r-cran-cli r-cran-clue r-cran-cluster r-cran-codetools
197s   r-cran-colorspace r-cran-commonmark r-cran-cowplot r-cran-cpp11
197s   r-cran-crayon r-cran-curl r-cran-dbi r-cran-dendextend r-cran-desc
197s   r-cran-diffobj r-cran-digest r-cran-doparallel r-cran-dplyr r-cran-evaluate
197s   r-cran-fansi r-cran-farver r-cran-fastmap r-cran-fontawesome r-cran-foreach
197s   r-cran-formatr r-cran-fs r-cran-futile.logger r-cran-futile.options
197s   r-cran-generics r-cran-getoptlong r-cran-ggdendro r-cran-ggplot2
197s   r-cran-ggrepel r-cran-globaloptions r-cran-glue r-cran-gparotation
197s   r-cran-gridextra r-cran-gtable r-cran-highr r-cran-htmltools r-cran-httpuv
197s   r-cran-httr r-cran-isoband r-cran-iterators r-cran-jquerylib r-cran-jsonlite
197s   r-cran-knitr r-cran-labeling r-cran-lambda.r r-cran-later r-cran-lattice
197s   r-cran-lifecycle r-cran-littler r-cran-locfit r-cran-logging r-cran-magrittr
197s   r-cran-mass r-cran-matrix r-cran-matrixstats r-cran-memoise r-cran-mime
197s   r-cran-mnormt r-cran-nlme r-cran-openssl r-cran-pheatmap r-cran-pillar
197s   r-cran-pkgbuild r-cran-pkgconfig r-cran-pkgkitten r-cran-pkgload
197s   r-cran-plogr r-cran-plyr r-cran-png r-cran-praise r-cran-processx
197s   r-cran-promises r-cran-ps r-cran-psych r-cran-purrr r-cran-r6
197s   r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcpparmadillo
197s   r-cran-reshape r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rprojroot
197s   r-cran-rsqlite r-cran-s7 r-cran-sass r-cran-scales r-cran-shape r-cran-shiny
197s   r-cran-snow r-cran-sourcetools r-cran-statmod r-cran-stringi r-cran-stringr
197s   r-cran-sys r-cran-testthat r-cran-tibble r-cran-tidyr r-cran-tidyselect
197s   r-cran-tinytex r-cran-utf8 r-cran-vctrs r-cran-viridis r-cran-viridislite
197s   r-cran-waldo r-cran-withr r-cran-xfun r-cran-xtable r-cran-yaml rpcsvc-proto
197s   t1utils tex-common texlive-base texlive-bibtex-extra texlive-binaries
197s   texlive-latex-base unzip x11-common xdg-utils zip zlib1g-dev
197s 0 upgraded, 315 newly installed, 0 to remove and 0 not upgraded.
197s Need to get 482 MB of archives.
197s After this operation, 1441 MB of additional disk space will be used.
197s Get:1 http://ftpmaster.internal/ubuntu resolute/main amd64 libc-dev-bin amd64 2.42-2ubuntu4 [23.3 kB]
198s Get:2 http://ftpmaster.internal/ubuntu resolute/main amd64 linux-libc-dev amd64 6.19.0-3.3 [1846 kB]
198s Get:3 http://ftpmaster.internal/ubuntu resolute/main amd64 libcrypt-dev amd64 1:4.5.1-1 [122 kB]
198s Get:4 http://ftpmaster.internal/ubuntu resolute/main amd64 rpcsvc-proto amd64 1.4.3-1build1 [68.3 kB]
198s Get:5 http://ftpmaster.internal/ubuntu resolute/main amd64 libc6-dev amd64 2.42-2ubuntu4 [2207 kB]
198s Get:6 http://ftpmaster.internal/ubuntu resolute/main amd64 libisl23 amd64 0.27-1build1 [691 kB]
198s Get:7 http://ftpmaster.internal/ubuntu resolute/main amd64 libmpc3 amd64 1.3.1-2 [54.8 kB]
198s Get:8 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [12.9 MB]
198s Get:9 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-15 amd64 15.2.0-12ubuntu1 [1034 B]
198s Get:10 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [5746 B]
198s Get:11 http://ftpmaster.internal/ubuntu resolute/main amd64 cpp amd64 4:15.2.0-4ubuntu1 [22.4 kB]
198s Get:12 http://ftpmaster.internal/ubuntu resolute/main amd64 libcc1-0 amd64 16-20260208-1ubuntu1 [51.2 kB]
198s Get:13 http://ftpmaster.internal/ubuntu resolute/main amd64 libgomp1 amd64 16-20260208-1ubuntu1 [162 kB]
198s Get:14 http://ftpmaster.internal/ubuntu resolute/main amd64 libitm1 amd64 16-20260208-1ubuntu1 [30.2 kB]
198s Get:15 http://ftpmaster.internal/ubuntu resolute/main amd64 libasan8 amd64 16-20260208-1ubuntu1 [3182 kB]
198s Get:16 http://ftpmaster.internal/ubuntu resolute/main amd64 liblsan0 amd64 16-20260208-1ubuntu1 [1392 kB]
198s Get:17 http://ftpmaster.internal/ubuntu resolute/main amd64 libtsan2 amd64 16-20260208-1ubuntu1 [2838 kB]
198s Get:18 http://ftpmaster.internal/ubuntu resolute/main amd64 libubsan1 amd64 16-20260208-1ubuntu1 [1238 kB]
198s Get:19 http://ftpmaster.internal/ubuntu resolute/main amd64 libhwasan0 amd64 16-20260208-1ubuntu1 [1729 kB]
198s Get:20 http://ftpmaster.internal/ubuntu resolute/main amd64 libquadmath0 amd64 16-20260208-1ubuntu1 [155 kB]
198s Get:21 http://ftpmaster.internal/ubuntu resolute/main amd64 libgcc-15-dev amd64 15.2.0-12ubuntu1 [2866 kB]
199s Get:22 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [25.4 MB]
199s Get:23 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-15 amd64 15.2.0-12ubuntu1 [530 kB]
199s Get:24 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1208 B]
199s Get:25 http://ftpmaster.internal/ubuntu resolute/main amd64 gcc amd64 4:15.2.0-4ubuntu1 [5024 B]
199s Get:26 http://ftpmaster.internal/ubuntu resolute/main amd64 libstdc++-15-dev amd64 15.2.0-12ubuntu1 [2553 kB]
199s Get:27 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [14.4 MB]
199s Get:28 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-15 amd64 15.2.0-12ubuntu1 [25.3 kB]
199s Get:29 http://ftpmaster.internal/ubuntu resolute/main amd64 g++-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [966 B]
199s Get:30 http://ftpmaster.internal/ubuntu resolute/main amd64 g++ amd64 4:15.2.0-4ubuntu1 [1100 B]
199s Get:31 http://ftpmaster.internal/ubuntu resolute/main amd64 build-essential amd64 12.12ubuntu2 [5256 B]
199s Get:32 http://ftpmaster.internal/ubuntu resolute/main amd64 dctrl-tools amd64 2.24-3build4 [104 kB]
199s Get:33 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-mono all 2.37-8build1 [502 kB]
199s Get:34 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-dejavu-core all 2.37-8build1 [834 kB]
199s Get:35 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig-config amd64 2.17.1-3ubuntu1 [38.5 kB]
199s Get:36 http://ftpmaster.internal/ubuntu resolute/main amd64 libfontconfig1 amd64 2.17.1-3ubuntu1 [144 kB]
199s Get:37 http://ftpmaster.internal/ubuntu resolute/main amd64 fontconfig amd64 2.17.1-3ubuntu1 [180 kB]
199s Get:38 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1build1 [531 kB]
199s Get:39 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-6 [119 kB]
199s Get:40 http://ftpmaster.internal/ubuntu resolute/universe amd64 fonts-lmodern all 2.005-1build1 [4788 kB]
199s Get:41 http://ftpmaster.internal/ubuntu resolute/main amd64 fonts-mathjax all 2.7.9+dfsg-1build1 [2283 kB]
199s Get:42 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran5 amd64 16-20260208-1ubuntu1 [957 kB]
199s Get:43 http://ftpmaster.internal/ubuntu resolute/main amd64 libgfortran-15-dev amd64 15.2.0-12ubuntu1 [973 kB]
199s Get:44 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-12ubuntu1 [13.6 MB]
200s Get:45 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-15 amd64 15.2.0-12ubuntu1 [18.1 kB]
200s Get:46 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran-x86-64-linux-gnu amd64 4:15.2.0-4ubuntu1 [1014 B]
200s Get:47 http://ftpmaster.internal/ubuntu resolute/main amd64 gfortran amd64 4:15.2.0-4ubuntu1 [1172 B]
200s Get:48 http://ftpmaster.internal/ubuntu resolute/main amd64 icu-devtools amd64 78.2-1ubuntu1 [214 kB]
200s Get:49 http://ftpmaster.internal/ubuntu resolute/main amd64 javascript-common all 12+nmu1build1 [4864 B]
200s Get:50 http://ftpmaster.internal/ubuntu resolute/main amd64 libio-string-perl all 1.08-4 [11.1 kB]
200s Get:51 http://ftpmaster.internal/ubuntu resolute/universe amd64 liblatex-tounicode-perl all 1.93-1 [29.2 kB]
200s Get:52 http://ftpmaster.internal/ubuntu resolute/universe amd64 libbibtex-parser-perl all 1.93+dfsg-1 [17.4 kB]
200s Get:53 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas3 amd64 3.12.1-7ubuntu1 [260 kB]
200s Get:54 http://ftpmaster.internal/ubuntu resolute/main amd64 libblas-dev amd64 3.12.1-7ubuntu1 [235 kB]
200s Get:55 http://ftpmaster.internal/ubuntu resolute/main amd64 libboost1.90-dev amd64 1.90.0-2ubuntu1 [11.5 MB]
200s Get:56 http://ftpmaster.internal/ubuntu resolute/main amd64 libboost-dev amd64 1.90.0.0ubuntu3 [4764 B]
200s Get:57 http://ftpmaster.internal/ubuntu resolute/main amd64 libbz2-dev amd64 1.0.8-6build2 [36.2 kB]
200s Get:58 http://ftpmaster.internal/ubuntu resolute/main amd64 libpixman-1-0 amd64 0.46.4-1 [287 kB]
200s Get:59 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-render0 amd64 1.17.0-2ubuntu1 [16.2 kB]
200s Get:60 http://ftpmaster.internal/ubuntu resolute/main amd64 libxcb-shm0 amd64 1.17.0-2ubuntu1 [5808 B]
200s Get:61 http://ftpmaster.internal/ubuntu resolute/main amd64 libxrender1 amd64 1:0.9.12-1 [19.8 kB]
200s Get:62 http://ftpmaster.internal/ubuntu resolute/main amd64 libcairo2 amd64 1.18.4-3 [579 kB]
200s Get:63 http://ftpmaster.internal/ubuntu resolute/main amd64 libdatrie1 amd64 0.2.14-1 [19.8 kB]
200s Get:64 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate0 amd64 1.23-2build1 [51.6 kB]
200s Get:65 http://ftpmaster.internal/ubuntu resolute/main amd64 libdeflate-dev amd64 1.23-2build1 [58.8 kB]
200s Get:66 http://ftpmaster.internal/ubuntu resolute/main amd64 libgraphite2-3 amd64 1.3.14-11ubuntu1 [73.7 kB]
200s Get:67 http://ftpmaster.internal/ubuntu resolute/main amd64 libharfbuzz0b amd64 12.3.2-1 [519 kB]
200s Get:68 http://ftpmaster.internal/ubuntu resolute/main amd64 x11-common all 1:7.7+24ubuntu1 [22.4 kB]
200s Get:69 http://ftpmaster.internal/ubuntu resolute/main amd64 libice6 amd64 2:1.1.1-1build1 [44.0 kB]
200s Get:70 http://ftpmaster.internal/ubuntu resolute/main amd64 libicu-dev amd64 78.2-1ubuntu1 [12.5 MB]
200s Get:71 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8 amd64 2.1.5-4ubuntu3 [156 kB]
200s Get:72 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-turbo8-dev amd64 2.1.5-4ubuntu3 [300 kB]
200s Get:73 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8 amd64 8c-2ubuntu12 [2142 B]
200s Get:74 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg8-dev amd64 8c-2ubuntu12 [1480 B]
200s Get:75 http://ftpmaster.internal/ubuntu resolute/main amd64 libjpeg-dev amd64 8c-2ubuntu12 [1480 B]
200s Get:76 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap all 3.4.1+dfsg-6 [129 kB]
200s Get:77 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-popper.js all 1.16.1+ds-6build1 [53.8 kB]
200s Get:78 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-bootstrap4 all 4.6.2+dfsg-1 [532 kB]
200s Get:79 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-d3 all 3.5.17-4build1 [136 kB]
200s Get:80 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB]
200s Get:81 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-highlight.js all 10.7.3+dfsg-2 [144 kB]
200s Get:82 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1build1 [321 kB]
200s Get:83 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2build1 [145 kB]
200s Get:84 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB]
200s Get:85 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-2 [3946 B]
200s Get:86 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB]
200s Get:87 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1build1 [251 kB]
200s Get:88 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-json all 0~20221030+~1.0.8-1build1 [20.6 kB]
200s Get:89 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-lunr all 2.3.9~dfsg-2 [66.8 kB]
200s Get:90 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-prettify all 2015.12.04+dfsg-3 [41.4 kB]
200s Get:91 http://ftpmaster.internal/ubuntu resolute/universe amd64 libkpathsea6 amd64 2025.20250727.75242+ds-5build1 [66.0 kB]
200s Get:92 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack3 amd64 3.12.1-7ubuntu1 [2739 kB]
200s Get:93 http://ftpmaster.internal/ubuntu resolute/main amd64 liblapack-dev amd64 3.12.1-7ubuntu1 [5433 kB]
201s Get:94 http://ftpmaster.internal/ubuntu resolute/main amd64 liblerc4 amd64 4.0.0+ds-5ubuntu2 [207 kB]
201s Get:95 http://ftpmaster.internal/ubuntu resolute/main amd64 liblua5.4-0 amd64 5.4.8-1 [174 kB]
201s Get:96 http://ftpmaster.internal/ubuntu resolute/universe amd64 libmpfi0 amd64 1.5.4+ds-4build1 [36.6 kB]
201s Get:97 http://ftpmaster.internal/ubuntu resolute/main amd64 libncurses-dev amd64 6.6+20251231-1 [389 kB]
201s Get:98 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai-data all 0.1.30-1 [155 kB]
201s Get:99 http://ftpmaster.internal/ubuntu resolute/main amd64 libthai0 amd64 0.1.30-1 [19.2 kB]
201s Get:100 http://ftpmaster.internal/ubuntu resolute/main amd64 libpango-1.0-0 amd64 1.57.0-1 [241 kB]
201s Get:101 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangoft2-1.0-0 amd64 1.57.0-1 [53.3 kB]
201s Get:102 http://ftpmaster.internal/ubuntu resolute/main amd64 libpangocairo-1.0-0 amd64 1.57.0-1 [29.0 kB]
201s Get:103 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper2 amd64 2.2.5-0.3build1 [17.3 kB]
201s Get:104 http://ftpmaster.internal/ubuntu resolute/main amd64 libpaper-utils amd64 2.2.5-0.3build1 [15.6 kB]
201s Get:105 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-16-0 amd64 10.46-1 [243 kB]
201s Get:106 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-32-0 amd64 10.46-1 [230 kB]
201s Get:107 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-posix3 amd64 10.46-1 [7354 B]
201s Get:108 http://ftpmaster.internal/ubuntu resolute/main amd64 libpcre2-dev amd64 10.46-1 [832 kB]
201s Get:109 http://ftpmaster.internal/ubuntu resolute/main amd64 libpkgconf3 amd64 1.8.1-4build1 [32.8 kB]
201s Get:110 http://ftpmaster.internal/ubuntu resolute/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1ubuntu2 [898 kB]
201s Get:111 http://ftpmaster.internal/ubuntu resolute/main amd64 libpng-dev amd64 1.6.54-1 [273 kB]
201s Get:112 http://ftpmaster.internal/ubuntu resolute/universe amd64 libpotrace0 amd64 1.16-2build2 [17.9 kB]
201s Get:113 http://ftpmaster.internal/ubuntu resolute/universe amd64 libptexenc1 amd64 2025.20250727.75242+ds-5build1 [46.4 kB]
201s Get:114 http://ftpmaster.internal/ubuntu resolute/main amd64 libreadline-dev amd64 8.3-3 [189 kB]
201s Get:115 http://ftpmaster.internal/ubuntu resolute/main amd64 libsharpyuv0 amd64 1.5.0-0.1build1 [17.6 kB]
201s Get:116 http://ftpmaster.internal/ubuntu resolute/main amd64 libsm6 amd64 2:1.2.6-1build1 [16.9 kB]
201s Get:117 http://ftpmaster.internal/ubuntu resolute/universe amd64 libsynctex2 amd64 2025.20250727.75242+ds-5build1 [62.1 kB]
201s Get:118 http://ftpmaster.internal/ubuntu resolute/main amd64 libtcl8.6 amd64 8.6.17+dfsg-1build1 [1003 kB]
201s Get:119 http://ftpmaster.internal/ubuntu resolute/universe amd64 libteckit0 amd64 2.5.13+ds-1 [431 kB]
201s Get:120 http://ftpmaster.internal/ubuntu resolute/universe amd64 libtexlua53-5 amd64 2025.20250727.75242+ds-5build1 [125 kB]
201s Get:121 http://ftpmaster.internal/ubuntu resolute/main amd64 libjbig0 amd64 2.1-6.1ubuntu3 [30.0 kB]
201s Get:122 http://ftpmaster.internal/ubuntu resolute/main amd64 libwebp7 amd64 1.5.0-0.1build1 [264 kB]
201s Get:123 http://ftpmaster.internal/ubuntu resolute/main amd64 libtiff6 amd64 4.7.0-3ubuntu3 [209 kB]
201s Get:124 http://ftpmaster.internal/ubuntu resolute/main amd64 libxft2 amd64 2.3.6-1build2 [45.1 kB]
201s Get:125 http://ftpmaster.internal/ubuntu resolute/main amd64 libxss1 amd64 1:1.2.3-1build4 [7084 B]
201s Get:126 http://ftpmaster.internal/ubuntu resolute/main amd64 libtk8.6 amd64 8.6.17-1 [823 kB]
201s Get:127 http://ftpmaster.internal/ubuntu resolute/main amd64 libxt6t64 amd64 1:1.2.1-1.3 [173 kB]
201s Get:128 http://ftpmaster.internal/ubuntu resolute/main amd64 libxmu6 amd64 2:1.1.3-4 [48.9 kB]
201s Get:129 http://ftpmaster.internal/ubuntu resolute/main amd64 libxpm4 amd64 1:3.5.17-1build3 [37.3 kB]
201s Get:130 http://ftpmaster.internal/ubuntu resolute/main amd64 libxaw7 amd64 2:1.0.16-1build1 [190 kB]
201s Get:131 http://ftpmaster.internal/ubuntu resolute/main amd64 libxi6 amd64 2:1.8.2-2 [33.1 kB]
201s Get:132 http://ftpmaster.internal/ubuntu resolute/main amd64 libzstd-dev amd64 1.5.7+dfsg-3 [376 kB]
201s Get:133 http://ftpmaster.internal/ubuntu resolute/universe amd64 libzzip-0-13t64 amd64 0.13.78+dfsg.1-0.2 [30.1 kB]
201s Get:134 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB]
201s Get:135 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB]
201s Get:136 http://ftpmaster.internal/ubuntu resolute/universe amd64 node-normalize.css all 8.0.1-5.1 [10.4 kB]
201s Get:137 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc-data all 3.1.11.1-3build1 [78.8 kB]
201s Get:138 http://ftpmaster.internal/ubuntu resolute/universe amd64 pandoc amd64 3.1.11.1+ds-4 [27.2 MB]
202s Get:139 http://ftpmaster.internal/ubuntu resolute/main amd64 zip amd64 3.0-15ubuntu3 [175 kB]
202s Get:140 http://ftpmaster.internal/ubuntu resolute/main amd64 unzip amd64 6.0-29ubuntu1 [180 kB]
202s Get:141 http://ftpmaster.internal/ubuntu resolute/main amd64 xdg-utils all 1.2.1-2ubuntu2 [66.1 kB]
202s Get:142 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-core amd64 4.5.2-1ubuntu2 [28.8 MB]
202s Get:143 http://ftpmaster.internal/ubuntu resolute/main amd64 liblzma-dev amd64 5.8.2-2 [179 kB]
202s Get:144 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf-bin amd64 1.8.1-4build1 [21.7 kB]
202s Get:145 http://ftpmaster.internal/ubuntu resolute/main amd64 pkgconf amd64 1.8.1-4build1 [16.8 kB]
202s Get:146 http://ftpmaster.internal/ubuntu resolute/main amd64 libtirpc-dev amd64 1.3.6+ds-1 [195 kB]
202s Get:147 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-base-dev all 4.5.2-1ubuntu2 [1880 B]
202s Get:148 http://ftpmaster.internal/ubuntu resolute/universe amd64 pkg-r-autopkgtest all 20250812 [6158 B]
202s Get:149 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocgenerics all 0.52.0-2 [624 kB]
202s Get:150 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biobase amd64 2.66.0-2 [2332 kB]
202s Get:151 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-all all 1.48.0-2 [11.5 MB]
203s Get:152 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-s4vectors amd64 0.44.0+dfsg-2 [2065 kB]
203s Get:153 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-iranges amd64 2.40.1-3 [2309 kB]
203s Get:154 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dbi all 1.2.3-1build1 [855 kB]
203s Get:155 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bit amd64 4.6.0+dfsg-1 [466 kB]
203s Get:156 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bit64 amd64 4.6.0-1-4 [491 kB]
203s Get:157 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rlang amd64 1.1.5-3 [1721 kB]
203s Get:158 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cli amd64 3.6.4-1 [1394 kB]
203s Get:159 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-glue amd64 1.8.0-1 [164 kB]
203s Get:160 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lifecycle all 1.0.5+dfsg-1 [120 kB]
203s Get:161 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB]
203s Get:162 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-blob all 1.3.0-1 [54.1 kB]
203s Get:163 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fastmap amd64 1.2.0-1 [73.8 kB]
203s Get:164 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cachem amd64 1.1.0-1 [74.1 kB]
203s Get:165 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-memoise all 2.0.1-1build1 [54.5 kB]
203s Get:166 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgconfig all 2.0.3-2build2 [20.4 kB]
203s Get:167 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-plogr all 0.2.0-3build2 [15.8 kB]
203s Get:168 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cpp11 all 0.5.3-1 [242 kB]
203s Get:169 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rsqlite amd64 2.3.9-1 [1467 kB]
203s Get:170 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-curl amd64 7.0.0+dfsg-1 [202 kB]
203s Get:171 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jsonlite amd64 1.9.1+dfsg-1 [447 kB]
203s Get:172 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mime amd64 0.12-2 [35.8 kB]
203s Get:173 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sys amd64 3.4.3-1 [45.3 kB]
203s Get:174 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-askpass amd64 1.2.1-1 [24.9 kB]
203s Get:175 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-openssl amd64 2.3.2+dfsg-1 [407 kB]
203s Get:176 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-r6 all 2.6.1-1 [101 kB]
203s Get:177 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB]
203s Get:178 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-png amd64 0.1-8-1build2 [40.6 kB]
203s Get:179 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB]
203s Get:180 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-xvector amd64 0.46.0-2 [620 kB]
203s Get:181 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB]
203s Get:182 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB]
204s Get:183 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB]
204s Get:184 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-crayon all 1.5.3-1 [165 kB]
204s Get:185 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biostrings amd64 2.74.1+dfsg-2 [13.3 MB]
204s Get:186 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-keggrest all 1.46.0+dfsg-3 [183 kB]
204s Get:187 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-annotationdbi all 1.68.0-2 [4857 kB]
204s Get:188 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-formatr all 1.14-2 [152 kB]
204s Get:189 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lambda.r all 1.2.4-2build2 [118 kB]
204s Get:190 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-futile.options all 1.0.1-3build2 [20.5 kB]
204s Get:191 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-futile.logger all 1.4.3-4build2 [98.4 kB]
204s Get:192 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-snow all 1:0.4.4-2build1 [98.7 kB]
204s Get:193 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-codetools all 0.2-20-1build1 [91.1 kB]
204s Get:194 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bh all 1.84.0-1 [5962 B]
204s Get:195 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocparallel amd64 1.40.0-2 [1337 kB]
204s Get:196 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-base64enc amd64 0.1-3-3build1 [28.5 kB]
204s Get:197 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-digest amd64 0.6.39-1 [203 kB]
204s Get:198 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-htmltools amd64 0.5.8.1-1 [373 kB]
204s Get:199 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-evaluate all 1.0.5-1 [117 kB]
204s Get:200 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xfun amd64 0.55+dfsg-1 [587 kB]
204s Get:201 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-highr all 0.11+dfsg-1 [38.5 kB]
204s Get:202 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-yaml amd64 2.3.10-1 [109 kB]
204s Get:203 http://ftpmaster.internal/ubuntu resolute/main amd64 libjs-mathjax all 2.7.9+dfsg-1build1 [6017 kB]
204s Get:204 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-knitr all 1.51+dfsg-1 [847 kB]
204s Get:205 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-5 [13.7 kB]
204s Get:206 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fs amd64 1.6.5+dfsg-1 [246 kB]
204s Get:207 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rappdirs amd64 0.3.3-1build1 [49.3 kB]
204s Get:208 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sass amd64 0.4.9+dfsg-1 [1001 kB]
205s Get:209 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bslib all 0.9.0+dfsg-3build1 [4560 kB]
205s Get:210 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fontawesome all 0.5.3-1 [1331 kB]
205s Get:211 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tinytex all 0.58-1 [148 kB]
205s Get:212 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-modernizr all 3.13.0-0.1build1 [100 kB]
205s Get:213 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-littler amd64 0.3.22-1 [85.5 kB]
205s Get:214 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgkitten all 0.2.4-1 [27.2 kB]
205s Get:215 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcpp amd64 1.1.0-1 [2021 kB]
205s Get:216 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-later amd64 1.4.1+dfsg-1 [154 kB]
205s Get:217 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB]
205s Get:218 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-promises amd64 1.3.2+dfsg-1 [291 kB]
205s Get:219 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-httpuv amd64 1.6.15+dfsg-1 [510 kB]
205s Get:220 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-xtable all 1:1.8-4-2build1 [691 kB]
205s Get:221 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB]
205s Get:222 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-withr all 3.0.2+dfsg-1 [214 kB]
205s Get:223 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-commonmark amd64 1.9.5-1 [138 kB]
205s Get:224 http://ftpmaster.internal/ubuntu resolute/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB]
205s Get:225 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-shiny all 1.10.0+dfsg-2 [3124 kB]
205s Get:226 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rmarkdown all 2.30+dfsg-1 [1501 kB]
205s Get:227 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-bookdown all 0.42+dfsg-1 [1409 kB]
205s Get:228 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-biocmanager all 1.30.25+dfsg-1 [132 kB]
205s Get:229 http://ftpmaster.internal/ubuntu resolute/universe amd64 tex-common all 6.20 [30.0 kB]
205s Get:230 http://ftpmaster.internal/ubuntu resolute/main amd64 t1utils amd64 1.41-4build4 [62.7 kB]
205s Get:231 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-binaries amd64 2025.20250727.75242+ds-5build1 [8747 kB]
205s Get:232 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-base all 2025.20260124-1 [22.8 MB]
206s Get:233 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-latex-base all 2025.20260124-1 [1321 kB]
206s Get:234 http://ftpmaster.internal/ubuntu resolute/universe amd64 texlive-bibtex-extra all 2025.20260124-1 [80.6 MB]
207s Get:235 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocversion all 3.20.0-2 [11.1 kB]
207s Get:236 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-biocstyle all 2.34.0+dfsg-1 [451 kB]
207s Get:237 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-globaloptions all 0.1.3-1 [449 kB]
207s Get:238 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-shape all 1.4.6.1-1 [749 kB]
207s Get:239 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-colorspace amd64 2.1-1+dfsg-1 [1563 kB]
207s Get:240 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-circlize all 0.4.17+dfsg-1 [3288 kB]
207s Get:241 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rjson amd64 0.2.23-1 [104 kB]
207s Get:242 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-getoptlong all 1.1.0+dfsg-1 [419 kB]
207s Get:243 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cluster amd64 2.1.8.2-1 [570 kB]
207s Get:244 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-clue amd64 0.3-66-1 [968 kB]
207s Get:245 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcolorbrewer all 1.1-3-1build2 [54.0 kB]
207s Get:246 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrixstats amd64 1.5.0-1 [542 kB]
207s Get:247 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-iterators all 1.0.14-1build1 [336 kB]
207s Get:248 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-foreach all 1.5.2-1build1 [124 kB]
207s Get:249 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-doparallel all 1.0.17-1build1 [189 kB]
207s Get:250 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-complexheatmap all 2.22.0+dfsg-2 [2973 kB]
208s Get:251 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-consensusclusterplus all 1.70.0-2 [447 kB]
208s Get:252 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-backports amd64 1.5.0-2 [121 kB]
208s Get:253 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-generics all 0.1.4-1 [84.0 kB]
208s Get:254 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-utf8 amd64 1.2.4-1 [140 kB]
208s Get:255 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pillar all 1.11.1+dfsg-1 [456 kB]
208s Get:256 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-fansi amd64 1.0.6-2 [626 kB]
208s Get:257 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tibble amd64 3.2.1+dfsg-3 [419 kB]
208s Get:258 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tidyselect amd64 1.2.1+dfsg-1 [222 kB]
208s Get:259 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dplyr amd64 1.1.4-4 [1536 kB]
208s Get:260 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-purrr amd64 1.0.4-1 [552 kB]
208s Get:261 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-stringi amd64 1.8.4-1build2 [908 kB]
208s Get:262 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB]
208s Get:263 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-tidyr amd64 1.3.1-1 [1156 kB]
208s Get:264 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-broom all 1.0.12+dfsg-1 [1708 kB]
208s Get:265 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-gtable all 0.3.6+dfsg-1 [199 kB]
208s Get:266 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-isoband amd64 0.2.7-1 [1481 kB]
208s Get:267 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-s7 amd64 0.2.0-1 [328 kB]
208s Get:268 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-farver amd64 2.1.2-1 [1355 kB]
208s Get:269 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-labeling all 0.4.3-1 [62.1 kB]
208s Get:270 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-viridislite all 0.4.3-1 [1088 kB]
208s Get:271 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-scales all 1.4.0-1 [725 kB]
208s Get:272 http://ftpmaster.internal/ubuntu resolute-proposed/universe amd64 r-cran-ggplot2 all 4.0.2+dfsg-1 [4941 kB]
208s Get:273 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-cowplot all 1.1.3+dfsg-1 [614 kB]
208s Get:274 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-gridextra all 2.3-3build2 [1032 kB]
208s Get:275 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-viridis all 0.6.5-1 [2770 kB]
208s Get:276 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-dendextend all 1.19.1+dfsg-1 [1003 kB]
208s Get:277 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-genomicranges amd64 1.58.0+dfsg-2 [2083 kB]
208s Get:278 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-matrixgenerics all 1.18.1-1 [450 kB]
208s Get:279 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-lattice amd64 0.22-7-1 [1367 kB]
208s Get:280 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-matrix amd64 1.7-4-1 [4220 kB]
208s Get:281 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-abind all 1.4-8-1build1 [67.0 kB]
209s Get:282 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-s4arrays amd64 1.6.0+dfsg-2 [698 kB]
209s Get:283 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-sparsearray amd64 1.6.2+dfsg-2 [1391 kB]
209s Get:284 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-delayedarray amd64 0.32.0+dfsg-2 [2064 kB]
209s Get:285 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1109 kB]
209s Get:286 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-locfit amd64 1.5-9.12-1 [552 kB]
209s Get:287 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rcpparmadillo amd64 15.2.3-1-1 [919 kB]
209s Get:288 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-deseq2 amd64 1.46.0+dfsg-2 [1250 kB]
209s Get:289 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-statmod amd64 1.5.0-1 [295 kB]
209s Get:290 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-limma amd64 3.62.2+dfsg-1 [1969 kB]
209s Get:291 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-edger amd64 4.4.2+dfsg-1 [1120 kB]
209s Get:292 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mass amd64 7.3-65-1 [1116 kB]
209s Get:293 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ggdendro all 0.2.0+dfsg-1 [173 kB]
209s Get:294 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ggrepel amd64 0.9.6-1 [270 kB]
209s Get:295 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-logging all 0.10-108-2build2 [169 kB]
209s Get:296 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-mnormt amd64 2.1.2-1 [176 kB]
209s Get:297 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-nlme amd64 3.1.168-1 [2320 kB]
209s Get:298 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-gparotation all 2025.3-1-1 [614 kB]
209s Get:299 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-psych all 2.4.12-1 [3563 kB]
209s Get:300 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-plyr amd64 1.8.9-1 [832 kB]
209s Get:301 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-reshape all 0.8.10-1 [171 kB]
210s Get:302 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-bioc-degreport all 1.42.0+dfsg-2 [1790 kB]
210s Get:303 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-brio amd64 1.1.5-1 [39.0 kB]
210s Get:304 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-ps amd64 1.9.0-1 [408 kB]
210s Get:305 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-processx amd64 3.8.6-1 [365 kB]
210s Get:306 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-callr all 3.7.6-1 [458 kB]
210s Get:307 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-desc all 1.4.3-1 [359 kB]
210s Get:308 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-diffobj amd64 0.3.5-1build1 [1156 kB]
210s Get:309 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pheatmap all 1.0.13-1 [79.6 kB]
210s Get:310 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgbuild all 1.4.8-1 [219 kB]
210s Get:311 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-rprojroot all 2.1.1-1 [131 kB]
210s Get:312 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-pkgload all 1.4.1-1 [252 kB]
210s Get:313 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-praise all 1.0.0-4build2 [20.9 kB]
210s Get:314 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-waldo all 0.6.2-1 [153 kB]
210s Get:315 http://ftpmaster.internal/ubuntu resolute/universe amd64 r-cran-testthat amd64 3.2.3-1 [1651 kB]
210s Preconfiguring packages ...
210s Fetched 482 MB in 12s (39.7 MB/s)
210s Selecting previously unselected package libc-dev-bin.
210s (Reading database ... 
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(Reading database ... 125269 files and directories currently installed.)
210s Preparing to unpack .../000-libc-dev-bin_2.42-2ubuntu4_amd64.deb ...
210s Unpacking libc-dev-bin (2.42-2ubuntu4) ...
210s Selecting previously unselected package linux-libc-dev:amd64.
210s Preparing to unpack .../001-linux-libc-dev_6.19.0-3.3_amd64.deb ...
210s Unpacking linux-libc-dev:amd64 (6.19.0-3.3) ...
210s Selecting previously unselected package libcrypt-dev:amd64.
210s Preparing to unpack .../002-libcrypt-dev_1%3a4.5.1-1_amd64.deb ...
210s Unpacking libcrypt-dev:amd64 (1:4.5.1-1) ...
210s Selecting previously unselected package rpcsvc-proto.
210s Preparing to unpack .../003-rpcsvc-proto_1.4.3-1build1_amd64.deb ...
210s Unpacking rpcsvc-proto (1.4.3-1build1) ...
210s Selecting previously unselected package libc6-dev:amd64.
210s Preparing to unpack .../004-libc6-dev_2.42-2ubuntu4_amd64.deb ...
210s Unpacking libc6-dev:amd64 (2.42-2ubuntu4) ...
210s Selecting previously unselected package libisl23:amd64.
210s Preparing to unpack .../005-libisl23_0.27-1build1_amd64.deb ...
210s Unpacking libisl23:amd64 (0.27-1build1) ...
210s Selecting previously unselected package libmpc3:amd64.
210s Preparing to unpack .../006-libmpc3_1.3.1-2_amd64.deb ...
210s Unpacking libmpc3:amd64 (1.3.1-2) ...
210s Selecting previously unselected package cpp-15-x86-64-linux-gnu.
210s Preparing to unpack .../007-cpp-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
210s Unpacking cpp-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
210s Selecting previously unselected package cpp-15.
211s Preparing to unpack .../008-cpp-15_15.2.0-12ubuntu1_amd64.deb ...
211s Unpacking cpp-15 (15.2.0-12ubuntu1) ...
211s Selecting previously unselected package cpp-x86-64-linux-gnu.
211s Preparing to unpack .../009-cpp-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
211s Unpacking cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
211s Selecting previously unselected package cpp.
211s Preparing to unpack .../010-cpp_4%3a15.2.0-4ubuntu1_amd64.deb ...
211s Unpacking cpp (4:15.2.0-4ubuntu1) ...
211s Selecting previously unselected package libcc1-0:amd64.
211s Preparing to unpack .../011-libcc1-0_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libcc1-0:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libgomp1:amd64.
211s Preparing to unpack .../012-libgomp1_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libgomp1:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libitm1:amd64.
211s Preparing to unpack .../013-libitm1_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libitm1:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libasan8:amd64.
211s Preparing to unpack .../014-libasan8_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libasan8:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package liblsan0:amd64.
211s Preparing to unpack .../015-liblsan0_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking liblsan0:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libtsan2:amd64.
211s Preparing to unpack .../016-libtsan2_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libtsan2:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libubsan1:amd64.
211s Preparing to unpack .../017-libubsan1_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libubsan1:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libhwasan0:amd64.
211s Preparing to unpack .../018-libhwasan0_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libhwasan0:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libquadmath0:amd64.
211s Preparing to unpack .../019-libquadmath0_16-20260208-1ubuntu1_amd64.deb ...
211s Unpacking libquadmath0:amd64 (16-20260208-1ubuntu1) ...
211s Selecting previously unselected package libgcc-15-dev:amd64.
211s Preparing to unpack .../020-libgcc-15-dev_15.2.0-12ubuntu1_amd64.deb ...
211s Unpacking libgcc-15-dev:amd64 (15.2.0-12ubuntu1) ...
211s Selecting previously unselected package gcc-15-x86-64-linux-gnu.
211s Preparing to unpack .../021-gcc-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
211s Unpacking gcc-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
211s Selecting previously unselected package gcc-15.
211s Preparing to unpack .../022-gcc-15_15.2.0-12ubuntu1_amd64.deb ...
211s Unpacking gcc-15 (15.2.0-12ubuntu1) ...
211s Selecting previously unselected package gcc-x86-64-linux-gnu.
211s Preparing to unpack .../023-gcc-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
211s Unpacking gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
211s Selecting previously unselected package gcc.
211s Preparing to unpack .../024-gcc_4%3a15.2.0-4ubuntu1_amd64.deb ...
211s Unpacking gcc (4:15.2.0-4ubuntu1) ...
211s Selecting previously unselected package libstdc++-15-dev:amd64.
211s Preparing to unpack .../025-libstdc++-15-dev_15.2.0-12ubuntu1_amd64.deb ...
211s Unpacking libstdc++-15-dev:amd64 (15.2.0-12ubuntu1) ...
211s Selecting previously unselected package g++-15-x86-64-linux-gnu.
211s Preparing to unpack .../026-g++-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
211s Unpacking g++-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
211s Selecting previously unselected package g++-15.
211s Preparing to unpack .../027-g++-15_15.2.0-12ubuntu1_amd64.deb ...
211s Unpacking g++-15 (15.2.0-12ubuntu1) ...
211s Selecting previously unselected package g++-x86-64-linux-gnu.
211s Preparing to unpack .../028-g++-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
211s Unpacking g++-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
211s Selecting previously unselected package g++.
211s Preparing to unpack .../029-g++_4%3a15.2.0-4ubuntu1_amd64.deb ...
211s Unpacking g++ (4:15.2.0-4ubuntu1) ...
211s Selecting previously unselected package build-essential.
211s Preparing to unpack .../030-build-essential_12.12ubuntu2_amd64.deb ...
211s Unpacking build-essential (12.12ubuntu2) ...
211s Selecting previously unselected package dctrl-tools.
211s Preparing to unpack .../031-dctrl-tools_2.24-3build4_amd64.deb ...
211s Unpacking dctrl-tools (2.24-3build4) ...
211s Selecting previously unselected package fonts-dejavu-mono.
211s Preparing to unpack .../032-fonts-dejavu-mono_2.37-8build1_all.deb ...
211s Unpacking fonts-dejavu-mono (2.37-8build1) ...
211s Selecting previously unselected package fonts-dejavu-core.
211s Preparing to unpack .../033-fonts-dejavu-core_2.37-8build1_all.deb ...
211s Unpacking fonts-dejavu-core (2.37-8build1) ...
211s Selecting previously unselected package fontconfig-config.
211s Preparing to unpack .../034-fontconfig-config_2.17.1-3ubuntu1_amd64.deb ...
212s Unpacking fontconfig-config (2.17.1-3ubuntu1) ...
212s Selecting previously unselected package libfontconfig1:amd64.
212s Preparing to unpack .../035-libfontconfig1_2.17.1-3ubuntu1_amd64.deb ...
212s Unpacking libfontconfig1:amd64 (2.17.1-3ubuntu1) ...
212s Selecting previously unselected package fontconfig.
212s Preparing to unpack .../036-fontconfig_2.17.1-3ubuntu1_amd64.deb ...
212s Unpacking fontconfig (2.17.1-3ubuntu1) ...
212s Selecting previously unselected package fonts-font-awesome.
212s Preparing to unpack .../037-fonts-font-awesome_5.0.10+really4.7.0~dfsg-4.1build1_all.deb ...
212s Unpacking fonts-font-awesome (5.0.10+really4.7.0~dfsg-4.1build1) ...
212s Selecting previously unselected package fonts-glyphicons-halflings.
212s Preparing to unpack .../038-fonts-glyphicons-halflings_1.009~3.4.1+dfsg-6_all.deb ...
212s Unpacking fonts-glyphicons-halflings (1.009~3.4.1+dfsg-6) ...
212s Selecting previously unselected package fonts-lmodern.
212s Preparing to unpack .../039-fonts-lmodern_2.005-1build1_all.deb ...
212s Unpacking fonts-lmodern (2.005-1build1) ...
212s Selecting previously unselected package fonts-mathjax.
212s Preparing to unpack .../040-fonts-mathjax_2.7.9+dfsg-1build1_all.deb ...
212s Unpacking fonts-mathjax (2.7.9+dfsg-1build1) ...
212s Selecting previously unselected package libgfortran5:amd64.
212s Preparing to unpack .../041-libgfortran5_16-20260208-1ubuntu1_amd64.deb ...
212s Unpacking libgfortran5:amd64 (16-20260208-1ubuntu1) ...
212s Selecting previously unselected package libgfortran-15-dev:amd64.
212s Preparing to unpack .../042-libgfortran-15-dev_15.2.0-12ubuntu1_amd64.deb ...
212s Unpacking libgfortran-15-dev:amd64 (15.2.0-12ubuntu1) ...
212s Selecting previously unselected package gfortran-15-x86-64-linux-gnu.
212s Preparing to unpack .../043-gfortran-15-x86-64-linux-gnu_15.2.0-12ubuntu1_amd64.deb ...
212s Unpacking gfortran-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
212s Selecting previously unselected package gfortran-15.
212s Preparing to unpack .../044-gfortran-15_15.2.0-12ubuntu1_amd64.deb ...
212s Unpacking gfortran-15 (15.2.0-12ubuntu1) ...
212s Selecting previously unselected package gfortran-x86-64-linux-gnu.
212s Preparing to unpack .../045-gfortran-x86-64-linux-gnu_4%3a15.2.0-4ubuntu1_amd64.deb ...
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214s Selecting previously unselected package libkpathsea6:amd64.
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214s Selecting previously unselected package libncurses-dev:amd64.
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214s Selecting previously unselected package libthai-data.
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214s Selecting previously unselected package libpango-1.0-0:amd64.
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214s Selecting previously unselected package libpangocairo-1.0-0:amd64.
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214s Selecting previously unselected package libpng-dev:amd64.
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214s Selecting previously unselected package libtk8.6:amd64.
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215s Selecting previously unselected package liblzma-dev:amd64.
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215s Selecting previously unselected package r-bioc-biocgenerics.
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215s Unpacking r-bioc-biocgenerics (0.52.0-2) ...
215s Selecting previously unselected package r-bioc-biobase.
215s Preparing to unpack .../149-r-bioc-biobase_2.66.0-2_amd64.deb ...
215s Unpacking r-bioc-biobase (2.66.0-2) ...
215s Selecting previously unselected package r-bioc-all.
215s Preparing to unpack .../150-r-bioc-all_1.48.0-2_all.deb ...
215s Unpacking r-bioc-all (1.48.0-2) ...
215s Selecting previously unselected package r-bioc-s4vectors.
215s Preparing to unpack .../151-r-bioc-s4vectors_0.44.0+dfsg-2_amd64.deb ...
215s Unpacking r-bioc-s4vectors (0.44.0+dfsg-2) ...
215s Selecting previously unselected package r-bioc-iranges.
215s Preparing to unpack .../152-r-bioc-iranges_2.40.1-3_amd64.deb ...
215s Unpacking r-bioc-iranges (2.40.1-3) ...
215s Selecting previously unselected package r-cran-dbi.
215s Preparing to unpack .../153-r-cran-dbi_1.2.3-1build1_all.deb ...
215s Unpacking r-cran-dbi (1.2.3-1build1) ...
216s Selecting previously unselected package r-cran-bit.
216s Preparing to unpack .../154-r-cran-bit_4.6.0+dfsg-1_amd64.deb ...
216s Unpacking r-cran-bit (4.6.0+dfsg-1) ...
216s Selecting previously unselected package r-cran-bit64.
216s Preparing to unpack .../155-r-cran-bit64_4.6.0-1-4_amd64.deb ...
216s Unpacking r-cran-bit64 (4.6.0-1-4) ...
216s Selecting previously unselected package r-cran-rlang.
216s Preparing to unpack .../156-r-cran-rlang_1.1.5-3_amd64.deb ...
216s Unpacking r-cran-rlang (1.1.5-3) ...
216s Selecting previously unselected package r-cran-cli.
216s Preparing to unpack .../157-r-cran-cli_3.6.4-1_amd64.deb ...
216s Unpacking r-cran-cli (3.6.4-1) ...
216s Selecting previously unselected package r-cran-glue.
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216s Selecting previously unselected package r-cran-lifecycle.
216s Preparing to unpack .../159-r-cran-lifecycle_1.0.5+dfsg-1_all.deb ...
216s Unpacking r-cran-lifecycle (1.0.5+dfsg-1) ...
216s Selecting previously unselected package r-cran-vctrs.
216s Preparing to unpack .../160-r-cran-vctrs_0.6.5-1_amd64.deb ...
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216s Selecting previously unselected package r-cran-blob.
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216s Selecting previously unselected package r-cran-fastmap.
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216s Selecting previously unselected package r-cran-cachem.
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216s Selecting previously unselected package r-cran-memoise.
216s Preparing to unpack .../164-r-cran-memoise_2.0.1-1build1_all.deb ...
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216s Selecting previously unselected package r-cran-pkgconfig.
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216s Selecting previously unselected package r-cran-plogr.
216s Preparing to unpack .../166-r-cran-plogr_0.2.0-3build2_all.deb ...
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216s Selecting previously unselected package r-cran-cpp11.
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216s Selecting previously unselected package r-cran-rsqlite.
216s Preparing to unpack .../168-r-cran-rsqlite_2.3.9-1_amd64.deb ...
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216s Selecting previously unselected package r-cran-curl.
216s Preparing to unpack .../169-r-cran-curl_7.0.0+dfsg-1_amd64.deb ...
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216s Selecting previously unselected package r-cran-jsonlite.
216s Preparing to unpack .../170-r-cran-jsonlite_1.9.1+dfsg-1_amd64.deb ...
216s Unpacking r-cran-jsonlite (1.9.1+dfsg-1) ...
216s Selecting previously unselected package r-cran-mime.
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216s Selecting previously unselected package r-cran-sys.
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216s Selecting previously unselected package r-cran-askpass.
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216s Selecting previously unselected package r-cran-openssl.
216s Preparing to unpack .../174-r-cran-openssl_2.3.2+dfsg-1_amd64.deb ...
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216s Selecting previously unselected package r-cran-r6.
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216s Selecting previously unselected package r-cran-png.
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216s Selecting previously unselected package r-bioc-zlibbioc.
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216s Selecting previously unselected package r-bioc-xvector.
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216s Selecting previously unselected package r-bioc-ucsc.utils.
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216s Selecting previously unselected package r-bioc-genomeinfodbdata.
216s Preparing to unpack .../181-r-bioc-genomeinfodbdata_1.2.13-2_all.deb ...
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216s Selecting previously unselected package r-bioc-genomeinfodb.
216s Preparing to unpack .../182-r-bioc-genomeinfodb_1.42.3+dfsg-1_all.deb ...
216s Unpacking r-bioc-genomeinfodb (1.42.3+dfsg-1) ...
216s Selecting previously unselected package r-cran-crayon.
216s Preparing to unpack .../183-r-cran-crayon_1.5.3-1_all.deb ...
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216s Selecting previously unselected package r-bioc-biostrings.
216s Preparing to unpack .../184-r-bioc-biostrings_2.74.1+dfsg-2_amd64.deb ...
216s Unpacking r-bioc-biostrings (2.74.1+dfsg-2) ...
216s Selecting previously unselected package r-bioc-keggrest.
216s Preparing to unpack .../185-r-bioc-keggrest_1.46.0+dfsg-3_all.deb ...
216s Unpacking r-bioc-keggrest (1.46.0+dfsg-3) ...
216s Selecting previously unselected package r-bioc-annotationdbi.
216s Preparing to unpack .../186-r-bioc-annotationdbi_1.68.0-2_all.deb ...
216s Unpacking r-bioc-annotationdbi (1.68.0-2) ...
216s Selecting previously unselected package r-cran-formatr.
216s Preparing to unpack .../187-r-cran-formatr_1.14-2_all.deb ...
216s Unpacking r-cran-formatr (1.14-2) ...
216s Selecting previously unselected package r-cran-lambda.r.
216s Preparing to unpack .../188-r-cran-lambda.r_1.2.4-2build2_all.deb ...
216s Unpacking r-cran-lambda.r (1.2.4-2build2) ...
216s Selecting previously unselected package r-cran-futile.options.
216s Preparing to unpack .../189-r-cran-futile.options_1.0.1-3build2_all.deb ...
216s Unpacking r-cran-futile.options (1.0.1-3build2) ...
216s Selecting previously unselected package r-cran-futile.logger.
216s Preparing to unpack .../190-r-cran-futile.logger_1.4.3-4build2_all.deb ...
216s Unpacking r-cran-futile.logger (1.4.3-4build2) ...
216s Selecting previously unselected package r-cran-snow.
216s Preparing to unpack .../191-r-cran-snow_1%3a0.4.4-2build1_all.deb ...
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216s Selecting previously unselected package r-cran-codetools.
216s Preparing to unpack .../192-r-cran-codetools_0.2-20-1build1_all.deb ...
216s Unpacking r-cran-codetools (0.2-20-1build1) ...
216s Selecting previously unselected package r-cran-bh.
216s Preparing to unpack .../193-r-cran-bh_1.84.0-1_all.deb ...
216s Unpacking r-cran-bh (1.84.0-1) ...
216s Selecting previously unselected package r-bioc-biocparallel.
216s Preparing to unpack .../194-r-bioc-biocparallel_1.40.0-2_amd64.deb ...
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216s Selecting previously unselected package r-cran-base64enc.
216s Preparing to unpack .../195-r-cran-base64enc_0.1-3-3build1_amd64.deb ...
216s Unpacking r-cran-base64enc (0.1-3-3build1) ...
216s Selecting previously unselected package r-cran-digest.
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216s Selecting previously unselected package r-cran-htmltools.
216s Preparing to unpack .../197-r-cran-htmltools_0.5.8.1-1_amd64.deb ...
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216s Selecting previously unselected package r-cran-evaluate.
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216s Selecting previously unselected package r-cran-xfun.
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216s Selecting previously unselected package r-cran-highr.
216s Preparing to unpack .../200-r-cran-highr_0.11+dfsg-1_all.deb ...
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216s Selecting previously unselected package r-cran-yaml.
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216s Selecting previously unselected package libjs-mathjax.
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217s Selecting previously unselected package r-cran-knitr.
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217s Unpacking r-cran-knitr (1.51+dfsg-1) ...
217s Selecting previously unselected package r-cran-jquerylib.
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217s Selecting previously unselected package r-cran-fs.
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217s Selecting previously unselected package r-cran-rappdirs.
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217s Selecting previously unselected package r-cran-sass.
217s Preparing to unpack .../207-r-cran-sass_0.4.9+dfsg-1_amd64.deb ...
217s Unpacking r-cran-sass (0.4.9+dfsg-1) ...
217s Selecting previously unselected package r-cran-bslib.
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217s Selecting previously unselected package r-cran-fontawesome.
217s Preparing to unpack .../209-r-cran-fontawesome_0.5.3-1_all.deb ...
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217s Selecting previously unselected package r-cran-tinytex.
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217s Selecting previously unselected package libjs-modernizr.
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217s Selecting previously unselected package r-cran-littler.
217s Preparing to unpack .../212-r-cran-littler_0.3.22-1_amd64.deb ...
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217s Selecting previously unselected package r-cran-pkgkitten.
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217s Selecting previously unselected package r-cran-rcpp.
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217s Selecting previously unselected package r-cran-later.
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217s Selecting previously unselected package r-cran-magrittr.
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217s Selecting previously unselected package r-cran-promises.
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217s Selecting previously unselected package r-cran-httpuv.
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217s Selecting previously unselected package r-cran-xtable.
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217s Selecting previously unselected package r-cran-withr.
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217s Selecting previously unselected package r-cran-commonmark.
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217s Selecting previously unselected package libjs-twitter-bootstrap-datepicker.
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217s Selecting previously unselected package r-cran-shiny.
217s Preparing to unpack .../224-r-cran-shiny_1.10.0+dfsg-2_all.deb ...
217s Unpacking r-cran-shiny (1.10.0+dfsg-2) ...
217s Selecting previously unselected package r-cran-rmarkdown.
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217s Selecting previously unselected package r-cran-bookdown.
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217s Selecting previously unselected package r-cran-biocmanager.
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217s Unpacking r-cran-biocmanager (1.30.25+dfsg-1) ...
217s Selecting previously unselected package tex-common.
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217s Selecting previously unselected package t1utils.
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217s Unpacking t1utils (1.41-4build4) ...
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219s Selecting previously unselected package r-bioc-biocversion.
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219s Selecting previously unselected package r-bioc-biocstyle.
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219s Selecting previously unselected package r-cran-globaloptions.
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219s Selecting previously unselected package r-cran-shape.
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219s Selecting previously unselected package r-cran-colorspace.
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219s Selecting previously unselected package r-cran-circlize.
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219s Selecting previously unselected package r-cran-rjson.
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219s Selecting previously unselected package r-cran-getoptlong.
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219s Unpacking r-cran-getoptlong (1.1.0+dfsg-1) ...
219s Selecting previously unselected package r-cran-cluster.
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219s Unpacking r-cran-cluster (2.1.8.2-1) ...
219s Selecting previously unselected package r-cran-clue.
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219s Selecting previously unselected package r-cran-rcolorbrewer.
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219s Selecting previously unselected package r-cran-matrixstats.
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219s Selecting previously unselected package r-cran-iterators.
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219s Selecting previously unselected package r-cran-doparallel.
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219s Selecting previously unselected package r-bioc-complexheatmap.
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219s Selecting previously unselected package r-bioc-consensusclusterplus.
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219s Selecting previously unselected package r-cran-backports.
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222s Setting up libfontconfig1:amd64 (2.17.1-3ubuntu1) ...
222s Setting up libsm6:amd64 (2:1.2.6-1build1) ...
222s Setting up libicu-dev:amd64 (78.2-1ubuntu1) ...
222s Setting up libbz2-dev:amd64 (1.0.8-6build2) ...
222s Setting up cpp-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
222s Setting up gfortran-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
222s Setting up fontconfig (2.17.1-3ubuntu1) ...
224s Regenerating fonts cache... done.
224s Setting up libjpeg-turbo8-dev:amd64 (2.1.5-4ubuntu3) ...
224s Setting up libxft2:amd64 (2.3.6-1build2) ...
224s Setting up libncurses-dev:amd64 (6.6+20251231-1) ...
224s Setting up libpcre2-dev:amd64 (10.46-1) ...
224s Setting up gcc-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
224s Setting up libtk8.6:amd64 (8.6.17-1) ...
224s Setting up libpango-1.0-0:amd64 (1.57.0-1) ...
224s Setting up libreadline-dev:amd64 (8.3-3) ...
224s Setting up gfortran-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
224s Setting up libcairo2:amd64 (1.18.4-3) ...
224s Setting up gcc-15 (15.2.0-12ubuntu1) ...
224s Setting up libstdc++-15-dev:amd64 (15.2.0-12ubuntu1) ...
224s Setting up libxt6t64:amd64 (1:1.2.1-1.3) ...
224s Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1ubuntu2) ...
224s Setting up cpp (4:15.2.0-4ubuntu1) ...
224s Setting up libboost1.90-dev:amd64 (1.90.0-2ubuntu1) ...
224s Setting up libboost-dev:amd64 (1.90.0.0ubuntu3) ...
224s Setting up libpangoft2-1.0-0:amd64 (1.57.0-1) ...
224s Setting up libjpeg8-dev:amd64 (8c-2ubuntu12) ...
224s Setting up gfortran-15 (15.2.0-12ubuntu1) ...
224s Setting up libpangocairo-1.0-0:amd64 (1.57.0-1) ...
224s Setting up g++-15-x86-64-linux-gnu (15.2.0-12ubuntu1) ...
224s Setting up libxmu6:amd64 (2:1.1.3-4) ...
224s Setting up libpng-dev:amd64 (1.6.54-1) ...
224s Setting up libjpeg-dev:amd64 (8c-2ubuntu12) ...
224s Setting up libxaw7:amd64 (2:1.0.16-1build1) ...
224s Setting up gcc (4:15.2.0-4ubuntu1) ...
224s Setting up r-base-core (4.5.2-1ubuntu2) ...
224s Creating config file /etc/R/Renviron with new version
224s Setting up r-cran-crayon (1.5.3-1) ...
224s Setting up r-cran-gparotation (2025.3-1-1) ...
224s Setting up r-cran-labeling (0.4.3-1) ...
224s Setting up r-cran-sourcetools (0.1.7-1-1) ...
224s Setting up r-cran-futile.options (1.0.1-3build2) ...
224s Setting up r-cran-lattice (0.22-7-1) ...
224s Setting up r-cran-ps (1.9.0-1) ...
224s Setting up r-cran-nlme (3.1.168-1) ...
224s Setting up r-cran-farver (2.1.2-1) ...
224s Setting up r-cran-formatr (1.14-2) ...
224s Setting up r-cran-viridislite (0.4.3-1) ...
224s Setting up r-cran-locfit (1.5-9.12-1) ...
224s Setting up texlive-binaries (2025.20250727.75242+ds-5build1) ...
224s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode
224s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode
224s Setting up r-cran-globaloptions (0.1.3-1) ...
224s Setting up r-cran-cluster (2.1.8.2-1) ...
224s Setting up r-cran-statmod (1.5.0-1) ...
224s Setting up g++-x86-64-linux-gnu (4:15.2.0-4ubuntu1) ...
224s Setting up r-cran-commonmark (1.9.5-1) ...
224s Setting up r-cran-rjson (0.2.23-1) ...
224s Setting up r-cran-r6 (2.6.1-1) ...
224s Setting up r-cran-pkgkitten (0.2.4-1) ...
224s Setting up texlive-base (2025.20260124-1) ...
224s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps
224s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg
225s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper
225s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex
225s Setting up g++-15 (15.2.0-12ubuntu1) ...
225s Setting up r-cran-magrittr (2.0.3-1) ...
225s Setting up r-cran-rappdirs (0.3.3-1build1) ...
225s Setting up r-bioc-genomeinfodbdata (1.2.13-2) ...
225s Setting up r-cran-littler (0.3.22-1) ...
225s Setting up r-cran-bh (1.84.0-1) ...
225s Setting up r-cran-fs (1.6.5+dfsg-1) ...
225s Setting up r-cran-rcpp (1.1.0-1) ...
225s Setting up r-cran-curl (7.0.0+dfsg-1) ...
225s Setting up r-cran-codetools (0.2-20-1build1) ...
225s Setting up r-cran-brio (1.1.5-1) ...
225s Setting up r-cran-diffobj (0.3.5-1build1) ...
225s Setting up r-bioc-biocgenerics (0.52.0-2) ...
225s Setting up r-cran-rlang (1.1.5-3) ...
225s Setting up r-cran-matrixstats (1.5.0-1) ...
225s Setting up r-cran-logging (0.10-108-2build2) ...
225s Setting up r-bioc-matrixgenerics (1.18.1-1) ...
225s Setting up r-cran-xfun (0.55+dfsg-1) ...
225s Setting up r-cran-sys (3.4.3-1) ...
225s Setting up r-cran-plogr (0.2.0-3build2) ...
225s Setting up r-cran-withr (3.0.2+dfsg-1) ...
225s Setting up r-cran-backports (1.5.0-2) ...
225s Setting up r-cran-processx (3.8.6-1) ...
225s Setting up r-cran-mime (0.12-2) ...
225s Setting up r-cran-praise (1.0.0-4build2) ...
225s Setting up r-cran-generics (0.1.4-1) ...
225s Setting up r-cran-base64enc (0.1-3-3build1) ...
225s Setting up r-cran-iterators (1.0.14-1build1) ...
225s Setting up r-cran-abind (1.4-8-1build1) ...
225s Setting up r-cran-digest (0.6.39-1) ...
225s Setting up r-cran-yaml (2.3.10-1) ...
225s Setting up r-cran-lambda.r (1.2.4-2build2) ...
225s Setting up r-cran-evaluate (1.0.5-1) ...
225s Setting up r-cran-getoptlong (1.1.0+dfsg-1) ...
225s Setting up r-cran-dbi (1.2.3-1build1) ...
225s Setting up r-cran-highr (0.11+dfsg-1) ...
225s Setting up r-cran-foreach (1.5.2-1build1) ...
225s Setting up r-cran-fansi (1.0.6-2) ...
225s Setting up r-cran-mass (7.3-65-1) ...
225s Setting up r-cran-snow (1:0.4.4-2build1) ...
225s Setting up r-cran-glue (1.8.0-1) ...
225s Setting up r-cran-bit (4.6.0+dfsg-1) ...
225s Setting up r-cran-xtable (1:1.8-4-2build1) ...
225s Setting up r-cran-clue (0.3-66-1) ...
225s Setting up r-cran-cli (3.6.4-1) ...
225s Setting up gfortran (4:15.2.0-4ubuntu1) ...
225s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
225s update-alternatives: warning: skip creation of /usr/share/man/man1/f95.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f95) doesn't exist
225s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
225s update-alternatives: warning: skip creation of /usr/share/man/man1/f77.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f77) doesn't exist
225s Setting up r-cran-lifecycle (1.0.5+dfsg-1) ...
225s Setting up r-bioc-biocversion (3.20.0-2) ...
225s Setting up r-cran-rprojroot (2.1.1-1) ...
225s Setting up r-cran-bit64 (4.6.0-1-4) ...
225s Setting up r-cran-biocmanager (1.30.25+dfsg-1) ...
225s Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ...
225s Setting up r-cran-shape (1.4.6.1-1) ...
225s Setting up r-cran-askpass (1.2.1-1) ...
225s Setting up r-cran-fastmap (1.2.0-1) ...
225s Setting up r-cran-png (0.1-8-1build2) ...
225s Setting up r-bioc-biobase (2.66.0-2) ...
225s Setting up r-cran-jsonlite (1.9.1+dfsg-1) ...
225s Setting up r-cran-mnormt (2.1.2-1) ...
225s Setting up r-cran-pkgconfig (2.0.3-2build2) ...
225s Setting up r-cran-utf8 (1.2.4-1) ...
225s Setting up r-cran-colorspace (2.1-1+dfsg-1) ...
225s Setting up r-cran-stringi (1.8.4-1build2) ...
225s Setting up texlive-latex-base (2025.20260124-1) ...
225s Setting up r-cran-s7 (0.2.0-1) ...
225s Setting up r-cran-cpp11 (0.5.3-1) ...
225s Setting up r-cran-plyr (1.8.9-1) ...
225s Setting up r-cran-rcolorbrewer (1.1-3-1build2) ...
225s Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ...
225s Setting up r-cran-isoband (0.2.7-1) ...
225s Setting up r-cran-futile.logger (1.4.3-4build2) ...
225s Setting up r-cran-waldo (0.6.2-1) ...
225s Setting up r-cran-scales (1.4.0-1) ...
225s Setting up r-bioc-limma (3.62.2+dfsg-1) ...
225s Setting up r-cran-gtable (0.3.6+dfsg-1) ...
225s Setting up r-cran-later (1.4.1+dfsg-1) ...
225s Setting up r-cran-matrix (1.7-4-1) ...
225s Setting up r-cran-circlize (0.4.17+dfsg-1) ...
225s Setting up r-cran-doparallel (1.0.17-1build1) ...
225s Setting up r-cran-htmltools (0.5.8.1-1) ...
225s Setting up r-cran-tinytex (0.58-1) ...
225s Setting up r-cran-knitr (1.51+dfsg-1) ...
225s Setting up g++ (4:15.2.0-4ubuntu1) ...
225s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
225s Setting up r-cran-cachem (1.1.0-1) ...
225s Setting up r-cran-sass (0.4.9+dfsg-1) ...
225s Setting up build-essential (12.12ubuntu2) ...
225s Setting up r-cran-rcpparmadillo (15.2.3-1-1) ...
225s Setting up r-bioc-iranges (2.40.1-3) ...
225s Setting up r-cran-vctrs (0.6.5-1) ...
225s Setting up r-cran-pillar (1.11.1+dfsg-1) ...
225s Setting up r-cran-pheatmap (1.0.13-1) ...
225s Setting up r-cran-reshape (0.8.10-1) ...
225s Setting up r-cran-openssl (2.3.2+dfsg-1) ...
225s Setting up r-base-dev (4.5.2-1ubuntu2) ...
225s Setting up r-bioc-all (1.48.0-2) ...
225s Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ...
225s Setting up r-cran-stringr (1.5.1-1) ...
225s Setting up r-bioc-biocparallel (1.40.0-2) ...
225s Setting up r-cran-callr (3.7.6-1) ...
225s Setting up r-bioc-edger (4.4.2+dfsg-1) ...
225s Setting up r-cran-ggplot2 (4.0.2+dfsg-1) ...
225s Setting up r-cran-desc (1.4.3-1) ...
225s Setting up r-cran-tibble (3.2.1+dfsg-3) ...
225s Setting up r-cran-fontawesome (0.5.3-1) ...
225s Setting up r-cran-jquerylib (0.1.4+dfsg-5) ...
225s Setting up r-cran-psych (2.4.12-1) ...
225s Setting up r-cran-tidyselect (1.2.1+dfsg-1) ...
225s Setting up texlive-bibtex-extra (2025.20260124-1) ...
225s Setting up r-bioc-consensusclusterplus (1.70.0-2) ...
225s Setting up r-cran-httr (1.4.7+dfsg-1) ...
225s Setting up r-cran-gridextra (2.3-3build2) ...
225s Setting up r-cran-memoise (2.0.1-1build1) ...
225s Setting up r-cran-promises (1.3.2+dfsg-1) ...
225s Setting up r-cran-purrr (1.0.4-1) ...
225s Setting up r-cran-ggrepel (0.9.6-1) ...
225s Setting up r-cran-ggdendro (0.2.0+dfsg-1) ...
225s Setting up r-cran-blob (1.3.0-1) ...
225s Setting up r-bioc-complexheatmap (2.22.0+dfsg-2) ...
225s Setting up pkg-r-autopkgtest (20250812) ...
225s Setting up r-bioc-xvector (0.46.0-2) ...
225s Setting up r-cran-pkgbuild (1.4.8-1) ...
225s Setting up r-cran-dplyr (1.1.4-4) ...
225s Setting up r-cran-rsqlite (2.3.9-1) ...
225s Setting up r-cran-cowplot (1.1.3+dfsg-1) ...
225s Setting up r-cran-pkgload (1.4.1-1) ...
225s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ...
225s Setting up r-bioc-sparsearray (1.6.2+dfsg-2) ...
225s Setting up r-cran-httpuv (1.6.15+dfsg-1) ...
225s Setting up r-cran-viridis (0.6.5-1) ...
225s Setting up r-cran-testthat (3.2.3-1) ...
225s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ...
225s Setting up r-cran-bslib (0.9.0+dfsg-3build1) ...
225s Setting up r-cran-tidyr (1.3.1-1) ...
225s Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ...
225s Setting up r-cran-dendextend (1.19.1+dfsg-1) ...
225s Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ...
225s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ...
225s Setting up r-cran-shiny (1.10.0+dfsg-2) ...
225s Setting up r-cran-broom (1.0.12+dfsg-1) ...
225s Setting up r-cran-rmarkdown (2.30+dfsg-1) ...
225s Setting up r-cran-bookdown (0.42+dfsg-1) ...
225s Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ...
225s Setting up r-bioc-keggrest (1.46.0+dfsg-3) ...
225s Setting up r-bioc-deseq2 (1.46.0+dfsg-2) ...
225s Setting up r-bioc-annotationdbi (1.68.0-2) ...
225s Setting up r-bioc-degreport (1.42.0+dfsg-2) ...
225s Setting up r-bioc-biocstyle (2.34.0+dfsg-1) ...
225s Processing triggers for libc-bin (2.42-2ubuntu4) ...
225s Processing triggers for man-db (2.13.1-1build1) ...
226s Processing triggers for install-info (7.2-5) ...
226s Processing triggers for tex-common (6.20) ...
226s Running updmap-sys. This may take some time... done.
226s Running mktexlsr /var/lib/texmf ... done.
226s Building format(s) --all.
240s 	This may take some time... done.
241s autopkgtest [04:11:58]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
241s autopkgtest [04:11:58]: test pkg-r-autopkgtest: [-----------------------
241s Test: Try to load the R library DEGreport
241s 
241s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
241s Copyright (C) 2025 The R Foundation for Statistical Computing
241s Platform: x86_64-pc-linux-gnu
241s 
241s R is free software and comes with ABSOLUTELY NO WARRANTY.
241s You are welcome to redistribute it under certain conditions.
241s Type 'license()' or 'licence()' for distribution details.
241s 
241s R is a collaborative project with many contributors.
241s Type 'contributors()' for more information and
241s 'citation()' on how to cite R or R packages in publications.
241s 
241s Type 'demo()' for some demos, 'help()' for on-line help, or
241s 'help.start()' for an HTML browser interface to help.
241s Type 'q()' to quit R.
241s 
241s > library('DEGreport')
246s > 
246s Test: Run tests for DEGreport
246s Start: testthat.R
246s 
246s R version 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"
246s Copyright (C) 2025 The R Foundation for Statistical Computing
246s Platform: x86_64-pc-linux-gnu
246s 
246s R is free software and comes with ABSOLUTELY NO WARRANTY.
246s You are welcome to redistribute it under certain conditions.
246s Type 'license()' or 'licence()' for distribution details.
246s 
246s R is a collaborative project with many contributors.
246s Type 'contributors()' for more information and
246s 'citation()' on how to cite R or R packages in publications.
246s 
246s Type 'demo()' for some demos, 'help()' for on-line help, or
246s 'help.start()' for an HTML browser interface to help.
246s Type 'q()' to quit R.
246s 
246s > library(testthat)
246s > library(edgeR)
246s Loading required package: limma
246s > library(DESeq2)
246s Loading required package: S4Vectors
246s Loading required package: stats4
246s Loading required package: BiocGenerics
247s 
247s Attaching package: ‘BiocGenerics’
247s 
247s The following object is masked from ‘package:limma’:
247s 
247s     plotMA
247s 
247s The following objects are masked from ‘package:stats’:
247s 
247s     IQR, mad, sd, var, xtabs
247s 
247s The following objects are masked from ‘package:base’:
247s 
247s     anyDuplicated, aperm, append, as.data.frame, basename, cbind,
247s     colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
247s     get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply,
247s     match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
247s     Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff,
247s     table, tapply, union, unique, unsplit, which.max, which.min
247s 
247s 
247s Attaching package: ‘S4Vectors’
247s 
247s The following object is masked from ‘package:utils’:
247s 
247s     findMatches
247s 
247s The following objects are masked from ‘package:base’:
247s 
247s     expand.grid, I, unname
247s 
247s Loading required package: IRanges
247s Loading required package: GenomicRanges
247s Loading required package: GenomeInfoDb
248s Loading required package: SummarizedExperiment
248s Loading required package: MatrixGenerics
248s Loading required package: matrixStats
248s 
248s Attaching package: ‘MatrixGenerics’
248s 
248s The following objects are masked from ‘package:matrixStats’:
248s 
248s     colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
248s     colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
248s     colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
248s     colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
248s     colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
248s     colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
248s     colWeightedMeans, colWeightedMedians, colWeightedSds,
248s     colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
248s     rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
248s     rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
248s     rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
248s     rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
248s     rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
248s     rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
248s     rowWeightedSds, rowWeightedVars
248s 
248s Loading required package: Biobase
248s Welcome to Bioconductor
248s 
248s     Vignettes contain introductory material; view with
248s     'browseVignettes()'. To cite Bioconductor, see
248s     'citation("Biobase")', and for packages 'citation("pkgname")'.
248s 
248s 
248s Attaching package: ‘Biobase’
248s 
248s The following object is masked from ‘package:MatrixGenerics’:
248s 
248s     rowMedians
248s 
248s The following objects are masked from ‘package:matrixStats’:
248s 
248s     anyMissing, rowMedians
248s 
250s > library(DEGreport)
251s > 
251s > # test_check("DEGreport")
251s > 
251s autopkgtest [04:12:08]: test pkg-r-autopkgtest: -----------------------]
251s pkg-r-autopkgtest    PASS
251s autopkgtest [04:12:08]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
252s autopkgtest [04:12:09]: @@@@@@@@@@@@@@@@@@@@ summary
252s pkg-r-autopkgtest    PASS