0s autopkgtest [02:46:30]: starting date and time: 2024-03-22 02:46:30+0000
  0s autopkgtest [02:46:30]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps
  0s autopkgtest [02:46:30]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.rn4ftni7/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:r-base --apt-upgrade r-bioc-go.db --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-base/4.3.3-2build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-55.secgroup --name adt-noble-i386-r-bioc-go.db-20240322-024630-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
523s autopkgtest [02:55:13]: testbed dpkg architecture: amd64
524s autopkgtest [02:55:14]: testbed apt version: 2.7.12
524s autopkgtest [02:55:14]: test architecture: i386
524s autopkgtest [02:55:14]: @@@@@@@@@@@@@@@@@@@@ test bed setup
524s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
524s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [494 kB]
524s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3762 kB]
524s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
524s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [53.9 kB]
524s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 Packages [703 kB]
524s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main i386 Packages [467 kB]
524s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 c-n-f Metadata [3508 B]
524s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted i386 Packages [6700 B]
524s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 Packages [30.5 kB]
524s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 c-n-f Metadata [116 B]
524s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 Packages [4236 kB]
524s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe i386 Packages [1269 kB]
524s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 c-n-f Metadata [9396 B]
524s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 Packages [93.7 kB]
524s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/multiverse i386 Packages [26.8 kB]
524s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 c-n-f Metadata [196 B]
527s Fetched 11.3 MB in 1s (8021 kB/s)
527s Reading package lists...
529s Reading package lists...
529s Building dependency tree...
529s Reading state information...
530s Calculating upgrade...
530s The following packages will be upgraded:
530s   cloud-init fonts-ubuntu-console python3-markupsafe
530s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
530s Need to get 629 kB of archives.
530s After this operation, 11.3 kB disk space will be freed.
530s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-ubuntu-console all 0.869+git20240321-0ubuntu1 [18.7 kB]
530s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 python3-markupsafe amd64 2.1.5-1build1 [12.6 kB]
530s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 cloud-init all 24.1.2-0ubuntu1 [597 kB]
530s Preconfiguring packages ...
530s Fetched 629 kB in 0s (17.0 MB/s)
530s (Reading database ... 
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(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71865 files and directories currently installed.)
530s Preparing to unpack .../fonts-ubuntu-console_0.869+git20240321-0ubuntu1_all.deb ...
530s Unpacking fonts-ubuntu-console (0.869+git20240321-0ubuntu1) over (0.869-0ubuntu1) ...
530s Preparing to unpack .../python3-markupsafe_2.1.5-1build1_amd64.deb ...
530s Unpacking python3-markupsafe (2.1.5-1build1) over (2.1.5-1) ...
530s Preparing to unpack .../cloud-init_24.1.2-0ubuntu1_all.deb ...
531s Unpacking cloud-init (24.1.2-0ubuntu1) over (24.1.1-0ubuntu1) ...
531s Setting up fonts-ubuntu-console (0.869+git20240321-0ubuntu1) ...
531s Setting up cloud-init (24.1.2-0ubuntu1) ...
532s Setting up python3-markupsafe (2.1.5-1build1) ...
532s Processing triggers for man-db (2.12.0-3) ...
533s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
533s Reading package lists...
533s Building dependency tree...
533s Reading state information...
534s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
534s sh: Attempting to set up Debian/Ubuntu apt sources automatically
534s sh: Distribution appears to be Ubuntu
535s Reading package lists...
535s Building dependency tree...
535s Reading state information...
536s eatmydata is already the newest version (131-1).
536s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
536s Reading package lists...
536s Building dependency tree...
536s Reading state information...
536s dbus is already the newest version (1.14.10-4ubuntu1).
536s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
536s Reading package lists...
536s Building dependency tree...
536s Reading state information...
537s rng-tools-debian is already the newest version (2.4).
537s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
537s Reading package lists...
537s Building dependency tree...
537s Reading state information...
537s The following packages will be REMOVED:
537s   cloud-init* python3-configobj* python3-debconf*
537s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded.
537s After this operation, 3256 kB disk space will be freed.
537s (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71864 files and directories currently installed.)
537s Removing cloud-init (24.1.2-0ubuntu1) ...
538s Removing python3-configobj (5.0.8-3) ...
538s Removing python3-debconf (1.5.86) ...
538s Processing triggers for man-db (2.12.0-3) ...
538s (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71475 files and directories currently installed.)
538s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ...
539s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed
539s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
539s invoke-rc.d: policy-rc.d denied execution of try-restart.
539s Reading package lists...
539s Building dependency tree...
539s Reading state information...
540s linux-generic is already the newest version (6.8.0-11.11+1).
540s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
540s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
540s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
540s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
542s Reading package lists...
542s Reading package lists...
542s Building dependency tree...
542s Reading state information...
542s Calculating upgrade...
543s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
543s Reading package lists...
543s Building dependency tree...
543s Reading state information...
543s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
543s autopkgtest [02:55:33]: rebooting testbed after setup commands that affected boot
691s autopkgtest [02:58:01]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 00:29:05 UTC 2024
692s autopkgtest [02:58:02]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-go.db
693s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-bioc-go.db 3.18.0-1 (dsc) [2076 B]
693s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-bioc-go.db 3.18.0-1 (tar) [29.0 MB]
693s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-bioc-go.db 3.18.0-1 (diff) [4648 B]
693s gpgv: Signature made Thu Nov 30 14:09:23 2023 UTC
693s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
693s gpgv:                issuer "tille@debian.org"
693s gpgv: Can't check signature: No public key
693s dpkg-source: warning: cannot verify inline signature for ./r-bioc-go.db_3.18.0-1.dsc: no acceptable signature found
694s autopkgtest [02:58:04]: testing package r-bioc-go.db version 3.18.0-1
695s autopkgtest [02:58:05]: build not needed
697s autopkgtest [02:58:07]: test pkg-r-autopkgtest: preparing testbed
699s Note, using file '/tmp/autopkgtest.wDnMRC/1-autopkgtest-satdep.dsc' to get the build dependencies
700s Reading package lists...
700s Building dependency tree...
700s Reading state information...
700s Starting pkgProblemResolver with broken count: 0
700s Starting 2 pkgProblemResolver with broken count: 0
700s Done
701s The following NEW packages will be installed:
701s   build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu
701s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
701s   g++ g++-13 g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-13
701s   gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-13
701s   gfortran-13-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools libasan8
701s   libatomic1 libblas-dev libblas3 libbz2-dev libc-dev-bin libc6-dev libcairo2
701s   libcc1-0 libcrypt-dev libdatrie1 libdeflate0 libfontconfig1 libgcc-13-dev
701s   libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b
701s   libhwasan0 libice6 libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev
701s   libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev
701s   liblapack3 liblerc4 liblsan0 liblzma-dev libmpc3 libncurses-dev libnsl-dev
701s   libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
701s   libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3
701s   libpixman-1-0 libpkgconf3 libpng-dev libquadmath0 libreadline-dev
701s   libsharpyuv0 libsm6 libstdc++-13-dev libtcl8.6 libthai-data libthai0
701s   libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7 libxcb-render0
701s   libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 linux-libc-dev pkg-config
701s   pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev
701s   r-bioc-annotationdbi r-bioc-biobase r-bioc-biocgenerics r-bioc-biostrings
701s   r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-go.db r-bioc-iranges
701s   r-bioc-keggrest r-bioc-s4vectors r-bioc-xvector r-bioc-zlibbioc
701s   r-cran-askpass r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob
701s   r-cran-cachem r-cran-cli r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-dbi
701s   r-cran-fastmap r-cran-glue r-cran-httr r-cran-jsonlite r-cran-lifecycle
701s   r-cran-memoise r-cran-mime r-cran-openssl r-cran-pkgconfig r-cran-plogr
701s   r-cran-png r-cran-r6 r-cran-rcurl r-cran-rlang r-cran-rsqlite r-cran-sys
701s   r-cran-vctrs rpcsvc-proto unzip x11-common xdg-utils zip zlib1g-dev
701s 0 upgraded, 146 newly installed, 0 to remove and 0 not upgraded.
701s Need to get 211 MB of archives.
701s After this operation, 612 MB of additional disk space will be used.
701s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 libc-dev-bin amd64 2.39-0ubuntu2 [20.4 kB]
701s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 linux-libc-dev amd64 6.8.0-11.11 [1595 kB]
701s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 libcrypt-dev amd64 1:4.4.36-4 [128 kB]
701s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 libtirpc-dev amd64 1.3.4+ds-1build1 [222 kB]
701s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 libnsl-dev amd64 1.3.0-3 [71.2 kB]
701s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 rpcsvc-proto amd64 1.4.2-0ubuntu6 [68.5 kB]
701s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 libc6-dev amd64 2.39-0ubuntu2 [2126 kB]
701s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 libisl23 amd64 0.26-3 [741 kB]
701s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 libmpc3 amd64 1.3.1-1 [54.1 kB]
701s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.2 MB]
701s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13 amd64 13.2.0-17ubuntu2 [1030 B]
701s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [5326 B]
701s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 cpp amd64 4:13.2.0-7ubuntu1 [22.4 kB]
701s Get:14 http://ftpmaster.internal/ubuntu noble/main amd64 libcc1-0 amd64 14-20240303-1ubuntu1 [47.7 kB]
701s Get:15 http://ftpmaster.internal/ubuntu noble/main amd64 libgomp1 amd64 14-20240303-1ubuntu1 [147 kB]
701s Get:16 http://ftpmaster.internal/ubuntu noble/main amd64 libitm1 amd64 14-20240303-1ubuntu1 [29.1 kB]
701s Get:17 http://ftpmaster.internal/ubuntu noble/main amd64 libatomic1 amd64 14-20240303-1ubuntu1 [10.4 kB]
701s Get:18 http://ftpmaster.internal/ubuntu noble/main amd64 libasan8 amd64 14-20240303-1ubuntu1 [3026 kB]
701s Get:19 http://ftpmaster.internal/ubuntu noble/main amd64 liblsan0 amd64 14-20240303-1ubuntu1 [1310 kB]
701s Get:20 http://ftpmaster.internal/ubuntu noble/main amd64 libtsan2 amd64 14-20240303-1ubuntu1 [2732 kB]
701s Get:21 http://ftpmaster.internal/ubuntu noble/main amd64 libubsan1 amd64 14-20240303-1ubuntu1 [1172 kB]
701s Get:22 http://ftpmaster.internal/ubuntu noble/main amd64 libhwasan0 amd64 14-20240303-1ubuntu1 [1629 kB]
701s Get:23 http://ftpmaster.internal/ubuntu noble/main amd64 libquadmath0 amd64 14-20240303-1ubuntu1 [155 kB]
701s Get:24 http://ftpmaster.internal/ubuntu noble/main amd64 libgcc-13-dev amd64 13.2.0-17ubuntu2 [2687 kB]
701s Get:25 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [21.9 MB]
701s Get:26 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13 amd64 13.2.0-17ubuntu2 [477 kB]
701s Get:27 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1212 B]
701s Get:28 http://ftpmaster.internal/ubuntu noble/main amd64 gcc amd64 4:13.2.0-7ubuntu1 [5018 B]
701s Get:29 http://ftpmaster.internal/ubuntu noble/main amd64 libstdc++-13-dev amd64 13.2.0-17ubuntu2 [2340 kB]
701s Get:30 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [12.5 MB]
701s Get:31 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13 amd64 13.2.0-17ubuntu2 [14.5 kB]
701s Get:32 http://ftpmaster.internal/ubuntu noble/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [964 B]
701s Get:33 http://ftpmaster.internal/ubuntu noble/main amd64 g++ amd64 4:13.2.0-7ubuntu1 [1100 B]
701s Get:34 http://ftpmaster.internal/ubuntu noble/main amd64 build-essential amd64 12.10ubuntu1 [4928 B]
701s Get:35 http://ftpmaster.internal/ubuntu noble/main amd64 dctrl-tools amd64 2.24-3build2 [66.9 kB]
701s Get:36 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB]
701s Get:37 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-core all 2.37-8 [835 kB]
701s Get:38 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig-config amd64 2.15.0-1ubuntu1 [36.9 kB]
701s Get:39 http://ftpmaster.internal/ubuntu noble/main amd64 libfontconfig1 amd64 2.15.0-1ubuntu1 [139 kB]
701s Get:40 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig amd64 2.15.0-1ubuntu1 [180 kB]
701s Get:41 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran5 amd64 14-20240303-1ubuntu1 [924 kB]
701s Get:42 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran-13-dev amd64 13.2.0-17ubuntu2 [942 kB]
701s Get:43 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.6 MB]
701s Get:44 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13 amd64 13.2.0-17ubuntu2 [10.3 kB]
701s Get:45 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1024 B]
701s Get:46 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran amd64 4:13.2.0-7ubuntu1 [1176 B]
701s Get:47 http://ftpmaster.internal/ubuntu noble/main amd64 icu-devtools amd64 74.2-1ubuntu1 [212 kB]
701s Get:48 http://ftpmaster.internal/ubuntu noble/main amd64 libblas3 amd64 3.12.0-3 [238 kB]
701s Get:49 http://ftpmaster.internal/ubuntu noble/main amd64 libblas-dev amd64 3.12.0-3 [170 kB]
701s Get:50 http://ftpmaster.internal/ubuntu noble/main amd64 libbz2-dev amd64 1.0.8-5ubuntu1 [33.6 kB]
701s Get:51 http://ftpmaster.internal/ubuntu noble/main amd64 libpixman-1-0 amd64 0.42.2-1 [268 kB]
701s Get:52 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-render0 amd64 1.15-1 [16.3 kB]
701s Get:53 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-shm0 amd64 1.15-1 [5740 B]
701s Get:54 http://ftpmaster.internal/ubuntu noble/main amd64 libxrender1 amd64 1:0.9.10-1.1 [20.0 kB]
701s Get:55 http://ftpmaster.internal/ubuntu noble/main amd64 libcairo2 amd64 1.18.0-1 [572 kB]
701s Get:56 http://ftpmaster.internal/ubuntu noble/main amd64 libdatrie1 amd64 0.2.13-3 [20.9 kB]
701s Get:57 http://ftpmaster.internal/ubuntu noble/main amd64 libdeflate0 amd64 1.19-1 [43.7 kB]
701s Get:58 http://ftpmaster.internal/ubuntu noble/main amd64 libgraphite2-3 amd64 1.3.14-2 [83.1 kB]
701s Get:59 http://ftpmaster.internal/ubuntu noble/main amd64 libharfbuzz0b amd64 8.3.0-2 [469 kB]
701s Get:60 http://ftpmaster.internal/ubuntu noble/main amd64 x11-common all 1:7.7+23ubuntu2 [23.4 kB]
701s Get:61 http://ftpmaster.internal/ubuntu noble/main amd64 libice6 amd64 2:1.0.10-1build2 [42.6 kB]
701s Get:62 http://ftpmaster.internal/ubuntu noble/main amd64 libicu-dev amd64 74.2-1ubuntu1 [11.9 MB]
701s Get:63 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu1 [147 kB]
701s Get:64 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8-dev amd64 2.1.5-2ubuntu1 [294 kB]
701s Get:65 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
701s Get:66 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B]
701s Get:67 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B]
701s Get:68 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack3 amd64 3.12.0-3 [2649 kB]
701s Get:69 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack-dev amd64 3.12.0-3 [5196 kB]
701s Get:70 http://ftpmaster.internal/ubuntu noble/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu1 [184 kB]
701s Get:71 http://ftpmaster.internal/ubuntu noble/main amd64 libncurses-dev amd64 6.4+20240113-1ubuntu1 [384 kB]
701s Get:72 http://ftpmaster.internal/ubuntu noble/main amd64 libthai-data all 0.1.29-2 [158 kB]
701s Get:73 http://ftpmaster.internal/ubuntu noble/main amd64 libthai0 amd64 0.1.29-2 [18.8 kB]
701s Get:74 http://ftpmaster.internal/ubuntu noble/main amd64 libpango-1.0-0 amd64 1.51.0+ds-4 [228 kB]
701s Get:75 http://ftpmaster.internal/ubuntu noble/main amd64 libpangoft2-1.0-0 amd64 1.51.0+ds-4 [42.1 kB]
701s Get:76 http://ftpmaster.internal/ubuntu noble/main amd64 libpangocairo-1.0-0 amd64 1.51.0+ds-4 [29.0 kB]
701s Get:77 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper1 amd64 1.1.29 [13.4 kB]
701s Get:78 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper-utils amd64 1.1.29 [8658 B]
701s Get:79 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-16-0 amd64 10.42-4ubuntu1 [211 kB]
701s Get:80 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-32-0 amd64 10.42-4ubuntu1 [198 kB]
701s Get:81 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-posix3 amd64 10.42-4ubuntu1 [6808 B]
701s Get:82 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-dev amd64 10.42-4ubuntu1 [743 kB]
701s Get:83 http://ftpmaster.internal/ubuntu noble/main amd64 libpkgconf3 amd64 1.8.1-2 [31.1 kB]
701s Get:84 http://ftpmaster.internal/ubuntu noble/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3ubuntu1 [896 kB]
701s Get:85 http://ftpmaster.internal/ubuntu noble/main amd64 libpng-dev amd64 1.6.43-1 [264 kB]
701s Get:86 http://ftpmaster.internal/ubuntu noble/main amd64 libreadline-dev amd64 8.2-3 [167 kB]
701s Get:87 http://ftpmaster.internal/ubuntu noble/main amd64 libsharpyuv0 amd64 1.3.2-0.4 [15.6 kB]
701s Get:88 http://ftpmaster.internal/ubuntu noble/main amd64 libsm6 amd64 2:1.2.3-1build2 [16.7 kB]
701s Get:89 http://ftpmaster.internal/ubuntu noble/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [984 kB]
701s Get:90 http://ftpmaster.internal/ubuntu noble/main amd64 libjbig0 amd64 2.1-6.1ubuntu1 [29.3 kB]
701s Get:91 http://ftpmaster.internal/ubuntu noble/main amd64 libwebp7 amd64 1.3.2-0.4 [230 kB]
701s Get:92 http://ftpmaster.internal/ubuntu noble/main amd64 libtiff6 amd64 4.5.1+git230720-3ubuntu1 [232 kB]
701s Get:93 http://ftpmaster.internal/ubuntu noble/main amd64 libxft2 amd64 2.3.6-1 [44.5 kB]
701s Get:94 http://ftpmaster.internal/ubuntu noble/main amd64 libxss1 amd64 1:1.2.3-1build2 [8476 B]
701s Get:95 http://ftpmaster.internal/ubuntu noble/main amd64 libtk8.6 amd64 8.6.13-2 [776 kB]
702s Get:96 http://ftpmaster.internal/ubuntu noble/main amd64 libxt6 amd64 1:1.2.1-1.1 [173 kB]
702s Get:97 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf-bin amd64 1.8.1-2 [20.7 kB]
702s Get:98 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf amd64 1.8.1-2 [16.8 kB]
702s Get:99 http://ftpmaster.internal/ubuntu noble/main amd64 pkg-config amd64 1.8.1-2 [7170 B]
702s Get:100 http://ftpmaster.internal/ubuntu noble/main amd64 zip amd64 3.0-13 [176 kB]
702s Get:101 http://ftpmaster.internal/ubuntu noble/main amd64 unzip amd64 6.0-28ubuntu3 [174 kB]
702s Get:102 http://ftpmaster.internal/ubuntu noble/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
702s Get:103 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-core amd64 4.3.2-1build1 [27.0 MB]
702s Get:104 http://ftpmaster.internal/ubuntu noble/main amd64 liblzma-dev amd64 5.4.5-0.3 [205 kB]
702s Get:105 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-dev all 4.3.2-1build1 [4336 B]
702s Get:106 http://ftpmaster.internal/ubuntu noble/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
702s Get:107 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biocgenerics all 0.48.1-2 [595 kB]
702s Get:108 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biobase amd64 2.62.0-1 [2136 kB]
702s Get:109 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-s4vectors amd64 0.40.2+dfsg-1 [2056 kB]
702s Get:110 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-iranges amd64 2.36.0-1 [2252 kB]
702s Get:111 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-dbi all 1.2.2-1 [823 kB]
702s Get:112 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-bit amd64 4.0.5-1 [1063 kB]
702s Get:113 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-bit64 amd64 4.0.5-1 [465 kB]
702s Get:114 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rlang amd64 1.1.3-1 [1663 kB]
702s Get:115 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-cli amd64 3.6.2-1 [1380 kB]
702s Get:116 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-glue amd64 1.7.0-1 [154 kB]
702s Get:117 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
702s Get:118 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB]
702s Get:119 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-blob all 1.2.4-1 [49.8 kB]
702s Get:120 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-fastmap amd64 1.1.1-1 [70.5 kB]
702s Get:121 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-cachem amd64 1.0.8-1 [72.1 kB]
702s Get:122 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB]
702s Get:123 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
702s Get:124 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-plogr all 0.2.0-3build1 [15.1 kB]
702s Get:125 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-cpp11 all 0.4.7-1 [266 kB]
702s Get:126 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rsqlite amd64 2.3.4-1 [1364 kB]
702s Get:127 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-curl amd64 5.2.0+dfsg-1 [188 kB]
702s Get:128 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-jsonlite amd64 1.8.8+dfsg-1 [441 kB]
702s Get:129 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-mime amd64 0.12-1 [35.8 kB]
702s Get:130 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-sys amd64 3.4.2-1 [44.6 kB]
702s Get:131 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-askpass amd64 1.2.0-1 [24.6 kB]
702s Get:132 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-openssl amd64 2.1.1+dfsg-2 [402 kB]
702s Get:133 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-r6 all 2.5.1-1 [99.0 kB]
702s Get:134 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-httr all 1.4.7+dfsg-1 [459 kB]
702s Get:135 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-png amd64 0.1-8-1 [40.5 kB]
702s Get:136 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-zlibbioc all 1.48.0+dfsg-1 [9596 B]
702s Get:137 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-xvector amd64 0.42.0-1 [621 kB]
702s Get:138 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-bitops amd64 1.0-7-1 [29.8 kB]
702s Get:139 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rcurl amd64 1.98-1.14+dfsg-1 [793 kB]
702s Get:140 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-genomeinfodbdata all 1.2.11-2 [12.3 MB]
702s Get:141 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-genomeinfodb all 1.38.6+dfsg-1 [3886 kB]
702s Get:142 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-crayon all 1.5.2-1 [164 kB]
702s Get:143 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biostrings amd64 2.70.2+dfsg-1 [13.6 MB]
702s Get:144 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-keggrest all 1.42.0+dfsg-1 [188 kB]
702s Get:145 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-annotationdbi all 1.64.1-1 [4897 kB]
702s Get:146 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-go.db all 3.18.0-1 [18.7 MB]
703s Preconfiguring packages ...
703s Fetched 211 MB in 2s (136 MB/s)
703s Selecting previously unselected package libc-dev-bin.
703s (Reading database ... 
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(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71420 files and directories currently installed.)
703s Preparing to unpack .../000-libc-dev-bin_2.39-0ubuntu2_amd64.deb ...
703s Unpacking libc-dev-bin (2.39-0ubuntu2) ...
703s Selecting previously unselected package linux-libc-dev:amd64.
703s Preparing to unpack .../001-linux-libc-dev_6.8.0-11.11_amd64.deb ...
703s Unpacking linux-libc-dev:amd64 (6.8.0-11.11) ...
703s Selecting previously unselected package libcrypt-dev:amd64.
703s Preparing to unpack .../002-libcrypt-dev_1%3a4.4.36-4_amd64.deb ...
703s Unpacking libcrypt-dev:amd64 (1:4.4.36-4) ...
703s Selecting previously unselected package libtirpc-dev:amd64.
703s Preparing to unpack .../003-libtirpc-dev_1.3.4+ds-1build1_amd64.deb ...
703s Unpacking libtirpc-dev:amd64 (1.3.4+ds-1build1) ...
703s Selecting previously unselected package libnsl-dev:amd64.
703s Preparing to unpack .../004-libnsl-dev_1.3.0-3_amd64.deb ...
703s Unpacking libnsl-dev:amd64 (1.3.0-3) ...
703s Selecting previously unselected package rpcsvc-proto.
703s Preparing to unpack .../005-rpcsvc-proto_1.4.2-0ubuntu6_amd64.deb ...
703s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ...
703s Selecting previously unselected package libc6-dev:amd64.
703s Preparing to unpack .../006-libc6-dev_2.39-0ubuntu2_amd64.deb ...
703s Unpacking libc6-dev:amd64 (2.39-0ubuntu2) ...
703s Selecting previously unselected package libisl23:amd64.
703s Preparing to unpack .../007-libisl23_0.26-3_amd64.deb ...
703s Unpacking libisl23:amd64 (0.26-3) ...
704s Selecting previously unselected package libmpc3:amd64.
704s Preparing to unpack .../008-libmpc3_1.3.1-1_amd64.deb ...
704s Unpacking libmpc3:amd64 (1.3.1-1) ...
704s Selecting previously unselected package cpp-13-x86-64-linux-gnu.
704s Preparing to unpack .../009-cpp-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
704s Unpacking cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
704s Selecting previously unselected package cpp-13.
704s Preparing to unpack .../010-cpp-13_13.2.0-17ubuntu2_amd64.deb ...
704s Unpacking cpp-13 (13.2.0-17ubuntu2) ...
704s Selecting previously unselected package cpp-x86-64-linux-gnu.
704s Preparing to unpack .../011-cpp-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
704s Unpacking cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
704s Selecting previously unselected package cpp.
704s Preparing to unpack .../012-cpp_4%3a13.2.0-7ubuntu1_amd64.deb ...
704s Unpacking cpp (4:13.2.0-7ubuntu1) ...
704s Selecting previously unselected package libcc1-0:amd64.
704s Preparing to unpack .../013-libcc1-0_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libcc1-0:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libgomp1:amd64.
704s Preparing to unpack .../014-libgomp1_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libgomp1:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libitm1:amd64.
704s Preparing to unpack .../015-libitm1_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libitm1:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libatomic1:amd64.
704s Preparing to unpack .../016-libatomic1_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libatomic1:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libasan8:amd64.
704s Preparing to unpack .../017-libasan8_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libasan8:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package liblsan0:amd64.
704s Preparing to unpack .../018-liblsan0_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking liblsan0:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libtsan2:amd64.
704s Preparing to unpack .../019-libtsan2_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libtsan2:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libubsan1:amd64.
704s Preparing to unpack .../020-libubsan1_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libubsan1:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libhwasan0:amd64.
704s Preparing to unpack .../021-libhwasan0_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libhwasan0:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libquadmath0:amd64.
704s Preparing to unpack .../022-libquadmath0_14-20240303-1ubuntu1_amd64.deb ...
704s Unpacking libquadmath0:amd64 (14-20240303-1ubuntu1) ...
704s Selecting previously unselected package libgcc-13-dev:amd64.
704s Preparing to unpack .../023-libgcc-13-dev_13.2.0-17ubuntu2_amd64.deb ...
704s Unpacking libgcc-13-dev:amd64 (13.2.0-17ubuntu2) ...
704s Selecting previously unselected package gcc-13-x86-64-linux-gnu.
704s Preparing to unpack .../024-gcc-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
704s Unpacking gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
705s Selecting previously unselected package gcc-13.
705s Preparing to unpack .../025-gcc-13_13.2.0-17ubuntu2_amd64.deb ...
705s Unpacking gcc-13 (13.2.0-17ubuntu2) ...
705s Selecting previously unselected package gcc-x86-64-linux-gnu.
705s Preparing to unpack .../026-gcc-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
705s Unpacking gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
705s Selecting previously unselected package gcc.
705s Preparing to unpack .../027-gcc_4%3a13.2.0-7ubuntu1_amd64.deb ...
705s Unpacking gcc (4:13.2.0-7ubuntu1) ...
705s Selecting previously unselected package libstdc++-13-dev:amd64.
705s Preparing to unpack .../028-libstdc++-13-dev_13.2.0-17ubuntu2_amd64.deb ...
705s Unpacking libstdc++-13-dev:amd64 (13.2.0-17ubuntu2) ...
705s Selecting previously unselected package g++-13-x86-64-linux-gnu.
705s Preparing to unpack .../029-g++-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
705s Unpacking g++-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
705s Selecting previously unselected package g++-13.
705s Preparing to unpack .../030-g++-13_13.2.0-17ubuntu2_amd64.deb ...
705s Unpacking g++-13 (13.2.0-17ubuntu2) ...
705s Selecting previously unselected package g++-x86-64-linux-gnu.
705s Preparing to unpack .../031-g++-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
705s Unpacking g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
705s Selecting previously unselected package g++.
705s Preparing to unpack .../032-g++_4%3a13.2.0-7ubuntu1_amd64.deb ...
705s Unpacking g++ (4:13.2.0-7ubuntu1) ...
705s Selecting previously unselected package build-essential.
705s Preparing to unpack .../033-build-essential_12.10ubuntu1_amd64.deb ...
705s Unpacking build-essential (12.10ubuntu1) ...
705s Selecting previously unselected package dctrl-tools.
705s Preparing to unpack .../034-dctrl-tools_2.24-3build2_amd64.deb ...
705s Unpacking dctrl-tools (2.24-3build2) ...
705s Selecting previously unselected package fonts-dejavu-mono.
705s Preparing to unpack .../035-fonts-dejavu-mono_2.37-8_all.deb ...
705s Unpacking fonts-dejavu-mono (2.37-8) ...
705s Selecting previously unselected package fonts-dejavu-core.
705s Preparing to unpack .../036-fonts-dejavu-core_2.37-8_all.deb ...
705s Unpacking fonts-dejavu-core (2.37-8) ...
705s Selecting previously unselected package fontconfig-config.
705s Preparing to unpack .../037-fontconfig-config_2.15.0-1ubuntu1_amd64.deb ...
706s Unpacking fontconfig-config (2.15.0-1ubuntu1) ...
706s Selecting previously unselected package libfontconfig1:amd64.
706s Preparing to unpack .../038-libfontconfig1_2.15.0-1ubuntu1_amd64.deb ...
706s Unpacking libfontconfig1:amd64 (2.15.0-1ubuntu1) ...
706s Selecting previously unselected package fontconfig.
706s Preparing to unpack .../039-fontconfig_2.15.0-1ubuntu1_amd64.deb ...
706s Unpacking fontconfig (2.15.0-1ubuntu1) ...
706s Selecting previously unselected package libgfortran5:amd64.
706s Preparing to unpack .../040-libgfortran5_14-20240303-1ubuntu1_amd64.deb ...
706s Unpacking libgfortran5:amd64 (14-20240303-1ubuntu1) ...
706s Selecting previously unselected package libgfortran-13-dev:amd64.
706s Preparing to unpack .../041-libgfortran-13-dev_13.2.0-17ubuntu2_amd64.deb ...
706s Unpacking libgfortran-13-dev:amd64 (13.2.0-17ubuntu2) ...
706s Selecting previously unselected package gfortran-13-x86-64-linux-gnu.
706s Preparing to unpack .../042-gfortran-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
706s Unpacking gfortran-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
706s Selecting previously unselected package gfortran-13.
706s Preparing to unpack .../043-gfortran-13_13.2.0-17ubuntu2_amd64.deb ...
706s Unpacking gfortran-13 (13.2.0-17ubuntu2) ...
706s Selecting previously unselected package gfortran-x86-64-linux-gnu.
706s Preparing to unpack .../044-gfortran-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
706s Unpacking gfortran-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
706s Selecting previously unselected package gfortran.
706s Preparing to unpack .../045-gfortran_4%3a13.2.0-7ubuntu1_amd64.deb ...
706s Unpacking gfortran (4:13.2.0-7ubuntu1) ...
706s Selecting previously unselected package icu-devtools.
706s Preparing to unpack .../046-icu-devtools_74.2-1ubuntu1_amd64.deb ...
706s Unpacking icu-devtools (74.2-1ubuntu1) ...
706s Selecting previously unselected package libblas3:amd64.
706s Preparing to unpack .../047-libblas3_3.12.0-3_amd64.deb ...
706s Unpacking libblas3:amd64 (3.12.0-3) ...
706s Selecting previously unselected package libblas-dev:amd64.
706s Preparing to unpack .../048-libblas-dev_3.12.0-3_amd64.deb ...
706s Unpacking libblas-dev:amd64 (3.12.0-3) ...
706s Selecting previously unselected package libbz2-dev:amd64.
706s Preparing to unpack .../049-libbz2-dev_1.0.8-5ubuntu1_amd64.deb ...
706s Unpacking libbz2-dev:amd64 (1.0.8-5ubuntu1) ...
706s Selecting previously unselected package libpixman-1-0:amd64.
706s Preparing to unpack .../050-libpixman-1-0_0.42.2-1_amd64.deb ...
706s Unpacking libpixman-1-0:amd64 (0.42.2-1) ...
706s Selecting previously unselected package libxcb-render0:amd64.
706s Preparing to unpack .../051-libxcb-render0_1.15-1_amd64.deb ...
706s Unpacking libxcb-render0:amd64 (1.15-1) ...
706s Selecting previously unselected package libxcb-shm0:amd64.
706s Preparing to unpack .../052-libxcb-shm0_1.15-1_amd64.deb ...
706s Unpacking libxcb-shm0:amd64 (1.15-1) ...
706s Selecting previously unselected package libxrender1:amd64.
706s Preparing to unpack .../053-libxrender1_1%3a0.9.10-1.1_amd64.deb ...
706s Unpacking libxrender1:amd64 (1:0.9.10-1.1) ...
706s Selecting previously unselected package libcairo2:amd64.
706s Preparing to unpack .../054-libcairo2_1.18.0-1_amd64.deb ...
706s Unpacking libcairo2:amd64 (1.18.0-1) ...
706s Selecting previously unselected package libdatrie1:amd64.
706s Preparing to unpack .../055-libdatrie1_0.2.13-3_amd64.deb ...
706s Unpacking libdatrie1:amd64 (0.2.13-3) ...
706s Selecting previously unselected package libdeflate0:amd64.
706s Preparing to unpack .../056-libdeflate0_1.19-1_amd64.deb ...
706s Unpacking libdeflate0:amd64 (1.19-1) ...
706s Selecting previously unselected package libgraphite2-3:amd64.
706s Preparing to unpack .../057-libgraphite2-3_1.3.14-2_amd64.deb ...
706s Unpacking libgraphite2-3:amd64 (1.3.14-2) ...
706s Selecting previously unselected package libharfbuzz0b:amd64.
706s Preparing to unpack .../058-libharfbuzz0b_8.3.0-2_amd64.deb ...
706s Unpacking libharfbuzz0b:amd64 (8.3.0-2) ...
706s Selecting previously unselected package x11-common.
706s Preparing to unpack .../059-x11-common_1%3a7.7+23ubuntu2_all.deb ...
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708s Selecting previously unselected package libtk8.6:amd64.
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711s Setting up libgraphite2-3:amd64 (1.3.14-2) ...
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711s 
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712s Setting up libgomp1:amd64 (14-20240303-1ubuntu1) ...
712s Setting up libjbig0:amd64 (2.1-6.1ubuntu1) ...
712s Setting up libpcre2-16-0:amd64 (10.42-4ubuntu1) ...
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712s Setting up libtirpc-dev:amd64 (1.3.4+ds-1build1) ...
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712s Setting up libgfortran5:amd64 (14-20240303-1ubuntu1) ...
712s Setting up libwebp7:amd64 (1.3.2-0.4) ...
712s Setting up liblzma-dev:amd64 (5.4.5-0.3) ...
712s Setting up libubsan1:amd64 (14-20240303-1ubuntu1) ...
712s Setting up libpcre2-posix3:amd64 (10.42-4ubuntu1) ...
712s Setting up libnsl-dev:amd64 (1.3.0-3) ...
712s Setting up libhwasan0:amd64 (14-20240303-1ubuntu1) ...
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712s Setting up dctrl-tools (2.24-3build2) ...
712s Setting up libitm1:amd64 (14-20240303-1ubuntu1) ...
712s Setting up libjpeg8:amd64 (8c-2ubuntu11) ...
712s Setting up libice6:amd64 (2:1.0.10-1build2) ...
712s Setting up liblapack3:amd64 (3.12.0-3) ...
712s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
712s Setting up cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
712s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
712s Setting up pkgconf:amd64 (1.8.1-2) ...
712s Setting up libthai0:amd64 (0.1.29-2) ...
712s Setting up liblapack-dev:amd64 (3.12.0-3) ...
712s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode
712s Setting up pkg-config:amd64 (1.8.1-2) ...
712s Setting up libgcc-13-dev:amd64 (13.2.0-17ubuntu2) ...
712s Setting up libtiff6:amd64 (4.5.1+git230720-3ubuntu1) ...
712s Setting up libc6-dev:amd64 (2.39-0ubuntu2) ...
712s Setting up libfontconfig1:amd64 (2.15.0-1ubuntu1) ...
712s Setting up libgfortran-13-dev:amd64 (13.2.0-17ubuntu2) ...
712s Setting up libsm6:amd64 (2:1.2.3-1build2) ...
712s Setting up libicu-dev:amd64 (74.2-1ubuntu1) ...
712s Setting up libstdc++-13-dev:amd64 (13.2.0-17ubuntu2) ...
712s Setting up libbz2-dev:amd64 (1.0.8-5ubuntu1) ...
712s Setting up cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
712s Setting up fontconfig (2.15.0-1ubuntu1) ...
714s Regenerating fonts cache... done.
714s Setting up libjpeg-turbo8-dev:amd64 (2.1.5-2ubuntu1) ...
714s Setting up libxft2:amd64 (2.3.6-1) ...
714s Setting up libncurses-dev:amd64 (6.4+20240113-1ubuntu1) ...
714s Setting up libpcre2-dev:amd64 (10.42-4ubuntu1) ...
714s Setting up cpp-13 (13.2.0-17ubuntu2) ...
714s Setting up gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
714s Setting up libtk8.6:amd64 (8.6.13-2) ...
714s Setting up libpango-1.0-0:amd64 (1.51.0+ds-4) ...
714s Setting up libreadline-dev:amd64 (8.2-3) ...
714s Setting up gfortran-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
714s Setting up libcairo2:amd64 (1.18.0-1) ...
714s Setting up gcc-13 (13.2.0-17ubuntu2) ...
714s Setting up libxt6:amd64 (1:1.2.1-1.1) ...
714s Setting up zlib1g-dev:amd64 (1:1.3.dfsg-3ubuntu1) ...
714s Setting up cpp (4:13.2.0-7ubuntu1) ...
714s Setting up libpangoft2-1.0-0:amd64 (1.51.0+ds-4) ...
714s Setting up libjpeg8-dev:amd64 (8c-2ubuntu11) ...
714s Setting up libpangocairo-1.0-0:amd64 (1.51.0+ds-4) ...
714s Setting up g++-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
714s Setting up gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
714s Setting up libpng-dev:amd64 (1.6.43-1) ...
714s Setting up libjpeg-dev:amd64 (8c-2ubuntu11) ...
714s Setting up gfortran-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
714s Setting up gcc (4:13.2.0-7ubuntu1) ...
714s Setting up gfortran-13 (13.2.0-17ubuntu2) ...
714s Setting up r-base-core (4.3.2-1build1) ...
714s 
714s Creating config file /etc/R/Renviron with new version
714s Setting up r-cran-crayon (1.5.2-1) ...
714s Setting up g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
714s Setting up r-cran-r6 (2.5.1-1) ...
714s Setting up r-bioc-genomeinfodbdata (1.2.11-2) ...
714s Setting up r-cran-curl (5.2.0+dfsg-1) ...
714s Setting up g++-13 (13.2.0-17ubuntu2) ...
714s Setting up r-bioc-biocgenerics (0.48.1-2) ...
714s Setting up r-cran-rlang (1.1.3-1) ...
714s Setting up r-cran-sys (3.4.2-1) ...
714s Setting up r-cran-plogr (0.2.0-3build1) ...
714s Setting up r-cran-mime (0.12-1) ...
714s Setting up r-cran-dbi (1.2.2-1) ...
714s Setting up r-cran-glue (1.7.0-1) ...
714s Setting up r-cran-bit (4.0.5-1) ...
714s Setting up r-cran-cli (3.6.2-1) ...
714s Setting up gfortran (4:13.2.0-7ubuntu1) ...
714s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
714s 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
714s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
714s 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
714s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
714s Setting up r-cran-bitops (1.0-7-1) ...
714s Setting up r-cran-bit64 (4.0.5-1) ...
714s Setting up r-bioc-zlibbioc (1.48.0+dfsg-1) ...
714s Setting up r-cran-askpass (1.2.0-1) ...
714s Setting up r-cran-fastmap (1.1.1-1) ...
714s Setting up r-cran-png (0.1-8-1) ...
714s Setting up r-bioc-biobase (2.62.0-1) ...
714s Setting up r-cran-jsonlite (1.8.8+dfsg-1) ...
714s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
714s Setting up r-cran-cpp11 (0.4.7-1) ...
714s Setting up r-bioc-s4vectors (0.40.2+dfsg-1) ...
714s Setting up g++ (4:13.2.0-7ubuntu1) ...
714s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
714s Setting up r-cran-cachem (1.0.8-1) ...
714s Setting up build-essential (12.10ubuntu1) ...
714s Setting up r-bioc-iranges (2.36.0-1) ...
714s Setting up r-cran-rcurl (1.98-1.14+dfsg-1) ...
714s Setting up r-cran-vctrs (0.6.5-1) ...
714s Setting up r-cran-openssl (2.1.1+dfsg-2) ...
714s Setting up r-base-dev (4.3.2-1build1) ...
714s Setting up r-bioc-genomeinfodb (1.38.6+dfsg-1) ...
714s Setting up r-cran-httr (1.4.7+dfsg-1) ...
714s Setting up r-cran-memoise (2.0.1-1) ...
714s Setting up r-cran-blob (1.2.4-1) ...
714s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
714s Setting up r-bioc-xvector (0.42.0-1) ...
714s Setting up r-cran-rsqlite (2.3.4-1) ...
714s Setting up r-bioc-biostrings (2.70.2+dfsg-1) ...
714s Setting up r-bioc-keggrest (1.42.0+dfsg-1) ...
714s Setting up r-bioc-annotationdbi (1.64.1-1) ...
714s Setting up r-bioc-go.db (3.18.0-1) ...
714s Processing triggers for install-info (7.1-3) ...
714s Processing triggers for libc-bin (2.39-0ubuntu2) ...
714s Processing triggers for man-db (2.12.0-3) ...
725s Reading package lists...
725s Building dependency tree...
725s Reading state information...
725s Starting pkgProblemResolver with broken count: 0
725s Starting 2 pkgProblemResolver with broken count: 0
725s Done
726s The following NEW packages will be installed:
726s   autopkgtest-satdep
726s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
726s Need to get 0 B/696 B of archives.
726s After this operation, 0 B of additional disk space will be used.
726s Get:1 /tmp/autopkgtest.wDnMRC/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [696 B]
726s Selecting previously unselected package autopkgtest-satdep.
726s (Reading database ... 
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(Reading database ... 80263 files and directories currently installed.)
726s Preparing to unpack .../2-autopkgtest-satdep.deb ...
726s Unpacking autopkgtest-satdep (0) ...
726s Setting up autopkgtest-satdep (0) ...
728s (Reading database ... 80263 files and directories currently installed.)
728s Removing autopkgtest-satdep (0) ...
730s autopkgtest [02:58:40]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
730s autopkgtest [02:58:40]: test pkg-r-autopkgtest: [-----------------------
730s Test: Try to load the R library GO.db
730s 
730s R version 4.3.2 (2023-10-31) -- "Eye Holes"
730s Copyright (C) 2023 The R Foundation for Statistical Computing
730s Platform: x86_64-pc-linux-gnu (64-bit)
730s 
730s R is free software and comes with ABSOLUTELY NO WARRANTY.
730s You are welcome to redistribute it under certain conditions.
730s Type 'license()' or 'licence()' for distribution details.
730s 
730s R is a collaborative project with many contributors.
730s Type 'contributors()' for more information and
730s 'citation()' on how to cite R or R packages in publications.
730s 
730s Type 'demo()' for some demos, 'help()' for on-line help, or
730s 'help.start()' for an HTML browser interface to help.
730s Type 'q()' to quit R.
730s 
730s > library('GO.db')
730s Loading required package: AnnotationDbi
730s Loading required package: stats4
730s Loading required package: BiocGenerics
730s 
730s Attaching package: ‘BiocGenerics’
730s 
730s The following objects are masked from ‘package:stats’:
730s 
730s     IQR, mad, sd, var, xtabs
730s 
730s The following objects are masked from ‘package:base’:
730s 
730s     anyDuplicated, aperm, append, as.data.frame, basename, cbind,
730s     colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
730s     get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply,
730s     match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
730s     Position, rank, rbind, Reduce, rownames, sapply, setdiff, sort,
730s     table, tapply, union, unique, unsplit, which.max, which.min
730s 
730s Loading required package: Biobase
730s Welcome to Bioconductor
730s 
730s     Vignettes contain introductory material; view with
730s     'browseVignettes()'. To cite Bioconductor, see
730s     'citation("Biobase")', and for packages 'citation("pkgname")'.
730s 
730s Loading required package: IRanges
730s Loading required package: S4Vectors
731s 
731s Attaching package: ‘S4Vectors’
731s 
731s The following object is masked from ‘package:utils’:
731s 
731s     findMatches
731s 
731s The following objects are masked from ‘package:base’:
731s 
731s     expand.grid, I, unname
731s 
733s 
733s > 
733s > 
733s Other tests are currently unsupported!
733s They will be progressively added.
734s autopkgtest [02:58:44]: test pkg-r-autopkgtest: -----------------------]
734s pkg-r-autopkgtest    PASS
734s autopkgtest [02:58:44]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
734s autopkgtest [02:58:44]: @@@@@@@@@@@@@@@@@@@@ summary
734s pkg-r-autopkgtest    PASS
744s Creating nova instance adt-noble-i386-r-bioc-go.db-20240322-024630-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-amd64-server-20240321.img (UUID 6f9effbc-61d8-4d0a-a7e9-883547f42ac1)...