0s autopkgtest [01:34:59]: starting date and time: 2024-03-22 01:34:59+0000
  0s autopkgtest [01:34:59]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps
  0s autopkgtest [01:34:59]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.mckia5bx/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-biocviews --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@lcy02-61.secgroup --name adt-noble-i386-r-bioc-biocviews-20240322-013459-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/
205s autopkgtest [01:38:24]: testbed dpkg architecture: amd64
205s autopkgtest [01:38:24]: testbed apt version: 2.7.12
205s autopkgtest [01:38:24]: test architecture: i386
205s autopkgtest [01:38:24]: @@@@@@@@@@@@@@@@@@@@ test bed setup
205s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
205s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3801 kB]
205s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [494 kB]
205s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [53.9 kB]
205s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
205s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main i386 Packages [467 kB]
205s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 Packages [703 kB]
205s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 c-n-f Metadata [3508 B]
205s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted i386 Packages [6700 B]
205s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 Packages [30.5 kB]
205s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 c-n-f Metadata [116 B]
205s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe i386 Packages [1280 kB]
205s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 Packages [4251 kB]
205s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 c-n-f Metadata [9396 B]
205s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 Packages [93.7 kB]
205s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/multiverse i386 Packages [26.8 kB]
205s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 c-n-f Metadata [196 B]
208s Fetched 11.3 MB in 1s (8066 kB/s)
209s Reading package lists...
210s Reading package lists...
210s Building dependency tree...
210s Reading state information...
211s Calculating upgrade...
211s The following packages will be upgraded:
211s   cloud-init fonts-ubuntu-console python3-markupsafe
211s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
211s Need to get 629 kB of archives.
211s After this operation, 11.3 kB disk space will be freed.
211s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-ubuntu-console all 0.869+git20240321-0ubuntu1 [18.7 kB]
211s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 python3-markupsafe amd64 2.1.5-1build1 [12.6 kB]
211s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 cloud-init all 24.1.2-0ubuntu1 [597 kB]
211s Preconfiguring packages ...
212s Fetched 629 kB in 0s (15.3 MB/s)
212s (Reading database ... 
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(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.)
212s Preparing to unpack .../fonts-ubuntu-console_0.869+git20240321-0ubuntu1_all.deb ...
212s Unpacking fonts-ubuntu-console (0.869+git20240321-0ubuntu1) over (0.869-0ubuntu1) ...
212s Preparing to unpack .../python3-markupsafe_2.1.5-1build1_amd64.deb ...
212s Unpacking python3-markupsafe (2.1.5-1build1) over (2.1.5-1) ...
212s Preparing to unpack .../cloud-init_24.1.2-0ubuntu1_all.deb ...
212s Unpacking cloud-init (24.1.2-0ubuntu1) over (24.1.1-0ubuntu1) ...
212s Setting up fonts-ubuntu-console (0.869+git20240321-0ubuntu1) ...
212s Setting up cloud-init (24.1.2-0ubuntu1) ...
214s Setting up python3-markupsafe (2.1.5-1build1) ...
214s Processing triggers for man-db (2.12.0-3) ...
214s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
215s Reading package lists...
215s Building dependency tree...
215s Reading state information...
215s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
216s sh: Attempting to set up Debian/Ubuntu apt sources automatically
216s sh: Distribution appears to be Ubuntu
217s Reading package lists...
217s Building dependency tree...
217s Reading state information...
217s eatmydata is already the newest version (131-1).
217s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
217s Reading package lists...
217s Building dependency tree...
217s Reading state information...
218s dbus is already the newest version (1.14.10-4ubuntu1).
218s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
218s Reading package lists...
218s Building dependency tree...
218s Reading state information...
218s rng-tools-debian is already the newest version (2.4).
218s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
218s Reading package lists...
218s Building dependency tree...
218s Reading state information...
219s The following packages will be REMOVED:
219s   cloud-init* python3-configobj* python3-debconf*
219s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded.
219s After this operation, 3256 kB disk space will be freed.
219s (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.)
219s Removing cloud-init (24.1.2-0ubuntu1) ...
219s Removing python3-configobj (5.0.8-3) ...
219s Removing python3-debconf (1.5.86) ...
220s Processing triggers for man-db (2.12.0-3) ...
220s (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.)
220s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ...
220s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed
220s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
220s invoke-rc.d: policy-rc.d denied execution of try-restart.
221s Reading package lists...
221s Building dependency tree...
221s Reading state information...
221s linux-generic is already the newest version (6.8.0-11.11+1).
221s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
221s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
221s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
221s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
223s Reading package lists...
223s Reading package lists...
224s Building dependency tree...
224s Reading state information...
224s Calculating upgrade...
224s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
224s Reading package lists...
224s Building dependency tree...
224s Reading state information...
225s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
225s autopkgtest [01:38:44]: rebooting testbed after setup commands that affected boot
251s autopkgtest [01:39:10]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 00:29:05 UTC 2024
252s autopkgtest [01:39:11]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-biocviews
253s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-bioc-biocviews 1.70.0-1 (dsc) [2187 B]
253s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-bioc-biocviews 1.70.0-1 (tar) [518 kB]
253s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-bioc-biocviews 1.70.0-1 (diff) [5836 B]
253s gpgv: Signature made Thu Nov 30 09:24:43 2023 UTC
253s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
253s gpgv:                issuer "tille@debian.org"
253s gpgv: Can't check signature: No public key
253s dpkg-source: warning: cannot verify inline signature for ./r-bioc-biocviews_1.70.0-1.dsc: no acceptable signature found
253s autopkgtest [01:39:12]: testing package r-bioc-biocviews version 1.70.0-1
254s autopkgtest [01:39:13]: build not needed
256s autopkgtest [01:39:15]: test pkg-r-autopkgtest: preparing testbed
260s Note, using file '/tmp/autopkgtest.W3d4E5/1-autopkgtest-satdep.dsc' to get the build dependencies
261s Reading package lists...
261s Building dependency tree...
261s Reading state information...
261s Starting pkgProblemResolver with broken count: 0
261s Starting 2 pkgProblemResolver with broken count: 0
261s Done
262s The following NEW packages will be installed:
262s   build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu
262s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
262s   fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax
262s   g++ g++-13 g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-13
262s   gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu gfortran gfortran-13
262s   gfortran-13-x86-64-linux-gnu gfortran-x86-64-linux-gnu icu-devtools
262s   javascript-common libasan8 libatomic1 libbibtex-parser-perl libblas-dev
262s   libblas3 libboost-dev libboost1.83-dev libbz2-dev libc-dev-bin libc6-dev
262s   libcairo2 libcc1-0 libcrypt-dev libdatrie1 libdeflate0 libfontconfig1
262s   libgcc-13-dev libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3
262s   libharfbuzz0b libhwasan0 libice6 libicu-dev libio-string-perl libisl23
262s   libitm1 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8
262s   libjpeg8-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim
262s   libjs-highlight.js libjs-jquery libjs-jquery-datatables
262s   libjs-jquery-selectize.js libjs-jquery-ui libjs-json libjs-lunr
262s   libjs-mathjax libjs-microplugin.js libjs-modernizr libjs-popper.js
262s   libjs-prettify libjs-sifter.js libjs-twitter-bootstrap-datepicker
262s   libkpathsea6 liblapack-dev liblapack3 liblatex-tounicode-perl liblerc4
262s   liblsan0 liblua5.4-0 liblzma-dev libmpc3 libncurses-dev libnsl-dev
262s   libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
262s   libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3
262s   libpixman-1-0 libpkgconf3 libpng-dev libpotrace0 libptexenc1 libquadmath0
262s   libreadline-dev libsharpyuv0 libsm6 libstdc++-13-dev libsynctex2 libtcl8.6
262s   libteckit0 libtexlua53-5 libthai-data libthai0 libtiff6 libtirpc-dev
262s   libtk8.6 libtsan2 libubsan1 libwebp7 libxaw7 libxcb-render0 libxcb-shm0
262s   libxft2 libxi6 libxmu6 libxpm4 libxrender1 libxss1 libxt6 libzzip-0-13
262s   linux-libc-dev littler node-bootstrap-sass node-html5shiv node-normalize.css
262s   pandoc pandoc-data pkg-config pkg-r-autopkgtest pkgconf pkgconf-bin
262s   r-base-core r-base-dev r-bioc-biobase r-bioc-biocgenerics r-bioc-biocstyle
262s   r-bioc-biocviews r-bioc-graph r-bioc-rbgl r-cran-base64enc r-cran-bh
262s   r-cran-biocmanager r-cran-bitops r-cran-bookdown r-cran-bslib r-cran-cachem
262s   r-cran-cli r-cran-commonmark r-cran-crayon r-cran-digest r-cran-ellipsis
262s   r-cran-evaluate r-cran-fastmap r-cran-fontawesome r-cran-fs r-cran-glue
262s   r-cran-highr r-cran-htmltools r-cran-httpuv r-cran-jquerylib r-cran-jsonlite
262s   r-cran-knitr r-cran-later r-cran-lifecycle r-cran-littler r-cran-magrittr
262s   r-cran-memoise r-cran-mime r-cran-pkgkitten r-cran-promises r-cran-r6
262s   r-cran-rappdirs r-cran-rcpp r-cran-rcurl r-cran-rlang r-cran-rmarkdown
262s   r-cran-runit r-cran-sass r-cran-shiny r-cran-sourcetools r-cran-stringi
262s   r-cran-stringr r-cran-tinytex r-cran-vctrs r-cran-withr r-cran-xfun
262s   r-cran-xml r-cran-xtable r-cran-yaml rpcsvc-proto t1utils tex-common
262s   texlive-base texlive-bibtex-extra texlive-binaries texlive-latex-base unzip
262s   x11-common xdg-utils zip zlib1g-dev
262s 0 upgraded, 214 newly installed, 0 to remove and 0 not upgraded.
262s Need to get 343 MB of archives.
262s After this operation, 1223 MB of additional disk space will be used.
262s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 libc-dev-bin amd64 2.39-0ubuntu2 [20.4 kB]
262s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 linux-libc-dev amd64 6.8.0-11.11 [1595 kB]
262s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 libcrypt-dev amd64 1:4.4.36-4 [128 kB]
262s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 libtirpc-dev amd64 1.3.4+ds-1build1 [222 kB]
262s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 libnsl-dev amd64 1.3.0-3 [71.2 kB]
262s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 rpcsvc-proto amd64 1.4.2-0ubuntu6 [68.5 kB]
262s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 libc6-dev amd64 2.39-0ubuntu2 [2126 kB]
262s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 libisl23 amd64 0.26-3 [741 kB]
262s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 libmpc3 amd64 1.3.1-1 [54.1 kB]
262s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.2 MB]
262s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13 amd64 13.2.0-17ubuntu2 [1030 B]
262s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [5326 B]
262s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 cpp amd64 4:13.2.0-7ubuntu1 [22.4 kB]
262s Get:14 http://ftpmaster.internal/ubuntu noble/main amd64 libcc1-0 amd64 14-20240303-1ubuntu1 [47.7 kB]
262s Get:15 http://ftpmaster.internal/ubuntu noble/main amd64 libgomp1 amd64 14-20240303-1ubuntu1 [147 kB]
262s Get:16 http://ftpmaster.internal/ubuntu noble/main amd64 libitm1 amd64 14-20240303-1ubuntu1 [29.1 kB]
262s Get:17 http://ftpmaster.internal/ubuntu noble/main amd64 libatomic1 amd64 14-20240303-1ubuntu1 [10.4 kB]
262s Get:18 http://ftpmaster.internal/ubuntu noble/main amd64 libasan8 amd64 14-20240303-1ubuntu1 [3026 kB]
262s Get:19 http://ftpmaster.internal/ubuntu noble/main amd64 liblsan0 amd64 14-20240303-1ubuntu1 [1310 kB]
262s Get:20 http://ftpmaster.internal/ubuntu noble/main amd64 libtsan2 amd64 14-20240303-1ubuntu1 [2732 kB]
262s Get:21 http://ftpmaster.internal/ubuntu noble/main amd64 libubsan1 amd64 14-20240303-1ubuntu1 [1172 kB]
262s Get:22 http://ftpmaster.internal/ubuntu noble/main amd64 libhwasan0 amd64 14-20240303-1ubuntu1 [1629 kB]
262s Get:23 http://ftpmaster.internal/ubuntu noble/main amd64 libquadmath0 amd64 14-20240303-1ubuntu1 [155 kB]
262s Get:24 http://ftpmaster.internal/ubuntu noble/main amd64 libgcc-13-dev amd64 13.2.0-17ubuntu2 [2687 kB]
262s Get:25 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [21.9 MB]
262s Get:26 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13 amd64 13.2.0-17ubuntu2 [477 kB]
262s Get:27 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1212 B]
262s Get:28 http://ftpmaster.internal/ubuntu noble/main amd64 gcc amd64 4:13.2.0-7ubuntu1 [5018 B]
262s Get:29 http://ftpmaster.internal/ubuntu noble/main amd64 libstdc++-13-dev amd64 13.2.0-17ubuntu2 [2340 kB]
262s Get:30 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [12.5 MB]
262s Get:31 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13 amd64 13.2.0-17ubuntu2 [14.5 kB]
262s Get:32 http://ftpmaster.internal/ubuntu noble/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [964 B]
262s Get:33 http://ftpmaster.internal/ubuntu noble/main amd64 g++ amd64 4:13.2.0-7ubuntu1 [1100 B]
262s Get:34 http://ftpmaster.internal/ubuntu noble/main amd64 build-essential amd64 12.10ubuntu1 [4928 B]
262s Get:35 http://ftpmaster.internal/ubuntu noble/main amd64 dctrl-tools amd64 2.24-3build2 [66.9 kB]
262s Get:36 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB]
262s Get:37 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-core all 2.37-8 [835 kB]
262s Get:38 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig-config amd64 2.15.0-1ubuntu1 [36.9 kB]
262s Get:39 http://ftpmaster.internal/ubuntu noble/main amd64 libfontconfig1 amd64 2.15.0-1ubuntu1 [139 kB]
262s Get:40 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig amd64 2.15.0-1ubuntu1 [180 kB]
262s Get:41 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB]
262s Get:42 http://ftpmaster.internal/ubuntu noble/universe amd64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB]
262s Get:43 http://ftpmaster.internal/ubuntu noble/universe amd64 fonts-lmodern all 2.005-1 [4799 kB]
262s Get:44 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB]
262s Get:45 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran5 amd64 14-20240303-1ubuntu1 [924 kB]
262s Get:46 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran-13-dev amd64 13.2.0-17ubuntu2 [942 kB]
263s Get:47 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.6 MB]
263s Get:48 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13 amd64 13.2.0-17ubuntu2 [10.3 kB]
263s Get:49 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1024 B]
263s Get:50 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran amd64 4:13.2.0-7ubuntu1 [1176 B]
263s Get:51 http://ftpmaster.internal/ubuntu noble/main amd64 icu-devtools amd64 74.2-1ubuntu1 [212 kB]
263s Get:52 http://ftpmaster.internal/ubuntu noble/main amd64 javascript-common all 11+nmu1 [5936 B]
263s Get:53 http://ftpmaster.internal/ubuntu noble/main amd64 libio-string-perl all 1.08-4 [11.1 kB]
263s Get:54 http://ftpmaster.internal/ubuntu noble/universe amd64 liblatex-tounicode-perl all 0.54-2 [29.0 kB]
263s Get:55 http://ftpmaster.internal/ubuntu noble/universe amd64 libbibtex-parser-perl all 1.04+dfsg-1 [16.7 kB]
263s Get:56 http://ftpmaster.internal/ubuntu noble/main amd64 libblas3 amd64 3.12.0-3 [238 kB]
263s Get:57 http://ftpmaster.internal/ubuntu noble/main amd64 libblas-dev amd64 3.12.0-3 [170 kB]
263s Get:58 http://ftpmaster.internal/ubuntu noble/main amd64 libboost1.83-dev amd64 1.83.0-2ubuntu1 [15.3 MB]
263s Get:59 http://ftpmaster.internal/ubuntu noble/main amd64 libboost-dev amd64 1.83.0.1ubuntu2 [4308 B]
263s Get:60 http://ftpmaster.internal/ubuntu noble/main amd64 libbz2-dev amd64 1.0.8-5ubuntu1 [33.6 kB]
263s Get:61 http://ftpmaster.internal/ubuntu noble/main amd64 libpixman-1-0 amd64 0.42.2-1 [268 kB]
263s Get:62 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-render0 amd64 1.15-1 [16.3 kB]
263s Get:63 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-shm0 amd64 1.15-1 [5740 B]
263s Get:64 http://ftpmaster.internal/ubuntu noble/main amd64 libxrender1 amd64 1:0.9.10-1.1 [20.0 kB]
263s Get:65 http://ftpmaster.internal/ubuntu noble/main amd64 libcairo2 amd64 1.18.0-1 [572 kB]
263s Get:66 http://ftpmaster.internal/ubuntu noble/main amd64 libdatrie1 amd64 0.2.13-3 [20.9 kB]
263s Get:67 http://ftpmaster.internal/ubuntu noble/main amd64 libdeflate0 amd64 1.19-1 [43.7 kB]
263s Get:68 http://ftpmaster.internal/ubuntu noble/main amd64 libgraphite2-3 amd64 1.3.14-2 [83.1 kB]
263s Get:69 http://ftpmaster.internal/ubuntu noble/main amd64 libharfbuzz0b amd64 8.3.0-2 [469 kB]
263s Get:70 http://ftpmaster.internal/ubuntu noble/main amd64 x11-common all 1:7.7+23ubuntu2 [23.4 kB]
263s Get:71 http://ftpmaster.internal/ubuntu noble/main amd64 libice6 amd64 2:1.0.10-1build2 [42.6 kB]
263s Get:72 http://ftpmaster.internal/ubuntu noble/main amd64 libicu-dev amd64 74.2-1ubuntu1 [11.9 MB]
263s Get:73 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu1 [147 kB]
263s Get:74 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8-dev amd64 2.1.5-2ubuntu1 [294 kB]
263s Get:75 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
263s Get:76 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B]
263s Get:77 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B]
263s Get:78 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB]
263s Get:79 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB]
263s Get:80 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB]
263s Get:81 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-d3 all 3.5.17-4 [132 kB]
263s Get:82 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-es5-shim all 4.6.7-2 [39.8 kB]
263s Get:83 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB]
263s Get:84 http://ftpmaster.internal/ubuntu noble/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
263s Get:85 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB]
263s Get:86 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB]
263s Get:87 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B]
263s Get:88 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB]
263s Get:89 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB]
263s Get:90 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-json all 0~20221030+~1.0.8-1 [20.6 kB]
263s Get:91 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-lunr all 2.3.9~dfsg-2 [66.8 kB]
263s Get:92 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB]
263s Get:93 http://ftpmaster.internal/ubuntu noble/main amd64 libkpathsea6 amd64 2023.20230311.66589-9 [62.9 kB]
263s Get:94 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack3 amd64 3.12.0-3 [2649 kB]
263s Get:95 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack-dev amd64 3.12.0-3 [5196 kB]
263s Get:96 http://ftpmaster.internal/ubuntu noble/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu1 [184 kB]
263s Get:97 http://ftpmaster.internal/ubuntu noble/main amd64 liblua5.4-0 amd64 5.4.6-3 [166 kB]
263s Get:98 http://ftpmaster.internal/ubuntu noble/main amd64 libncurses-dev amd64 6.4+20240113-1ubuntu1 [384 kB]
263s Get:99 http://ftpmaster.internal/ubuntu noble/main amd64 libthai-data all 0.1.29-2 [158 kB]
263s Get:100 http://ftpmaster.internal/ubuntu noble/main amd64 libthai0 amd64 0.1.29-2 [18.8 kB]
263s Get:101 http://ftpmaster.internal/ubuntu noble/main amd64 libpango-1.0-0 amd64 1.51.0+ds-4 [228 kB]
263s Get:102 http://ftpmaster.internal/ubuntu noble/main amd64 libpangoft2-1.0-0 amd64 1.51.0+ds-4 [42.1 kB]
263s Get:103 http://ftpmaster.internal/ubuntu noble/main amd64 libpangocairo-1.0-0 amd64 1.51.0+ds-4 [29.0 kB]
263s Get:104 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper1 amd64 1.1.29 [13.4 kB]
263s Get:105 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper-utils amd64 1.1.29 [8658 B]
263s Get:106 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-16-0 amd64 10.42-4ubuntu1 [211 kB]
263s Get:107 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-32-0 amd64 10.42-4ubuntu1 [198 kB]
263s Get:108 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-posix3 amd64 10.42-4ubuntu1 [6808 B]
263s Get:109 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-dev amd64 10.42-4ubuntu1 [743 kB]
263s Get:110 http://ftpmaster.internal/ubuntu noble/main amd64 libpkgconf3 amd64 1.8.1-2 [31.1 kB]
263s Get:111 http://ftpmaster.internal/ubuntu noble/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3ubuntu1 [896 kB]
263s Get:112 http://ftpmaster.internal/ubuntu noble/main amd64 libpng-dev amd64 1.6.43-1 [264 kB]
263s Get:113 http://ftpmaster.internal/ubuntu noble/universe amd64 libpotrace0 amd64 1.16-2 [17.2 kB]
263s Get:114 http://ftpmaster.internal/ubuntu noble/main amd64 libptexenc1 amd64 2023.20230311.66589-9 [40.4 kB]
263s Get:115 http://ftpmaster.internal/ubuntu noble/main amd64 libreadline-dev amd64 8.2-3 [167 kB]
263s Get:116 http://ftpmaster.internal/ubuntu noble/main amd64 libsharpyuv0 amd64 1.3.2-0.4 [15.6 kB]
263s Get:117 http://ftpmaster.internal/ubuntu noble/main amd64 libsm6 amd64 2:1.2.3-1build2 [16.7 kB]
263s Get:118 http://ftpmaster.internal/ubuntu noble/main amd64 libsynctex2 amd64 2023.20230311.66589-9 [59.5 kB]
263s Get:119 http://ftpmaster.internal/ubuntu noble/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [984 kB]
263s Get:120 http://ftpmaster.internal/ubuntu noble/universe amd64 libteckit0 amd64 2.5.12+ds1-1 [411 kB]
263s Get:121 http://ftpmaster.internal/ubuntu noble/main amd64 libtexlua53-5 amd64 2023.20230311.66589-9 [122 kB]
263s Get:122 http://ftpmaster.internal/ubuntu noble/main amd64 libjbig0 amd64 2.1-6.1ubuntu1 [29.3 kB]
263s Get:123 http://ftpmaster.internal/ubuntu noble/main amd64 libwebp7 amd64 1.3.2-0.4 [230 kB]
263s Get:124 http://ftpmaster.internal/ubuntu noble/main amd64 libtiff6 amd64 4.5.1+git230720-3ubuntu1 [232 kB]
263s Get:125 http://ftpmaster.internal/ubuntu noble/main amd64 libxft2 amd64 2.3.6-1 [44.5 kB]
263s Get:126 http://ftpmaster.internal/ubuntu noble/main amd64 libxss1 amd64 1:1.2.3-1build2 [8476 B]
263s Get:127 http://ftpmaster.internal/ubuntu noble/main amd64 libtk8.6 amd64 8.6.13-2 [776 kB]
263s Get:128 http://ftpmaster.internal/ubuntu noble/main amd64 libxt6 amd64 1:1.2.1-1.1 [173 kB]
263s Get:129 http://ftpmaster.internal/ubuntu noble/main amd64 libxmu6 amd64 2:1.1.3-3 [49.6 kB]
263s Get:130 http://ftpmaster.internal/ubuntu noble/main amd64 libxpm4 amd64 1:3.5.17-1 [35.9 kB]
263s Get:131 http://ftpmaster.internal/ubuntu noble/main amd64 libxaw7 amd64 2:1.0.14-1 [191 kB]
263s Get:132 http://ftpmaster.internal/ubuntu noble/main amd64 libxi6 amd64 2:1.8.1-1 [32.4 kB]
263s Get:133 http://ftpmaster.internal/ubuntu noble/universe amd64 libzzip-0-13 amd64 0.13.72+dfsg.1-1.1 [27.0 kB]
263s Get:134 http://ftpmaster.internal/ubuntu noble/main amd64 zip amd64 3.0-13 [176 kB]
263s Get:135 http://ftpmaster.internal/ubuntu noble/main amd64 unzip amd64 6.0-28ubuntu3 [174 kB]
263s Get:136 http://ftpmaster.internal/ubuntu noble/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
263s Get:137 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-core amd64 4.3.2-1build1 [27.0 MB]
263s Get:138 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-littler amd64 0.3.19-1 [94.1 kB]
263s Get:139 http://ftpmaster.internal/ubuntu noble/universe amd64 littler all 0.3.19-1 [2472 B]
263s Get:140 http://ftpmaster.internal/ubuntu noble/universe amd64 node-bootstrap-sass all 3.4.3-2 [187 kB]
263s Get:141 http://ftpmaster.internal/ubuntu noble/universe amd64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB]
263s Get:142 http://ftpmaster.internal/ubuntu noble/universe amd64 node-normalize.css all 8.0.1-5 [10.8 kB]
263s Get:143 http://ftpmaster.internal/ubuntu noble/universe amd64 pandoc-data all 3.1.3-1 [92.4 kB]
263s Get:144 http://ftpmaster.internal/ubuntu noble/universe amd64 pandoc amd64 3.1.3+ds-2 [26.9 MB]
264s Get:145 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf-bin amd64 1.8.1-2 [20.7 kB]
264s Get:146 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf amd64 1.8.1-2 [16.8 kB]
264s Get:147 http://ftpmaster.internal/ubuntu noble/main amd64 pkg-config amd64 1.8.1-2 [7170 B]
264s Get:148 http://ftpmaster.internal/ubuntu noble/main amd64 liblzma-dev amd64 5.4.5-0.3 [205 kB]
264s Get:149 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-dev all 4.3.2-1build1 [4336 B]
264s Get:150 http://ftpmaster.internal/ubuntu noble/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
264s Get:151 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biocgenerics all 0.48.1-2 [595 kB]
264s Get:152 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biobase amd64 2.62.0-1 [2136 kB]
264s Get:153 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-base64enc amd64 0.1-3-3 [27.6 kB]
264s Get:154 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-digest amd64 0.6.34-1 [186 kB]
264s Get:155 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rlang amd64 1.1.3-1 [1663 kB]
264s Get:156 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-ellipsis amd64 0.3.2-2 [35.6 kB]
264s Get:157 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-fastmap amd64 1.1.1-1 [70.5 kB]
264s Get:158 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-htmltools amd64 0.5.7-1 [369 kB]
264s Get:159 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-evaluate all 0.23-1 [90.2 kB]
264s Get:160 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-xfun amd64 0.41+dfsg-1 [415 kB]
264s Get:161 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-highr all 0.10+dfsg-1 [38.3 kB]
264s Get:162 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-yaml amd64 2.3.8-1 [108 kB]
264s Get:163 http://ftpmaster.internal/ubuntu noble/main amd64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB]
264s Get:164 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-knitr all 1.45+dfsg-1 [917 kB]
264s Get:165 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-cachem amd64 1.0.8-1 [72.1 kB]
264s Get:166 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB]
264s Get:167 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-jsonlite amd64 1.8.8+dfsg-1 [441 kB]
264s Get:168 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-cli amd64 3.6.2-1 [1380 kB]
264s Get:169 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-glue amd64 1.7.0-1 [154 kB]
264s Get:170 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
264s Get:171 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-memoise all 2.0.1-1 [53.9 kB]
264s Get:172 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-mime amd64 0.12-1 [35.8 kB]
264s Get:173 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-fs amd64 1.6.3+dfsg-1 [229 kB]
264s Get:174 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-r6 all 2.5.1-1 [99.0 kB]
264s Get:175 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rappdirs amd64 0.3.3-1 [47.5 kB]
264s Get:176 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-sass amd64 0.4.8+dfsg-1 [996 kB]
264s Get:177 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-bslib all 0.6.1+dfsg-1 [5138 kB]
264s Get:178 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-fontawesome all 0.5.2-1 [1300 kB]
264s Get:179 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-magrittr amd64 2.0.3-1 [154 kB]
264s Get:180 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-stringi amd64 1.8.3-1 [873 kB]
264s Get:181 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-vctrs amd64 0.6.5-1 [1335 kB]
264s Get:182 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-stringr all 1.5.1-1 [290 kB]
264s Get:183 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-tinytex all 0.49-1 [141 kB]
264s Get:184 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-modernizr all 2.6.2+ds1-5 [48.3 kB]
265s Get:185 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-pkgkitten all 0.2.3-1 [25.1 kB]
265s Get:186 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rcpp amd64 1.0.12-1 [1981 kB]
265s Get:187 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-later amd64 1.3.2+dfsg-1 [123 kB]
265s Get:188 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-promises amd64 1.2.1+dfsg-1 [284 kB]
265s Get:189 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-httpuv amd64 1.6.14+dfsg-1 [510 kB]
265s Get:190 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-xtable all 1:1.8-4-2 [689 kB]
265s Get:191 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-sourcetools amd64 0.1.7-1-1 [48.1 kB]
265s Get:192 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-crayon all 1.5.2-1 [164 kB]
265s Get:193 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-withr all 2.5.0-1 [225 kB]
265s Get:194 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-commonmark amd64 1.9.1-1 [131 kB]
265s Get:195 http://ftpmaster.internal/ubuntu noble/universe amd64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB]
265s Get:196 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-shiny all 1.8.0+dfsg-1 [2762 kB]
265s Get:197 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rmarkdown all 2.25+dfsg-3 [1481 kB]
265s Get:198 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-bookdown all 0.37+dfsg-1 [1408 kB]
265s Get:199 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-biocmanager all 1.30.22+dfsg-2 [125 kB]
265s Get:200 http://ftpmaster.internal/ubuntu noble/universe amd64 tex-common all 6.18 [32.8 kB]
265s Get:201 http://ftpmaster.internal/ubuntu noble/main amd64 t1utils amd64 1.41-4build2 [61.3 kB]
265s Get:202 http://ftpmaster.internal/ubuntu noble/universe amd64 texlive-binaries amd64 2023.20230311.66589-9 [8529 kB]
265s Get:203 http://ftpmaster.internal/ubuntu noble/universe amd64 texlive-base all 2023.20240207-1 [21.7 MB]
265s Get:204 http://ftpmaster.internal/ubuntu noble/universe amd64 texlive-latex-base all 2023.20240207-1 [1238 kB]
265s Get:205 http://ftpmaster.internal/ubuntu noble/universe amd64 texlive-bibtex-extra all 2023.20240207-1 [79.1 MB]
266s Get:206 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biocstyle all 2.30.0+dfsg-1 [451 kB]
266s Get:207 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-graph amd64 1.80.0-1 [1289 kB]
266s Get:208 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-bh all 1.84.0-1 [5962 B]
266s Get:209 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-rbgl amd64 1.78.0+dfsg-1 [551 kB]
266s Get:210 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-xml amd64 3.99-0.16.1-1 [1733 kB]
266s Get:211 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-bitops amd64 1.0-7-1 [29.8 kB]
266s Get:212 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-rcurl amd64 1.98-1.14+dfsg-1 [793 kB]
266s Get:213 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-runit all 0.4.33-1 [377 kB]
266s Get:214 http://ftpmaster.internal/ubuntu noble/universe amd64 r-bioc-biocviews all 1.70.0-1 [658 kB]
266s Preconfiguring packages ...
266s Fetched 343 MB in 4s (88.4 MB/s)
266s Selecting previously unselected package libc-dev-bin.
267s (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 ... 71420 files and directories currently installed.)
267s Preparing to unpack .../000-libc-dev-bin_2.39-0ubuntu2_amd64.deb ...
267s Unpacking libc-dev-bin (2.39-0ubuntu2) ...
267s Selecting previously unselected package linux-libc-dev:amd64.
267s Preparing to unpack .../001-linux-libc-dev_6.8.0-11.11_amd64.deb ...
267s Unpacking linux-libc-dev:amd64 (6.8.0-11.11) ...
267s Selecting previously unselected package libcrypt-dev:amd64.
267s Preparing to unpack .../002-libcrypt-dev_1%3a4.4.36-4_amd64.deb ...
267s Unpacking libcrypt-dev:amd64 (1:4.4.36-4) ...
267s Selecting previously unselected package libtirpc-dev:amd64.
267s Preparing to unpack .../003-libtirpc-dev_1.3.4+ds-1build1_amd64.deb ...
267s Unpacking libtirpc-dev:amd64 (1.3.4+ds-1build1) ...
267s Selecting previously unselected package libnsl-dev:amd64.
267s Preparing to unpack .../004-libnsl-dev_1.3.0-3_amd64.deb ...
267s Unpacking libnsl-dev:amd64 (1.3.0-3) ...
267s Selecting previously unselected package rpcsvc-proto.
267s Preparing to unpack .../005-rpcsvc-proto_1.4.2-0ubuntu6_amd64.deb ...
267s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ...
267s Selecting previously unselected package libc6-dev:amd64.
267s Preparing to unpack .../006-libc6-dev_2.39-0ubuntu2_amd64.deb ...
267s Unpacking libc6-dev:amd64 (2.39-0ubuntu2) ...
267s Selecting previously unselected package libisl23:amd64.
267s Preparing to unpack .../007-libisl23_0.26-3_amd64.deb ...
267s Unpacking libisl23:amd64 (0.26-3) ...
267s Selecting previously unselected package libmpc3:amd64.
267s Preparing to unpack .../008-libmpc3_1.3.1-1_amd64.deb ...
267s Unpacking libmpc3:amd64 (1.3.1-1) ...
267s Selecting previously unselected package cpp-13-x86-64-linux-gnu.
267s Preparing to unpack .../009-cpp-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
267s Unpacking cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
267s Selecting previously unselected package cpp-13.
267s Preparing to unpack .../010-cpp-13_13.2.0-17ubuntu2_amd64.deb ...
267s Unpacking cpp-13 (13.2.0-17ubuntu2) ...
267s Selecting previously unselected package cpp-x86-64-linux-gnu.
267s Preparing to unpack .../011-cpp-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
267s Unpacking cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
267s Selecting previously unselected package cpp.
267s Preparing to unpack .../012-cpp_4%3a13.2.0-7ubuntu1_amd64.deb ...
267s Unpacking cpp (4:13.2.0-7ubuntu1) ...
267s Selecting previously unselected package libcc1-0:amd64.
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275s Unpacking libsynctex2:amd64 (2023.20230311.66589-9) ...
275s Selecting previously unselected package libtcl8.6:amd64.
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276s Selecting previously unselected package libxaw7:amd64.
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276s Selecting previously unselected package libxi6:amd64.
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276s Selecting previously unselected package r-base-core.
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276s Selecting previously unselected package r-cran-littler.
276s Preparing to unpack .../137-r-cran-littler_0.3.19-1_amd64.deb ...
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276s Selecting previously unselected package littler.
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276s Selecting previously unselected package node-html5shiv.
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276s Selecting previously unselected package node-normalize.css.
277s Preparing to unpack .../141-node-normalize.css_8.0.1-5_all.deb ...
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277s Selecting previously unselected package pandoc-data.
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277s Selecting previously unselected package pandoc.
277s Preparing to unpack .../143-pandoc_3.1.3+ds-2_amd64.deb ...
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278s Selecting previously unselected package pkgconf-bin.
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278s Selecting previously unselected package pkgconf:amd64.
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278s Selecting previously unselected package pkg-config:amd64.
278s Preparing to unpack .../146-pkg-config_1.8.1-2_amd64.deb ...
278s Unpacking pkg-config:amd64 (1.8.1-2) ...
278s Selecting previously unselected package liblzma-dev:amd64.
278s Preparing to unpack .../147-liblzma-dev_5.4.5-0.3_amd64.deb ...
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278s Selecting previously unselected package r-base-dev.
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278s Selecting previously unselected package pkg-r-autopkgtest.
278s Preparing to unpack .../149-pkg-r-autopkgtest_20231212ubuntu1_all.deb ...
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279s Selecting previously unselected package r-bioc-biocgenerics.
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279s Selecting previously unselected package r-bioc-biobase.
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279s Selecting previously unselected package r-cran-base64enc.
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279s Selecting previously unselected package r-cran-digest.
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279s Unpacking r-cran-digest (0.6.34-1) ...
279s Selecting previously unselected package r-cran-rlang.
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279s Selecting previously unselected package r-cran-ellipsis.
279s Preparing to unpack .../155-r-cran-ellipsis_0.3.2-2_amd64.deb ...
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279s Selecting previously unselected package r-cran-fastmap.
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279s Selecting previously unselected package r-cran-htmltools.
279s Preparing to unpack .../157-r-cran-htmltools_0.5.7-1_amd64.deb ...
279s Unpacking r-cran-htmltools (0.5.7-1) ...
279s Selecting previously unselected package r-cran-evaluate.
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279s Unpacking r-cran-evaluate (0.23-1) ...
279s Selecting previously unselected package r-cran-xfun.
279s Preparing to unpack .../159-r-cran-xfun_0.41+dfsg-1_amd64.deb ...
279s Unpacking r-cran-xfun (0.41+dfsg-1) ...
279s Selecting previously unselected package r-cran-highr.
279s Preparing to unpack .../160-r-cran-highr_0.10+dfsg-1_all.deb ...
279s Unpacking r-cran-highr (0.10+dfsg-1) ...
279s Selecting previously unselected package r-cran-yaml.
279s Preparing to unpack .../161-r-cran-yaml_2.3.8-1_amd64.deb ...
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279s Selecting previously unselected package libjs-mathjax.
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279s Unpacking libjs-mathjax (2.7.9+dfsg-1) ...
279s Selecting previously unselected package r-cran-knitr.
279s Preparing to unpack .../163-r-cran-knitr_1.45+dfsg-1_all.deb ...
279s Unpacking r-cran-knitr (1.45+dfsg-1) ...
279s Selecting previously unselected package r-cran-cachem.
279s Preparing to unpack .../164-r-cran-cachem_1.0.8-1_amd64.deb ...
279s Unpacking r-cran-cachem (1.0.8-1) ...
279s Selecting previously unselected package r-cran-jquerylib.
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279s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ...
279s Selecting previously unselected package r-cran-jsonlite.
279s Preparing to unpack .../166-r-cran-jsonlite_1.8.8+dfsg-1_amd64.deb ...
279s Unpacking r-cran-jsonlite (1.8.8+dfsg-1) ...
279s Selecting previously unselected package r-cran-cli.
279s Preparing to unpack .../167-r-cran-cli_3.6.2-1_amd64.deb ...
279s Unpacking r-cran-cli (3.6.2-1) ...
279s Selecting previously unselected package r-cran-glue.
279s Preparing to unpack .../168-r-cran-glue_1.7.0-1_amd64.deb ...
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279s Selecting previously unselected package r-cran-lifecycle.
279s Preparing to unpack .../169-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ...
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279s Selecting previously unselected package r-cran-memoise.
279s Preparing to unpack .../170-r-cran-memoise_2.0.1-1_all.deb ...
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279s Selecting previously unselected package r-cran-mime.
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279s Selecting previously unselected package r-cran-fs.
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279s Selecting previously unselected package r-cran-r6.
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279s Selecting previously unselected package r-cran-rappdirs.
279s Preparing to unpack .../174-r-cran-rappdirs_0.3.3-1_amd64.deb ...
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280s Selecting previously unselected package r-cran-sass.
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280s Selecting previously unselected package r-cran-bslib.
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280s Unpacking r-cran-bslib (0.6.1+dfsg-1) ...
280s Selecting previously unselected package r-cran-fontawesome.
280s Preparing to unpack .../177-r-cran-fontawesome_0.5.2-1_all.deb ...
280s Unpacking r-cran-fontawesome (0.5.2-1) ...
280s Selecting previously unselected package r-cran-magrittr.
280s Preparing to unpack .../178-r-cran-magrittr_2.0.3-1_amd64.deb ...
280s Unpacking r-cran-magrittr (2.0.3-1) ...
280s Selecting previously unselected package r-cran-stringi.
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280s Selecting previously unselected package r-cran-vctrs.
280s Preparing to unpack .../180-r-cran-vctrs_0.6.5-1_amd64.deb ...
280s Unpacking r-cran-vctrs (0.6.5-1) ...
280s Selecting previously unselected package r-cran-stringr.
280s Preparing to unpack .../181-r-cran-stringr_1.5.1-1_all.deb ...
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280s Selecting previously unselected package r-cran-tinytex.
280s Preparing to unpack .../182-r-cran-tinytex_0.49-1_all.deb ...
280s Unpacking r-cran-tinytex (0.49-1) ...
280s Selecting previously unselected package libjs-modernizr.
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280s Unpacking libjs-modernizr (2.6.2+ds1-5) ...
280s Selecting previously unselected package r-cran-pkgkitten.
280s Preparing to unpack .../184-r-cran-pkgkitten_0.2.3-1_all.deb ...
280s Unpacking r-cran-pkgkitten (0.2.3-1) ...
280s Selecting previously unselected package r-cran-rcpp.
280s Preparing to unpack .../185-r-cran-rcpp_1.0.12-1_amd64.deb ...
280s Unpacking r-cran-rcpp (1.0.12-1) ...
280s Selecting previously unselected package r-cran-later.
280s Preparing to unpack .../186-r-cran-later_1.3.2+dfsg-1_amd64.deb ...
280s Unpacking r-cran-later (1.3.2+dfsg-1) ...
280s Selecting previously unselected package r-cran-promises.
280s Preparing to unpack .../187-r-cran-promises_1.2.1+dfsg-1_amd64.deb ...
280s Unpacking r-cran-promises (1.2.1+dfsg-1) ...
280s Selecting previously unselected package r-cran-httpuv.
280s Preparing to unpack .../188-r-cran-httpuv_1.6.14+dfsg-1_amd64.deb ...
280s Unpacking r-cran-httpuv (1.6.14+dfsg-1) ...
280s Selecting previously unselected package r-cran-xtable.
280s Preparing to unpack .../189-r-cran-xtable_1%3a1.8-4-2_all.deb ...
280s Unpacking r-cran-xtable (1:1.8-4-2) ...
281s Selecting previously unselected package r-cran-sourcetools.
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281s Unpacking r-cran-sourcetools (0.1.7-1-1) ...
281s Selecting previously unselected package r-cran-crayon.
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281s Selecting previously unselected package r-cran-withr.
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281s Selecting previously unselected package r-cran-commonmark.
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281s Selecting previously unselected package libjs-twitter-bootstrap-datepicker.
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281s Selecting previously unselected package r-cran-shiny.
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281s Unpacking r-cran-shiny (1.8.0+dfsg-1) ...
281s Selecting previously unselected package r-cran-rmarkdown.
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281s Selecting previously unselected package r-cran-bookdown.
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281s Selecting previously unselected package r-cran-biocmanager.
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281s Selecting previously unselected package tex-common.
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286s Selecting previously unselected package r-bioc-biocstyle.
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286s Unpacking r-bioc-biocstyle (2.30.0+dfsg-1) ...
286s Selecting previously unselected package r-bioc-graph.
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286s Unpacking r-bioc-graph (1.80.0-1) ...
286s Selecting previously unselected package r-cran-bh.
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287s Selecting previously unselected package r-bioc-rbgl.
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287s Unpacking r-bioc-rbgl (1.78.0+dfsg-1) ...
287s Selecting previously unselected package r-cran-xml.
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287s Unpacking r-cran-xml (3.99-0.16.1-1) ...
287s Selecting previously unselected package r-cran-bitops.
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287s Selecting previously unselected package r-cran-rcurl.
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287s Selecting previously unselected package r-cran-runit.
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287s Selecting previously unselected package r-bioc-biocviews.
287s Preparing to unpack .../213-r-bioc-biocviews_1.70.0-1_all.deb ...
287s Unpacking r-bioc-biocviews (1.70.0-1) ...
287s Setting up libjs-json (0~20221030+~1.0.8-1) ...
287s Setting up javascript-common (11+nmu1) ...
287s Setting up libgraphite2-3:amd64 (1.3.14-2) ...
287s Setting up libpixman-1-0:amd64 (0.42.2-1) ...
287s Setting up libsharpyuv0:amd64 (1.3.2-0.4) ...
287s Setting up libpaper1:amd64 (1.1.29) ...
287s 
287s Creating config file /etc/papersize with new version
287s Setting up fonts-mathjax (2.7.9+dfsg-1) ...
287s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu1) ...
287s Setting up libxpm4:amd64 (1:3.5.17-1) ...
287s Setting up libjs-mathjax (2.7.9+dfsg-1) ...
287s Setting up libxi6:amd64 (2:1.8.1-1) ...
287s Setting up libxrender1:amd64 (1:0.9.10-1.1) ...
287s Setting up libdatrie1:amd64 (0.2.13-3) ...
287s Setting up libjs-popper.js (1.16.1+ds-6) ...
287s Setting up libxcb-render0:amd64 (1.15-1) ...
287s Setting up libjs-sifter.js (0.6.0+dfsg-3) ...
287s Setting up fonts-glyphicons-halflings (1.009~3.4.1+dfsg-3) ...
287s Setting up libjs-lunr (2.3.9~dfsg-2) ...
287s Setting up unzip (6.0-28ubuntu3) ...
287s Setting up liblatex-tounicode-perl (0.54-2) ...
287s Setting up x11-common (1:7.7+23ubuntu2) ...
288s Setting up node-html5shiv (3.7.3+dfsg-5) ...
288s Setting up libdeflate0:amd64 (1.19-1) ...
288s Setting up linux-libc-dev:amd64 (6.8.0-11.11) ...
288s Setting up libjs-microplugin.js (0.0.3+dfsg-1.1) ...
288s Setting up libxcb-shm0:amd64 (1.15-1) ...
288s Setting up libzzip-0-13:amd64 (0.13.72+dfsg.1-1.1) ...
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290s Setting up gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
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290s 
290s Creating config file /etc/R/Renviron with new version
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291s Setting up r-cran-sourcetools (0.1.7-1-1) ...
291s Setting up r-cran-xml (3.99-0.16.1-1) ...
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291s Setting up r-cran-commonmark (1.9.1-1) ...
291s Setting up r-cran-r6 (2.5.1-1) ...
291s Setting up r-cran-pkgkitten (0.2.3-1) ...
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291s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps
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292s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper
292s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex
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292s Setting up r-cran-bh (1.84.0-1) ...
292s Setting up r-cran-fs (1.6.3+dfsg-1) ...
292s Setting up r-cran-rcpp (1.0.12-1) ...
292s Setting up g++-13 (13.2.0-17ubuntu2) ...
292s Setting up r-bioc-biocgenerics (0.48.1-2) ...
292s Setting up r-cran-rlang (1.1.3-1) ...
292s Setting up littler (0.3.19-1) ...
292s Setting up r-cran-xfun (0.41+dfsg-1) ...
292s Setting up r-cran-withr (2.5.0-1) ...
292s Setting up r-cran-mime (0.12-1) ...
292s Setting up r-cran-base64enc (0.1-3-3) ...
292s Setting up r-cran-digest (0.6.34-1) ...
292s Setting up r-cran-yaml (2.3.8-1) ...
292s Setting up r-cran-evaluate (0.23-1) ...
292s Setting up r-cran-highr (0.10+dfsg-1) ...
292s Setting up r-cran-glue (1.7.0-1) ...
292s Setting up r-cran-xtable (1:1.8-4-2) ...
292s Setting up r-cran-cli (3.6.2-1) ...
292s Setting up gfortran (4:13.2.0-7ubuntu1) ...
292s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
292s 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
292s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
292s 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
292s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
292s Setting up r-cran-bitops (1.0-7-1) ...
292s Setting up r-cran-biocmanager (1.30.22+dfsg-2) ...
292s Setting up r-cran-fastmap (1.1.1-1) ...
292s Setting up r-bioc-biobase (2.62.0-1) ...
292s Setting up r-cran-jsonlite (1.8.8+dfsg-1) ...
292s Setting up r-cran-stringi (1.8.3-1) ...
292s Setting up texlive-latex-base (2023.20240207-1) ...
292s Setting up r-cran-runit (0.4.33-1) ...
292s Setting up r-cran-later (1.3.2+dfsg-1) ...
292s Setting up r-cran-tinytex (0.49-1) ...
292s Setting up r-cran-knitr (1.45+dfsg-1) ...
292s Setting up g++ (4:13.2.0-7ubuntu1) ...
292s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
292s Setting up r-cran-cachem (1.0.8-1) ...
292s Setting up build-essential (12.10ubuntu1) ...
292s Setting up r-cran-rcurl (1.98-1.14+dfsg-1) ...
292s Setting up r-cran-vctrs (0.6.5-1) ...
292s Setting up r-bioc-graph (1.80.0-1) ...
292s Setting up r-cran-ellipsis (0.3.2-2) ...
292s Setting up r-bioc-rbgl (1.78.0+dfsg-1) ...
292s Setting up r-bioc-biocviews (1.70.0-1) ...
292s Setting up r-base-dev (4.3.2-1build1) ...
292s Setting up r-cran-stringr (1.5.1-1) ...
292s Setting up texlive-bibtex-extra (2023.20240207-1) ...
292s Setting up r-cran-memoise (2.0.1-1) ...
292s Setting up r-cran-promises (1.2.1+dfsg-1) ...
292s Setting up r-cran-htmltools (0.5.7-1) ...
292s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
292s Setting up r-cran-sass (0.4.8+dfsg-1) ...
292s Setting up r-cran-httpuv (1.6.14+dfsg-1) ...
292s Setting up r-cran-fontawesome (0.5.2-1) ...
292s Setting up r-cran-jquerylib (0.1.4+dfsg-4) ...
292s Setting up r-cran-bslib (0.6.1+dfsg-1) ...
292s Setting up r-cran-shiny (1.8.0+dfsg-1) ...
292s Setting up r-cran-rmarkdown (2.25+dfsg-3) ...
292s Setting up r-cran-bookdown (0.37+dfsg-1) ...
292s Setting up r-bioc-biocstyle (2.30.0+dfsg-1) ...
292s Processing triggers for libc-bin (2.39-0ubuntu2) ...
292s Processing triggers for man-db (2.12.0-3) ...
294s Processing triggers for install-info (7.1-3) ...
294s Processing triggers for tex-common (6.18) ...
294s Running updmap-sys. This may take some time... done.
294s Running mktexlsr /var/lib/texmf ... done.
294s Building format(s) --all.
327s 	This may take some time... done.
341s Reading package lists...
341s Building dependency tree...
341s Reading state information...
342s Starting pkgProblemResolver with broken count: 0
342s Starting 2 pkgProblemResolver with broken count: 0
342s Done
342s The following NEW packages will be installed:
342s   autopkgtest-satdep
342s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
342s Need to get 0 B/700 B of archives.
342s After this operation, 0 B of additional disk space will be used.
342s Get:1 /tmp/autopkgtest.W3d4E5/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [700 B]
342s Selecting previously unselected package autopkgtest-satdep.
342s (Reading database ... 
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342s Preparing to unpack .../2-autopkgtest-satdep.deb ...
342s Unpacking autopkgtest-satdep (0) ...
342s Setting up autopkgtest-satdep (0) ...
344s (Reading database ... 115904 files and directories currently installed.)
344s Removing autopkgtest-satdep (0) ...
344s autopkgtest [01:40:43]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
344s autopkgtest [01:40:43]: test pkg-r-autopkgtest: [-----------------------
344s Test: Try to load the R library biocViews
344s 
344s R version 4.3.2 (2023-10-31) -- "Eye Holes"
344s Copyright (C) 2023 The R Foundation for Statistical Computing
344s Platform: x86_64-pc-linux-gnu (64-bit)
344s 
344s R is free software and comes with ABSOLUTELY NO WARRANTY.
344s You are welcome to redistribute it under certain conditions.
344s Type 'license()' or 'licence()' for distribution details.
344s 
344s R is a collaborative project with many contributors.
344s Type 'contributors()' for more information and
344s 'citation()' on how to cite R or R packages in publications.
344s 
344s Type 'demo()' for some demos, 'help()' for on-line help, or
344s 'help.start()' for an HTML browser interface to help.
344s Type 'q()' to quit R.
344s 
344s > library('biocViews')
345s > 
345s > 
345s Other tests are currently unsupported!
345s They will be progressively added.
345s autopkgtest [01:40:44]: test pkg-r-autopkgtest: -----------------------]
347s autopkgtest [01:40:45]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
347s pkg-r-autopkgtest    PASS
347s autopkgtest [01:40:46]: @@@@@@@@@@@@@@@@@@@@ summary
347s pkg-r-autopkgtest    PASS
357s Creating nova instance adt-noble-i386-r-bioc-biocviews-20240322-013459-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-amd64-server-20240321.img (UUID 6f9effbc-61d8-4d0a-a7e9-883547f42ac1)...