0s autopkgtest [16:51:57]: starting date and time: 2024-03-16 16:51:57+0000
  0s autopkgtest [16:51:57]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data
  0s autopkgtest [16:51:57]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.lde2kpd8/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:xz-utils --apt-upgrade r-bioc-variantannotation --timeout-short=300 --timeout-copy=20000 --timeout-test=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=xz-utils/5.6.0-0.2 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-big --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-23.secgroup --name adt-noble-arm64-r-bioc-variantannotation-20240316-165157-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-arm64-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/
 71s autopkgtest [16:53:08]: testbed dpkg architecture: arm64
 72s autopkgtest [16:53:09]: testbed apt version: 2.7.12
 72s autopkgtest [16:53:09]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 72s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
 73s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3673 kB]
 74s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [474 kB]
 74s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
 74s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB]
 74s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 Packages [646 kB]
 74s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 c-n-f Metadata [3144 B]
 74s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 Packages [33.6 kB]
 74s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted arm64 c-n-f Metadata [116 B]
 74s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 Packages [3994 kB]
 75s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe arm64 c-n-f Metadata [8528 B]
 75s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 Packages [55.6 kB]
 75s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse arm64 c-n-f Metadata [116 B]
 77s Fetched 9063 kB in 4s (2474 kB/s)
 77s Reading package lists...
 80s Reading package lists...
 80s Building dependency tree...
 80s Reading state information...
 81s Calculating upgrade...
 81s The following packages will be upgraded:
 81s   liblzma5 ubuntu-minimal ubuntu-standard xz-utils
 82s 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 82s Need to get 422 kB of archives.
 82s After this operation, 88.1 kB disk space will be freed.
 82s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 liblzma5 arm64 5.6.0-0.2 [129 kB]
 82s Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 ubuntu-minimal arm64 1.536 [10.7 kB]
 82s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 xz-utils arm64 5.6.0-0.2 [272 kB]
 82s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 ubuntu-standard arm64 1.536 [10.7 kB]
 82s Fetched 422 kB in 1s (792 kB/s)
 83s (Reading database ... 
(Reading database ... 5%
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(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 74758 files and directories currently installed.)
 83s Preparing to unpack .../liblzma5_5.6.0-0.2_arm64.deb ...
 83s Unpacking liblzma5:arm64 (5.6.0-0.2) over (5.4.5-0.3) ...
 83s Setting up liblzma5:arm64 (5.6.0-0.2) ...
 83s (Reading database ... 
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(Reading database ... 55%
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(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 ... 74758 files and directories currently installed.)
 83s Preparing to unpack .../ubuntu-minimal_1.536_arm64.deb ...
 83s Unpacking ubuntu-minimal (1.536) over (1.535) ...
 83s Preparing to unpack .../xz-utils_5.6.0-0.2_arm64.deb ...
 83s Unpacking xz-utils (5.6.0-0.2) over (5.4.5-0.3) ...
 83s Preparing to unpack .../ubuntu-standard_1.536_arm64.deb ...
 83s Unpacking ubuntu-standard (1.536) over (1.535) ...
 83s Setting up ubuntu-minimal (1.536) ...
 83s Setting up xz-utils (5.6.0-0.2) ...
 83s Setting up ubuntu-standard (1.536) ...
 83s Processing triggers for libc-bin (2.39-0ubuntu2) ...
 83s Processing triggers for man-db (2.12.0-3) ...
 84s Reading package lists...
 85s Building dependency tree...
 85s Reading state information...
 85s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 86s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
 86s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
 86s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
 86s Hit:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease
 88s Reading package lists...
 88s Reading package lists...
 89s Building dependency tree...
 89s Reading state information...
 89s Calculating upgrade...
 89s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 90s Reading package lists...
 90s Building dependency tree...
 90s Reading state information...
 90s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 93s autopkgtest [16:53:30]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 02:53:31 UTC 2024
 93s autopkgtest [16:53:30]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-variantannotation
 96s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-bioc-variantannotation 1.48.1-1 (dsc) [2587 B]
 96s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-bioc-variantannotation 1.48.1-1 (tar) [1887 kB]
 96s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-bioc-variantannotation 1.48.1-1 (diff) [7900 B]
 96s gpgv: Signature made Fri Dec  1 09:59:29 2023 UTC
 96s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
 96s gpgv:                issuer "tillea@rki.de"
 96s gpgv: Can't check signature: No public key
 96s dpkg-source: warning: cannot verify inline signature for ./r-bioc-variantannotation_1.48.1-1.dsc: no acceptable signature found
 96s autopkgtest [16:53:33]: testing package r-bioc-variantannotation version 1.48.1-1
 96s autopkgtest [16:53:33]: build not needed
 98s autopkgtest [16:53:35]: test pkg-r-autopkgtest: preparing testbed
 99s Reading package lists...
100s Building dependency tree...
100s Reading state information...
100s Starting pkgProblemResolver with broken count: 0
100s Starting 2 pkgProblemResolver with broken count: 0
100s Done
101s The following additional packages will be installed:
101s   build-essential cpp cpp-13 cpp-13-aarch64-linux-gnu cpp-aarch64-linux-gnu
101s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
101s   fonts-font-awesome fonts-glyphicons-halflings fonts-lmodern fonts-mathjax
101s   g++ g++-13 g++-13-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-13
101s   gcc-13-aarch64-linux-gnu gcc-aarch64-linux-gnu gfortran gfortran-13
101s   gfortran-13-aarch64-linux-gnu gfortran-aarch64-linux-gnu icu-devtools
101s   javascript-common libasan8 libatomic1 libbibtex-parser-perl libblas-dev
101s   libblas3 libboost-dev libboost1.83-dev libbz2-dev libc-dev-bin libc6-dev
101s   libcairo2 libcc1-0 libcrypt-dev libdatrie1 libdeflate0 libfontconfig1
101s   libgcc-13-dev libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3
101s   libharfbuzz0b libhwasan0 libice6 libicu-dev libio-string-perl libisl23
101s   libitm1 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8
101s   libjpeg8-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim
101s   libjs-highlight.js libjs-jquery libjs-jquery-datatables
101s   libjs-jquery-datatables-extensions libjs-jquery-selectize.js libjs-jquery-ui
101s   libjs-json libjs-lunr libjs-mathjax libjs-microplugin.js libjs-modernizr
101s   libjs-popper.js libjs-prettify libjs-sifter.js
101s   libjs-twitter-bootstrap-datepicker libkpathsea6 liblapack-dev liblapack3
101s   liblatex-tounicode-perl liblerc4 liblsan0 liblua5.4-0 liblzma-dev libmpc3
101s   libncurses-dev libnsl-dev libpango-1.0-0 libpangocairo-1.0-0
101s   libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0
101s   libpcre2-dev libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev
101s   libpotrace0 libptexenc1 libreadline-dev libsharpyuv0 libsm6 libstdc++-13-dev
101s   libsynctex2 libtcl8.6 libteckit0 libtexlua53-5 libthai-data libthai0
101s   libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7 libxaw7
101s   libxcb-render0 libxcb-shm0 libxft2 libxi6 libxmu6 libxpm4 libxrender1
101s   libxss1 libxt6 libzzip-0-13 linux-libc-dev node-bootstrap-sass
101s   node-html5shiv node-normalize.css pandoc pandoc-data pkg-config
101s   pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev
101s   r-bioc-annotationdbi r-bioc-annotationhub r-bioc-biobase
101s   r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel
101s   r-bioc-biocstyle r-bioc-biocversion r-bioc-biomart r-bioc-biostrings
101s   r-bioc-bsgenome r-bioc-delayedarray r-bioc-genomeinfodb
101s   r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures
101s   r-bioc-genomicranges r-bioc-interactivedisplaybase r-bioc-iranges
101s   r-bioc-keggrest r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools
101s   r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-snpstats
101s   r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-variantannotation
101s   r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-base64enc
101s   r-cran-bh r-cran-biocmanager r-cran-bit r-cran-bit64 r-cran-bitops
101s   r-cran-blob r-cran-bookdown r-cran-bslib r-cran-cachem r-cran-cli
101s   r-cran-codetools r-cran-colorspace r-cran-commonmark r-cran-cpp11
101s   r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-dbi r-cran-dbplyr
101s   r-cran-digest r-cran-dplyr r-cran-dt r-cran-ellipsis r-cran-evaluate
101s   r-cran-fansi r-cran-farver r-cran-fastmap r-cran-filelock r-cran-fontawesome
101s   r-cran-formatr r-cran-fs r-cran-futile.logger r-cran-futile.options
101s   r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-highr
101s   r-cran-hms r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr
101s   r-cran-isoband r-cran-jquerylib r-cran-jsonlite r-cran-knitr r-cran-labeling
101s   r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lazyeval r-cran-lifecycle
101s   r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats
101s   r-cran-memoise r-cran-mgcv r-cran-mime r-cran-munsell r-cran-nlme
101s   r-cran-openssl r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plogr
101s   r-cran-png r-cran-prettyunits r-cran-progress r-cran-promises r-cran-purrr
101s   r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl
101s   r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rsqlite
101s   r-cran-runit r-cran-sass r-cran-scales r-cran-shiny r-cran-snow
101s   r-cran-sourcetools r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys
101s   r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-tinytex r-cran-utf8
101s   r-cran-vctrs r-cran-viridislite r-cran-withr r-cran-xfun r-cran-xml
101s   r-cran-xml2 r-cran-xtable r-cran-yaml rpcsvc-proto t1utils tex-common
101s   texlive-base texlive-bibtex-extra texlive-binaries texlive-latex-base unzip
101s   x11-common xdg-utils zip zlib1g-dev
101s Suggested packages:
101s   cpp-doc gcc-13-locales cpp-13-doc debtags gcc-13-doc gcc-multilib
101s   manpages-dev autoconf automake libtool flex bison gdb gcc-doc
101s   gdb-aarch64-linux-gnu gfortran-doc gfortran-13-doc libcoarrays-dev apache2
101s   | lighttpd | httpd liblapack-doc libboost-doc libboost1.83-doc
101s   libboost-atomic1.83-dev libboost-chrono1.83-dev libboost-container1.83-dev
101s   libboost-context1.83-dev libboost-contract1.83-dev
101s   libboost-coroutine1.83-dev libboost-date-time1.83-dev
101s   libboost-exception1.83-dev libboost-fiber1.83-dev
101s   libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev
101s   libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev
101s   libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev
101s   libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev
101s   libboost-numpy1.83-dev libboost-program-options1.83-dev
101s   libboost-python1.83-dev libboost-random1.83-dev libboost-regex1.83-dev
101s   libboost-serialization1.83-dev libboost-stacktrace1.83-dev
101s   libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev
101s   libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev
101s   libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev
101s   glibc-doc icu-doc libjs-jquery-ui-docs fonts-mathjax-extras fonts-stix
101s   libjs-mathjax-doc liblzma-doc ncurses-doc readline-doc libstdc++-13-doc
101s   tcl8.6 tk8.6 nodejs texlive-latex-recommended texlive-xetex texlive-luatex
101s   pandoc-citeproc texlive-latex-extra context wkhtmltopdf librsvg2-bin groff
101s   ghc php python ruby libjs-katex citation-style-language-styles elpa-ess
101s   r-doc-info | r-doc-pdf r-mathlib r-base-html texlive-plain-generic
101s   texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils texinfo
101s   r-bioc-go.db r-bioc-org.hs.eg.db r-bioc-graph r-bioc-ensembldb
101s   r-bioc-experimenthub r-bioc-all r-cran-testthat r-bioc-affy r-bioc-deseq2
101s   r-bioc-annotate r-cran-foreach r-cran-bbmisc r-cran-doparallel
101s   r-bioc-shortread r-cran-batchtools r-cran-data.table r-cran-mockery
101s   r-cran-webmockr r-bioc-hdf5array r-bioc-genefilter r-cran-lobstr
101s   r-bioc-delayedmatrixstats r-cran-r.utils r-bioc-edger
101s   r-bioc-annotationfilter r-cran-markdown r-bioc-gviz r-bioc-dexseq
101s   r-bioc-sparsematrixstats r-bioc-limma r-cran-hexbin r-bioc-rhdf5
101s   r-cran-roxygen2 r-cran-ff r-cran-covr r-cran-kernsmooth r-cran-kernlab
101s   r-cran-mvtnorm r-cran-vcd r-cran-shinyjs r-cran-jpeg r-cran-viridis
101s   r-cran-rstudioapi r-cran-rmysql r-cran-lubridate r-cran-magick r-cran-sf
101s   r-cran-getopt r-cran-formattable r-cran-nanotime r-cran-palmerpenguins
101s   r-cran-units r-cran-vdiffr r-cran-inline r-cran-rmpi r-cran-rlecuyer
101s   r-cran-spelling r-cran-bench r-cran-brio r-cran-callr r-cran-here
101s   r-cran-pkgbuild r-cran-pkgload r-cran-plm r-cran-zoo debhelper ghostscript
101s   gv | postscript-viewer perl-tk xpdf | pdf-viewer xzdec texlive-binaries-sse2
101s   hintview texlive-latex-base-doc wp2latex
101s Recommended packages:
101s   bzip2-doc manpages manpages-dev libc-devtools node-jquery libpng-tools
101s   r-recommended r-doc-html r-cran-testthat r-cran-remotes r-cran-downlit
101s   r-cran-rstudioapi r-cran-miniui r-cran-rsconnect r-cran-testit r-cran-tufte
101s   r-cran-webshot r-cran-thematic r-cran-callr r-cran-covr r-cran-mockery
101s   r-cran-processx r-cran-ps r-cran-rprojroot r-cran-whoami r-cran-bench
101s   r-cran-brio r-cran-decor r-cran-desc r-cran-lobstr r-cran-spelling
101s   r-cran-webutils r-cran-rpostgresql r-cran-broom r-cran-rmysql r-cran-future
101s   w3m | www-browser r-cran-unitizer r-cran-rsvg r-cran-pkgload r-cran-hexbin
101s   r-cran-hmisc r-cran-mapproj r-cran-maps r-cran-multcomp r-cran-profvis
101s   r-cran-quantreg r-cran-ragg r-cran-rpart r-cran-sf r-cran-svglite
101s   r-cran-vdiffr r-cran-waldo r-cran-cairo r-cran-markdown r-cran-jpeg
101s   r-cran-readr r-cran-r.rsp r-cran-gridsvg r-cran-magick r-cran-reticulate
101s   r-cran-rgl r-cran-tikzdevice node-highlight.js r-cran-lintr r-cran-tidyverse
101s   r-cran-r.devices r-cran-sodium r-cran-lubridate r-cran-usethis
101s   r-cran-dygraphs r-cran-dbitest r-cran-gert r-cran-gh r-cran-rvest
101s   r-cran-dichromat r-cran-data.table r-cran-mockr r-cran-formattable
101s   r-cran-pkgdown r-cran-zeallot r-cran-renv lmodern dvisvgm
101s   libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils
101s   x11-xserver-utils
101s The following NEW packages will be installed:
101s   autopkgtest-satdep build-essential cpp cpp-13 cpp-13-aarch64-linux-gnu
101s   cpp-aarch64-linux-gnu dctrl-tools fontconfig fontconfig-config
101s   fonts-dejavu-core fonts-dejavu-mono fonts-font-awesome
101s   fonts-glyphicons-halflings fonts-lmodern fonts-mathjax g++ g++-13
101s   g++-13-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-13
101s   gcc-13-aarch64-linux-gnu gcc-aarch64-linux-gnu gfortran gfortran-13
101s   gfortran-13-aarch64-linux-gnu gfortran-aarch64-linux-gnu icu-devtools
101s   javascript-common libasan8 libatomic1 libbibtex-parser-perl libblas-dev
101s   libblas3 libboost-dev libboost1.83-dev libbz2-dev libc-dev-bin libc6-dev
101s   libcairo2 libcc1-0 libcrypt-dev libdatrie1 libdeflate0 libfontconfig1
101s   libgcc-13-dev libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3
101s   libharfbuzz0b libhwasan0 libice6 libicu-dev libio-string-perl libisl23
101s   libitm1 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8
101s   libjpeg8-dev libjs-bootstrap libjs-bootstrap4 libjs-d3 libjs-es5-shim
101s   libjs-highlight.js libjs-jquery libjs-jquery-datatables
101s   libjs-jquery-datatables-extensions libjs-jquery-selectize.js libjs-jquery-ui
101s   libjs-json libjs-lunr libjs-mathjax libjs-microplugin.js libjs-modernizr
101s   libjs-popper.js libjs-prettify libjs-sifter.js
101s   libjs-twitter-bootstrap-datepicker libkpathsea6 liblapack-dev liblapack3
101s   liblatex-tounicode-perl liblerc4 liblsan0 liblua5.4-0 liblzma-dev libmpc3
101s   libncurses-dev libnsl-dev libpango-1.0-0 libpangocairo-1.0-0
101s   libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0 libpcre2-32-0
101s   libpcre2-dev libpcre2-posix3 libpixman-1-0 libpkgconf3 libpng-dev
101s   libpotrace0 libptexenc1 libreadline-dev libsharpyuv0 libsm6 libstdc++-13-dev
101s   libsynctex2 libtcl8.6 libteckit0 libtexlua53-5 libthai-data libthai0
101s   libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1 libwebp7 libxaw7
101s   libxcb-render0 libxcb-shm0 libxft2 libxi6 libxmu6 libxpm4 libxrender1
102s   libxss1 libxt6 libzzip-0-13 linux-libc-dev node-bootstrap-sass
102s   node-html5shiv node-normalize.css pandoc pandoc-data pkg-config
102s   pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev
102s   r-bioc-annotationdbi r-bioc-annotationhub r-bioc-biobase
102s   r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel
102s   r-bioc-biocstyle r-bioc-biocversion r-bioc-biomart r-bioc-biostrings
102s   r-bioc-bsgenome r-bioc-delayedarray r-bioc-genomeinfodb
102s   r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures
102s   r-bioc-genomicranges r-bioc-interactivedisplaybase r-bioc-iranges
102s   r-bioc-keggrest r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools
102s   r-bioc-rtracklayer r-bioc-s4arrays r-bioc-s4vectors r-bioc-snpstats
102s   r-bioc-sparsearray r-bioc-summarizedexperiment r-bioc-variantannotation
102s   r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-base64enc
102s   r-cran-bh r-cran-biocmanager r-cran-bit r-cran-bit64 r-cran-bitops
102s   r-cran-blob r-cran-bookdown r-cran-bslib r-cran-cachem r-cran-cli
102s   r-cran-codetools r-cran-colorspace r-cran-commonmark r-cran-cpp11
102s   r-cran-crayon r-cran-crosstalk r-cran-curl r-cran-dbi r-cran-dbplyr
102s   r-cran-digest r-cran-dplyr r-cran-dt r-cran-ellipsis r-cran-evaluate
102s   r-cran-fansi r-cran-farver r-cran-fastmap r-cran-filelock r-cran-fontawesome
102s   r-cran-formatr r-cran-fs r-cran-futile.logger r-cran-futile.options
102s   r-cran-generics r-cran-ggplot2 r-cran-glue r-cran-gtable r-cran-highr
102s   r-cran-hms r-cran-htmltools r-cran-htmlwidgets r-cran-httpuv r-cran-httr
102s   r-cran-isoband r-cran-jquerylib r-cran-jsonlite r-cran-knitr r-cran-labeling
102s   r-cran-lambda.r r-cran-later r-cran-lattice r-cran-lazyeval r-cran-lifecycle
102s   r-cran-littler r-cran-magrittr r-cran-mass r-cran-matrix r-cran-matrixstats
102s   r-cran-memoise r-cran-mgcv r-cran-mime r-cran-munsell r-cran-nlme
102s   r-cran-openssl r-cran-pillar r-cran-pkgconfig r-cran-pkgkitten r-cran-plogr
102s   r-cran-png r-cran-prettyunits r-cran-progress r-cran-promises r-cran-purrr
102s   r-cran-r6 r-cran-rappdirs r-cran-rcolorbrewer r-cran-rcpp r-cran-rcurl
102s   r-cran-restfulr r-cran-rjson r-cran-rlang r-cran-rmarkdown r-cran-rsqlite
102s   r-cran-runit r-cran-sass r-cran-scales r-cran-shiny r-cran-snow
102s   r-cran-sourcetools r-cran-stringi r-cran-stringr r-cran-survival r-cran-sys
102s   r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-tinytex r-cran-utf8
102s   r-cran-vctrs r-cran-viridislite r-cran-withr r-cran-xfun r-cran-xml
102s   r-cran-xml2 r-cran-xtable r-cran-yaml rpcsvc-proto t1utils tex-common
102s   texlive-base texlive-bibtex-extra texlive-binaries texlive-latex-base unzip
102s   x11-common xdg-utils zip zlib1g-dev
102s 0 upgraded, 300 newly installed, 0 to remove and 0 not upgraded.
102s Need to get 457 MB/457 MB of archives.
102s After this operation, 1394 MB of additional disk space will be used.
102s Get:1 /tmp/autopkgtest.VT7cll/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [776 B]
102s Get:2 http://ftpmaster.internal/ubuntu noble/main arm64 libc-dev-bin arm64 2.39-0ubuntu2 [19.7 kB]
102s Get:3 http://ftpmaster.internal/ubuntu noble/main arm64 linux-libc-dev arm64 6.8.0-11.11 [1569 kB]
102s Get:4 http://ftpmaster.internal/ubuntu noble/main arm64 libcrypt-dev arm64 1:4.4.36-4 [136 kB]
102s Get:5 http://ftpmaster.internal/ubuntu noble/main arm64 libtirpc-dev arm64 1.3.4+ds-1build1 [232 kB]
102s Get:6 http://ftpmaster.internal/ubuntu noble/main arm64 libnsl-dev arm64 1.3.0-3 [71.9 kB]
102s Get:7 http://ftpmaster.internal/ubuntu noble/main arm64 rpcsvc-proto arm64 1.4.2-0ubuntu6 [65.4 kB]
102s Get:8 http://ftpmaster.internal/ubuntu noble/main arm64 libc6-dev arm64 2.39-0ubuntu2 [1596 kB]
102s Get:9 http://ftpmaster.internal/ubuntu noble/main arm64 libisl23 arm64 0.26-3 [713 kB]
102s Get:10 http://ftpmaster.internal/ubuntu noble/main arm64 libmpc3 arm64 1.3.1-1 [55.3 kB]
102s Get:11 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-13-aarch64-linux-gnu arm64 13.2.0-17ubuntu2 [10.3 MB]
103s Get:12 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-13 arm64 13.2.0-17ubuntu2 [1028 B]
103s Get:13 http://ftpmaster.internal/ubuntu noble/main arm64 cpp-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu1 [5316 B]
103s Get:14 http://ftpmaster.internal/ubuntu noble/main arm64 cpp arm64 4:13.2.0-7ubuntu1 [22.4 kB]
103s Get:15 http://ftpmaster.internal/ubuntu noble/main arm64 libcc1-0 arm64 14-20240303-1ubuntu1 [44.7 kB]
103s Get:16 http://ftpmaster.internal/ubuntu noble/main arm64 libgomp1 arm64 14-20240303-1ubuntu1 [144 kB]
103s Get:17 http://ftpmaster.internal/ubuntu noble/main arm64 libitm1 arm64 14-20240303-1ubuntu1 [27.7 kB]
103s Get:18 http://ftpmaster.internal/ubuntu noble/main arm64 libatomic1 arm64 14-20240303-1ubuntu1 [11.4 kB]
103s Get:19 http://ftpmaster.internal/ubuntu noble/main arm64 libasan8 arm64 14-20240303-1ubuntu1 [2919 kB]
103s Get:20 http://ftpmaster.internal/ubuntu noble/main arm64 liblsan0 arm64 14-20240303-1ubuntu1 [1282 kB]
103s Get:21 http://ftpmaster.internal/ubuntu noble/main arm64 libtsan2 arm64 14-20240303-1ubuntu1 [2687 kB]
103s Get:22 http://ftpmaster.internal/ubuntu noble/main arm64 libubsan1 arm64 14-20240303-1ubuntu1 [1151 kB]
103s Get:23 http://ftpmaster.internal/ubuntu noble/main arm64 libhwasan0 arm64 14-20240303-1ubuntu1 [1597 kB]
103s Get:24 http://ftpmaster.internal/ubuntu noble/main arm64 libgcc-13-dev arm64 13.2.0-17ubuntu2 [2464 kB]
103s Get:25 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-13-aarch64-linux-gnu arm64 13.2.0-17ubuntu2 [20.1 MB]
103s Get:26 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-13 arm64 13.2.0-17ubuntu2 [467 kB]
103s Get:27 http://ftpmaster.internal/ubuntu noble/main arm64 gcc-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu1 [1198 B]
103s Get:28 http://ftpmaster.internal/ubuntu noble/main arm64 gcc arm64 4:13.2.0-7ubuntu1 [5018 B]
103s Get:29 http://ftpmaster.internal/ubuntu noble/main arm64 libstdc++-13-dev arm64 13.2.0-17ubuntu2 [2322 kB]
103s Get:30 http://ftpmaster.internal/ubuntu noble/main arm64 g++-13-aarch64-linux-gnu arm64 13.2.0-17ubuntu2 [11.7 MB]
104s Get:31 http://ftpmaster.internal/ubuntu noble/main arm64 g++-13 arm64 13.2.0-17ubuntu2 [14.4 kB]
104s Get:32 http://ftpmaster.internal/ubuntu noble/main arm64 g++-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu1 [962 B]
104s Get:33 http://ftpmaster.internal/ubuntu noble/main arm64 g++ arm64 4:13.2.0-7ubuntu1 [1082 B]
104s Get:34 http://ftpmaster.internal/ubuntu noble/main arm64 build-essential arm64 12.10ubuntu1 [4932 B]
104s Get:35 http://ftpmaster.internal/ubuntu noble/main arm64 dctrl-tools arm64 2.24-3build2 [65.2 kB]
104s Get:36 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
104s Get:37 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
104s Get:38 http://ftpmaster.internal/ubuntu noble/main arm64 fontconfig-config arm64 2.15.0-1ubuntu1 [37.0 kB]
104s Get:39 http://ftpmaster.internal/ubuntu noble/main arm64 libfontconfig1 arm64 2.15.0-1ubuntu1 [142 kB]
104s Get:40 http://ftpmaster.internal/ubuntu noble/main arm64 fontconfig arm64 2.15.0-1ubuntu1 [190 kB]
104s Get:41 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-font-awesome all 5.0.10+really4.7.0~dfsg-4.1 [516 kB]
104s Get:42 http://ftpmaster.internal/ubuntu noble/universe arm64 fonts-glyphicons-halflings all 1.009~3.4.1+dfsg-3 [118 kB]
104s Get:43 http://ftpmaster.internal/ubuntu noble/universe arm64 fonts-lmodern all 2.005-1 [4799 kB]
104s Get:44 http://ftpmaster.internal/ubuntu noble/main arm64 fonts-mathjax all 2.7.9+dfsg-1 [2208 kB]
104s Get:45 http://ftpmaster.internal/ubuntu noble/main arm64 libgfortran5 arm64 14-20240303-1ubuntu1 [444 kB]
104s Get:46 http://ftpmaster.internal/ubuntu noble/main arm64 libgfortran-13-dev arm64 13.2.0-17ubuntu2 [478 kB]
104s Get:47 http://ftpmaster.internal/ubuntu noble/main arm64 gfortran-13-aarch64-linux-gnu arm64 13.2.0-17ubuntu2 [10.8 MB]
104s Get:48 http://ftpmaster.internal/ubuntu noble/main arm64 gfortran-13 arm64 13.2.0-17ubuntu2 [10.3 kB]
104s Get:49 http://ftpmaster.internal/ubuntu noble/main arm64 gfortran-aarch64-linux-gnu arm64 4:13.2.0-7ubuntu1 [1022 B]
104s Get:50 http://ftpmaster.internal/ubuntu noble/main arm64 gfortran arm64 4:13.2.0-7ubuntu1 [1164 B]
104s Get:51 http://ftpmaster.internal/ubuntu noble/main arm64 icu-devtools arm64 74.2-1ubuntu1 [209 kB]
104s Get:52 http://ftpmaster.internal/ubuntu noble/main arm64 javascript-common all 11+nmu1 [5936 B]
104s Get:53 http://ftpmaster.internal/ubuntu noble/main arm64 libio-string-perl all 1.08-4 [11.1 kB]
104s Get:54 http://ftpmaster.internal/ubuntu noble/universe arm64 liblatex-tounicode-perl all 0.54-2 [29.0 kB]
104s Get:55 http://ftpmaster.internal/ubuntu noble/universe arm64 libbibtex-parser-perl all 1.04+dfsg-1 [16.7 kB]
104s Get:56 http://ftpmaster.internal/ubuntu noble/main arm64 libblas3 arm64 3.12.0-3 [143 kB]
104s Get:57 http://ftpmaster.internal/ubuntu noble/main arm64 libblas-dev arm64 3.12.0-3 [111 kB]
104s Get:58 http://ftpmaster.internal/ubuntu noble/main arm64 libboost1.83-dev arm64 1.83.0-2ubuntu1 [15.3 MB]
105s Get:59 http://ftpmaster.internal/ubuntu noble/main arm64 libboost-dev arm64 1.83.0.1ubuntu2 [4308 B]
105s Get:60 http://ftpmaster.internal/ubuntu noble/main arm64 libbz2-dev arm64 1.0.8-5ubuntu1 [35.8 kB]
105s Get:61 http://ftpmaster.internal/ubuntu noble/main arm64 libpixman-1-0 arm64 0.42.2-1 [193 kB]
105s Get:62 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-render0 arm64 1.15-1 [16.1 kB]
105s Get:63 http://ftpmaster.internal/ubuntu noble/main arm64 libxcb-shm0 arm64 1.15-1 [5780 B]
105s Get:64 http://ftpmaster.internal/ubuntu noble/main arm64 libxrender1 arm64 1:0.9.10-1.1 [19.1 kB]
105s Get:65 http://ftpmaster.internal/ubuntu noble/main arm64 libcairo2 arm64 1.18.0-1 [550 kB]
105s Get:66 http://ftpmaster.internal/ubuntu noble/main arm64 libdatrie1 arm64 0.2.13-3 [21.7 kB]
105s Get:67 http://ftpmaster.internal/ubuntu noble/main arm64 libdeflate0 arm64 1.19-1 [43.4 kB]
105s Get:68 http://ftpmaster.internal/ubuntu noble/main arm64 libgraphite2-3 arm64 1.3.14-2 [81.5 kB]
105s Get:69 http://ftpmaster.internal/ubuntu noble/main arm64 libharfbuzz0b arm64 8.3.0-2 [463 kB]
105s Get:70 http://ftpmaster.internal/ubuntu noble/main arm64 x11-common all 1:7.7+23ubuntu2 [23.4 kB]
105s Get:71 http://ftpmaster.internal/ubuntu noble/main arm64 libice6 arm64 2:1.0.10-1build2 [41.7 kB]
105s Get:72 http://ftpmaster.internal/ubuntu noble/main arm64 libicu-dev arm64 74.2-1ubuntu1 [11.9 MB]
105s Get:73 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg-turbo8 arm64 2.1.5-2ubuntu1 [160 kB]
105s Get:74 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg-turbo8-dev arm64 2.1.5-2ubuntu1 [304 kB]
105s Get:75 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
105s Get:76 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg8-dev arm64 8c-2ubuntu11 [1484 B]
105s Get:77 http://ftpmaster.internal/ubuntu noble/main arm64 libjpeg-dev arm64 8c-2ubuntu11 [1482 B]
105s Get:78 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-bootstrap all 3.4.1+dfsg-3 [129 kB]
105s Get:79 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-popper.js all 1.16.1+ds-6 [54.1 kB]
105s Get:80 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-bootstrap4 all 4.6.1+dfsg1-4 [537 kB]
105s Get:81 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-d3 all 3.5.17-4 [132 kB]
105s Get:82 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-es5-shim all 4.6.7-2 [39.8 kB]
105s Get:83 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-highlight.js all 9.18.5+dfsg1-2 [385 kB]
105s Get:84 http://ftpmaster.internal/ubuntu noble/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
105s Get:85 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-jquery-datatables all 1.11.5+dfsg-2 [146 kB]
105s Get:86 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-jquery-datatables-extensions all 0.0+git20150910.28fd64e+dfsg-5 [648 kB]
105s Get:87 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-sifter.js all 0.6.0+dfsg-3 [12.6 kB]
105s Get:88 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-microplugin.js all 0.0.3+dfsg-1.1 [3712 B]
105s Get:89 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-jquery-selectize.js all 0.12.6+dfsg-1.1 [51.0 kB]
105s Get:90 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB]
105s Get:91 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-json all 0~20221030+~1.0.8-1 [20.6 kB]
105s Get:92 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-lunr all 2.3.9~dfsg-2 [66.8 kB]
105s Get:93 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-prettify all 2015.12.04+dfsg-1.1 [39.3 kB]
105s Get:94 http://ftpmaster.internal/ubuntu noble/main arm64 libkpathsea6 arm64 2023.20230311.66589-9 [62.7 kB]
105s Get:95 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack3 arm64 3.12.0-3 [2241 kB]
106s Get:96 http://ftpmaster.internal/ubuntu noble/main arm64 liblapack-dev arm64 3.12.0-3 [4293 kB]
106s Get:97 http://ftpmaster.internal/ubuntu noble/main arm64 liblerc4 arm64 4.0.0+ds-4ubuntu1 [153 kB]
106s Get:98 http://ftpmaster.internal/ubuntu noble/main arm64 liblua5.4-0 arm64 5.4.6-3 [158 kB]
106s Get:99 http://ftpmaster.internal/ubuntu noble/main arm64 libncurses-dev arm64 6.4+20240113-1ubuntu1 [385 kB]
106s Get:100 http://ftpmaster.internal/ubuntu noble/main arm64 libthai-data all 0.1.29-2 [158 kB]
106s Get:101 http://ftpmaster.internal/ubuntu noble/main arm64 libthai0 arm64 0.1.29-2 [18.1 kB]
106s Get:102 http://ftpmaster.internal/ubuntu noble/main arm64 libpango-1.0-0 arm64 1.51.0+ds-4 [226 kB]
106s Get:103 http://ftpmaster.internal/ubuntu noble/main arm64 libpangoft2-1.0-0 arm64 1.51.0+ds-4 [41.2 kB]
106s Get:104 http://ftpmaster.internal/ubuntu noble/main arm64 libpangocairo-1.0-0 arm64 1.51.0+ds-4 [27.6 kB]
106s Get:105 http://ftpmaster.internal/ubuntu noble/main arm64 libpaper1 arm64 1.1.29 [13.1 kB]
106s Get:106 http://ftpmaster.internal/ubuntu noble/main arm64 libpaper-utils arm64 1.1.29 [8480 B]
106s Get:107 http://ftpmaster.internal/ubuntu noble/main arm64 libpcre2-16-0 arm64 10.42-4ubuntu1 [195 kB]
106s Get:108 http://ftpmaster.internal/ubuntu noble/main arm64 libpcre2-32-0 arm64 10.42-4ubuntu1 [183 kB]
106s Get:109 http://ftpmaster.internal/ubuntu noble/main arm64 libpcre2-posix3 arm64 10.42-4ubuntu1 [6654 B]
106s Get:110 http://ftpmaster.internal/ubuntu noble/main arm64 libpcre2-dev arm64 10.42-4ubuntu1 [679 kB]
106s Get:111 http://ftpmaster.internal/ubuntu noble/main arm64 libpkgconf3 arm64 1.8.1-2 [31.2 kB]
106s Get:112 http://ftpmaster.internal/ubuntu noble/main arm64 zlib1g-dev arm64 1:1.3.dfsg-3ubuntu1 [895 kB]
106s Get:113 http://ftpmaster.internal/ubuntu noble/main arm64 libpng-dev arm64 1.6.43-1 [266 kB]
106s Get:114 http://ftpmaster.internal/ubuntu noble/universe arm64 libpotrace0 arm64 1.16-2 [15.2 kB]
106s Get:115 http://ftpmaster.internal/ubuntu noble/main arm64 libptexenc1 arm64 2023.20230311.66589-9 [40.0 kB]
106s Get:116 http://ftpmaster.internal/ubuntu noble/main arm64 libreadline-dev arm64 8.2-3 [177 kB]
106s Get:117 http://ftpmaster.internal/ubuntu noble/main arm64 libsharpyuv0 arm64 1.3.2-0.4 [14.4 kB]
106s Get:118 http://ftpmaster.internal/ubuntu noble/main arm64 libsm6 arm64 2:1.2.3-1build2 [16.1 kB]
106s Get:119 http://ftpmaster.internal/ubuntu noble/main arm64 libsynctex2 arm64 2023.20230311.66589-9 [59.1 kB]
106s Get:120 http://ftpmaster.internal/ubuntu noble/main arm64 libtcl8.6 arm64 8.6.13+dfsg-2 [980 kB]
106s Get:121 http://ftpmaster.internal/ubuntu noble/universe arm64 libteckit0 arm64 2.5.12+ds1-1 [405 kB]
107s Get:122 http://ftpmaster.internal/ubuntu noble/main arm64 libtexlua53-5 arm64 2023.20230311.66589-9 [120 kB]
107s Get:123 http://ftpmaster.internal/ubuntu noble/main arm64 libjbig0 arm64 2.1-6.1ubuntu1 [28.9 kB]
107s Get:124 http://ftpmaster.internal/ubuntu noble/main arm64 libwebp7 arm64 1.3.2-0.4 [191 kB]
107s Get:125 http://ftpmaster.internal/ubuntu noble/main arm64 libtiff6 arm64 4.5.1+git230720-3ubuntu1 [226 kB]
107s Get:126 http://ftpmaster.internal/ubuntu noble/main arm64 libxft2 arm64 2.3.6-1 [43.3 kB]
107s Get:127 http://ftpmaster.internal/ubuntu noble/main arm64 libxss1 arm64 1:1.2.3-1build2 [8252 B]
107s Get:128 http://ftpmaster.internal/ubuntu noble/main arm64 libtk8.6 arm64 8.6.13-2 [760 kB]
107s Get:129 http://ftpmaster.internal/ubuntu noble/main arm64 libxt6 arm64 1:1.2.1-1.1 [167 kB]
107s Get:130 http://ftpmaster.internal/ubuntu noble/main arm64 libxmu6 arm64 2:1.1.3-3 [48.9 kB]
107s Get:131 http://ftpmaster.internal/ubuntu noble/main arm64 libxpm4 arm64 1:3.5.17-1 [34.5 kB]
107s Get:132 http://ftpmaster.internal/ubuntu noble/main arm64 libxaw7 arm64 2:1.0.14-1 [184 kB]
107s Get:133 http://ftpmaster.internal/ubuntu noble/main arm64 libxi6 arm64 2:1.8.1-1 [31.9 kB]
107s Get:134 http://ftpmaster.internal/ubuntu noble/universe arm64 libzzip-0-13 arm64 0.13.72+dfsg.1-1.1 [26.6 kB]
107s Get:135 http://ftpmaster.internal/ubuntu noble/universe arm64 node-bootstrap-sass all 3.4.3-2 [187 kB]
107s Get:136 http://ftpmaster.internal/ubuntu noble/universe arm64 node-html5shiv all 3.7.3+dfsg-5 [13.5 kB]
107s Get:137 http://ftpmaster.internal/ubuntu noble/universe arm64 node-normalize.css all 8.0.1-5 [10.8 kB]
107s Get:138 http://ftpmaster.internal/ubuntu noble/universe arm64 pandoc-data all 3.1.3-1 [92.4 kB]
107s Get:139 http://ftpmaster.internal/ubuntu noble/universe arm64 pandoc arm64 3.1.3+ds-2 [27.7 MB]
108s Get:140 http://ftpmaster.internal/ubuntu noble/main arm64 pkgconf-bin arm64 1.8.1-2 [20.4 kB]
108s Get:141 http://ftpmaster.internal/ubuntu noble/main arm64 pkgconf arm64 1.8.1-2 [16.7 kB]
108s Get:142 http://ftpmaster.internal/ubuntu noble/main arm64 pkg-config arm64 1.8.1-2 [7170 B]
108s Get:143 http://ftpmaster.internal/ubuntu noble/main arm64 zip arm64 3.0-13 [172 kB]
108s Get:144 http://ftpmaster.internal/ubuntu noble/main arm64 unzip arm64 6.0-28ubuntu3 [171 kB]
108s Get:145 http://ftpmaster.internal/ubuntu noble/main arm64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
108s Get:146 http://ftpmaster.internal/ubuntu noble/universe arm64 r-base-core arm64 4.3.2-1build1 [26.8 MB]
109s Get:147 http://ftpmaster.internal/ubuntu noble-proposed/main arm64 liblzma-dev arm64 5.6.0-0.2 [180 kB]
109s Get:148 http://ftpmaster.internal/ubuntu noble/universe arm64 r-base-dev all 4.3.2-1build1 [4336 B]
109s Get:149 http://ftpmaster.internal/ubuntu noble/universe arm64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
109s Get:150 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biocgenerics all 0.48.1-2 [595 kB]
109s Get:151 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biobase arm64 2.62.0-1 [2136 kB]
109s Get:152 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-s4vectors arm64 0.40.2+dfsg-1 [2055 kB]
109s Get:153 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-iranges arm64 2.36.0-1 [2250 kB]
109s Get:154 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-dbi all 1.2.2-1 [823 kB]
109s Get:155 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-bit arm64 4.0.5-1 [1057 kB]
109s Get:156 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-bit64 arm64 4.0.5-1 [467 kB]
109s Get:157 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rlang arm64 1.1.3-1 [1663 kB]
109s Get:158 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-cli arm64 3.6.2-1 [1377 kB]
109s Get:159 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-glue arm64 1.7.0-1 [154 kB]
109s Get:160 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
109s Get:161 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-vctrs arm64 0.6.5-1 [1327 kB]
109s Get:162 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-blob all 1.2.4-1 [49.8 kB]
109s Get:163 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-fastmap arm64 1.1.1-1 [69.6 kB]
109s Get:164 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-cachem arm64 1.0.8-1 [72.3 kB]
109s Get:165 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-memoise all 2.0.1-1 [53.9 kB]
109s Get:166 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
109s Get:167 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-plogr all 0.2.0-3build1 [15.1 kB]
109s Get:168 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-cpp11 all 0.4.7-1 [266 kB]
109s Get:169 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rsqlite arm64 2.3.4-1 [1371 kB]
110s Get:170 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-curl arm64 5.2.0+dfsg-1 [189 kB]
110s Get:171 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-jsonlite arm64 1.8.8+dfsg-1 [441 kB]
110s Get:172 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-mime arm64 0.12-1 [35.8 kB]
110s Get:173 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-sys arm64 3.4.2-1 [44.3 kB]
110s Get:174 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-askpass arm64 1.2.0-1 [24.4 kB]
110s Get:175 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-openssl arm64 2.1.1+dfsg-2 [402 kB]
110s Get:176 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-r6 all 2.5.1-1 [99.0 kB]
110s Get:177 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-httr all 1.4.7+dfsg-1 [459 kB]
110s Get:178 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-png arm64 0.1-8-1 [39.9 kB]
110s Get:179 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-zlibbioc all 1.48.0+dfsg-1 [9596 B]
110s Get:180 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-xvector arm64 0.42.0-1 [620 kB]
110s Get:181 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-bitops arm64 1.0-7-1 [29.5 kB]
110s Get:182 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rcurl arm64 1.98-1.14+dfsg-1 [793 kB]
110s Get:183 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-genomeinfodbdata all 1.2.11-2 [12.3 MB]
110s Get:184 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-genomeinfodb all 1.38.6+dfsg-1 [3886 kB]
110s Get:185 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-crayon all 1.5.2-1 [164 kB]
110s Get:186 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biostrings arm64 2.70.2+dfsg-1 [13.6 MB]
111s Get:187 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-keggrest all 1.42.0+dfsg-1 [188 kB]
111s Get:188 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-annotationdbi all 1.64.1-1 [4897 kB]
111s Get:189 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-generics all 0.1.3-1 [81.3 kB]
111s Get:190 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-magrittr arm64 2.0.3-1 [154 kB]
111s Get:191 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-fansi arm64 1.0.5-1 [616 kB]
111s Get:192 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-utf8 arm64 1.2.4-1 [140 kB]
111s Get:193 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pillar all 1.9.0+dfsg-1 [464 kB]
111s Get:194 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-tibble arm64 3.2.1+dfsg-2 [415 kB]
111s Get:195 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-withr all 2.5.0-1 [225 kB]
111s Get:196 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-tidyselect arm64 1.2.0+dfsg-1 [218 kB]
111s Get:197 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-dplyr arm64 1.1.4-1 [1513 kB]
111s Get:198 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-purrr arm64 1.0.2-1 [501 kB]
111s Get:199 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-stringi arm64 1.8.3-1 [869 kB]
111s Get:200 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-stringr all 1.5.1-1 [290 kB]
111s Get:201 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-tidyr arm64 1.3.1-1 [1154 kB]
111s Get:202 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-dbplyr all 2.4.0+dfsg-1 [1172 kB]
111s Get:203 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-filelock arm64 1.0.3-1 [29.7 kB]
111s Get:204 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biocfilecache all 2.10.1+dfsg-1 [300 kB]
112s Get:205 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-biocmanager all 1.30.22+dfsg-2 [125 kB]
112s Get:206 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biocversion all 3.18.1-1 [11.0 kB]
112s Get:207 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rappdirs arm64 0.3.3-1 [47.5 kB]
112s Get:208 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-yaml arm64 2.3.8-1 [107 kB]
112s Get:209 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-littler arm64 0.3.19-1 [93.4 kB]
112s Get:210 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-pkgkitten all 0.2.3-1 [25.1 kB]
112s Get:211 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rcpp arm64 1.0.12-1 [1971 kB]
112s Get:212 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-later arm64 1.3.2+dfsg-1 [120 kB]
112s Get:213 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-promises arm64 1.2.1+dfsg-1 [282 kB]
112s Get:214 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-httpuv arm64 1.6.14+dfsg-1 [496 kB]
112s Get:215 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-xtable all 1:1.8-4-2 [689 kB]
112s Get:216 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-base64enc arm64 0.1-3-3 [27.4 kB]
112s Get:217 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-digest arm64 0.6.34-1 [182 kB]
112s Get:218 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-ellipsis arm64 0.3.2-2 [35.5 kB]
112s Get:219 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-htmltools arm64 0.5.7-1 [369 kB]
112s Get:220 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-fontawesome all 0.5.2-1 [1300 kB]
112s Get:221 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-sourcetools arm64 0.1.7-1-1 [47.2 kB]
112s Get:222 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-commonmark arm64 1.9.1-1 [127 kB]
112s Get:223 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-jquerylib all 0.1.4+dfsg-4 [13.5 kB]
112s Get:224 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-fs arm64 1.6.3+dfsg-1 [227 kB]
112s Get:225 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-sass arm64 0.4.8+dfsg-1 [952 kB]
112s Get:226 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-bslib all 0.6.1+dfsg-1 [5138 kB]
112s Get:227 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-twitter-bootstrap-datepicker all 1.3.1+dfsg1-4.1 [28.5 kB]
112s Get:228 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-shiny all 1.8.0+dfsg-1 [2762 kB]
112s Get:229 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-evaluate all 0.23-1 [90.2 kB]
112s Get:230 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-xfun arm64 0.41+dfsg-1 [415 kB]
112s Get:231 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-highr all 0.10+dfsg-1 [38.3 kB]
112s Get:232 http://ftpmaster.internal/ubuntu noble/main arm64 libjs-mathjax all 2.7.9+dfsg-1 [5665 kB]
113s Get:233 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-knitr all 1.45+dfsg-1 [917 kB]
113s Get:234 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-tinytex all 0.49-1 [141 kB]
113s Get:235 http://ftpmaster.internal/ubuntu noble/universe arm64 libjs-modernizr all 2.6.2+ds1-5 [48.3 kB]
113s Get:236 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rmarkdown all 2.25+dfsg-3 [1481 kB]
113s Get:237 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-htmlwidgets all 1.6.4+dfsg-1 [123 kB]
113s Get:238 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lazyeval arm64 0.2.2-1build1 [143 kB]
113s Get:239 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-crosstalk all 1.2.1+dfsg-1 [177 kB]
113s Get:240 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-dt all 0.31+dfsg-1 [265 kB]
113s Get:241 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-interactivedisplaybase all 1.40.0+dfsg-1 [30.4 kB]
113s Get:242 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-annotationhub all 3.10.0+dfsg-1 [454 kB]
113s Get:243 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biocio all 1.12.0+dfsg-1 [213 kB]
113s Get:244 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-formatr all 1.14-1 [152 kB]
113s Get:245 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lambda.r all 1.2.4-2build1 [119 kB]
113s Get:246 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-futile.options all 1.0.1-3build1 [20.2 kB]
113s Get:247 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-futile.logger all 1.4.3-4build1 [99.3 kB]
113s Get:248 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-snow all 1:0.4.4-2 [97.6 kB]
113s Get:249 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-codetools all 0.2-19-1 [90.5 kB]
113s Get:250 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-bh all 1.84.0-1 [5962 B]
113s Get:251 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biocparallel arm64 1.36.0-1 [1345 kB]
113s Get:252 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-bookdown all 0.37+dfsg-1 [1408 kB]
113s Get:253 http://ftpmaster.internal/ubuntu noble/universe arm64 tex-common all 6.18 [32.8 kB]
113s Get:254 http://ftpmaster.internal/ubuntu noble/main arm64 t1utils arm64 1.41-4build2 [61.5 kB]
113s Get:255 http://ftpmaster.internal/ubuntu noble/universe arm64 texlive-binaries arm64 2023.20230311.66589-9 [8364 kB]
113s Get:256 http://ftpmaster.internal/ubuntu noble/universe arm64 texlive-base all 2023.20240207-1 [21.7 MB]
114s Get:257 http://ftpmaster.internal/ubuntu noble/universe arm64 texlive-latex-base all 2023.20240207-1 [1238 kB]
114s Get:258 http://ftpmaster.internal/ubuntu noble/universe arm64 texlive-bibtex-extra all 2023.20240207-1 [79.1 MB]
117s Get:259 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biocstyle all 2.30.0+dfsg-1 [451 kB]
117s Get:260 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-xml arm64 3.99-0.16.1-1 [1734 kB]
117s Get:261 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-hms all 1.1.3-1 [96.5 kB]
117s Get:262 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-prettyunits all 1.2.0-1 [162 kB]
117s Get:263 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-progress all 1.2.3-1 [91.9 kB]
117s Get:264 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-xml2 arm64 1.3.6-1 [321 kB]
117s Get:265 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-biomart all 2.58.2+dfsg-1 [433 kB]
117s Get:266 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-genomicranges arm64 1.54.1+dfsg-1 [1822 kB]
117s Get:267 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-rhtslib arm64 2.4.1+dfsg-1 [1357 kB]
117s Get:268 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-rsamtools arm64 2.18.0+dfsg-1 [3629 kB]
117s Get:269 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-matrixstats arm64 1.2.0-1 [475 kB]
117s Get:270 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-matrixgenerics all 1.14.0-1 [407 kB]
117s Get:271 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-lattice arm64 0.22-5-1 [1342 kB]
117s Get:272 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-matrix arm64 1.6-5-1 [3776 kB]
117s Get:273 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-abind all 1.4-5-2 [63.6 kB]
117s Get:274 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-s4arrays arm64 1.2.0+dfsg-1 [501 kB]
117s Get:275 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-sparsearray arm64 1.2.4+dfsg-1 [1195 kB]
117s Get:276 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-delayedarray arm64 0.28.0+dfsg-1 [1786 kB]
118s Get:277 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-summarizedexperiment all 1.32.0+dfsg-1 [1134 kB]
118s Get:278 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-genomicalignments arm64 1.38.2-1 [2133 kB]
118s Get:279 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rjson arm64 0.2.21-1 [142 kB]
118s Get:280 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-restfulr arm64 0.0.15-1 [380 kB]
118s Get:281 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-rtracklayer arm64 1.62.0-1 [5104 kB]
118s Get:282 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-bsgenome all 1.70.2-1 [6975 kB]
118s Get:283 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-genomicfeatures all 1.54.1+dfsg-1 [1817 kB]
118s Get:284 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-survival arm64 3.5-8-1 [6116 kB]
118s Get:285 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-snpstats arm64 1.52.0+dfsg-1 [7236 kB]
119s Get:286 http://ftpmaster.internal/ubuntu noble/universe arm64 r-bioc-variantannotation arm64 1.48.1-1 [3526 kB]
119s Get:287 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-colorspace arm64 2.1-0+dfsg-1 [1540 kB]
119s Get:288 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-farver arm64 2.1.1-1 [1336 kB]
119s Get:289 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-gtable all 0.3.4+dfsg-1 [191 kB]
119s Get:290 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-isoband arm64 0.2.7-1 [1481 kB]
119s Get:291 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-mass arm64 7.3-60.0.1-1 [1119 kB]
119s Get:292 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-nlme arm64 3.1.164-1 [2259 kB]
119s Get:293 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-mgcv arm64 1.9-1-1 [3248 kB]
119s Get:294 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-labeling all 0.4.3-1 [62.1 kB]
119s Get:295 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-munsell all 0.5.0-2build1 [208 kB]
119s Get:296 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-rcolorbrewer all 1.1-3-1build1 [55.4 kB]
119s Get:297 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-viridislite all 0.4.2-2 [1088 kB]
119s Get:298 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-scales all 1.3.0-1 [603 kB]
119s Get:299 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-ggplot2 all 3.4.4+dfsg-1 [3411 kB]
119s Get:300 http://ftpmaster.internal/ubuntu noble/universe arm64 r-cran-runit all 0.4.32-3 [283 kB]
121s Preconfiguring packages ...
121s Fetched 457 MB in 18s (25.9 MB/s)
121s Selecting previously unselected package libc-dev-bin.
121s (Reading database ... 
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(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 ... 74698 files and directories currently installed.)
121s Preparing to unpack .../000-libc-dev-bin_2.39-0ubuntu2_arm64.deb ...
121s Unpacking libc-dev-bin (2.39-0ubuntu2) ...
121s Selecting previously unselected package linux-libc-dev:arm64.
121s Preparing to unpack .../001-linux-libc-dev_6.8.0-11.11_arm64.deb ...
121s Unpacking linux-libc-dev:arm64 (6.8.0-11.11) ...
121s Selecting previously unselected package libcrypt-dev:arm64.
121s Preparing to unpack .../002-libcrypt-dev_1%3a4.4.36-4_arm64.deb ...
121s Unpacking libcrypt-dev:arm64 (1:4.4.36-4) ...
121s Selecting previously unselected package libtirpc-dev:arm64.
121s Preparing to unpack .../003-libtirpc-dev_1.3.4+ds-1build1_arm64.deb ...
121s Unpacking libtirpc-dev:arm64 (1.3.4+ds-1build1) ...
121s Selecting previously unselected package libnsl-dev:arm64.
121s Preparing to unpack .../004-libnsl-dev_1.3.0-3_arm64.deb ...
121s Unpacking libnsl-dev:arm64 (1.3.0-3) ...
121s Selecting previously unselected package rpcsvc-proto.
121s Preparing to unpack .../005-rpcsvc-proto_1.4.2-0ubuntu6_arm64.deb ...
121s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ...
121s Selecting previously unselected package libc6-dev:arm64.
122s Preparing to unpack .../006-libc6-dev_2.39-0ubuntu2_arm64.deb ...
122s Unpacking libc6-dev:arm64 (2.39-0ubuntu2) ...
122s Selecting previously unselected package libisl23:arm64.
122s Preparing to unpack .../007-libisl23_0.26-3_arm64.deb ...
122s Unpacking libisl23:arm64 (0.26-3) ...
122s Selecting previously unselected package libmpc3:arm64.
122s Preparing to unpack .../008-libmpc3_1.3.1-1_arm64.deb ...
122s Unpacking libmpc3:arm64 (1.3.1-1) ...
122s Selecting previously unselected package cpp-13-aarch64-linux-gnu.
122s Preparing to unpack .../009-cpp-13-aarch64-linux-gnu_13.2.0-17ubuntu2_arm64.deb ...
122s Unpacking cpp-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ...
122s Selecting previously unselected package cpp-13.
122s Preparing to unpack .../010-cpp-13_13.2.0-17ubuntu2_arm64.deb ...
122s Unpacking cpp-13 (13.2.0-17ubuntu2) ...
122s Selecting previously unselected package cpp-aarch64-linux-gnu.
122s Preparing to unpack .../011-cpp-aarch64-linux-gnu_4%3a13.2.0-7ubuntu1_arm64.deb ...
122s Unpacking cpp-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ...
122s Selecting previously unselected package cpp.
122s Preparing to unpack .../012-cpp_4%3a13.2.0-7ubuntu1_arm64.deb ...
122s Unpacking cpp (4:13.2.0-7ubuntu1) ...
122s Selecting previously unselected package libcc1-0:arm64.
122s Preparing to unpack .../013-libcc1-0_14-20240303-1ubuntu1_arm64.deb ...
122s Unpacking libcc1-0:arm64 (14-20240303-1ubuntu1) ...
122s Selecting previously unselected package libgomp1:arm64.
122s Preparing to unpack .../014-libgomp1_14-20240303-1ubuntu1_arm64.deb ...
122s Unpacking libgomp1:arm64 (14-20240303-1ubuntu1) ...
122s Selecting previously unselected package libitm1:arm64.
122s Preparing to unpack .../015-libitm1_14-20240303-1ubuntu1_arm64.deb ...
122s Unpacking libitm1:arm64 (14-20240303-1ubuntu1) ...
122s Selecting previously unselected package libatomic1:arm64.
122s Preparing to unpack .../016-libatomic1_14-20240303-1ubuntu1_arm64.deb ...
122s Unpacking libatomic1:arm64 (14-20240303-1ubuntu1) ...
122s Selecting previously unselected package libasan8:arm64.
123s Preparing to unpack .../017-libasan8_14-20240303-1ubuntu1_arm64.deb ...
123s Unpacking libasan8:arm64 (14-20240303-1ubuntu1) ...
123s Selecting previously unselected package liblsan0:arm64.
123s Preparing to unpack .../018-liblsan0_14-20240303-1ubuntu1_arm64.deb ...
123s Unpacking liblsan0:arm64 (14-20240303-1ubuntu1) ...
123s Selecting previously unselected package libtsan2:arm64.
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127s Selecting previously unselected package libgfortran5:arm64.
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130s Selecting previously unselected package libxrender1:arm64.
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130s Selecting previously unselected package libcairo2:arm64.
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131s Selecting previously unselected package libdatrie1:arm64.
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131s Selecting previously unselected package libgraphite2-3:arm64.
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131s Selecting previously unselected package libice6:arm64.
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131s Selecting previously unselected package libicu-dev:arm64.
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131s Selecting previously unselected package libjpeg-turbo8:arm64.
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133s Selecting previously unselected package libkpathsea6:arm64.
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135s Selecting previously unselected package libtiff6:arm64.
135s Preparing to unpack .../123-libtiff6_4.5.1+git230720-3ubuntu1_arm64.deb ...
135s Unpacking libtiff6:arm64 (4.5.1+git230720-3ubuntu1) ...
135s Selecting previously unselected package libxft2:arm64.
135s Preparing to unpack .../124-libxft2_2.3.6-1_arm64.deb ...
135s Unpacking libxft2:arm64 (2.3.6-1) ...
135s Selecting previously unselected package libxss1:arm64.
135s Preparing to unpack .../125-libxss1_1%3a1.2.3-1build2_arm64.deb ...
135s Unpacking libxss1:arm64 (1:1.2.3-1build2) ...
135s Selecting previously unselected package libtk8.6:arm64.
135s Preparing to unpack .../126-libtk8.6_8.6.13-2_arm64.deb ...
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135s Selecting previously unselected package libxt6:arm64.
135s Preparing to unpack .../127-libxt6_1%3a1.2.1-1.1_arm64.deb ...
135s Unpacking libxt6:arm64 (1:1.2.1-1.1) ...
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136s Preparing to unpack .../128-libxmu6_2%3a1.1.3-3_arm64.deb ...
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136s Selecting previously unselected package libxpm4:arm64.
136s Preparing to unpack .../129-libxpm4_1%3a3.5.17-1_arm64.deb ...
136s Unpacking libxpm4:arm64 (1:3.5.17-1) ...
136s Selecting previously unselected package libxaw7:arm64.
136s Preparing to unpack .../130-libxaw7_2%3a1.0.14-1_arm64.deb ...
136s Unpacking libxaw7:arm64 (2:1.0.14-1) ...
136s Selecting previously unselected package libxi6:arm64.
136s Preparing to unpack .../131-libxi6_2%3a1.8.1-1_arm64.deb ...
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136s Selecting previously unselected package libzzip-0-13:arm64.
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136s Selecting previously unselected package node-bootstrap-sass.
136s Preparing to unpack .../133-node-bootstrap-sass_3.4.3-2_all.deb ...
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136s Selecting previously unselected package node-html5shiv.
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136s Selecting previously unselected package node-normalize.css.
136s Preparing to unpack .../135-node-normalize.css_8.0.1-5_all.deb ...
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136s Selecting previously unselected package pandoc-data.
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137s Selecting previously unselected package pkgconf-bin.
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137s Selecting previously unselected package pkgconf:arm64.
137s Preparing to unpack .../139-pkgconf_1.8.1-2_arm64.deb ...
137s Unpacking pkgconf:arm64 (1.8.1-2) ...
137s Selecting previously unselected package pkg-config:arm64.
137s Preparing to unpack .../140-pkg-config_1.8.1-2_arm64.deb ...
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137s Selecting previously unselected package zip.
137s Preparing to unpack .../141-zip_3.0-13_arm64.deb ...
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137s Preparing to unpack .../142-unzip_6.0-28ubuntu3_arm64.deb ...
137s Unpacking unzip (6.0-28ubuntu3) ...
137s Selecting previously unselected package xdg-utils.
138s Preparing to unpack .../143-xdg-utils_1.1.3-4.1ubuntu3_all.deb ...
138s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ...
138s Selecting previously unselected package r-base-core.
138s Preparing to unpack .../144-r-base-core_4.3.2-1build1_arm64.deb ...
138s Unpacking r-base-core (4.3.2-1build1) ...
138s Selecting previously unselected package liblzma-dev:arm64.
139s Preparing to unpack .../145-liblzma-dev_5.6.0-0.2_arm64.deb ...
139s Unpacking liblzma-dev:arm64 (5.6.0-0.2) ...
139s Selecting previously unselected package r-base-dev.
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139s Selecting previously unselected package pkg-r-autopkgtest.
139s Preparing to unpack .../147-pkg-r-autopkgtest_20231212ubuntu1_all.deb ...
139s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ...
139s Selecting previously unselected package r-bioc-biocgenerics.
139s Preparing to unpack .../148-r-bioc-biocgenerics_0.48.1-2_all.deb ...
139s Unpacking r-bioc-biocgenerics (0.48.1-2) ...
139s Selecting previously unselected package r-bioc-biobase.
139s Preparing to unpack .../149-r-bioc-biobase_2.62.0-1_arm64.deb ...
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139s Selecting previously unselected package r-bioc-s4vectors.
139s Preparing to unpack .../150-r-bioc-s4vectors_0.40.2+dfsg-1_arm64.deb ...
139s Unpacking r-bioc-s4vectors (0.40.2+dfsg-1) ...
139s Selecting previously unselected package r-bioc-iranges.
139s Preparing to unpack .../151-r-bioc-iranges_2.36.0-1_arm64.deb ...
139s Unpacking r-bioc-iranges (2.36.0-1) ...
139s Selecting previously unselected package r-cran-dbi.
139s Preparing to unpack .../152-r-cran-dbi_1.2.2-1_all.deb ...
139s Unpacking r-cran-dbi (1.2.2-1) ...
139s Selecting previously unselected package r-cran-bit.
139s Preparing to unpack .../153-r-cran-bit_4.0.5-1_arm64.deb ...
139s Unpacking r-cran-bit (4.0.5-1) ...
139s Selecting previously unselected package r-cran-bit64.
139s Preparing to unpack .../154-r-cran-bit64_4.0.5-1_arm64.deb ...
139s Unpacking r-cran-bit64 (4.0.5-1) ...
139s Selecting previously unselected package r-cran-rlang.
140s Preparing to unpack .../155-r-cran-rlang_1.1.3-1_arm64.deb ...
140s Unpacking r-cran-rlang (1.1.3-1) ...
140s Selecting previously unselected package r-cran-cli.
140s Preparing to unpack .../156-r-cran-cli_3.6.2-1_arm64.deb ...
140s Unpacking r-cran-cli (3.6.2-1) ...
140s Selecting previously unselected package r-cran-glue.
140s Preparing to unpack .../157-r-cran-glue_1.7.0-1_arm64.deb ...
140s Unpacking r-cran-glue (1.7.0-1) ...
140s Selecting previously unselected package r-cran-lifecycle.
140s Preparing to unpack .../158-r-cran-lifecycle_1.0.4+dfsg-1_all.deb ...
140s Unpacking r-cran-lifecycle (1.0.4+dfsg-1) ...
140s Selecting previously unselected package r-cran-vctrs.
140s Preparing to unpack .../159-r-cran-vctrs_0.6.5-1_arm64.deb ...
140s Unpacking r-cran-vctrs (0.6.5-1) ...
140s Selecting previously unselected package r-cran-blob.
140s Preparing to unpack .../160-r-cran-blob_1.2.4-1_all.deb ...
140s Unpacking r-cran-blob (1.2.4-1) ...
140s Selecting previously unselected package r-cran-fastmap.
140s Preparing to unpack .../161-r-cran-fastmap_1.1.1-1_arm64.deb ...
140s Unpacking r-cran-fastmap (1.1.1-1) ...
140s Selecting previously unselected package r-cran-cachem.
140s Preparing to unpack .../162-r-cran-cachem_1.0.8-1_arm64.deb ...
140s Unpacking r-cran-cachem (1.0.8-1) ...
140s Selecting previously unselected package r-cran-memoise.
140s Preparing to unpack .../163-r-cran-memoise_2.0.1-1_all.deb ...
140s Unpacking r-cran-memoise (2.0.1-1) ...
140s Selecting previously unselected package r-cran-pkgconfig.
140s Preparing to unpack .../164-r-cran-pkgconfig_2.0.3-2build1_all.deb ...
140s Unpacking r-cran-pkgconfig (2.0.3-2build1) ...
141s Selecting previously unselected package r-cran-plogr.
141s Preparing to unpack .../165-r-cran-plogr_0.2.0-3build1_all.deb ...
141s Unpacking r-cran-plogr (0.2.0-3build1) ...
141s Selecting previously unselected package r-cran-cpp11.
141s Preparing to unpack .../166-r-cran-cpp11_0.4.7-1_all.deb ...
141s Unpacking r-cran-cpp11 (0.4.7-1) ...
141s Selecting previously unselected package r-cran-rsqlite.
141s Preparing to unpack .../167-r-cran-rsqlite_2.3.4-1_arm64.deb ...
141s Unpacking r-cran-rsqlite (2.3.4-1) ...
141s Selecting previously unselected package r-cran-curl.
141s Preparing to unpack .../168-r-cran-curl_5.2.0+dfsg-1_arm64.deb ...
141s Unpacking r-cran-curl (5.2.0+dfsg-1) ...
142s Selecting previously unselected package r-cran-jsonlite.
142s Preparing to unpack .../169-r-cran-jsonlite_1.8.8+dfsg-1_arm64.deb ...
142s Unpacking r-cran-jsonlite (1.8.8+dfsg-1) ...
142s Selecting previously unselected package r-cran-mime.
142s Preparing to unpack .../170-r-cran-mime_0.12-1_arm64.deb ...
142s Unpacking r-cran-mime (0.12-1) ...
142s Selecting previously unselected package r-cran-sys.
142s Preparing to unpack .../171-r-cran-sys_3.4.2-1_arm64.deb ...
142s Unpacking r-cran-sys (3.4.2-1) ...
142s Selecting previously unselected package r-cran-askpass.
142s Preparing to unpack .../172-r-cran-askpass_1.2.0-1_arm64.deb ...
142s Unpacking r-cran-askpass (1.2.0-1) ...
142s Selecting previously unselected package r-cran-openssl.
142s Preparing to unpack .../173-r-cran-openssl_2.1.1+dfsg-2_arm64.deb ...
142s Unpacking r-cran-openssl (2.1.1+dfsg-2) ...
142s Selecting previously unselected package r-cran-r6.
142s Preparing to unpack .../174-r-cran-r6_2.5.1-1_all.deb ...
142s Unpacking r-cran-r6 (2.5.1-1) ...
142s Selecting previously unselected package r-cran-httr.
142s Preparing to unpack .../175-r-cran-httr_1.4.7+dfsg-1_all.deb ...
142s Unpacking r-cran-httr (1.4.7+dfsg-1) ...
142s Selecting previously unselected package r-cran-png.
143s Preparing to unpack .../176-r-cran-png_0.1-8-1_arm64.deb ...
143s Unpacking r-cran-png (0.1-8-1) ...
143s Selecting previously unselected package r-bioc-zlibbioc.
143s Preparing to unpack .../177-r-bioc-zlibbioc_1.48.0+dfsg-1_all.deb ...
143s Unpacking r-bioc-zlibbioc (1.48.0+dfsg-1) ...
143s Selecting previously unselected package r-bioc-xvector.
143s Preparing to unpack .../178-r-bioc-xvector_0.42.0-1_arm64.deb ...
143s Unpacking r-bioc-xvector (0.42.0-1) ...
143s Selecting previously unselected package r-cran-bitops.
143s Preparing to unpack .../179-r-cran-bitops_1.0-7-1_arm64.deb ...
143s Unpacking r-cran-bitops (1.0-7-1) ...
143s Selecting previously unselected package r-cran-rcurl.
143s Preparing to unpack .../180-r-cran-rcurl_1.98-1.14+dfsg-1_arm64.deb ...
143s Unpacking r-cran-rcurl (1.98-1.14+dfsg-1) ...
143s Selecting previously unselected package r-bioc-genomeinfodbdata.
144s Preparing to unpack .../181-r-bioc-genomeinfodbdata_1.2.11-2_all.deb ...
144s Unpacking r-bioc-genomeinfodbdata (1.2.11-2) ...
144s Selecting previously unselected package r-bioc-genomeinfodb.
144s Preparing to unpack .../182-r-bioc-genomeinfodb_1.38.6+dfsg-1_all.deb ...
144s Unpacking r-bioc-genomeinfodb (1.38.6+dfsg-1) ...
144s Selecting previously unselected package r-cran-crayon.
144s Preparing to unpack .../183-r-cran-crayon_1.5.2-1_all.deb ...
144s Unpacking r-cran-crayon (1.5.2-1) ...
144s Selecting previously unselected package r-bioc-biostrings.
144s Preparing to unpack .../184-r-bioc-biostrings_2.70.2+dfsg-1_arm64.deb ...
144s Unpacking r-bioc-biostrings (2.70.2+dfsg-1) ...
145s Selecting previously unselected package r-bioc-keggrest.
145s Preparing to unpack .../185-r-bioc-keggrest_1.42.0+dfsg-1_all.deb ...
145s Unpacking r-bioc-keggrest (1.42.0+dfsg-1) ...
145s Selecting previously unselected package r-bioc-annotationdbi.
145s Preparing to unpack .../186-r-bioc-annotationdbi_1.64.1-1_all.deb ...
145s Unpacking r-bioc-annotationdbi (1.64.1-1) ...
146s Selecting previously unselected package r-cran-generics.
146s Preparing to unpack .../187-r-cran-generics_0.1.3-1_all.deb ...
146s Unpacking r-cran-generics (0.1.3-1) ...
146s Selecting previously unselected package r-cran-magrittr.
146s Preparing to unpack .../188-r-cran-magrittr_2.0.3-1_arm64.deb ...
146s Unpacking r-cran-magrittr (2.0.3-1) ...
146s Selecting previously unselected package r-cran-fansi.
146s Preparing to unpack .../189-r-cran-fansi_1.0.5-1_arm64.deb ...
146s Unpacking r-cran-fansi (1.0.5-1) ...
146s Selecting previously unselected package r-cran-utf8.
146s Preparing to unpack .../190-r-cran-utf8_1.2.4-1_arm64.deb ...
146s Unpacking r-cran-utf8 (1.2.4-1) ...
146s Selecting previously unselected package r-cran-pillar.
146s Preparing to unpack .../191-r-cran-pillar_1.9.0+dfsg-1_all.deb ...
146s Unpacking r-cran-pillar (1.9.0+dfsg-1) ...
146s Selecting previously unselected package r-cran-tibble.
146s Preparing to unpack .../192-r-cran-tibble_3.2.1+dfsg-2_arm64.deb ...
146s Unpacking r-cran-tibble (3.2.1+dfsg-2) ...
146s Selecting previously unselected package r-cran-withr.
146s Preparing to unpack .../193-r-cran-withr_2.5.0-1_all.deb ...
146s Unpacking r-cran-withr (2.5.0-1) ...
146s Selecting previously unselected package r-cran-tidyselect.
146s Preparing to unpack .../194-r-cran-tidyselect_1.2.0+dfsg-1_arm64.deb ...
146s Unpacking r-cran-tidyselect (1.2.0+dfsg-1) ...
146s Selecting previously unselected package r-cran-dplyr.
146s Preparing to unpack .../195-r-cran-dplyr_1.1.4-1_arm64.deb ...
146s Unpacking r-cran-dplyr (1.1.4-1) ...
146s Selecting previously unselected package r-cran-purrr.
146s Preparing to unpack .../196-r-cran-purrr_1.0.2-1_arm64.deb ...
146s Unpacking r-cran-purrr (1.0.2-1) ...
146s Selecting previously unselected package r-cran-stringi.
146s Preparing to unpack .../197-r-cran-stringi_1.8.3-1_arm64.deb ...
146s Unpacking r-cran-stringi (1.8.3-1) ...
146s Selecting previously unselected package r-cran-stringr.
146s Preparing to unpack .../198-r-cran-stringr_1.5.1-1_all.deb ...
146s Unpacking r-cran-stringr (1.5.1-1) ...
146s Selecting previously unselected package r-cran-tidyr.
146s Preparing to unpack .../199-r-cran-tidyr_1.3.1-1_arm64.deb ...
146s Unpacking r-cran-tidyr (1.3.1-1) ...
146s Selecting previously unselected package r-cran-dbplyr.
146s Preparing to unpack .../200-r-cran-dbplyr_2.4.0+dfsg-1_all.deb ...
146s Unpacking r-cran-dbplyr (2.4.0+dfsg-1) ...
146s Selecting previously unselected package r-cran-filelock.
146s Preparing to unpack .../201-r-cran-filelock_1.0.3-1_arm64.deb ...
146s Unpacking r-cran-filelock (1.0.3-1) ...
146s Selecting previously unselected package r-bioc-biocfilecache.
146s Preparing to unpack .../202-r-bioc-biocfilecache_2.10.1+dfsg-1_all.deb ...
146s Unpacking r-bioc-biocfilecache (2.10.1+dfsg-1) ...
146s Selecting previously unselected package r-cran-biocmanager.
146s Preparing to unpack .../203-r-cran-biocmanager_1.30.22+dfsg-2_all.deb ...
146s Unpacking r-cran-biocmanager (1.30.22+dfsg-2) ...
147s Selecting previously unselected package r-bioc-biocversion.
147s Preparing to unpack .../204-r-bioc-biocversion_3.18.1-1_all.deb ...
147s Unpacking r-bioc-biocversion (3.18.1-1) ...
147s Selecting previously unselected package r-cran-rappdirs.
147s Preparing to unpack .../205-r-cran-rappdirs_0.3.3-1_arm64.deb ...
147s Unpacking r-cran-rappdirs (0.3.3-1) ...
147s Selecting previously unselected package r-cran-yaml.
147s Preparing to unpack .../206-r-cran-yaml_2.3.8-1_arm64.deb ...
147s Unpacking r-cran-yaml (2.3.8-1) ...
147s Selecting previously unselected package r-cran-littler.
147s Preparing to unpack .../207-r-cran-littler_0.3.19-1_arm64.deb ...
147s Unpacking r-cran-littler (0.3.19-1) ...
147s Selecting previously unselected package r-cran-pkgkitten.
147s Preparing to unpack .../208-r-cran-pkgkitten_0.2.3-1_all.deb ...
147s Unpacking r-cran-pkgkitten (0.2.3-1) ...
147s Selecting previously unselected package r-cran-rcpp.
147s Preparing to unpack .../209-r-cran-rcpp_1.0.12-1_arm64.deb ...
147s Unpacking r-cran-rcpp (1.0.12-1) ...
147s Selecting previously unselected package r-cran-later.
147s Preparing to unpack .../210-r-cran-later_1.3.2+dfsg-1_arm64.deb ...
147s Unpacking r-cran-later (1.3.2+dfsg-1) ...
147s Selecting previously unselected package r-cran-promises.
147s Preparing to unpack .../211-r-cran-promises_1.2.1+dfsg-1_arm64.deb ...
147s Unpacking r-cran-promises (1.2.1+dfsg-1) ...
147s Selecting previously unselected package r-cran-httpuv.
147s Preparing to unpack .../212-r-cran-httpuv_1.6.14+dfsg-1_arm64.deb ...
147s Unpacking r-cran-httpuv (1.6.14+dfsg-1) ...
147s Selecting previously unselected package r-cran-xtable.
147s Preparing to unpack .../213-r-cran-xtable_1%3a1.8-4-2_all.deb ...
147s Unpacking r-cran-xtable (1:1.8-4-2) ...
148s Selecting previously unselected package r-cran-base64enc.
148s Preparing to unpack .../214-r-cran-base64enc_0.1-3-3_arm64.deb ...
148s Unpacking r-cran-base64enc (0.1-3-3) ...
148s Selecting previously unselected package r-cran-digest.
148s Preparing to unpack .../215-r-cran-digest_0.6.34-1_arm64.deb ...
148s Unpacking r-cran-digest (0.6.34-1) ...
148s Selecting previously unselected package r-cran-ellipsis.
148s Preparing to unpack .../216-r-cran-ellipsis_0.3.2-2_arm64.deb ...
148s Unpacking r-cran-ellipsis (0.3.2-2) ...
148s Selecting previously unselected package r-cran-htmltools.
148s Preparing to unpack .../217-r-cran-htmltools_0.5.7-1_arm64.deb ...
148s Unpacking r-cran-htmltools (0.5.7-1) ...
148s Selecting previously unselected package r-cran-fontawesome.
148s Preparing to unpack .../218-r-cran-fontawesome_0.5.2-1_all.deb ...
148s Unpacking r-cran-fontawesome (0.5.2-1) ...
148s Selecting previously unselected package r-cran-sourcetools.
148s Preparing to unpack .../219-r-cran-sourcetools_0.1.7-1-1_arm64.deb ...
148s Unpacking r-cran-sourcetools (0.1.7-1-1) ...
148s Selecting previously unselected package r-cran-commonmark.
148s Preparing to unpack .../220-r-cran-commonmark_1.9.1-1_arm64.deb ...
148s Unpacking r-cran-commonmark (1.9.1-1) ...
148s Selecting previously unselected package r-cran-jquerylib.
148s Preparing to unpack .../221-r-cran-jquerylib_0.1.4+dfsg-4_all.deb ...
148s Unpacking r-cran-jquerylib (0.1.4+dfsg-4) ...
148s Selecting previously unselected package r-cran-fs.
148s Preparing to unpack .../222-r-cran-fs_1.6.3+dfsg-1_arm64.deb ...
148s Unpacking r-cran-fs (1.6.3+dfsg-1) ...
148s Selecting previously unselected package r-cran-sass.
148s Preparing to unpack .../223-r-cran-sass_0.4.8+dfsg-1_arm64.deb ...
148s Unpacking r-cran-sass (0.4.8+dfsg-1) ...
148s Selecting previously unselected package r-cran-bslib.
148s Preparing to unpack .../224-r-cran-bslib_0.6.1+dfsg-1_all.deb ...
148s Unpacking r-cran-bslib (0.6.1+dfsg-1) ...
148s Selecting previously unselected package libjs-twitter-bootstrap-datepicker.
148s Preparing to unpack .../225-libjs-twitter-bootstrap-datepicker_1.3.1+dfsg1-4.1_all.deb ...
148s Unpacking libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ...
148s Selecting previously unselected package r-cran-shiny.
148s Preparing to unpack .../226-r-cran-shiny_1.8.0+dfsg-1_all.deb ...
148s Unpacking r-cran-shiny (1.8.0+dfsg-1) ...
148s Selecting previously unselected package r-cran-evaluate.
148s Preparing to unpack .../227-r-cran-evaluate_0.23-1_all.deb ...
148s Unpacking r-cran-evaluate (0.23-1) ...
148s Selecting previously unselected package r-cran-xfun.
148s Preparing to unpack .../228-r-cran-xfun_0.41+dfsg-1_arm64.deb ...
148s Unpacking r-cran-xfun (0.41+dfsg-1) ...
148s Selecting previously unselected package r-cran-highr.
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149s Selecting previously unselected package libjs-mathjax.
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149s Selecting previously unselected package r-cran-knitr.
149s Preparing to unpack .../231-r-cran-knitr_1.45+dfsg-1_all.deb ...
149s Unpacking r-cran-knitr (1.45+dfsg-1) ...
149s Selecting previously unselected package r-cran-tinytex.
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149s Selecting previously unselected package libjs-modernizr.
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149s Unpacking libjs-modernizr (2.6.2+ds1-5) ...
149s Selecting previously unselected package r-cran-rmarkdown.
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149s Unpacking r-cran-rmarkdown (2.25+dfsg-3) ...
150s Selecting previously unselected package r-cran-htmlwidgets.
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150s Unpacking r-cran-htmlwidgets (1.6.4+dfsg-1) ...
150s Selecting previously unselected package r-cran-lazyeval.
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150s Selecting previously unselected package r-cran-crosstalk.
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150s Selecting previously unselected package r-bioc-interactivedisplaybase.
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150s Selecting previously unselected package r-bioc-biocio.
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150s Selecting previously unselected package r-cran-formatr.
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150s Selecting previously unselected package r-cran-lambda.r.
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150s Selecting previously unselected package r-cran-futile.options.
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150s Selecting previously unselected package r-cran-snow.
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150s Selecting previously unselected package r-cran-codetools.
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150s Selecting previously unselected package r-cran-bh.
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150s Selecting previously unselected package r-bioc-biocparallel.
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150s Selecting previously unselected package r-cran-bookdown.
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154s Selecting previously unselected package r-cran-prettyunits.
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154s Selecting previously unselected package r-cran-xml2.
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154s Selecting previously unselected package r-bioc-biomart.
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156s Selecting previously unselected package r-cran-abind.
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162s Setting up libice6:arm64 (2:1.0.10-1build2) ...
162s Setting up liblapack3:arm64 (3.12.0-3) ...
162s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode
162s Setting up cpp-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ...
162s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
163s Setting up libjs-twitter-bootstrap-datepicker (1.3.1+dfsg1-4.1) ...
163s Setting up libbibtex-parser-perl (1.04+dfsg-1) ...
163s Setting up libjs-jquery-datatables (1.11.5+dfsg-2) ...
163s Setting up pkgconf:arm64 (1.8.1-2) ...
163s Setting up libthai0:arm64 (0.1.29-2) ...
163s Setting up cpp-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ...
163s Setting up libjs-jquery-ui (1.13.2+dfsg-1) ...
163s Setting up libptexenc1:arm64 (2023.20230311.66589-9) ...
163s Setting up pandoc (3.1.3+ds-2) ...
163s Setting up liblapack-dev:arm64 (3.12.0-3) ...
163s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode
163s Setting up pkg-config:arm64 (1.8.1-2) ...
163s Setting up libgcc-13-dev:arm64 (13.2.0-17ubuntu2) ...
163s Setting up libtiff6:arm64 (4.5.1+git230720-3ubuntu1) ...
163s Setting up libc6-dev:arm64 (2.39-0ubuntu2) ...
163s Setting up libfontconfig1:arm64 (2.15.0-1ubuntu1) ...
163s Setting up libgfortran-13-dev:arm64 (13.2.0-17ubuntu2) ...
163s Setting up libsm6:arm64 (2:1.2.3-1build2) ...
163s Setting up libicu-dev:arm64 (74.2-1ubuntu1) ...
163s Setting up libstdc++-13-dev:arm64 (13.2.0-17ubuntu2) ...
163s Setting up libbz2-dev:arm64 (1.0.8-5ubuntu1) ...
163s Setting up fontconfig (2.15.0-1ubuntu1) ...
165s Regenerating fonts cache... done.
165s Setting up libjpeg-turbo8-dev:arm64 (2.1.5-2ubuntu1) ...
165s Setting up libxft2:arm64 (2.3.6-1) ...
165s Setting up libboost1.83-dev:arm64 (1.83.0-2ubuntu1) ...
165s Setting up libncurses-dev:arm64 (6.4+20240113-1ubuntu1) ...
165s Setting up libpcre2-dev:arm64 (10.42-4ubuntu1) ...
165s Setting up cpp-13 (13.2.0-17ubuntu2) ...
165s Setting up libtk8.6:arm64 (8.6.13-2) ...
165s Setting up libpango-1.0-0:arm64 (1.51.0+ds-4) ...
165s Setting up gcc-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ...
165s Setting up libreadline-dev:arm64 (8.2-3) ...
165s Setting up libcairo2:arm64 (1.18.0-1) ...
165s Setting up gcc-13 (13.2.0-17ubuntu2) ...
165s Setting up libxt6:arm64 (1:1.2.1-1.1) ...
165s Setting up zlib1g-dev:arm64 (1:1.3.dfsg-3ubuntu1) ...
165s Setting up cpp (4:13.2.0-7ubuntu1) ...
165s Setting up libboost-dev:arm64 (1.83.0.1ubuntu2) ...
165s Setting up libpangoft2-1.0-0:arm64 (1.51.0+ds-4) ...
165s Setting up libjpeg8-dev:arm64 (8c-2ubuntu11) ...
165s Setting up libpangocairo-1.0-0:arm64 (1.51.0+ds-4) ...
165s Setting up g++-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ...
165s Setting up gcc-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ...
165s Setting up g++-13 (13.2.0-17ubuntu2) ...
165s Setting up libxmu6:arm64 (2:1.1.3-3) ...
165s Setting up libpng-dev:arm64 (1.6.43-1) ...
165s Setting up libjpeg-dev:arm64 (8c-2ubuntu11) ...
165s Setting up gfortran-13-aarch64-linux-gnu (13.2.0-17ubuntu2) ...
165s Setting up libxaw7:arm64 (2:1.0.14-1) ...
165s Setting up gcc (4:13.2.0-7ubuntu1) ...
165s Setting up gfortran-13 (13.2.0-17ubuntu2) ...
165s Setting up r-base-core (4.3.2-1build1) ...
166s 
166s Creating config file /etc/R/Renviron with new version
166s Setting up r-cran-crayon (1.5.2-1) ...
166s Setting up r-cran-labeling (0.4.3-1) ...
166s Setting up r-cran-sourcetools (0.1.7-1-1) ...
166s Setting up r-cran-futile.options (1.0.1-3build1) ...
166s Setting up r-cran-lattice (0.22-5-1) ...
166s Setting up r-cran-nlme (3.1.164-1) ...
166s Setting up r-cran-farver (2.1.1-1) ...
166s Setting up r-cran-formatr (1.14-1) ...
166s Setting up r-cran-xml (3.99-0.16.1-1) ...
166s Setting up r-cran-viridislite (0.4.2-2) ...
166s Setting up texlive-binaries (2023.20230311.66589-9) ...
166s update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode
166s update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode
166s Setting up g++-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ...
166s Setting up gfortran-aarch64-linux-gnu (4:13.2.0-7ubuntu1) ...
166s Setting up r-cran-lazyeval (0.2.2-1build1) ...
166s Setting up r-cran-commonmark (1.9.1-1) ...
166s Setting up r-cran-r6 (2.5.1-1) ...
166s Setting up r-cran-pkgkitten (0.2.3-1) ...
166s Setting up texlive-base (2023.20240207-1) ...
167s tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps
168s tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg
168s tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper
168s tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex
168s Setting up r-cran-magrittr (2.0.3-1) ...
168s Setting up r-cran-rappdirs (0.3.3-1) ...
169s Setting up r-cran-filelock (1.0.3-1) ...
169s Setting up r-bioc-genomeinfodbdata (1.2.11-2) ...
169s Setting up r-cran-littler (0.3.19-1) ...
169s Setting up r-cran-bh (1.84.0-1) ...
169s Setting up r-cran-fs (1.6.3+dfsg-1) ...
169s Setting up r-cran-rcpp (1.0.12-1) ...
169s Setting up r-cran-curl (5.2.0+dfsg-1) ...
169s Setting up r-cran-codetools (0.2-19-1) ...
169s Setting up r-bioc-biocgenerics (0.48.1-2) ...
169s Setting up r-cran-rlang (1.1.3-1) ...
169s Setting up r-cran-matrixstats (1.2.0-1) ...
169s Setting up r-bioc-matrixgenerics (1.14.0-1) ...
169s Setting up r-cran-xfun (0.41+dfsg-1) ...
169s Setting up r-cran-sys (3.4.2-1) ...
169s Setting up r-cran-plogr (0.2.0-3build1) ...
169s Setting up r-cran-withr (2.5.0-1) ...
169s Setting up r-cran-mime (0.12-1) ...
169s Setting up r-cran-generics (0.1.3-1) ...
169s Setting up r-cran-base64enc (0.1-3-3) ...
169s Setting up r-cran-abind (1.4-5-2) ...
169s Setting up r-cran-digest (0.6.34-1) ...
169s Setting up r-cran-yaml (2.3.8-1) ...
169s Setting up r-cran-lambda.r (1.2.4-2build1) ...
169s Setting up r-cran-evaluate (0.23-1) ...
169s Setting up r-cran-dbi (1.2.2-1) ...
169s Setting up r-cran-highr (0.10+dfsg-1) ...
169s Setting up r-cran-prettyunits (1.2.0-1) ...
169s Setting up r-cran-fansi (1.0.5-1) ...
169s Setting up r-cran-mass (7.3-60.0.1-1) ...
169s Setting up r-cran-snow (1:0.4.4-2) ...
169s Setting up r-cran-glue (1.7.0-1) ...
169s Setting up r-cran-bit (4.0.5-1) ...
169s Setting up r-cran-xtable (1:1.8-4-2) ...
169s Setting up r-cran-cli (3.6.2-1) ...
169s Setting up gfortran (4:13.2.0-7ubuntu1) ...
169s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
169s 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
169s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
169s 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
169s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
169s Setting up r-cran-bitops (1.0-7-1) ...
169s Setting up r-bioc-biocversion (3.18.1-1) ...
169s Setting up r-cran-bit64 (4.0.5-1) ...
169s Setting up r-cran-biocmanager (1.30.22+dfsg-2) ...
169s Setting up r-bioc-zlibbioc (1.48.0+dfsg-1) ...
169s Setting up r-cran-askpass (1.2.0-1) ...
169s Setting up r-cran-fastmap (1.1.1-1) ...
169s Setting up r-cran-png (0.1-8-1) ...
169s Setting up r-bioc-biobase (2.62.0-1) ...
169s Setting up r-cran-jsonlite (1.8.8+dfsg-1) ...
169s Setting up r-cran-pkgconfig (2.0.3-2build1) ...
169s Setting up r-cran-utf8 (1.2.4-1) ...
169s Setting up r-cran-colorspace (2.1-0+dfsg-1) ...
169s Setting up r-cran-stringi (1.8.3-1) ...
169s Setting up texlive-latex-base (2023.20240207-1) ...
169s Setting up r-cran-cpp11 (0.4.7-1) ...
169s Setting up r-cran-rcolorbrewer (1.1-3-1build1) ...
169s Setting up r-bioc-s4vectors (0.40.2+dfsg-1) ...
169s Setting up r-cran-isoband (0.2.7-1) ...
169s Setting up r-cran-runit (0.4.32-3) ...
169s Setting up r-cran-futile.logger (1.4.3-4build1) ...
169s Setting up r-cran-gtable (0.3.4+dfsg-1) ...
169s Setting up r-cran-later (1.3.2+dfsg-1) ...
169s Setting up r-cran-matrix (1.6-5-1) ...
169s Setting up r-cran-tinytex (0.49-1) ...
169s Setting up r-cran-knitr (1.45+dfsg-1) ...
169s Setting up r-cran-mgcv (1.9-1-1) ...
169s Setting up g++ (4:13.2.0-7ubuntu1) ...
169s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
169s Setting up r-cran-cachem (1.0.8-1) ...
169s Setting up build-essential (12.10ubuntu1) ...
169s Setting up r-bioc-iranges (2.36.0-1) ...
169s Setting up r-cran-rjson (0.2.21-1) ...
169s Setting up r-cran-rcurl (1.98-1.14+dfsg-1) ...
169s Setting up r-cran-restfulr (0.0.15-1) ...
169s Setting up r-cran-vctrs (0.6.5-1) ...
169s Setting up r-cran-pillar (1.9.0+dfsg-1) ...
169s Setting up r-cran-ellipsis (0.3.2-2) ...
169s Setting up r-cran-openssl (2.1.1+dfsg-2) ...
169s Setting up r-base-dev (4.3.2-1build1) ...
169s Setting up r-bioc-s4arrays (1.2.0+dfsg-1) ...
169s Setting up r-cran-stringr (1.5.1-1) ...
169s Setting up r-bioc-biocparallel (1.36.0-1) ...
169s Setting up r-bioc-rhtslib (2.4.1+dfsg-1) ...
169s Setting up r-cran-xml2 (1.3.6-1) ...
169s Setting up r-cran-munsell (0.5.0-2build1) ...
169s Setting up r-cran-tibble (3.2.1+dfsg-2) ...
169s Setting up r-cran-survival (3.5-8-1) ...
169s Setting up r-bioc-biocio (1.12.0+dfsg-1) ...
169s Setting up r-cran-tidyselect (1.2.0+dfsg-1) ...
169s Setting up r-bioc-snpstats (1.52.0+dfsg-1) ...
169s Setting up texlive-bibtex-extra (2023.20240207-1) ...
169s Setting up r-bioc-genomeinfodb (1.38.6+dfsg-1) ...
169s Setting up r-cran-httr (1.4.7+dfsg-1) ...
169s Setting up r-cran-hms (1.1.3-1) ...
169s Setting up r-cran-scales (1.3.0-1) ...
169s Setting up r-cran-memoise (2.0.1-1) ...
169s Setting up r-cran-promises (1.2.1+dfsg-1) ...
169s Setting up r-cran-purrr (1.0.2-1) ...
169s Setting up r-cran-blob (1.2.4-1) ...
169s Setting up r-cran-htmltools (0.5.7-1) ...
169s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
169s Setting up r-bioc-xvector (0.42.0-1) ...
169s Setting up r-cran-sass (0.4.8+dfsg-1) ...
169s Setting up r-cran-dplyr (1.1.4-1) ...
169s Setting up r-cran-rsqlite (2.3.4-1) ...
169s Setting up r-cran-progress (1.2.3-1) ...
169s Setting up r-bioc-sparsearray (1.2.4+dfsg-1) ...
169s Setting up r-cran-ggplot2 (3.4.4+dfsg-1) ...
169s Setting up r-bioc-genomicranges (1.54.1+dfsg-1) ...
169s Setting up r-cran-httpuv (1.6.14+dfsg-1) ...
169s Setting up r-bioc-biostrings (2.70.2+dfsg-1) ...
169s Setting up r-cran-fontawesome (0.5.2-1) ...
169s Setting up r-cran-jquerylib (0.1.4+dfsg-4) ...
169s Setting up r-cran-bslib (0.6.1+dfsg-1) ...
169s Setting up r-cran-tidyr (1.3.1-1) ...
169s Setting up r-bioc-rsamtools (2.18.0+dfsg-1) ...
169s Setting up r-cran-dbplyr (2.4.0+dfsg-1) ...
169s Setting up r-bioc-delayedarray (0.28.0+dfsg-1) ...
169s Setting up r-bioc-summarizedexperiment (1.32.0+dfsg-1) ...
169s Setting up r-bioc-biocfilecache (2.10.1+dfsg-1) ...
169s Setting up r-bioc-keggrest (1.42.0+dfsg-1) ...
169s Setting up r-bioc-annotationdbi (1.64.1-1) ...
169s Setting up r-cran-shiny (1.8.0+dfsg-1) ...
169s Setting up r-cran-rmarkdown (2.25+dfsg-3) ...
169s Setting up r-bioc-biomart (2.58.2+dfsg-1) ...
169s Setting up r-bioc-genomicalignments (1.38.2-1) ...
169s Setting up r-cran-bookdown (0.37+dfsg-1) ...
169s Setting up r-cran-crosstalk (1.2.1+dfsg-1) ...
169s Setting up r-bioc-rtracklayer (1.62.0-1) ...
169s Setting up r-bioc-genomicfeatures (1.54.1+dfsg-1) ...
169s Setting up r-cran-htmlwidgets (1.6.4+dfsg-1) ...
169s Setting up r-bioc-bsgenome (1.70.2-1) ...
169s Setting up r-bioc-biocstyle (2.30.0+dfsg-1) ...
169s Setting up r-cran-dt (0.31+dfsg-1) ...
169s Setting up r-bioc-variantannotation (1.48.1-1) ...
169s Setting up r-bioc-interactivedisplaybase (1.40.0+dfsg-1) ...
169s Setting up r-bioc-annotationhub (3.10.0+dfsg-1) ...
169s Setting up autopkgtest-satdep (0) ...
169s Processing triggers for man-db (2.12.0-3) ...
170s Processing triggers for install-info (7.1-3) ...
170s Processing triggers for libc-bin (2.39-0ubuntu2) ...
170s Processing triggers for tex-common (6.18) ...
170s Running updmap-sys. This may take some time... done.
170s Running mktexlsr /var/lib/texmf ... done.
170s Building format(s) --all.
207s 	This may take some time... done.
222s (Reading database ... 126284 files and directories currently installed.)
222s Removing autopkgtest-satdep (0) ...
223s autopkgtest [16:55:40]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
223s autopkgtest [16:55:40]: test pkg-r-autopkgtest: [-----------------------
224s Test: Try to load the R library VariantAnnotation
225s 
225s R version 4.3.2 (2023-10-31) -- "Eye Holes"
225s Copyright (C) 2023 The R Foundation for Statistical Computing
225s Platform: aarch64-unknown-linux-gnu (64-bit)
225s 
225s R is free software and comes with ABSOLUTELY NO WARRANTY.
225s You are welcome to redistribute it under certain conditions.
225s Type 'license()' or 'licence()' for distribution details.
225s 
225s R is a collaborative project with many contributors.
225s Type 'contributors()' for more information and
225s 'citation()' on how to cite R or R packages in publications.
225s 
225s Type 'demo()' for some demos, 'help()' for on-line help, or
225s 'help.start()' for an HTML browser interface to help.
225s Type 'q()' to quit R.
225s 
225s > library('VariantAnnotation')
225s Loading required package: BiocGenerics
225s 
225s Attaching package: ‘BiocGenerics’
225s 
225s The following objects are masked from ‘package:stats’:
225s 
225s     IQR, mad, sd, var, xtabs
225s 
225s The following objects are masked from ‘package:base’:
225s 
225s     anyDuplicated, aperm, append, as.data.frame, basename, cbind,
225s     colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
225s     get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply,
225s     match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
225s     Position, rank, rbind, Reduce, rownames, sapply, setdiff, sort,
225s     table, tapply, union, unique, unsplit, which.max, which.min
225s 
225s Loading required package: MatrixGenerics
225s Loading required package: matrixStats
225s 
225s Attaching package: ‘MatrixGenerics’
225s 
225s The following objects are masked from ‘package:matrixStats’:
225s 
225s     colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
225s     colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
225s     colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
225s     colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
225s     colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
225s     colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
225s     colWeightedMeans, colWeightedMedians, colWeightedSds,
225s     colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
225s     rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
225s     rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
225s     rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
225s     rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
225s     rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
225s     rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
225s     rowWeightedSds, rowWeightedVars
225s 
225s Loading required package: GenomeInfoDb
225s Loading required package: S4Vectors
225s Loading required package: stats4
226s 
226s Attaching package: ‘S4Vectors’
226s 
226s The following object is masked from ‘package:utils’:
226s 
226s     findMatches
226s 
226s The following objects are masked from ‘package:base’:
226s 
226s     expand.grid, I, unname
226s 
226s Loading required package: IRanges
226s Loading required package: GenomicRanges
227s Loading required package: SummarizedExperiment
227s Loading required package: Biobase
227s Welcome to Bioconductor
227s 
227s     Vignettes contain introductory material; view with
227s     'browseVignettes()'. To cite Bioconductor, see
227s     'citation("Biobase")', and for packages 'citation("pkgname")'.
227s 
227s 
227s Attaching package: ‘Biobase’
227s 
227s The following object is masked from ‘package:MatrixGenerics’:
227s 
227s     rowMedians
227s 
227s The following objects are masked from ‘package:matrixStats’:
227s 
227s     anyMissing, rowMedians
227s 
230s Loading required package: Rsamtools
230s Loading required package: Biostrings
230s Loading required package: XVector
230s 
230s Attaching package: ‘Biostrings’
230s 
230s The following object is masked from ‘package:base’:
230s 
230s     strsplit
230s 
237s > 
237s > 
237s 
237s Attaching package: ‘VariantAnnotation’
237s 
237s The following object is masked from ‘package:base’:
237s 
237s     tabulate
237s 
237s autopkgtest [16:55:53]: test pkg-r-autopkgtest: -----------------------]
237s Other tests are currently unsupported!
237s They will be progressively added.
238s autopkgtest [16:55:55]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
238s pkg-r-autopkgtest    PASS
238s autopkgtest [16:55:55]: @@@@@@@@@@@@@@@@@@@@ summary
238s pkg-r-autopkgtest    PASS
249s Creating nova instance adt-noble-arm64-r-bioc-variantannotation-20240316-165157-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-arm64-server-20240314.img (UUID 7faf5f09-d335-4346-a441-4eab2f9c04fe)...