0s autopkgtest [18:59:57]: starting date and time: 2024-03-16 18:59:57+0000
  0s autopkgtest [18:59:57]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data
  0s autopkgtest [18:59:57]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.5nq1n2cp/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-bioc-variantannotation,src:curl,src:libpsl,src:openssl,src:orthanc-python --apt-upgrade r-bioc-titancna --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=r-bioc-variantannotation/1.48.1-1build1 curl/8.5.0-2ubuntu7 libpsl/0.21.2-1.1 openssl/3.0.13-0ubuntu1 orthanc-python/4.1+ds-2build3' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos02-s390x-22.secgroup --name adt-noble-s390x-r-bioc-titancna-20240316-185957-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-s390x-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/
 77s autopkgtest [19:01:14]: testbed dpkg architecture: s390x
 77s autopkgtest [19:01:14]: testbed apt version: 2.7.12
 77s autopkgtest [19:01:14]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 78s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
 78s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [474 kB]
 79s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3682 kB]
 79s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB]
 79s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
 79s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [632 kB]
 79s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B]
 79s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B]
 79s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B]
 79s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [3752 kB]
 79s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B]
 79s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [33.4 kB]
 79s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B]
 81s Fetched 8760 kB in 2s (3987 kB/s)
 81s Reading package lists...
 84s Reading package lists...
 84s Building dependency tree...
 84s Reading state information...
 84s Calculating upgrade...
 84s The following packages will be REMOVED:
 84s   libssl3
 84s The following NEW packages will be installed:
 84s   libssl3t64
 84s The following packages have been kept back:
 84s   curl
 84s The following packages will be upgraded:
 84s   openssl ubuntu-minimal ubuntu-standard
 84s 3 upgraded, 1 newly installed, 1 to remove and 1 not upgraded.
 84s Need to get 2680 kB of archives.
 84s After this operation, 23.6 kB of additional disk space will be used.
 84s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu1 [1006 kB]
 85s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu1 [1652 kB]
 85s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x ubuntu-minimal s390x 1.536 [10.7 kB]
 85s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x ubuntu-standard s390x 1.536 [10.7 kB]
 85s Fetched 2680 kB in 1s (3881 kB/s)
 85s (Reading database ... 
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(Reading database ... 52171 files and directories currently installed.)
 85s Preparing to unpack .../openssl_3.0.13-0ubuntu1_s390x.deb ...
 85s Unpacking openssl (3.0.13-0ubuntu1) over (3.0.10-1ubuntu4) ...
 85s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested:
 85s  wget depends on libssl3 (>= 3.0.0).
 85s  tnftp depends on libssl3 (>= 3.0.0).
 85s  tcpdump depends on libssl3 (>= 3.0.0).
 85s  systemd-resolved depends on libssl3 (>= 3.0.0).
 85s  systemd depends on libssl3 (>= 3.0.0).
 85s  sudo depends on libssl3 (>= 3.0.0).
 85s  s390-tools depends on libssl3 (>= 3.0.0).
 85s  rsync depends on libssl3 (>= 3.0.0).
 85s  python3-cryptography depends on libssl3 (>= 3.0.0).
 85s  openssh-server depends on libssl3 (>= 3.0.10).
 85s  openssh-client depends on libssl3 (>= 3.0.10).
 85s  linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0).
 85s  libsystemd-shared:s390x depends on libssl3 (>= 3.0.0).
 85s  libssh-4:s390x depends on libssl3 (>= 3.0.0).
 85s  libsasl2-modules:s390x depends on libssl3 (>= 3.0.0).
 85s  libsasl2-2:s390x depends on libssl3 (>= 3.0.0).
 85s  libpython3.12-minimal:s390x depends on libssl3 (>= 3.0.0).
 85s  libpython3.11-minimal:s390x depends on libssl3 (>= 3.0.0).
 85s  libnvme1 depends on libssl3 (>= 3.0.0).
 85s  libkrb5-3:s390x depends on libssl3 (>= 3.0.0).
 85s  libkmod2:s390x depends on libssl3 (>= 3.0.0).
 85s  libfido2-1:s390x depends on libssl3 (>= 3.0.0).
 85s  libcurl4:s390x depends on libssl3 (>= 3.0.0).
 85s  libcryptsetup12:s390x depends on libssl3 (>= 3.0.0).
 85s  kmod depends on libssl3 (>= 3.0.0).
 85s  dhcpcd-base depends on libssl3 (>= 3.0.0).
 85s  bind9-libs:s390x depends on libssl3 (>= 3.0.0).
 85s 
 85s (Reading database ... 
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(Reading database ... 52171 files and directories currently installed.)
 85s Removing libssl3:s390x (3.0.10-1ubuntu4) ...
 85s Selecting previously unselected package libssl3t64:s390x.
 85s (Reading database ... 
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(Reading database ... 52160 files and directories currently installed.)
 85s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu1_s390x.deb ...
 85s Unpacking libssl3t64:s390x (3.0.13-0ubuntu1) ...
 85s Preparing to unpack .../ubuntu-minimal_1.536_s390x.deb ...
 85s Unpacking ubuntu-minimal (1.536) over (1.535) ...
 85s Preparing to unpack .../ubuntu-standard_1.536_s390x.deb ...
 85s Unpacking ubuntu-standard (1.536) over (1.535) ...
 85s Setting up ubuntu-minimal (1.536) ...
 85s Setting up libssl3t64:s390x (3.0.13-0ubuntu1) ...
 85s Setting up ubuntu-standard (1.536) ...
 85s Setting up openssl (3.0.13-0ubuntu1) ...
 85s Processing triggers for man-db (2.12.0-3) ...
 86s Processing triggers for libc-bin (2.39-0ubuntu2) ...
 86s Reading package lists...
 86s Building dependency tree...
 86s Reading state information...
 86s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
 87s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease
 87s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease
 87s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease
 87s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease
 88s Reading package lists...
 88s Reading package lists...
 88s Building dependency tree...
 88s Reading state information...
 89s Calculating upgrade...
 89s The following packages have been kept back:
 89s   curl
 89s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
 89s Reading package lists...
 89s Building dependency tree...
 89s Reading state information...
 89s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
 91s autopkgtest [19:01:28]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024
 92s autopkgtest [19:01:29]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-titancna
 94s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-bioc-titancna 1.40.0-1 (dsc) [2230 B]
 94s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-bioc-titancna 1.40.0-1 (tar) [3866 kB]
 94s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-bioc-titancna 1.40.0-1 (diff) [2612 B]
 94s gpgv: Signature made Fri Dec  1 15:58:11 2023 UTC
 94s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
 94s gpgv:                issuer "tille@debian.org"
 94s gpgv: Can't check signature: No public key
 94s dpkg-source: warning: cannot verify inline signature for ./r-bioc-titancna_1.40.0-1.dsc: no acceptable signature found
 94s autopkgtest [19:01:31]: testing package r-bioc-titancna version 1.40.0-1
 94s autopkgtest [19:01:31]: build not needed
 96s autopkgtest [19:01:33]: test pkg-r-autopkgtest: preparing testbed
 97s Reading package lists...
 97s Building dependency tree...
 97s Reading state information...
 97s Starting pkgProblemResolver with broken count: 0
 97s Starting 2 pkgProblemResolver with broken count: 0
 97s Done
 97s The following additional packages will be installed:
 97s   build-essential cpp cpp-13 cpp-13-s390x-linux-gnu cpp-s390x-linux-gnu curl
 97s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
 97s   g++ g++-13 g++-13-s390x-linux-gnu g++-s390x-linux-gnu gcc gcc-13
 97s   gcc-13-s390x-linux-gnu gcc-s390x-linux-gnu gfortran gfortran-13
 97s   gfortran-13-s390x-linux-gnu gfortran-s390x-linux-gnu icu-devtools libasan8
 97s   libatomic1 libblas-dev libblas3 libboost-dev libboost1.83-dev libbz2-dev
 97s   libc-dev-bin libc6-dev libcairo2 libcc1-0 libcrypt-dev libcurl4t64
 97s   libdatrie1 libdeflate0 libfontconfig1 libfreetype6 libgcc-13-dev
 97s   libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b
 97s   libice6 libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev libjpeg-turbo8
 97s   libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-jquery liblapack-dev
 97s   liblapack3 liblzma-dev libmpc3 libncurses-dev libnsl-dev libpango-1.0-0
 97s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0
 97s   libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpixman-1-0 libpkgconf3
 97s   libpng-dev libpsl5t64 libreadline-dev libsharpyuv0 libsm6 libstdc++-13-dev
 97s   libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-dev libtk8.6 libubsan1
 97s   libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6
 97s   linux-libc-dev node-html5shiv pkg-config pkg-r-autopkgtest pkgconf
 97s   pkgconf-bin r-base-core r-base-dev r-bioc-annotationdbi r-bioc-biobase
 97s   r-bioc-biocfilecache r-bioc-biocgenerics r-bioc-biocio r-bioc-biocparallel
 97s   r-bioc-biomart r-bioc-biostrings r-bioc-bsgenome r-bioc-delayedarray
 97s   r-bioc-genomeinfodb r-bioc-genomeinfodbdata r-bioc-genomicalignments
 97s   r-bioc-genomicfeatures r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest
 97s   r-bioc-matrixgenerics r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer
 97s   r-bioc-s4arrays r-bioc-s4vectors r-bioc-sparsearray
 97s   r-bioc-summarizedexperiment r-bioc-titancna r-bioc-variantannotation
 97s   r-bioc-xvector r-bioc-zlibbioc r-cran-abind r-cran-askpass r-cran-bh
 97s   r-cran-bit r-cran-bit64 r-cran-bitops r-cran-blob r-cran-cachem r-cran-cli
 97s   r-cran-codetools r-cran-cpp11 r-cran-crayon r-cran-curl r-cran-data.table
 97s   r-cran-dbi r-cran-dbplyr r-cran-digest r-cran-dplyr r-cran-fansi
 97s   r-cran-fastmap r-cran-filelock r-cran-foreach r-cran-formatr
 97s   r-cran-futile.logger r-cran-futile.options r-cran-generics r-cran-glue
 97s   r-cran-hms r-cran-httr r-cran-iterators r-cran-jsonlite r-cran-lambda.r
 97s   r-cran-lattice r-cran-lifecycle r-cran-littler r-cran-magrittr r-cran-matrix
 97s   r-cran-matrixstats r-cran-memoise r-cran-mime r-cran-openssl r-cran-pillar
 97s   r-cran-pkgconfig r-cran-plogr r-cran-png r-cran-prettyunits r-cran-progress
 97s   r-cran-purrr r-cran-r6 r-cran-rappdirs r-cran-rcurl r-cran-restfulr
 97s   r-cran-rjson r-cran-rlang r-cran-rsqlite r-cran-snow r-cran-stringi
 97s   r-cran-stringr r-cran-sys r-cran-tibble r-cran-tidyr r-cran-tidyselect
 97s   r-cran-utf8 r-cran-vctrs r-cran-withr r-cran-xml r-cran-xml2 r-cran-yaml
 97s   rpcsvc-proto unzip x11-common xdg-utils zip zlib1g-dev
 97s Suggested packages:
 97s   cpp-doc gcc-13-locales cpp-13-doc debtags g++-multilib g++-13-multilib
 97s   gcc-13-doc gcc-multilib manpages-dev autoconf automake libtool flex bison
 97s   gdb gcc-doc gcc-13-multilib gdb-s390x-linux-gnu gfortran-multilib
 97s   gfortran-doc gfortran-13-multilib gfortran-13-doc libcoarrays-dev
 97s   liblapack-doc libboost-doc libboost1.83-doc libboost-atomic1.83-dev
 97s   libboost-chrono1.83-dev libboost-container1.83-dev libboost-context1.83-dev
 97s   libboost-contract1.83-dev libboost-coroutine1.83-dev
 97s   libboost-date-time1.83-dev libboost-exception1.83-dev libboost-fiber1.83-dev
 97s   libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev
 97s   libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev
 97s   libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev
 97s   libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev
 97s   libboost-numpy1.83-dev libboost-program-options1.83-dev
 97s   libboost-python1.83-dev libboost-random1.83-dev libboost-regex1.83-dev
 97s   libboost-serialization1.83-dev libboost-stacktrace1.83-dev
 97s   libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev
 97s   libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev
 97s   libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev
 97s   glibc-doc icu-doc liblzma-doc ncurses-doc readline-doc libstdc++-13-doc
 97s   tcl8.6 tk8.6 nodejs elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html
 97s   texlive-base texlive-latex-base texlive-plain-generic
 97s   texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils
 97s   texlive-latex-recommended texlive-latex-extra texinfo r-bioc-go.db
 97s   r-cran-runit r-bioc-org.hs.eg.db r-bioc-graph r-bioc-biocstyle r-cran-knitr
 97s   r-bioc-all r-cran-testthat r-cran-rmarkdown r-bioc-affy r-bioc-deseq2
 97s   r-bioc-annotate r-cran-bbmisc r-cran-doparallel r-bioc-shortread
 97s   r-cran-batchtools r-cran-mockery r-cran-webmockr r-cran-biocmanager
 97s   r-bioc-hdf5array r-bioc-genefilter r-cran-lobstr r-bioc-delayedmatrixstats
 97s   r-cran-r.utils r-bioc-edger r-bioc-ensembldb r-bioc-annotationfilter
 97s   r-cran-markdown r-bioc-gviz r-bioc-annotationhub r-bioc-dexseq
 97s   r-bioc-sparsematrixstats r-bioc-limma r-bioc-rhdf5 r-bioc-snpstats
 97s   r-cran-ggplot2 r-cran-roxygen2 r-cran-ff r-cran-covr r-cran-rstudioapi
 97s   r-cran-rmysql r-cran-shiny r-cran-lubridate r-cran-getopt r-cran-formattable
 97s   r-cran-nanotime r-cran-palmerpenguins r-cran-scales r-cran-survival
 97s   r-cran-units r-cran-vdiffr r-cran-rcpp r-cran-rmpi r-cran-rlecuyer
 97s   r-cran-spelling r-cran-bench r-cran-brio r-cran-callr r-cran-evaluate
 97s   r-cran-here r-cran-htmltools r-cran-pkgbuild r-cran-pkgload
 97s Recommended packages:
 97s   bzip2-doc manpages manpages-dev libc-devtools javascript-common libpng-tools
 97s   r-recommended r-doc-html r-cran-testthat r-cran-callr r-cran-covr
 97s   r-cran-htmltools r-cran-htmlwidgets r-cran-knitr r-cran-mockery
 97s   r-cran-processx r-cran-ps r-cran-rmarkdown r-cran-rprojroot
 97s   r-cran-rstudioapi r-cran-whoami r-cran-bench r-cran-brio r-cran-decor
 97s   r-cran-desc r-cran-ggplot2 r-cran-lobstr r-cran-scales r-cran-rcpp
 97s   r-cran-spelling r-cran-later r-cran-httpuv r-cran-webutils r-cran-r.utils
 97s   r-cran-xts r-cran-nanotime r-cran-zoo r-cran-rpostgresql r-cran-broom
 97s   r-cran-rmysql r-cran-unitizer r-cran-testit r-cran-survival r-cran-pkgload
 97s   r-cran-waldo r-cran-jpeg r-cran-readr r-cran-r.rsp r-cran-sf r-cran-lintr
 97s   r-cran-tidyverse r-cran-base64enc r-cran-markdown r-cran-r.devices
 97s   r-cran-sodium r-cran-lubridate r-cran-runit r-cran-fs r-cran-usethis
 97s   r-cran-dbitest r-cran-gert r-cran-gh r-cran-rvest r-cran-mockr
 97s   r-cran-formattable r-cran-pkgdown r-cran-zeallot libfile-mimeinfo-perl
 97s   libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils
 98s The following packages will be REMOVED:
 98s   libcurl4 libpsl5
 98s The following NEW packages will be installed:
 98s   autopkgtest-satdep build-essential cpp cpp-13 cpp-13-s390x-linux-gnu
 98s   cpp-s390x-linux-gnu dctrl-tools fontconfig fontconfig-config
 98s   fonts-dejavu-core fonts-dejavu-mono g++ g++-13 g++-13-s390x-linux-gnu
 98s   g++-s390x-linux-gnu gcc gcc-13 gcc-13-s390x-linux-gnu gcc-s390x-linux-gnu
 98s   gfortran gfortran-13 gfortran-13-s390x-linux-gnu gfortran-s390x-linux-gnu
 98s   icu-devtools libasan8 libatomic1 libblas-dev libblas3 libboost-dev
 98s   libboost1.83-dev libbz2-dev libc-dev-bin libc6-dev libcairo2 libcc1-0
 98s   libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libfontconfig1 libfreetype6
 98s   libgcc-13-dev libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3
 98s   libharfbuzz0b libice6 libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev
 98s   libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-jquery
 98s   liblapack-dev liblapack3 liblzma-dev libmpc3 libncurses-dev libnsl-dev
 98s   libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
 98s   libpaper1 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3
 98s   libpixman-1-0 libpkgconf3 libpng-dev libpsl5t64 libreadline-dev libsharpyuv0
 98s   libsm6 libstdc++-13-dev libtcl8.6 libthai-data libthai0 libtiff6
 98s   libtirpc-dev libtk8.6 libubsan1 libwebp7 libxcb-render0 libxcb-shm0 libxft2
 98s   libxrender1 libxss1 libxt6 linux-libc-dev node-html5shiv pkg-config
 98s   pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev
 98s   r-bioc-annotationdbi r-bioc-biobase r-bioc-biocfilecache r-bioc-biocgenerics
 98s   r-bioc-biocio r-bioc-biocparallel r-bioc-biomart r-bioc-biostrings
 98s   r-bioc-bsgenome r-bioc-delayedarray r-bioc-genomeinfodb
 98s   r-bioc-genomeinfodbdata r-bioc-genomicalignments r-bioc-genomicfeatures
 98s   r-bioc-genomicranges r-bioc-iranges r-bioc-keggrest r-bioc-matrixgenerics
 98s   r-bioc-rhtslib r-bioc-rsamtools r-bioc-rtracklayer r-bioc-s4arrays
 98s   r-bioc-s4vectors r-bioc-sparsearray r-bioc-summarizedexperiment
 98s   r-bioc-titancna r-bioc-variantannotation r-bioc-xvector r-bioc-zlibbioc
 98s   r-cran-abind r-cran-askpass r-cran-bh r-cran-bit r-cran-bit64 r-cran-bitops
 98s   r-cran-blob r-cran-cachem r-cran-cli r-cran-codetools r-cran-cpp11
 98s   r-cran-crayon r-cran-curl r-cran-data.table r-cran-dbi r-cran-dbplyr
 98s   r-cran-digest r-cran-dplyr r-cran-fansi r-cran-fastmap r-cran-filelock
 98s   r-cran-foreach r-cran-formatr r-cran-futile.logger r-cran-futile.options
 98s   r-cran-generics r-cran-glue r-cran-hms r-cran-httr r-cran-iterators
 98s   r-cran-jsonlite r-cran-lambda.r r-cran-lattice r-cran-lifecycle
 98s   r-cran-littler r-cran-magrittr r-cran-matrix r-cran-matrixstats
 98s   r-cran-memoise r-cran-mime r-cran-openssl r-cran-pillar r-cran-pkgconfig
 98s   r-cran-plogr r-cran-png r-cran-prettyunits r-cran-progress r-cran-purrr
 98s   r-cran-r6 r-cran-rappdirs r-cran-rcurl r-cran-restfulr r-cran-rjson
 98s   r-cran-rlang r-cran-rsqlite r-cran-snow r-cran-stringi r-cran-stringr
 98s   r-cran-sys r-cran-tibble r-cran-tidyr r-cran-tidyselect r-cran-utf8
 98s   r-cran-vctrs r-cran-withr r-cran-xml r-cran-xml2 r-cran-yaml rpcsvc-proto
 98s   unzip x11-common xdg-utils zip zlib1g-dev
 98s The following packages will be upgraded:
 98s   curl
 98s 1 upgraded, 206 newly installed, 2 to remove and 0 not upgraded.
 98s Need to get 253 MB/253 MB of archives.
 98s After this operation, 717 MB of additional disk space will be used.
 98s Get:1 /tmp/autopkgtest.LR3hGH/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [724 B]
 98s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x curl s390x 8.5.0-2ubuntu7 [227 kB]
 98s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpsl5t64 s390x 0.21.2-1.1 [57.6 kB]
 98s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl4t64 s390x 8.5.0-2ubuntu7 [364 kB]
 98s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libc-dev-bin s390x 2.39-0ubuntu2 [20.2 kB]
 98s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x linux-libc-dev s390x 6.8.0-11.11 [1590 kB]
 98s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x libcrypt-dev s390x 1:4.4.36-4 [135 kB]
 98s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x libtirpc-dev s390x 1.3.4+ds-1build1 [225 kB]
 98s Get:9 http://ftpmaster.internal/ubuntu noble/main s390x libnsl-dev s390x 1.3.0-3 [73.5 kB]
 98s Get:10 http://ftpmaster.internal/ubuntu noble/main s390x rpcsvc-proto s390x 1.4.2-0ubuntu6 [64.7 kB]
 98s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x libc6-dev s390x 2.39-0ubuntu2 [1629 kB]
 98s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x libisl23 s390x 0.26-3 [722 kB]
 98s Get:13 http://ftpmaster.internal/ubuntu noble/main s390x libmpc3 s390x 1.3.1-1 [54.9 kB]
 98s Get:14 http://ftpmaster.internal/ubuntu noble/main s390x cpp-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [9929 kB]
 99s Get:15 http://ftpmaster.internal/ubuntu noble/main s390x cpp-13 s390x 13.2.0-17ubuntu2 [1026 B]
 99s Get:16 http://ftpmaster.internal/ubuntu noble/main s390x cpp-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [5308 B]
 99s Get:17 http://ftpmaster.internal/ubuntu noble/main s390x cpp s390x 4:13.2.0-7ubuntu1 [22.4 kB]
 99s Get:18 http://ftpmaster.internal/ubuntu noble/main s390x libcc1-0 s390x 14-20240303-1ubuntu1 [49.9 kB]
 99s Get:19 http://ftpmaster.internal/ubuntu noble/main s390x libgomp1 s390x 14-20240303-1ubuntu1 [151 kB]
 99s Get:20 http://ftpmaster.internal/ubuntu noble/main s390x libitm1 s390x 14-20240303-1ubuntu1 [31.1 kB]
 99s Get:21 http://ftpmaster.internal/ubuntu noble/main s390x libatomic1 s390x 14-20240303-1ubuntu1 [9392 B]
 99s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x libasan8 s390x 14-20240303-1ubuntu1 [2998 kB]
 99s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x libubsan1 s390x 14-20240303-1ubuntu1 [1186 kB]
 99s Get:24 http://ftpmaster.internal/ubuntu noble/main s390x libgcc-13-dev s390x 13.2.0-17ubuntu2 [1003 kB]
 99s Get:25 http://ftpmaster.internal/ubuntu noble/main s390x gcc-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [19.1 MB]
 99s Get:26 http://ftpmaster.internal/ubuntu noble/main s390x gcc-13 s390x 13.2.0-17ubuntu2 [467 kB]
 99s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x gcc-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [1208 B]
 99s Get:28 http://ftpmaster.internal/ubuntu noble/main s390x gcc s390x 4:13.2.0-7ubuntu1 [5014 B]
 99s Get:29 http://ftpmaster.internal/ubuntu noble/main s390x libstdc++-13-dev s390x 13.2.0-17ubuntu2 [2430 kB]
 99s Get:30 http://ftpmaster.internal/ubuntu noble/main s390x g++-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [11.3 MB]
 99s Get:31 http://ftpmaster.internal/ubuntu noble/main s390x g++-13 s390x 13.2.0-17ubuntu2 [14.4 kB]
 99s Get:32 http://ftpmaster.internal/ubuntu noble/main s390x g++-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [956 B]
 99s Get:33 http://ftpmaster.internal/ubuntu noble/main s390x g++ s390x 4:13.2.0-7ubuntu1 [1096 B]
 99s Get:34 http://ftpmaster.internal/ubuntu noble/main s390x build-essential s390x 12.10ubuntu1 [4930 B]
 99s Get:35 http://ftpmaster.internal/ubuntu noble/main s390x dctrl-tools s390x 2.24-3build2 [65.4 kB]
 99s Get:36 http://ftpmaster.internal/ubuntu noble/main s390x libfreetype6 s390x 2.13.2+dfsg-1 [431 kB]
 99s Get:37 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB]
 99s Get:38 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB]
100s Get:39 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1ubuntu1 [37.0 kB]
100s Get:40 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1ubuntu1 [150 kB]
100s Get:41 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig s390x 2.15.0-1ubuntu1 [191 kB]
100s Get:42 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran5 s390x 14-20240303-1ubuntu1 [598 kB]
100s Get:43 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran-13-dev s390x 13.2.0-17ubuntu2 [623 kB]
100s Get:44 http://ftpmaster.internal/ubuntu noble/main s390x gfortran-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [10.4 MB]
100s Get:45 http://ftpmaster.internal/ubuntu noble/main s390x gfortran-13 s390x 13.2.0-17ubuntu2 [10.3 kB]
100s Get:46 http://ftpmaster.internal/ubuntu noble/main s390x gfortran-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [1016 B]
100s Get:47 http://ftpmaster.internal/ubuntu noble/main s390x gfortran s390x 4:13.2.0-7ubuntu1 [1174 B]
100s Get:48 http://ftpmaster.internal/ubuntu noble/main s390x icu-devtools s390x 74.2-1ubuntu1 [224 kB]
100s Get:49 http://ftpmaster.internal/ubuntu noble/main s390x libblas3 s390x 3.12.0-3 [245 kB]
100s Get:50 http://ftpmaster.internal/ubuntu noble/main s390x libblas-dev s390x 3.12.0-3 [239 kB]
100s Get:51 http://ftpmaster.internal/ubuntu noble/main s390x libboost1.83-dev s390x 1.83.0-2ubuntu1 [15.3 MB]
100s Get:52 http://ftpmaster.internal/ubuntu noble/main s390x libboost-dev s390x 1.83.0.1ubuntu2 [4310 B]
100s Get:53 http://ftpmaster.internal/ubuntu noble/main s390x libbz2-dev s390x 1.0.8-5ubuntu1 [39.4 kB]
100s Get:54 http://ftpmaster.internal/ubuntu noble/main s390x libpixman-1-0 s390x 0.42.2-1 [173 kB]
100s Get:55 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-render0 s390x 1.15-1 [17.0 kB]
100s Get:56 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-shm0 s390x 1.15-1 [5782 B]
100s Get:57 http://ftpmaster.internal/ubuntu noble/main s390x libxrender1 s390x 1:0.9.10-1.1 [19.4 kB]
100s Get:58 http://ftpmaster.internal/ubuntu noble/main s390x libcairo2 s390x 1.18.0-1 [578 kB]
100s Get:59 http://ftpmaster.internal/ubuntu noble/main s390x libdatrie1 s390x 0.2.13-3 [22.6 kB]
100s Get:60 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB]
100s Get:61 http://ftpmaster.internal/ubuntu noble/main s390x libgraphite2-3 s390x 1.3.14-2 [90.4 kB]
100s Get:62 http://ftpmaster.internal/ubuntu noble/main s390x libharfbuzz0b s390x 8.3.0-2 [515 kB]
100s Get:63 http://ftpmaster.internal/ubuntu noble/main s390x x11-common all 1:7.7+23ubuntu2 [23.4 kB]
100s Get:64 http://ftpmaster.internal/ubuntu noble/main s390x libice6 s390x 2:1.0.10-1build2 [40.8 kB]
100s Get:65 http://ftpmaster.internal/ubuntu noble/main s390x libicu-dev s390x 74.2-1ubuntu1 [11.9 MB]
101s Get:66 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB]
101s Get:67 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8-dev s390x 2.1.5-2ubuntu1 [264 kB]
101s Get:68 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B]
101s Get:69 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8-dev s390x 8c-2ubuntu11 [1484 B]
101s Get:70 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-dev s390x 8c-2ubuntu11 [1484 B]
101s Get:71 http://ftpmaster.internal/ubuntu noble/main s390x libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB]
101s Get:72 http://ftpmaster.internal/ubuntu noble/main s390x liblapack3 s390x 3.12.0-3 [2979 kB]
101s Get:73 http://ftpmaster.internal/ubuntu noble/main s390x liblapack-dev s390x 3.12.0-3 [5983 kB]
101s Get:74 http://ftpmaster.internal/ubuntu noble/main s390x libncurses-dev s390x 6.4+20240113-1ubuntu1 [412 kB]
101s Get:75 http://ftpmaster.internal/ubuntu noble/main s390x libthai-data all 0.1.29-2 [158 kB]
101s Get:76 http://ftpmaster.internal/ubuntu noble/main s390x libthai0 s390x 0.1.29-2 [20.6 kB]
101s Get:77 http://ftpmaster.internal/ubuntu noble/main s390x libpango-1.0-0 s390x 1.51.0+ds-4 [240 kB]
101s Get:78 http://ftpmaster.internal/ubuntu noble/main s390x libpangoft2-1.0-0 s390x 1.51.0+ds-4 [43.6 kB]
101s Get:79 http://ftpmaster.internal/ubuntu noble/main s390x libpangocairo-1.0-0 s390x 1.51.0+ds-4 [28.9 kB]
101s Get:80 http://ftpmaster.internal/ubuntu noble/main s390x libpaper1 s390x 1.1.29 [13.3 kB]
101s Get:81 http://ftpmaster.internal/ubuntu noble/main s390x libpaper-utils s390x 1.1.29 [8452 B]
101s Get:82 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-16-0 s390x 10.42-4ubuntu1 [229 kB]
101s Get:83 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-32-0 s390x 10.42-4ubuntu1 [217 kB]
101s Get:84 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-posix3 s390x 10.42-4ubuntu1 [6704 B]
101s Get:85 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-dev s390x 10.42-4ubuntu1 [805 kB]
101s Get:86 http://ftpmaster.internal/ubuntu noble/main s390x libpkgconf3 s390x 1.8.1-2 [30.4 kB]
101s Get:87 http://ftpmaster.internal/ubuntu noble/main s390x zlib1g-dev s390x 1:1.3.dfsg-3ubuntu1 [905 kB]
101s Get:88 http://ftpmaster.internal/ubuntu noble/main s390x libpng-dev s390x 1.6.43-1 [277 kB]
101s Get:89 http://ftpmaster.internal/ubuntu noble/main s390x libreadline-dev s390x 8.2-3 [187 kB]
101s Get:90 http://ftpmaster.internal/ubuntu noble/main s390x libsharpyuv0 s390x 1.3.2-0.4 [14.8 kB]
101s Get:91 http://ftpmaster.internal/ubuntu noble/main s390x libsm6 s390x 2:1.2.3-1build2 [16.9 kB]
101s Get:92 http://ftpmaster.internal/ubuntu noble/main s390x libtcl8.6 s390x 8.6.13+dfsg-2 [948 kB]
101s Get:93 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB]
101s Get:94 http://ftpmaster.internal/ubuntu noble/main s390x libwebp7 s390x 1.3.2-0.4 [207 kB]
101s Get:95 http://ftpmaster.internal/ubuntu noble/main s390x libtiff6 s390x 4.5.1+git230720-3ubuntu1 [253 kB]
101s Get:96 http://ftpmaster.internal/ubuntu noble/main s390x libxft2 s390x 2.3.6-1 [44.3 kB]
101s Get:97 http://ftpmaster.internal/ubuntu noble/main s390x libxss1 s390x 1:1.2.3-1build2 [8192 B]
101s Get:98 http://ftpmaster.internal/ubuntu noble/main s390x libtk8.6 s390x 8.6.13-2 [757 kB]
101s Get:99 http://ftpmaster.internal/ubuntu noble/main s390x libxt6 s390x 1:1.2.1-1.1 [166 kB]
101s Get:100 http://ftpmaster.internal/ubuntu noble/universe s390x node-html5shiv all 3.7.3+dfsg-5 [13.5 kB]
101s Get:101 http://ftpmaster.internal/ubuntu noble/main s390x pkgconf-bin s390x 1.8.1-2 [20.8 kB]
101s Get:102 http://ftpmaster.internal/ubuntu noble/main s390x pkgconf s390x 1.8.1-2 [16.7 kB]
101s Get:103 http://ftpmaster.internal/ubuntu noble/main s390x pkg-config s390x 1.8.1-2 [7170 B]
101s Get:104 http://ftpmaster.internal/ubuntu noble/main s390x zip s390x 3.0-13 [175 kB]
102s Get:105 http://ftpmaster.internal/ubuntu noble/main s390x unzip s390x 6.0-28ubuntu3 [180 kB]
102s Get:106 http://ftpmaster.internal/ubuntu noble/main s390x xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
102s Get:107 http://ftpmaster.internal/ubuntu noble/universe s390x r-base-core s390x 4.3.2-1build1 [27.1 MB]
103s Get:108 http://ftpmaster.internal/ubuntu noble/main s390x liblzma-dev s390x 5.4.5-0.3 [215 kB]
103s Get:109 http://ftpmaster.internal/ubuntu noble/universe s390x r-base-dev all 4.3.2-1build1 [4336 B]
103s Get:110 http://ftpmaster.internal/ubuntu noble/universe s390x pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
103s Get:111 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biocgenerics all 0.48.1-2 [595 kB]
103s Get:112 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biobase s390x 2.62.0-1 [2137 kB]
103s Get:113 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-s4vectors s390x 0.40.2+dfsg-1 [2063 kB]
103s Get:114 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-iranges s390x 2.36.0-1 [2253 kB]
103s Get:115 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-dbi all 1.2.2-1 [823 kB]
103s Get:116 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-bit s390x 4.0.5-1 [1067 kB]
103s Get:117 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-bit64 s390x 4.0.5-1 [469 kB]
103s Get:118 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rlang s390x 1.1.3-1 [1672 kB]
103s Get:119 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cli s390x 3.6.2-1 [1382 kB]
103s Get:120 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-glue s390x 1.7.0-1 [154 kB]
103s Get:121 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
103s Get:122 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-vctrs s390x 0.6.5-1 [1448 kB]
104s Get:123 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-blob all 1.2.4-1 [49.8 kB]
104s Get:124 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-fastmap s390x 1.1.1-1 [69.1 kB]
104s Get:125 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cachem s390x 1.0.8-1 [72.1 kB]
104s Get:126 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-memoise all 2.0.1-1 [53.9 kB]
104s Get:127 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-pkgconfig all 2.0.3-2build1 [19.7 kB]
104s Get:128 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-plogr all 0.2.0-3build1 [15.1 kB]
104s Get:129 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cpp11 all 0.4.7-1 [266 kB]
104s Get:130 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rsqlite s390x 2.3.4-1 [1454 kB]
104s Get:131 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-curl s390x 5.2.0+dfsg-1 [189 kB]
104s Get:132 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-jsonlite s390x 1.8.8+dfsg-1 [444 kB]
104s Get:133 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-mime s390x 0.12-1 [35.7 kB]
104s Get:134 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-sys s390x 3.4.2-1 [44.5 kB]
104s Get:135 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-askpass s390x 1.2.0-1 [24.5 kB]
104s Get:136 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-openssl s390x 2.1.1+dfsg-2 [402 kB]
104s Get:137 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-r6 all 2.5.1-1 [99.0 kB]
104s Get:138 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-httr all 1.4.7+dfsg-1 [459 kB]
104s Get:139 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-png s390x 0.1-8-1 [40.5 kB]
104s Get:140 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-zlibbioc all 1.48.0+dfsg-1 [9596 B]
104s Get:141 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-xvector s390x 0.42.0-1 [621 kB]
104s Get:142 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-bitops s390x 1.0-7-1 [29.6 kB]
104s Get:143 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rcurl s390x 1.98-1.14+dfsg-1 [794 kB]
104s Get:144 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomeinfodbdata all 1.2.11-2 [12.3 MB]
104s Get:145 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomeinfodb all 1.38.6+dfsg-1 [3886 kB]
104s Get:146 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-crayon all 1.5.2-1 [164 kB]
104s Get:147 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biostrings s390x 2.70.2+dfsg-1 [13.6 MB]
105s Get:148 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-keggrest all 1.42.0+dfsg-1 [188 kB]
105s Get:149 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-annotationdbi all 1.64.1-1 [4897 kB]
105s Get:150 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-generics all 0.1.3-1 [81.3 kB]
105s Get:151 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-magrittr s390x 2.0.3-1 [154 kB]
105s Get:152 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-fansi s390x 1.0.5-1 [615 kB]
105s Get:153 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-utf8 s390x 1.2.4-1 [143 kB]
105s Get:154 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-pillar all 1.9.0+dfsg-1 [464 kB]
105s Get:155 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tibble s390x 3.2.1+dfsg-2 [415 kB]
105s Get:156 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-withr all 2.5.0-1 [225 kB]
105s Get:157 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tidyselect s390x 1.2.0+dfsg-1 [218 kB]
105s Get:158 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-dplyr s390x 1.1.4-1 [1515 kB]
105s Get:159 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-purrr s390x 1.0.2-1 [501 kB]
105s Get:160 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-stringi s390x 1.8.3-1 [885 kB]
105s Get:161 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-stringr all 1.5.1-1 [290 kB]
106s Get:162 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-tidyr s390x 1.3.1-1 [1157 kB]
106s Get:163 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-dbplyr all 2.4.0+dfsg-1 [1172 kB]
106s Get:164 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-filelock s390x 1.0.3-1 [29.2 kB]
106s Get:165 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biocfilecache all 2.10.1+dfsg-1 [300 kB]
106s Get:166 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biocio all 1.12.0+dfsg-1 [213 kB]
106s Get:167 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-formatr all 1.14-1 [152 kB]
106s Get:168 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-lambda.r all 1.2.4-2build1 [119 kB]
106s Get:169 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-futile.options all 1.0.1-3build1 [20.2 kB]
106s Get:170 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-futile.logger all 1.4.3-4build1 [99.3 kB]
106s Get:171 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-snow all 1:0.4.4-2 [97.6 kB]
106s Get:172 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-codetools all 0.2-19-1 [90.5 kB]
106s Get:173 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-bh all 1.84.0-1 [5962 B]
106s Get:174 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biocparallel s390x 1.36.0-1 [1351 kB]
106s Get:175 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-xml s390x 3.99-0.16.1-1 [1735 kB]
106s Get:176 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-hms all 1.1.3-1 [96.5 kB]
106s Get:177 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-prettyunits all 1.2.0-1 [162 kB]
106s Get:178 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-progress all 1.2.3-1 [91.9 kB]
106s Get:179 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-digest s390x 0.6.34-1 [187 kB]
106s Get:180 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rappdirs s390x 0.3.3-1 [47.5 kB]
106s Get:181 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-xml2 s390x 1.3.6-1 [342 kB]
106s Get:182 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biomart all 2.58.2+dfsg-1 [433 kB]
106s Get:183 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomicranges s390x 1.54.1+dfsg-1 [1822 kB]
106s Get:184 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-rhtslib s390x 2.4.1+dfsg-1 [1410 kB]
106s Get:185 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-rsamtools s390x 2.18.0+dfsg-1 [3688 kB]
106s Get:186 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-matrixstats s390x 1.2.0-1 [513 kB]
106s Get:187 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-matrixgenerics all 1.14.0-1 [407 kB]
106s Get:188 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-lattice s390x 0.22-5-1 [1341 kB]
106s Get:189 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-matrix s390x 1.6-5-1 [3983 kB]
106s Get:190 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-abind all 1.4-5-2 [63.6 kB]
106s Get:191 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-s4arrays s390x 1.2.0+dfsg-1 [501 kB]
106s Get:192 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-sparsearray s390x 1.2.4+dfsg-1 [1203 kB]
107s Get:193 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-delayedarray s390x 0.28.0+dfsg-1 [1786 kB]
107s Get:194 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-summarizedexperiment all 1.32.0+dfsg-1 [1134 kB]
107s Get:195 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomicalignments s390x 1.38.2-1 [2134 kB]
107s Get:196 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-littler s390x 0.3.19-1 [93.0 kB]
107s Get:197 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rjson s390x 0.2.21-1 [142 kB]
107s Get:198 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-yaml s390x 2.3.8-1 [127 kB]
107s Get:199 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-restfulr s390x 0.0.15-1 [380 kB]
107s Get:200 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-rtracklayer s390x 1.62.0-1 [5119 kB]
107s Get:201 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-bsgenome all 1.70.2-1 [6975 kB]
107s Get:202 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomicfeatures all 1.54.1+dfsg-1 [1817 kB]
107s Get:203 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x r-bioc-variantannotation s390x 1.48.1-1build1 [3578 kB]
108s Get:204 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-iterators all 1.0.14-1 [336 kB]
108s Get:205 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-foreach all 1.5.2-1 [124 kB]
108s Get:206 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-data.table s390x 1.14.10+dfsg-1 [1880 kB]
108s Get:207 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-titancna s390x 1.40.0-1 [3939 kB]
109s Preconfiguring packages ...
109s Fetched 253 MB in 11s (23.2 MB/s)
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109s Preparing to unpack .../curl_8.5.0-2ubuntu7_s390x.deb ...
109s Unpacking curl (8.5.0-2ubuntu7) over (8.5.0-2ubuntu2) ...
109s dpkg: libpsl5:s390x: dependency problems, but removing anyway as you requested:
109s  wget depends on libpsl5 (>= 0.16.0).
109s  libcurl4:s390x depends on libpsl5 (>= 0.16.0).
109s  libcurl3-gnutls:s390x depends on libpsl5 (>= 0.16.0).
109s 
109s (Reading database ... 
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109s Removing libpsl5:s390x (0.21.2-1build1) ...
109s Selecting previously unselected package libpsl5t64:s390x.
109s (Reading database ... 
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109s Preparing to unpack .../libpsl5t64_0.21.2-1.1_s390x.deb ...
109s Unpacking libpsl5t64:s390x (0.21.2-1.1) ...
109s dpkg: libcurl4:s390x: dependency problems, but removing anyway as you requested:
109s  s390-tools depends on libcurl4 (>= 7.16.2).
109s 
109s (Reading database ... 
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109s Removing libcurl4:s390x (8.5.0-2ubuntu2) ...
109s Selecting previously unselected package libcurl4t64:s390x.
109s (Reading database ... 
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109s Preparing to unpack .../000-libcurl4t64_8.5.0-2ubuntu7_s390x.deb ...
109s Unpacking libcurl4t64:s390x (8.5.0-2ubuntu7) ...
109s Selecting previously unselected package libc-dev-bin.
109s Preparing to unpack .../001-libc-dev-bin_2.39-0ubuntu2_s390x.deb ...
109s Unpacking libc-dev-bin (2.39-0ubuntu2) ...
109s Selecting previously unselected package linux-libc-dev:s390x.
109s Preparing to unpack .../002-linux-libc-dev_6.8.0-11.11_s390x.deb ...
109s Unpacking linux-libc-dev:s390x (6.8.0-11.11) ...
110s Selecting previously unselected package libcrypt-dev:s390x.
110s Preparing to unpack .../003-libcrypt-dev_1%3a4.4.36-4_s390x.deb ...
110s Unpacking libcrypt-dev:s390x (1:4.4.36-4) ...
110s Selecting previously unselected package libtirpc-dev:s390x.
110s Preparing to unpack .../004-libtirpc-dev_1.3.4+ds-1build1_s390x.deb ...
110s Unpacking libtirpc-dev:s390x (1.3.4+ds-1build1) ...
110s Selecting previously unselected package libnsl-dev:s390x.
110s Preparing to unpack .../005-libnsl-dev_1.3.0-3_s390x.deb ...
110s Unpacking libnsl-dev:s390x (1.3.0-3) ...
110s Selecting previously unselected package rpcsvc-proto.
110s Preparing to unpack .../006-rpcsvc-proto_1.4.2-0ubuntu6_s390x.deb ...
110s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ...
110s Selecting previously unselected package libc6-dev:s390x.
110s Preparing to unpack .../007-libc6-dev_2.39-0ubuntu2_s390x.deb ...
110s Unpacking libc6-dev:s390x (2.39-0ubuntu2) ...
110s Selecting previously unselected package libisl23:s390x.
110s Preparing to unpack .../008-libisl23_0.26-3_s390x.deb ...
110s Unpacking libisl23:s390x (0.26-3) ...
110s Selecting previously unselected package libmpc3:s390x.
110s Preparing to unpack .../009-libmpc3_1.3.1-1_s390x.deb ...
110s Unpacking libmpc3:s390x (1.3.1-1) ...
110s Selecting previously unselected package cpp-13-s390x-linux-gnu.
110s Preparing to unpack .../010-cpp-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ...
110s Unpacking cpp-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
110s Selecting previously unselected package cpp-13.
110s Preparing to unpack .../011-cpp-13_13.2.0-17ubuntu2_s390x.deb ...
110s Unpacking cpp-13 (13.2.0-17ubuntu2) ...
110s Selecting previously unselected package cpp-s390x-linux-gnu.
110s Preparing to unpack .../012-cpp-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ...
110s Unpacking cpp-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
110s Selecting previously unselected package cpp.
110s Preparing to unpack .../013-cpp_4%3a13.2.0-7ubuntu1_s390x.deb ...
110s Unpacking cpp (4:13.2.0-7ubuntu1) ...
110s Selecting previously unselected package libcc1-0:s390x.
110s Preparing to unpack .../014-libcc1-0_14-20240303-1ubuntu1_s390x.deb ...
110s Unpacking libcc1-0:s390x (14-20240303-1ubuntu1) ...
110s Selecting previously unselected package libgomp1:s390x.
110s Preparing to unpack .../015-libgomp1_14-20240303-1ubuntu1_s390x.deb ...
110s Unpacking libgomp1:s390x (14-20240303-1ubuntu1) ...
110s Selecting previously unselected package libitm1:s390x.
110s Preparing to unpack .../016-libitm1_14-20240303-1ubuntu1_s390x.deb ...
110s Unpacking libitm1:s390x (14-20240303-1ubuntu1) ...
110s Selecting previously unselected package libatomic1:s390x.
110s Preparing to unpack .../017-libatomic1_14-20240303-1ubuntu1_s390x.deb ...
110s Unpacking libatomic1:s390x (14-20240303-1ubuntu1) ...
110s Selecting previously unselected package libasan8:s390x.
110s Preparing to unpack .../018-libasan8_14-20240303-1ubuntu1_s390x.deb ...
110s Unpacking libasan8:s390x (14-20240303-1ubuntu1) ...
110s Selecting previously unselected package libubsan1:s390x.
110s Preparing to unpack .../019-libubsan1_14-20240303-1ubuntu1_s390x.deb ...
110s Unpacking libubsan1:s390x (14-20240303-1ubuntu1) ...
110s Selecting previously unselected package libgcc-13-dev:s390x.
110s Preparing to unpack .../020-libgcc-13-dev_13.2.0-17ubuntu2_s390x.deb ...
110s Unpacking libgcc-13-dev:s390x (13.2.0-17ubuntu2) ...
110s Selecting previously unselected package gcc-13-s390x-linux-gnu.
110s Preparing to unpack .../021-gcc-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ...
110s Unpacking gcc-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
111s Selecting previously unselected package gcc-13.
111s Preparing to unpack .../022-gcc-13_13.2.0-17ubuntu2_s390x.deb ...
111s Unpacking gcc-13 (13.2.0-17ubuntu2) ...
111s Selecting previously unselected package gcc-s390x-linux-gnu.
111s Preparing to unpack .../023-gcc-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ...
111s Unpacking gcc-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
111s Selecting previously unselected package gcc.
111s Preparing to unpack .../024-gcc_4%3a13.2.0-7ubuntu1_s390x.deb ...
111s Unpacking gcc (4:13.2.0-7ubuntu1) ...
111s Selecting previously unselected package libstdc++-13-dev:s390x.
111s Preparing to unpack .../025-libstdc++-13-dev_13.2.0-17ubuntu2_s390x.deb ...
111s Unpacking libstdc++-13-dev:s390x (13.2.0-17ubuntu2) ...
111s Selecting previously unselected package g++-13-s390x-linux-gnu.
111s Preparing to unpack .../026-g++-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ...
111s Unpacking g++-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
111s Selecting previously unselected package g++-13.
111s Preparing to unpack .../027-g++-13_13.2.0-17ubuntu2_s390x.deb ...
111s Unpacking g++-13 (13.2.0-17ubuntu2) ...
111s Selecting previously unselected package g++-s390x-linux-gnu.
111s Preparing to unpack .../028-g++-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ...
111s Unpacking g++-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
111s Selecting previously unselected package g++.
111s Preparing to unpack .../029-g++_4%3a13.2.0-7ubuntu1_s390x.deb ...
111s Unpacking g++ (4:13.2.0-7ubuntu1) ...
111s Selecting previously unselected package build-essential.
111s Preparing to unpack .../030-build-essential_12.10ubuntu1_s390x.deb ...
111s Unpacking build-essential (12.10ubuntu1) ...
111s Selecting previously unselected package dctrl-tools.
111s Preparing to unpack .../031-dctrl-tools_2.24-3build2_s390x.deb ...
111s Unpacking dctrl-tools (2.24-3build2) ...
111s Selecting previously unselected package libfreetype6:s390x.
111s Preparing to unpack .../032-libfreetype6_2.13.2+dfsg-1_s390x.deb ...
111s Unpacking libfreetype6:s390x (2.13.2+dfsg-1) ...
111s Selecting previously unselected package fonts-dejavu-mono.
111s Preparing to unpack .../033-fonts-dejavu-mono_2.37-8_all.deb ...
111s Unpacking fonts-dejavu-mono (2.37-8) ...
111s Selecting previously unselected package fonts-dejavu-core.
111s Preparing to unpack .../034-fonts-dejavu-core_2.37-8_all.deb ...
111s Unpacking fonts-dejavu-core (2.37-8) ...
111s Selecting previously unselected package fontconfig-config.
111s Preparing to unpack .../035-fontconfig-config_2.15.0-1ubuntu1_s390x.deb ...
111s Unpacking fontconfig-config (2.15.0-1ubuntu1) ...
111s Selecting previously unselected package libfontconfig1:s390x.
111s Preparing to unpack .../036-libfontconfig1_2.15.0-1ubuntu1_s390x.deb ...
111s Unpacking libfontconfig1:s390x (2.15.0-1ubuntu1) ...
111s Selecting previously unselected package fontconfig.
111s Preparing to unpack .../037-fontconfig_2.15.0-1ubuntu1_s390x.deb ...
111s Unpacking fontconfig (2.15.0-1ubuntu1) ...
111s Selecting previously unselected package libgfortran5:s390x.
111s Preparing to unpack .../038-libgfortran5_14-20240303-1ubuntu1_s390x.deb ...
111s Unpacking libgfortran5:s390x (14-20240303-1ubuntu1) ...
111s Selecting previously unselected package libgfortran-13-dev:s390x.
111s Preparing to unpack .../039-libgfortran-13-dev_13.2.0-17ubuntu2_s390x.deb ...
111s Unpacking libgfortran-13-dev:s390x (13.2.0-17ubuntu2) ...
112s Selecting previously unselected package gfortran-13-s390x-linux-gnu.
112s Preparing to unpack .../040-gfortran-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ...
112s Unpacking gfortran-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
112s Selecting previously unselected package gfortran-13.
112s Preparing to unpack .../041-gfortran-13_13.2.0-17ubuntu2_s390x.deb ...
112s Unpacking gfortran-13 (13.2.0-17ubuntu2) ...
112s Selecting previously unselected package gfortran-s390x-linux-gnu.
112s Preparing to unpack .../042-gfortran-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ...
112s Unpacking gfortran-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
112s Selecting previously unselected package gfortran.
112s Preparing to unpack .../043-gfortran_4%3a13.2.0-7ubuntu1_s390x.deb ...
112s Unpacking gfortran (4:13.2.0-7ubuntu1) ...
112s Selecting previously unselected package icu-devtools.
112s Preparing to unpack .../044-icu-devtools_74.2-1ubuntu1_s390x.deb ...
112s Unpacking icu-devtools (74.2-1ubuntu1) ...
112s Selecting previously unselected package libblas3:s390x.
112s Preparing to unpack .../045-libblas3_3.12.0-3_s390x.deb ...
112s Unpacking libblas3:s390x (3.12.0-3) ...
112s Selecting previously unselected package libblas-dev:s390x.
112s Preparing to unpack .../046-libblas-dev_3.12.0-3_s390x.deb ...
112s Unpacking libblas-dev:s390x (3.12.0-3) ...
112s Selecting previously unselected package libboost1.83-dev:s390x.
112s Preparing to unpack .../047-libboost1.83-dev_1.83.0-2ubuntu1_s390x.deb ...
112s Unpacking libboost1.83-dev:s390x (1.83.0-2ubuntu1) ...
114s Selecting previously unselected package libboost-dev:s390x.
114s Preparing to unpack .../048-libboost-dev_1.83.0.1ubuntu2_s390x.deb ...
114s Unpacking libboost-dev:s390x (1.83.0.1ubuntu2) ...
114s Selecting previously unselected package libbz2-dev:s390x.
114s Preparing to unpack .../049-libbz2-dev_1.0.8-5ubuntu1_s390x.deb ...
114s Unpacking libbz2-dev:s390x (1.0.8-5ubuntu1) ...
114s Selecting previously unselected package libpixman-1-0:s390x.
114s Preparing to unpack .../050-libpixman-1-0_0.42.2-1_s390x.deb ...
114s Unpacking libpixman-1-0:s390x (0.42.2-1) ...
114s Selecting previously unselected package libxcb-render0:s390x.
114s Preparing to unpack .../051-libxcb-render0_1.15-1_s390x.deb ...
114s Unpacking libxcb-render0:s390x (1.15-1) ...
114s Selecting previously unselected package libxcb-shm0:s390x.
114s Preparing to unpack .../052-libxcb-shm0_1.15-1_s390x.deb ...
114s Unpacking libxcb-shm0:s390x (1.15-1) ...
114s Selecting previously unselected package libxrender1:s390x.
114s Preparing to unpack .../053-libxrender1_1%3a0.9.10-1.1_s390x.deb ...
114s Unpacking libxrender1:s390x (1:0.9.10-1.1) ...
114s Selecting previously unselected package libcairo2:s390x.
114s Preparing to unpack .../054-libcairo2_1.18.0-1_s390x.deb ...
114s Unpacking libcairo2:s390x (1.18.0-1) ...
114s Selecting previously unselected package libdatrie1:s390x.
114s Preparing to unpack .../055-libdatrie1_0.2.13-3_s390x.deb ...
114s Unpacking libdatrie1:s390x (0.2.13-3) ...
114s Selecting previously unselected package libdeflate0:s390x.
114s Preparing to unpack .../056-libdeflate0_1.19-1_s390x.deb ...
114s Unpacking libdeflate0:s390x (1.19-1) ...
114s Selecting previously unselected package libgraphite2-3:s390x.
114s Preparing to unpack .../057-libgraphite2-3_1.3.14-2_s390x.deb ...
114s Unpacking libgraphite2-3:s390x (1.3.14-2) ...
114s Selecting previously unselected package libharfbuzz0b:s390x.
114s Preparing to unpack .../058-libharfbuzz0b_8.3.0-2_s390x.deb ...
114s Unpacking libharfbuzz0b:s390x (8.3.0-2) ...
114s Selecting previously unselected package x11-common.
114s Preparing to unpack .../059-x11-common_1%3a7.7+23ubuntu2_all.deb ...
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114s Selecting previously unselected package libice6:s390x.
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115s Selecting previously unselected package libpcre2-posix3:s390x.
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115s Selecting previously unselected package libpng-dev:s390x.
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115s Selecting previously unselected package libtiff6:s390x.
115s Preparing to unpack .../091-libtiff6_4.5.1+git230720-3ubuntu1_s390x.deb ...
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115s Selecting previously unselected package libxft2:s390x.
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116s Selecting previously unselected package libxss1:s390x.
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116s Selecting previously unselected package libtk8.6:s390x.
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116s Selecting previously unselected package node-html5shiv.
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116s Selecting previously unselected package pkgconf-bin.
116s Preparing to unpack .../097-pkgconf-bin_1.8.1-2_s390x.deb ...
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116s Selecting previously unselected package pkgconf:s390x.
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116s Selecting previously unselected package pkg-config:s390x.
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116s Selecting previously unselected package xdg-utils.
116s Preparing to unpack .../102-xdg-utils_1.1.3-4.1ubuntu3_all.deb ...
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116s Selecting previously unselected package r-base-core.
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116s Selecting previously unselected package liblzma-dev:s390x.
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116s Selecting previously unselected package r-base-dev.
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116s Selecting previously unselected package pkg-r-autopkgtest.
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116s Selecting previously unselected package r-bioc-biocgenerics.
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116s Selecting previously unselected package r-bioc-biobase.
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116s Selecting previously unselected package r-bioc-s4vectors.
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116s Selecting previously unselected package r-bioc-iranges.
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116s Unpacking r-bioc-iranges (2.36.0-1) ...
116s Selecting previously unselected package r-cran-dbi.
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116s Selecting previously unselected package r-cran-bit.
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116s Selecting previously unselected package r-cran-rlang.
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116s Selecting previously unselected package r-cran-glue.
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117s Selecting previously unselected package r-cran-vctrs.
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117s Selecting previously unselected package r-cran-memoise.
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117s Selecting previously unselected package r-cran-plogr.
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117s Selecting previously unselected package r-cran-cpp11.
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117s Selecting previously unselected package r-cran-rsqlite.
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117s Selecting previously unselected package r-cran-curl.
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117s Selecting previously unselected package r-cran-jsonlite.
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117s Selecting previously unselected package r-cran-mime.
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117s Selecting previously unselected package r-cran-sys.
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117s Selecting previously unselected package r-cran-askpass.
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117s Selecting previously unselected package r-cran-openssl.
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117s Selecting previously unselected package r-cran-r6.
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117s Selecting previously unselected package r-cran-httr.
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117s Selecting previously unselected package r-cran-png.
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117s Selecting previously unselected package r-bioc-zlibbioc.
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117s Selecting previously unselected package r-bioc-xvector.
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117s Selecting previously unselected package r-cran-bitops.
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117s Selecting previously unselected package r-cran-rcurl.
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117s Selecting previously unselected package r-bioc-genomeinfodbdata.
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117s Selecting previously unselected package r-cran-crayon.
117s Preparing to unpack .../142-r-cran-crayon_1.5.2-1_all.deb ...
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117s Selecting previously unselected package r-bioc-biostrings.
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117s Selecting previously unselected package r-bioc-keggrest.
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117s Selecting previously unselected package r-bioc-annotationdbi.
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117s Selecting previously unselected package r-cran-generics.
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117s Unpacking r-cran-generics (0.1.3-1) ...
117s Selecting previously unselected package r-cran-magrittr.
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117s Selecting previously unselected package r-cran-fansi.
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117s Unpacking r-cran-fansi (1.0.5-1) ...
117s Selecting previously unselected package r-cran-utf8.
117s Preparing to unpack .../149-r-cran-utf8_1.2.4-1_s390x.deb ...
117s Unpacking r-cran-utf8 (1.2.4-1) ...
117s Selecting previously unselected package r-cran-pillar.
117s Preparing to unpack .../150-r-cran-pillar_1.9.0+dfsg-1_all.deb ...
117s Unpacking r-cran-pillar (1.9.0+dfsg-1) ...
117s Selecting previously unselected package r-cran-tibble.
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117s Unpacking r-cran-tibble (3.2.1+dfsg-2) ...
118s Selecting previously unselected package r-cran-withr.
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118s Unpacking r-cran-withr (2.5.0-1) ...
118s Selecting previously unselected package r-cran-tidyselect.
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118s Unpacking r-cran-tidyselect (1.2.0+dfsg-1) ...
118s Selecting previously unselected package r-cran-dplyr.
118s Preparing to unpack .../154-r-cran-dplyr_1.1.4-1_s390x.deb ...
118s Unpacking r-cran-dplyr (1.1.4-1) ...
118s Selecting previously unselected package r-cran-purrr.
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118s Unpacking r-cran-purrr (1.0.2-1) ...
118s Selecting previously unselected package r-cran-stringi.
118s Preparing to unpack .../156-r-cran-stringi_1.8.3-1_s390x.deb ...
118s Unpacking r-cran-stringi (1.8.3-1) ...
118s Selecting previously unselected package r-cran-stringr.
118s Preparing to unpack .../157-r-cran-stringr_1.5.1-1_all.deb ...
118s Unpacking r-cran-stringr (1.5.1-1) ...
118s Selecting previously unselected package r-cran-tidyr.
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118s Selecting previously unselected package r-cran-dbplyr.
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118s Unpacking r-cran-dbplyr (2.4.0+dfsg-1) ...
118s Selecting previously unselected package r-cran-filelock.
118s Preparing to unpack .../160-r-cran-filelock_1.0.3-1_s390x.deb ...
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118s Selecting previously unselected package r-bioc-biocfilecache.
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118s Selecting previously unselected package r-bioc-biocio.
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118s Selecting previously unselected package r-cran-formatr.
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118s Selecting previously unselected package r-cran-lambda.r.
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118s Selecting previously unselected package r-cran-futile.options.
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118s Selecting previously unselected package r-cran-futile.logger.
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118s Selecting previously unselected package r-cran-snow.
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118s Selecting previously unselected package r-cran-codetools.
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118s Selecting previously unselected package r-cran-bh.
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118s Selecting previously unselected package r-bioc-biocparallel.
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118s Selecting previously unselected package r-cran-xml.
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118s Selecting previously unselected package r-cran-hms.
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118s Selecting previously unselected package r-cran-prettyunits.
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118s Selecting previously unselected package r-cran-progress.
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118s Selecting previously unselected package r-cran-digest.
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118s Selecting previously unselected package r-cran-rappdirs.
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118s Selecting previously unselected package r-cran-xml2.
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118s Selecting previously unselected package r-bioc-biomart.
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118s Selecting previously unselected package r-bioc-genomicranges.
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118s Selecting previously unselected package r-cran-matrixstats.
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119s Selecting previously unselected package r-bioc-matrixgenerics.
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119s Selecting previously unselected package r-cran-lattice.
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119s Selecting previously unselected package r-cran-littler.
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119s Selecting previously unselected package r-cran-iterators.
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119s Setting up libgraphite2-3:s390x (1.3.14-2) ...
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122s 
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122s Setting up r-cran-crayon (1.5.2-1) ...
122s Setting up r-cran-futile.options (1.0.1-3build1) ...
122s Setting up r-cran-lattice (0.22-5-1) ...
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122s Setting up g++ (4:13.2.0-7ubuntu1) ...
122s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
122s Setting up build-essential (12.10ubuntu1) ...
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122s Setting up r-cran-magrittr (2.0.3-1) ...
122s Setting up r-cran-rappdirs (0.3.3-1) ...
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122s Setting up r-bioc-genomeinfodbdata (1.2.11-2) ...
122s Setting up r-cran-littler (0.3.19-1) ...
122s Setting up r-cran-bh (1.84.0-1) ...
122s Setting up r-cran-curl (5.2.0+dfsg-1) ...
122s Setting up r-cran-codetools (0.2-19-1) ...
122s Setting up r-bioc-biocgenerics (0.48.1-2) ...
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122s Setting up r-cran-fansi (1.0.5-1) ...
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122s Setting up r-cran-data.table (1.14.10+dfsg-1) ...
122s Setting up r-cran-glue (1.7.0-1) ...
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122s Setting up r-cran-cli (3.6.2-1) ...
122s Setting up gfortran (4:13.2.0-7ubuntu1) ...
122s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
122s 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
122s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
122s 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
122s Setting up r-cran-lifecycle (1.0.4+dfsg-1) ...
122s Setting up r-cran-bitops (1.0-7-1) ...
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122s Setting up r-bioc-zlibbioc (1.48.0+dfsg-1) ...
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122s Setting up r-cran-stringi (1.8.3-1) ...
122s Setting up r-cran-cpp11 (0.4.7-1) ...
122s Setting up r-bioc-s4vectors (0.40.2+dfsg-1) ...
122s Setting up r-cran-futile.logger (1.4.3-4build1) ...
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122s Setting up r-bioc-iranges (2.36.0-1) ...
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122s Setting up r-cran-pillar (1.9.0+dfsg-1) ...
122s Setting up r-cran-openssl (2.1.1+dfsg-2) ...
122s Setting up r-base-dev (4.3.2-1build1) ...
122s Setting up r-bioc-s4arrays (1.2.0+dfsg-1) ...
122s Setting up r-cran-stringr (1.5.1-1) ...
122s Setting up r-bioc-biocparallel (1.36.0-1) ...
122s Setting up r-bioc-rhtslib (2.4.1+dfsg-1) ...
122s Setting up r-cran-xml2 (1.3.6-1) ...
122s Setting up r-cran-tibble (3.2.1+dfsg-2) ...
122s Setting up r-bioc-biocio (1.12.0+dfsg-1) ...
122s Setting up r-cran-tidyselect (1.2.0+dfsg-1) ...
122s Setting up r-bioc-genomeinfodb (1.38.6+dfsg-1) ...
122s Setting up r-cran-httr (1.4.7+dfsg-1) ...
122s Setting up r-cran-hms (1.1.3-1) ...
122s Setting up r-cran-memoise (2.0.1-1) ...
122s Setting up r-cran-purrr (1.0.2-1) ...
122s Setting up r-cran-blob (1.2.4-1) ...
122s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
122s Setting up r-bioc-xvector (0.42.0-1) ...
122s Setting up r-cran-dplyr (1.1.4-1) ...
122s Setting up r-cran-rsqlite (2.3.4-1) ...
122s Setting up r-cran-progress (1.2.3-1) ...
122s Setting up r-bioc-sparsearray (1.2.4+dfsg-1) ...
122s Setting up r-bioc-genomicranges (1.54.1+dfsg-1) ...
122s Setting up r-bioc-biostrings (2.70.2+dfsg-1) ...
122s Setting up r-cran-tidyr (1.3.1-1) ...
122s Setting up r-bioc-rsamtools (2.18.0+dfsg-1) ...
122s Setting up r-cran-dbplyr (2.4.0+dfsg-1) ...
122s Setting up r-bioc-delayedarray (0.28.0+dfsg-1) ...
122s Setting up r-bioc-summarizedexperiment (1.32.0+dfsg-1) ...
122s Setting up r-bioc-biocfilecache (2.10.1+dfsg-1) ...
122s Setting up r-bioc-keggrest (1.42.0+dfsg-1) ...
122s Setting up r-bioc-annotationdbi (1.64.1-1) ...
122s Setting up r-bioc-biomart (2.58.2+dfsg-1) ...
122s Setting up r-bioc-genomicalignments (1.38.2-1) ...
122s Setting up r-bioc-rtracklayer (1.62.0-1) ...
122s Setting up r-bioc-genomicfeatures (1.54.1+dfsg-1) ...
122s Setting up r-bioc-bsgenome (1.70.2-1) ...
122s Setting up r-bioc-variantannotation (1.48.1-1build1) ...
122s Setting up r-bioc-titancna (1.40.0-1) ...
122s Setting up autopkgtest-satdep (0) ...
122s Processing triggers for man-db (2.12.0-3) ...
123s Processing triggers for install-info (7.1-3) ...
123s Processing triggers for libc-bin (2.39-0ubuntu2) ...
129s (Reading database ... 82629 files and directories currently installed.)
129s Removing autopkgtest-satdep (0) ...
130s autopkgtest [19:02:07]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
130s autopkgtest [19:02:07]: test pkg-r-autopkgtest: [-----------------------
130s Test: Try to load the R library TitanCNA
130s 
130s R version 4.3.2 (2023-10-31) -- "Eye Holes"
130s Copyright (C) 2023 The R Foundation for Statistical Computing
130s Platform: s390x-ibm-linux-gnu (64-bit)
130s 
130s R is free software and comes with ABSOLUTELY NO WARRANTY.
130s You are welcome to redistribute it under certain conditions.
130s Type 'license()' or 'licence()' for distribution details.
130s 
130s R is a collaborative project with many contributors.
130s Type 'contributors()' for more information and
130s 'citation()' on how to cite R or R packages in publications.
130s 
130s Type 'demo()' for some demos, 'help()' for on-line help, or
130s 'help.start()' for an HTML browser interface to help.
130s Type 'q()' to quit R.
130s 
130s > library('TitanCNA')
142s There were 12 warnings (use warnings() to see them)> 
142s > 
142s 
143s Other tests are currently unsupported!
143s They will be progressively added.
143s autopkgtest [19:02:20]: test pkg-r-autopkgtest: -----------------------]
143s autopkgtest [19:02:20]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
143s pkg-r-autopkgtest    PASS
144s autopkgtest [19:02:21]: @@@@@@@@@@@@@@@@@@@@ summary
144s pkg-r-autopkgtest    PASS
154s Creating nova instance adt-noble-s390x-r-bioc-titancna-20240316-185957-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240315.img (UUID 72478735-497c-4832-870c-30bdd7312d7f)...