0s autopkgtest [18:54:55]: starting date and time: 2024-03-16 18:54:55+0000
  0s autopkgtest [18:54:55]: git checkout: b506e79c ssh-setup/nova: fix ARCH having two lines of data
  0s autopkgtest [18:54:55]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.8spj5nci/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-bioc-rsamtools,src:curl,src:libpsl,src:openssl,src:orthanc-python --apt-upgrade r-cran-spp --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=r-bioc-rsamtools/2.18.0+dfsg-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-2.secgroup --name adt-noble-s390x-r-cran-spp-20240316-185454-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/
156s autopkgtest [18:57:31]: testbed dpkg architecture: s390x
156s autopkgtest [18:57:31]: testbed apt version: 2.7.12
156s autopkgtest [18:57:31]: @@@@@@@@@@@@@@@@@@@@ test bed setup
157s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
157s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
157s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [51.4 kB]
157s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3682 kB]
157s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [474 kB]
157s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main s390x Packages [632 kB]
157s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main s390x c-n-f Metadata [3032 B]
157s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x Packages [1372 B]
157s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted s390x c-n-f Metadata [116 B]
157s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x Packages [3752 kB]
157s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x c-n-f Metadata [7292 B]
157s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x Packages [33.4 kB]
157s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse s390x c-n-f Metadata [116 B]
160s Fetched 8760 kB in 2s (3772 kB/s)
160s Reading package lists...
162s Reading package lists...
162s Building dependency tree...
162s Reading state information...
162s Calculating upgrade...
163s The following packages will be REMOVED:
163s   libssl3
163s The following NEW packages will be installed:
163s   libssl3t64
163s The following packages have been kept back:
163s   curl
163s The following packages will be upgraded:
163s   openssl ubuntu-minimal ubuntu-standard
163s 3 upgraded, 1 newly installed, 1 to remove and 1 not upgraded.
163s Need to get 2680 kB of archives.
163s After this operation, 23.6 kB of additional disk space will be used.
163s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main s390x openssl s390x 3.0.13-0ubuntu1 [1006 kB]
163s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libssl3t64 s390x 3.0.13-0ubuntu1 [1652 kB]
163s Get:3 http://ftpmaster.internal/ubuntu noble/main s390x ubuntu-minimal s390x 1.536 [10.7 kB]
163s Get:4 http://ftpmaster.internal/ubuntu noble/main s390x ubuntu-standard s390x 1.536 [10.7 kB]
164s Fetched 2680 kB in 1s (3975 kB/s)
164s (Reading database ... 
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(Reading database ... 52171 files and directories currently installed.)
164s Preparing to unpack .../openssl_3.0.13-0ubuntu1_s390x.deb ...
164s Unpacking openssl (3.0.13-0ubuntu1) over (3.0.10-1ubuntu4) ...
164s dpkg: libssl3:s390x: dependency problems, but removing anyway as you requested:
164s  wget depends on libssl3 (>= 3.0.0).
164s  tnftp depends on libssl3 (>= 3.0.0).
164s  tcpdump depends on libssl3 (>= 3.0.0).
164s  systemd-resolved depends on libssl3 (>= 3.0.0).
164s  systemd depends on libssl3 (>= 3.0.0).
164s  sudo depends on libssl3 (>= 3.0.0).
164s  s390-tools depends on libssl3 (>= 3.0.0).
164s  rsync depends on libssl3 (>= 3.0.0).
164s  python3-cryptography depends on libssl3 (>= 3.0.0).
164s  openssh-server depends on libssl3 (>= 3.0.10).
164s  openssh-client depends on libssl3 (>= 3.0.10).
164s  linux-headers-6.8.0-11-generic depends on libssl3 (>= 3.0.0).
164s  libsystemd-shared:s390x depends on libssl3 (>= 3.0.0).
164s  libssh-4:s390x depends on libssl3 (>= 3.0.0).
164s  libsasl2-modules:s390x depends on libssl3 (>= 3.0.0).
164s  libsasl2-2:s390x depends on libssl3 (>= 3.0.0).
164s  libpython3.12-minimal:s390x depends on libssl3 (>= 3.0.0).
164s  libpython3.11-minimal:s390x depends on libssl3 (>= 3.0.0).
164s  libnvme1 depends on libssl3 (>= 3.0.0).
164s  libkrb5-3:s390x depends on libssl3 (>= 3.0.0).
164s  libkmod2:s390x depends on libssl3 (>= 3.0.0).
164s  libfido2-1:s390x depends on libssl3 (>= 3.0.0).
164s  libcurl4:s390x depends on libssl3 (>= 3.0.0).
164s  libcryptsetup12:s390x depends on libssl3 (>= 3.0.0).
164s  kmod depends on libssl3 (>= 3.0.0).
164s  dhcpcd-base depends on libssl3 (>= 3.0.0).
164s  bind9-libs:s390x depends on libssl3 (>= 3.0.0).
164s 
164s (Reading database ... 
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(Reading database ... 52171 files and directories currently installed.)
164s Removing libssl3:s390x (3.0.10-1ubuntu4) ...
164s Selecting previously unselected package libssl3t64:s390x.
164s (Reading database ... 
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(Reading database ... 52160 files and directories currently installed.)
164s Preparing to unpack .../libssl3t64_3.0.13-0ubuntu1_s390x.deb ...
164s Unpacking libssl3t64:s390x (3.0.13-0ubuntu1) ...
164s Preparing to unpack .../ubuntu-minimal_1.536_s390x.deb ...
164s Unpacking ubuntu-minimal (1.536) over (1.535) ...
164s Preparing to unpack .../ubuntu-standard_1.536_s390x.deb ...
164s Unpacking ubuntu-standard (1.536) over (1.535) ...
164s Setting up ubuntu-minimal (1.536) ...
164s Setting up libssl3t64:s390x (3.0.13-0ubuntu1) ...
164s Setting up ubuntu-standard (1.536) ...
164s Setting up openssl (3.0.13-0ubuntu1) ...
164s Processing triggers for man-db (2.12.0-3) ...
164s Processing triggers for libc-bin (2.39-0ubuntu2) ...
165s Reading package lists...
165s Building dependency tree...
165s Reading state information...
165s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
165s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease
165s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease
165s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease
166s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease
167s Reading package lists...
167s Reading package lists...
167s Building dependency tree...
167s Reading state information...
167s Calculating upgrade...
167s The following packages have been kept back:
167s   curl
168s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
168s Reading package lists...
168s Building dependency tree...
168s Reading state information...
168s 0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
171s autopkgtest [18:57:46]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Tue Feb 13 23:45:46 UTC 2024
171s autopkgtest [18:57:46]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-spp
172s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-cran-spp 1.16.0-2 (dsc) [2067 B]
172s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-cran-spp 1.16.0-2 (tar) [98.1 kB]
172s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-cran-spp 1.16.0-2 (diff) [2404 B]
173s gpgv: Signature made Wed Sep 23 10:45:09 2020 UTC
173s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
173s gpgv:                issuer "tille@debian.org"
173s gpgv: Can't check signature: No public key
173s dpkg-source: warning: cannot verify inline signature for ./r-cran-spp_1.16.0-2.dsc: no acceptable signature found
173s autopkgtest [18:57:48]: testing package r-cran-spp version 1.16.0-2
173s autopkgtest [18:57:48]: build not needed
174s autopkgtest [18:57:49]: test pkg-r-autopkgtest: preparing testbed
175s Reading package lists...
176s Building dependency tree...
176s Reading state information...
176s Starting pkgProblemResolver with broken count: 0
176s Starting 2 pkgProblemResolver with broken count: 0
176s Done
176s The following additional packages will be installed:
176s   build-essential cpp cpp-13 cpp-13-s390x-linux-gnu cpp-s390x-linux-gnu curl
176s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
176s   g++ g++-13 g++-13-s390x-linux-gnu g++-s390x-linux-gnu gcc gcc-13
176s   gcc-13-s390x-linux-gnu gcc-s390x-linux-gnu gfortran gfortran-13
176s   gfortran-13-s390x-linux-gnu gfortran-s390x-linux-gnu icu-devtools libasan8
176s   libatomic1 libblas-dev libblas3 libboost-dev libboost1.83-dev libbz2-dev
176s   libc-dev-bin libc6-dev libcairo2 libcc1-0 libcrypt-dev libcurl4t64
176s   libdatrie1 libdeflate0 libfontconfig1 libfreetype6 libgcc-13-dev
176s   libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b
176s   libice6 libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev libjpeg-turbo8
176s   libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev liblapack3
176s   liblzma-dev libmpc3 libncurses-dev libnsl-dev libpango-1.0-0
176s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0
176s   libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpixman-1-0 libpkgconf3
176s   libpng-dev libpsl5t64 libreadline-dev libsharpyuv0 libsm6 libstdc++-13-dev
176s   libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-dev libtk8.6 libubsan1
176s   libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6
176s   linux-libc-dev littler pkg-config pkg-r-autopkgtest pkgconf pkgconf-bin
176s   r-base-core r-base-dev r-bioc-biocgenerics r-bioc-biocparallel
176s   r-bioc-biostrings r-bioc-genomeinfodb r-bioc-genomeinfodbdata
176s   r-bioc-genomicranges r-bioc-iranges r-bioc-rhtslib r-bioc-rsamtools
176s   r-bioc-s4vectors r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops
176s   r-cran-catools r-cran-codetools r-cran-cpp11 r-cran-crayon r-cran-formatr
176s   r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-littler
176s   r-cran-pkgkitten r-cran-rcpp r-cran-rcurl r-cran-snow r-cran-spp
176s   rpcsvc-proto unzip x11-common xdg-utils zip zlib1g-dev
176s Suggested packages:
176s   cpp-doc gcc-13-locales cpp-13-doc debtags g++-multilib g++-13-multilib
176s   gcc-13-doc gcc-multilib manpages-dev autoconf automake libtool flex bison
176s   gdb gcc-doc gcc-13-multilib gdb-s390x-linux-gnu gfortran-multilib
176s   gfortran-doc gfortran-13-multilib gfortran-13-doc libcoarrays-dev
176s   liblapack-doc libboost-doc libboost1.83-doc libboost-atomic1.83-dev
176s   libboost-chrono1.83-dev libboost-container1.83-dev libboost-context1.83-dev
176s   libboost-contract1.83-dev libboost-coroutine1.83-dev
176s   libboost-date-time1.83-dev libboost-exception1.83-dev libboost-fiber1.83-dev
176s   libboost-filesystem1.83-dev libboost-graph-parallel1.83-dev
176s   libboost-graph1.83-dev libboost-iostreams1.83-dev libboost-json1.83-dev
176s   libboost-locale1.83-dev libboost-log1.83-dev libboost-math1.83-dev
176s   libboost-mpi-python1.83-dev libboost-mpi1.83-dev libboost-nowide1.83-dev
176s   libboost-numpy1.83-dev libboost-program-options1.83-dev
176s   libboost-python1.83-dev libboost-random1.83-dev libboost-regex1.83-dev
176s   libboost-serialization1.83-dev libboost-stacktrace1.83-dev
176s   libboost-system1.83-dev libboost-test1.83-dev libboost-thread1.83-dev
176s   libboost-timer1.83-dev libboost-type-erasure1.83-dev libboost-url1.83-dev
176s   libboost-wave1.83-dev libboost1.83-tools-dev libmpfrc++-dev libntl-dev
176s   glibc-doc icu-doc liblzma-doc ncurses-doc readline-doc libstdc++-13-doc
176s   tcl8.6 tk8.6 elpa-ess r-doc-info | r-doc-pdf r-mathlib r-base-html
176s   texlive-base texlive-latex-base texlive-plain-generic
176s   texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils
176s   texlive-latex-recommended texlive-latex-extra texinfo r-bioc-biobase
176s   r-bioc-delayedarray r-bioc-annotationdbi r-bioc-affy r-bioc-deseq2
176s   r-bioc-annotate r-cran-runit r-cran-foreach r-cran-bbmisc r-cran-doparallel
176s   r-bioc-variantannotation r-bioc-genomicalignments r-bioc-shortread
176s   r-bioc-biocstyle r-cran-knitr r-cran-batchtools r-cran-data.table
176s   r-bioc-bsgenome r-bioc-genomicfeatures r-cran-r.utils r-cran-matrix
176s   r-bioc-summarizedexperiment r-bioc-rtracklayer r-bioc-gviz
176s   r-bioc-annotationhub r-bioc-dexseq r-bioc-edger r-bioc-keggrest
176s   r-cran-digest r-cran-rmarkdown r-bioc-graph r-cran-mass r-cran-rpart
176s   r-cran-rstudioapi r-cran-shiny r-cran-jsonlite r-cran-getopt r-cran-inline
176s   r-cran-rmpi r-cran-rlecuyer
176s Recommended packages:
176s   bzip2-doc manpages manpages-dev libc-devtools libpng-tools r-recommended
176s   r-doc-html r-cran-bench r-cran-brio r-cran-callr r-cran-cli r-cran-covr
176s   r-cran-decor r-cran-desc r-cran-ggplot2 r-cran-glue r-cran-knitr
176s   r-cran-lobstr r-cran-mockery r-cran-progress r-cran-rmarkdown r-cran-scales
176s   r-cran-testthat r-cran-tibble r-cran-vctrs r-cran-withr r-cran-testit
176s   r-cran-survival r-cran-xml libfile-mimeinfo-perl libnet-dbus-perl
176s   libx11-protocol-perl x11-utils x11-xserver-utils
176s The following packages will be REMOVED:
176s   libcurl4 libpsl5
176s The following NEW packages will be installed:
176s   autopkgtest-satdep build-essential cpp cpp-13 cpp-13-s390x-linux-gnu
176s   cpp-s390x-linux-gnu dctrl-tools fontconfig fontconfig-config
176s   fonts-dejavu-core fonts-dejavu-mono g++ g++-13 g++-13-s390x-linux-gnu
176s   g++-s390x-linux-gnu gcc gcc-13 gcc-13-s390x-linux-gnu gcc-s390x-linux-gnu
176s   gfortran gfortran-13 gfortran-13-s390x-linux-gnu gfortran-s390x-linux-gnu
176s   icu-devtools libasan8 libatomic1 libblas-dev libblas3 libboost-dev
176s   libboost1.83-dev libbz2-dev libc-dev-bin libc6-dev libcairo2 libcc1-0
176s   libcrypt-dev libcurl4t64 libdatrie1 libdeflate0 libfontconfig1 libfreetype6
176s   libgcc-13-dev libgfortran-13-dev libgfortran5 libgomp1 libgraphite2-3
176s   libharfbuzz0b libice6 libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev
176s   libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev
176s   liblapack3 liblzma-dev libmpc3 libncurses-dev libnsl-dev libpango-1.0-0
176s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpcre2-16-0
176s   libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpixman-1-0 libpkgconf3
176s   libpng-dev libpsl5t64 libreadline-dev libsharpyuv0 libsm6 libstdc++-13-dev
176s   libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-dev libtk8.6 libubsan1
176s   libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6
176s   linux-libc-dev littler pkg-config pkg-r-autopkgtest pkgconf pkgconf-bin
176s   r-base-core r-base-dev r-bioc-biocgenerics r-bioc-biocparallel
176s   r-bioc-biostrings r-bioc-genomeinfodb r-bioc-genomeinfodbdata
176s   r-bioc-genomicranges r-bioc-iranges r-bioc-rhtslib r-bioc-rsamtools
176s   r-bioc-s4vectors r-bioc-xvector r-bioc-zlibbioc r-cran-bh r-cran-bitops
176s   r-cran-catools r-cran-codetools r-cran-cpp11 r-cran-crayon r-cran-formatr
176s   r-cran-futile.logger r-cran-futile.options r-cran-lambda.r r-cran-littler
176s   r-cran-pkgkitten r-cran-rcpp r-cran-rcurl r-cran-snow r-cran-spp
176s   rpcsvc-proto unzip x11-common xdg-utils zip zlib1g-dev
176s The following packages will be upgraded:
176s   curl
176s 1 upgraded, 136 newly installed, 2 to remove and 0 not upgraded.
176s Need to get 188 MB/188 MB of archives.
176s After this operation, 615 MB of additional disk space will be used.
176s Get:1 /tmp/autopkgtest.gjAMi6/1-autopkgtest-satdep.deb autopkgtest-satdep s390x 0 [716 B]
176s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main s390x curl s390x 8.5.0-2ubuntu7 [227 kB]
177s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libpsl5t64 s390x 0.21.2-1.1 [57.6 kB]
177s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main s390x libcurl4t64 s390x 8.5.0-2ubuntu7 [364 kB]
177s Get:5 http://ftpmaster.internal/ubuntu noble/main s390x libc-dev-bin s390x 2.39-0ubuntu2 [20.2 kB]
177s Get:6 http://ftpmaster.internal/ubuntu noble/main s390x linux-libc-dev s390x 6.8.0-11.11 [1590 kB]
177s Get:7 http://ftpmaster.internal/ubuntu noble/main s390x libcrypt-dev s390x 1:4.4.36-4 [135 kB]
178s Get:8 http://ftpmaster.internal/ubuntu noble/main s390x libtirpc-dev s390x 1.3.4+ds-1build1 [225 kB]
178s Get:9 http://ftpmaster.internal/ubuntu noble/main s390x libnsl-dev s390x 1.3.0-3 [73.5 kB]
178s Get:10 http://ftpmaster.internal/ubuntu noble/main s390x rpcsvc-proto s390x 1.4.2-0ubuntu6 [64.7 kB]
178s Get:11 http://ftpmaster.internal/ubuntu noble/main s390x libc6-dev s390x 2.39-0ubuntu2 [1629 kB]
178s Get:12 http://ftpmaster.internal/ubuntu noble/main s390x libisl23 s390x 0.26-3 [722 kB]
178s Get:13 http://ftpmaster.internal/ubuntu noble/main s390x libmpc3 s390x 1.3.1-1 [54.9 kB]
178s Get:14 http://ftpmaster.internal/ubuntu noble/main s390x cpp-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [9929 kB]
180s Get:15 http://ftpmaster.internal/ubuntu noble/main s390x cpp-13 s390x 13.2.0-17ubuntu2 [1026 B]
180s Get:16 http://ftpmaster.internal/ubuntu noble/main s390x cpp-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [5308 B]
180s Get:17 http://ftpmaster.internal/ubuntu noble/main s390x cpp s390x 4:13.2.0-7ubuntu1 [22.4 kB]
180s Get:18 http://ftpmaster.internal/ubuntu noble/main s390x libcc1-0 s390x 14-20240303-1ubuntu1 [49.9 kB]
180s Get:19 http://ftpmaster.internal/ubuntu noble/main s390x libgomp1 s390x 14-20240303-1ubuntu1 [151 kB]
180s Get:20 http://ftpmaster.internal/ubuntu noble/main s390x libitm1 s390x 14-20240303-1ubuntu1 [31.1 kB]
180s Get:21 http://ftpmaster.internal/ubuntu noble/main s390x libatomic1 s390x 14-20240303-1ubuntu1 [9392 B]
180s Get:22 http://ftpmaster.internal/ubuntu noble/main s390x libasan8 s390x 14-20240303-1ubuntu1 [2998 kB]
180s Get:23 http://ftpmaster.internal/ubuntu noble/main s390x libubsan1 s390x 14-20240303-1ubuntu1 [1186 kB]
180s Get:24 http://ftpmaster.internal/ubuntu noble/main s390x libgcc-13-dev s390x 13.2.0-17ubuntu2 [1003 kB]
180s Get:25 http://ftpmaster.internal/ubuntu noble/main s390x gcc-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [19.1 MB]
181s Get:26 http://ftpmaster.internal/ubuntu noble/main s390x gcc-13 s390x 13.2.0-17ubuntu2 [467 kB]
181s Get:27 http://ftpmaster.internal/ubuntu noble/main s390x gcc-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [1208 B]
181s Get:28 http://ftpmaster.internal/ubuntu noble/main s390x gcc s390x 4:13.2.0-7ubuntu1 [5014 B]
181s Get:29 http://ftpmaster.internal/ubuntu noble/main s390x libstdc++-13-dev s390x 13.2.0-17ubuntu2 [2430 kB]
181s Get:30 http://ftpmaster.internal/ubuntu noble/main s390x g++-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [11.3 MB]
181s Get:31 http://ftpmaster.internal/ubuntu noble/main s390x g++-13 s390x 13.2.0-17ubuntu2 [14.4 kB]
181s Get:32 http://ftpmaster.internal/ubuntu noble/main s390x g++-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [956 B]
181s Get:33 http://ftpmaster.internal/ubuntu noble/main s390x g++ s390x 4:13.2.0-7ubuntu1 [1096 B]
181s Get:34 http://ftpmaster.internal/ubuntu noble/main s390x build-essential s390x 12.10ubuntu1 [4930 B]
181s Get:35 http://ftpmaster.internal/ubuntu noble/main s390x dctrl-tools s390x 2.24-3build2 [65.4 kB]
181s Get:36 http://ftpmaster.internal/ubuntu noble/main s390x libfreetype6 s390x 2.13.2+dfsg-1 [431 kB]
181s Get:37 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-mono all 2.37-8 [502 kB]
181s Get:38 http://ftpmaster.internal/ubuntu noble/main s390x fonts-dejavu-core all 2.37-8 [835 kB]
181s Get:39 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig-config s390x 2.15.0-1ubuntu1 [37.0 kB]
181s Get:40 http://ftpmaster.internal/ubuntu noble/main s390x libfontconfig1 s390x 2.15.0-1ubuntu1 [150 kB]
181s Get:41 http://ftpmaster.internal/ubuntu noble/main s390x fontconfig s390x 2.15.0-1ubuntu1 [191 kB]
181s Get:42 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran5 s390x 14-20240303-1ubuntu1 [598 kB]
181s Get:43 http://ftpmaster.internal/ubuntu noble/main s390x libgfortran-13-dev s390x 13.2.0-17ubuntu2 [623 kB]
181s Get:44 http://ftpmaster.internal/ubuntu noble/main s390x gfortran-13-s390x-linux-gnu s390x 13.2.0-17ubuntu2 [10.4 MB]
182s Get:45 http://ftpmaster.internal/ubuntu noble/main s390x gfortran-13 s390x 13.2.0-17ubuntu2 [10.3 kB]
182s Get:46 http://ftpmaster.internal/ubuntu noble/main s390x gfortran-s390x-linux-gnu s390x 4:13.2.0-7ubuntu1 [1016 B]
182s Get:47 http://ftpmaster.internal/ubuntu noble/main s390x gfortran s390x 4:13.2.0-7ubuntu1 [1174 B]
182s Get:48 http://ftpmaster.internal/ubuntu noble/main s390x icu-devtools s390x 74.2-1ubuntu1 [224 kB]
182s Get:49 http://ftpmaster.internal/ubuntu noble/main s390x libblas3 s390x 3.12.0-3 [245 kB]
182s Get:50 http://ftpmaster.internal/ubuntu noble/main s390x libblas-dev s390x 3.12.0-3 [239 kB]
182s Get:51 http://ftpmaster.internal/ubuntu noble/main s390x libboost1.83-dev s390x 1.83.0-2ubuntu1 [15.3 MB]
182s Get:52 http://ftpmaster.internal/ubuntu noble/main s390x libboost-dev s390x 1.83.0.1ubuntu2 [4310 B]
182s Get:53 http://ftpmaster.internal/ubuntu noble/main s390x libbz2-dev s390x 1.0.8-5ubuntu1 [39.4 kB]
182s Get:54 http://ftpmaster.internal/ubuntu noble/main s390x libpixman-1-0 s390x 0.42.2-1 [173 kB]
182s Get:55 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-render0 s390x 1.15-1 [17.0 kB]
182s Get:56 http://ftpmaster.internal/ubuntu noble/main s390x libxcb-shm0 s390x 1.15-1 [5782 B]
182s Get:57 http://ftpmaster.internal/ubuntu noble/main s390x libxrender1 s390x 1:0.9.10-1.1 [19.4 kB]
182s Get:58 http://ftpmaster.internal/ubuntu noble/main s390x libcairo2 s390x 1.18.0-1 [578 kB]
182s Get:59 http://ftpmaster.internal/ubuntu noble/main s390x libdatrie1 s390x 0.2.13-3 [22.6 kB]
182s Get:60 http://ftpmaster.internal/ubuntu noble/main s390x libdeflate0 s390x 1.19-1 [46.0 kB]
182s Get:61 http://ftpmaster.internal/ubuntu noble/main s390x libgraphite2-3 s390x 1.3.14-2 [90.4 kB]
182s Get:62 http://ftpmaster.internal/ubuntu noble/main s390x libharfbuzz0b s390x 8.3.0-2 [515 kB]
182s Get:63 http://ftpmaster.internal/ubuntu noble/main s390x x11-common all 1:7.7+23ubuntu2 [23.4 kB]
182s Get:64 http://ftpmaster.internal/ubuntu noble/main s390x libice6 s390x 2:1.0.10-1build2 [40.8 kB]
182s Get:65 http://ftpmaster.internal/ubuntu noble/main s390x libicu-dev s390x 74.2-1ubuntu1 [11.9 MB]
183s Get:66 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8 s390x 2.1.5-2ubuntu1 [128 kB]
183s Get:67 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-turbo8-dev s390x 2.1.5-2ubuntu1 [264 kB]
183s Get:68 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8 s390x 8c-2ubuntu11 [2146 B]
183s Get:69 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg8-dev s390x 8c-2ubuntu11 [1484 B]
183s Get:70 http://ftpmaster.internal/ubuntu noble/main s390x libjpeg-dev s390x 8c-2ubuntu11 [1484 B]
183s Get:71 http://ftpmaster.internal/ubuntu noble/main s390x liblapack3 s390x 3.12.0-3 [2979 kB]
183s Get:72 http://ftpmaster.internal/ubuntu noble/main s390x liblapack-dev s390x 3.12.0-3 [5983 kB]
183s Get:73 http://ftpmaster.internal/ubuntu noble/main s390x libncurses-dev s390x 6.4+20240113-1ubuntu1 [412 kB]
183s Get:74 http://ftpmaster.internal/ubuntu noble/main s390x libthai-data all 0.1.29-2 [158 kB]
183s Get:75 http://ftpmaster.internal/ubuntu noble/main s390x libthai0 s390x 0.1.29-2 [20.6 kB]
183s Get:76 http://ftpmaster.internal/ubuntu noble/main s390x libpango-1.0-0 s390x 1.51.0+ds-4 [240 kB]
183s Get:77 http://ftpmaster.internal/ubuntu noble/main s390x libpangoft2-1.0-0 s390x 1.51.0+ds-4 [43.6 kB]
183s Get:78 http://ftpmaster.internal/ubuntu noble/main s390x libpangocairo-1.0-0 s390x 1.51.0+ds-4 [28.9 kB]
183s Get:79 http://ftpmaster.internal/ubuntu noble/main s390x libpaper1 s390x 1.1.29 [13.3 kB]
183s Get:80 http://ftpmaster.internal/ubuntu noble/main s390x libpaper-utils s390x 1.1.29 [8452 B]
183s Get:81 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-16-0 s390x 10.42-4ubuntu1 [229 kB]
183s Get:82 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-32-0 s390x 10.42-4ubuntu1 [217 kB]
183s Get:83 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-posix3 s390x 10.42-4ubuntu1 [6704 B]
183s Get:84 http://ftpmaster.internal/ubuntu noble/main s390x libpcre2-dev s390x 10.42-4ubuntu1 [805 kB]
183s Get:85 http://ftpmaster.internal/ubuntu noble/main s390x libpkgconf3 s390x 1.8.1-2 [30.4 kB]
183s Get:86 http://ftpmaster.internal/ubuntu noble/main s390x zlib1g-dev s390x 1:1.3.dfsg-3ubuntu1 [905 kB]
183s Get:87 http://ftpmaster.internal/ubuntu noble/main s390x libpng-dev s390x 1.6.43-1 [277 kB]
183s Get:88 http://ftpmaster.internal/ubuntu noble/main s390x libreadline-dev s390x 8.2-3 [187 kB]
183s Get:89 http://ftpmaster.internal/ubuntu noble/main s390x libsharpyuv0 s390x 1.3.2-0.4 [14.8 kB]
183s Get:90 http://ftpmaster.internal/ubuntu noble/main s390x libsm6 s390x 2:1.2.3-1build2 [16.9 kB]
183s Get:91 http://ftpmaster.internal/ubuntu noble/main s390x libtcl8.6 s390x 8.6.13+dfsg-2 [948 kB]
183s Get:92 http://ftpmaster.internal/ubuntu noble/main s390x libjbig0 s390x 2.1-6.1ubuntu1 [29.8 kB]
183s Get:93 http://ftpmaster.internal/ubuntu noble/main s390x libwebp7 s390x 1.3.2-0.4 [207 kB]
183s Get:94 http://ftpmaster.internal/ubuntu noble/main s390x libtiff6 s390x 4.5.1+git230720-3ubuntu1 [253 kB]
183s Get:95 http://ftpmaster.internal/ubuntu noble/main s390x libxft2 s390x 2.3.6-1 [44.3 kB]
183s Get:96 http://ftpmaster.internal/ubuntu noble/main s390x libxss1 s390x 1:1.2.3-1build2 [8192 B]
183s Get:97 http://ftpmaster.internal/ubuntu noble/main s390x libtk8.6 s390x 8.6.13-2 [757 kB]
183s Get:98 http://ftpmaster.internal/ubuntu noble/main s390x libxt6 s390x 1:1.2.1-1.1 [166 kB]
183s Get:99 http://ftpmaster.internal/ubuntu noble/main s390x zip s390x 3.0-13 [175 kB]
183s Get:100 http://ftpmaster.internal/ubuntu noble/main s390x unzip s390x 6.0-28ubuntu3 [180 kB]
183s Get:101 http://ftpmaster.internal/ubuntu noble/main s390x xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
183s Get:102 http://ftpmaster.internal/ubuntu noble/universe s390x r-base-core s390x 4.3.2-1build1 [27.1 MB]
185s Get:103 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-littler s390x 0.3.19-1 [93.0 kB]
185s Get:104 http://ftpmaster.internal/ubuntu noble/universe s390x littler all 0.3.19-1 [2472 B]
185s Get:105 http://ftpmaster.internal/ubuntu noble/main s390x pkgconf-bin s390x 1.8.1-2 [20.8 kB]
185s Get:106 http://ftpmaster.internal/ubuntu noble/main s390x pkgconf s390x 1.8.1-2 [16.7 kB]
185s Get:107 http://ftpmaster.internal/ubuntu noble/main s390x pkg-config s390x 1.8.1-2 [7170 B]
185s Get:108 http://ftpmaster.internal/ubuntu noble/main s390x liblzma-dev s390x 5.4.5-0.3 [215 kB]
185s Get:109 http://ftpmaster.internal/ubuntu noble/universe s390x r-base-dev all 4.3.2-1build1 [4336 B]
185s Get:110 http://ftpmaster.internal/ubuntu noble/universe s390x pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
185s Get:111 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biocgenerics all 0.48.1-2 [595 kB]
185s Get:112 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-formatr all 1.14-1 [152 kB]
185s Get:113 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-lambda.r all 1.2.4-2build1 [119 kB]
185s Get:114 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-futile.options all 1.0.1-3build1 [20.2 kB]
185s Get:115 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-futile.logger all 1.4.3-4build1 [99.3 kB]
185s Get:116 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-snow all 1:0.4.4-2 [97.6 kB]
185s Get:117 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-codetools all 0.2-19-1 [90.5 kB]
185s Get:118 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-bh all 1.84.0-1 [5962 B]
185s Get:119 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-cpp11 all 0.4.7-1 [266 kB]
185s Get:120 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biocparallel s390x 1.36.0-1 [1351 kB]
185s Get:121 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-s4vectors s390x 0.40.2+dfsg-1 [2063 kB]
185s Get:122 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-iranges s390x 2.36.0-1 [2253 kB]
186s Get:123 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-zlibbioc all 1.48.0+dfsg-1 [9596 B]
186s Get:124 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-xvector s390x 0.42.0-1 [621 kB]
186s Get:125 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-bitops s390x 1.0-7-1 [29.6 kB]
186s Get:126 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rcurl s390x 1.98-1.14+dfsg-1 [794 kB]
186s Get:127 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomeinfodbdata all 1.2.11-2 [12.3 MB]
186s Get:128 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomeinfodb all 1.38.6+dfsg-1 [3886 kB]
186s Get:129 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-crayon all 1.5.2-1 [164 kB]
186s Get:130 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-biostrings s390x 2.70.2+dfsg-1 [13.6 MB]
187s Get:131 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-genomicranges s390x 1.54.1+dfsg-1 [1822 kB]
187s Get:132 http://ftpmaster.internal/ubuntu noble/universe s390x r-bioc-rhtslib s390x 2.4.1+dfsg-1 [1410 kB]
187s Get:133 http://ftpmaster.internal/ubuntu noble-proposed/universe s390x r-bioc-rsamtools s390x 2.18.0+dfsg-1build1 [3700 kB]
187s Get:134 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-catools s390x 1.18.2-1 [201 kB]
187s Get:135 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-pkgkitten all 0.2.3-1 [25.1 kB]
187s Get:136 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-rcpp s390x 1.0.12-1 [1985 kB]
187s Get:137 http://ftpmaster.internal/ubuntu noble/universe s390x r-cran-spp s390x 1.16.0-2 [323 kB]
188s Preconfiguring packages ...
188s Fetched 188 MB in 11s (16.9 MB/s)
188s (Reading database ... 
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(Reading database ... 45%
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(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 52173 files and directories currently installed.)
188s Preparing to unpack .../curl_8.5.0-2ubuntu7_s390x.deb ...
188s Unpacking curl (8.5.0-2ubuntu7) over (8.5.0-2ubuntu2) ...
188s dpkg: libpsl5:s390x: dependency problems, but removing anyway as you requested:
188s  wget depends on libpsl5 (>= 0.16.0).
188s  libcurl4:s390x depends on libpsl5 (>= 0.16.0).
188s  libcurl3-gnutls:s390x depends on libpsl5 (>= 0.16.0).
188s 
188s (Reading database ... 
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(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 52173 files and directories currently installed.)
188s Removing libpsl5:s390x (0.21.2-1build1) ...
188s Selecting previously unselected package libpsl5t64:s390x.
188s (Reading database ... 
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(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 52168 files and directories currently installed.)
188s Preparing to unpack .../libpsl5t64_0.21.2-1.1_s390x.deb ...
188s Unpacking libpsl5t64:s390x (0.21.2-1.1) ...
188s dpkg: libcurl4:s390x: dependency problems, but removing anyway as you requested:
188s  s390-tools depends on libcurl4 (>= 7.16.2).
188s 
188s (Reading database ... 
(Reading database ... 5%
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(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 52174 files and directories currently installed.)
188s Removing libcurl4:s390x (8.5.0-2ubuntu2) ...
188s Selecting previously unselected package libcurl4t64:s390x.
188s (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 52169 files and directories currently installed.)
188s Preparing to unpack .../000-libcurl4t64_8.5.0-2ubuntu7_s390x.deb ...
188s Unpacking libcurl4t64:s390x (8.5.0-2ubuntu7) ...
188s Selecting previously unselected package libc-dev-bin.
188s Preparing to unpack .../001-libc-dev-bin_2.39-0ubuntu2_s390x.deb ...
188s Unpacking libc-dev-bin (2.39-0ubuntu2) ...
188s Selecting previously unselected package linux-libc-dev:s390x.
188s Preparing to unpack .../002-linux-libc-dev_6.8.0-11.11_s390x.deb ...
188s Unpacking linux-libc-dev:s390x (6.8.0-11.11) ...
188s Selecting previously unselected package libcrypt-dev:s390x.
188s Preparing to unpack .../003-libcrypt-dev_1%3a4.4.36-4_s390x.deb ...
188s Unpacking libcrypt-dev:s390x (1:4.4.36-4) ...
188s Selecting previously unselected package libtirpc-dev:s390x.
188s Preparing to unpack .../004-libtirpc-dev_1.3.4+ds-1build1_s390x.deb ...
188s Unpacking libtirpc-dev:s390x (1.3.4+ds-1build1) ...
188s Selecting previously unselected package libnsl-dev:s390x.
188s Preparing to unpack .../005-libnsl-dev_1.3.0-3_s390x.deb ...
188s Unpacking libnsl-dev:s390x (1.3.0-3) ...
188s Selecting previously unselected package rpcsvc-proto.
188s Preparing to unpack .../006-rpcsvc-proto_1.4.2-0ubuntu6_s390x.deb ...
188s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ...
189s Selecting previously unselected package libc6-dev:s390x.
189s Preparing to unpack .../007-libc6-dev_2.39-0ubuntu2_s390x.deb ...
189s Unpacking libc6-dev:s390x (2.39-0ubuntu2) ...
189s Selecting previously unselected package libisl23:s390x.
189s Preparing to unpack .../008-libisl23_0.26-3_s390x.deb ...
189s Unpacking libisl23:s390x (0.26-3) ...
189s Selecting previously unselected package libmpc3:s390x.
189s Preparing to unpack .../009-libmpc3_1.3.1-1_s390x.deb ...
189s Unpacking libmpc3:s390x (1.3.1-1) ...
189s Selecting previously unselected package cpp-13-s390x-linux-gnu.
189s Preparing to unpack .../010-cpp-13-s390x-linux-gnu_13.2.0-17ubuntu2_s390x.deb ...
189s Unpacking cpp-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
189s Selecting previously unselected package cpp-13.
189s Preparing to unpack .../011-cpp-13_13.2.0-17ubuntu2_s390x.deb ...
189s Unpacking cpp-13 (13.2.0-17ubuntu2) ...
189s Selecting previously unselected package cpp-s390x-linux-gnu.
189s Preparing to unpack .../012-cpp-s390x-linux-gnu_4%3a13.2.0-7ubuntu1_s390x.deb ...
189s Unpacking cpp-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
189s Selecting previously unselected package cpp.
189s Preparing to unpack .../013-cpp_4%3a13.2.0-7ubuntu1_s390x.deb ...
189s Unpacking cpp (4:13.2.0-7ubuntu1) ...
189s Selecting previously unselected package libcc1-0:s390x.
189s Preparing to unpack .../014-libcc1-0_14-20240303-1ubuntu1_s390x.deb ...
189s Unpacking libcc1-0:s390x (14-20240303-1ubuntu1) ...
189s Selecting previously unselected package libgomp1:s390x.
189s Preparing to unpack .../015-libgomp1_14-20240303-1ubuntu1_s390x.deb ...
189s Unpacking libgomp1:s390x (14-20240303-1ubuntu1) ...
189s Selecting previously unselected package libitm1:s390x.
189s Preparing to unpack .../016-libitm1_14-20240303-1ubuntu1_s390x.deb ...
189s Unpacking libitm1:s390x (14-20240303-1ubuntu1) ...
189s Selecting previously unselected package libatomic1:s390x.
189s Preparing to unpack .../017-libatomic1_14-20240303-1ubuntu1_s390x.deb ...
189s Unpacking libatomic1:s390x (14-20240303-1ubuntu1) ...
189s Selecting previously unselected package libasan8:s390x.
189s Preparing to unpack .../018-libasan8_14-20240303-1ubuntu1_s390x.deb ...
189s Unpacking libasan8:s390x (14-20240303-1ubuntu1) ...
189s Selecting previously unselected package libubsan1:s390x.
189s Preparing to unpack .../019-libubsan1_14-20240303-1ubuntu1_s390x.deb ...
189s Unpacking libubsan1:s390x (14-20240303-1ubuntu1) ...
189s Selecting previously unselected package libgcc-13-dev:s390x.
189s Preparing to unpack .../020-libgcc-13-dev_13.2.0-17ubuntu2_s390x.deb ...
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189s Selecting previously unselected package gcc-13-s390x-linux-gnu.
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190s Selecting previously unselected package gcc-s390x-linux-gnu.
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190s Selecting previously unselected package libstdc++-13-dev:s390x.
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190s Selecting previously unselected package g++-13.
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190s Selecting previously unselected package g++-s390x-linux-gnu.
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190s Selecting previously unselected package build-essential.
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190s Selecting previously unselected package dctrl-tools.
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190s Selecting previously unselected package libfreetype6:s390x.
190s Preparing to unpack .../032-libfreetype6_2.13.2+dfsg-1_s390x.deb ...
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190s Selecting previously unselected package fonts-dejavu-mono.
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190s Selecting previously unselected package fonts-dejavu-core.
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190s Selecting previously unselected package libfontconfig1:s390x.
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190s Selecting previously unselected package libgfortran5:s390x.
190s Preparing to unpack .../038-libgfortran5_14-20240303-1ubuntu1_s390x.deb ...
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190s Selecting previously unselected package libgfortran-13-dev:s390x.
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190s Selecting previously unselected package gfortran-13-s390x-linux-gnu.
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191s Selecting previously unselected package gfortran-13.
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191s Selecting previously unselected package gfortran-s390x-linux-gnu.
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191s Selecting previously unselected package icu-devtools.
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191s Selecting previously unselected package libblas3:s390x.
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191s Selecting previously unselected package libboost1.83-dev:s390x.
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193s Selecting previously unselected package libpixman-1-0:s390x.
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193s Selecting previously unselected package libxrender1:s390x.
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193s Selecting previously unselected package libcairo2:s390x.
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193s Selecting previously unselected package libdatrie1:s390x.
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193s Selecting previously unselected package libdeflate0:s390x.
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193s Selecting previously unselected package libgraphite2-3:s390x.
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193s Selecting previously unselected package libharfbuzz0b:s390x.
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193s Selecting previously unselected package x11-common.
193s Preparing to unpack .../059-x11-common_1%3a7.7+23ubuntu2_all.deb ...
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193s Selecting previously unselected package libice6:s390x.
193s Preparing to unpack .../060-libice6_2%3a1.0.10-1build2_s390x.deb ...
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193s Selecting previously unselected package libicu-dev:s390x.
193s Preparing to unpack .../061-libicu-dev_74.2-1ubuntu1_s390x.deb ...
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194s Selecting previously unselected package libjpeg-turbo8:s390x.
194s Preparing to unpack .../062-libjpeg-turbo8_2.1.5-2ubuntu1_s390x.deb ...
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194s Preparing to unpack .../064-libjpeg8_8c-2ubuntu11_s390x.deb ...
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194s Selecting previously unselected package liblapack3:s390x.
194s Preparing to unpack .../067-liblapack3_3.12.0-3_s390x.deb ...
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194s Selecting previously unselected package libthai-data.
194s Preparing to unpack .../070-libthai-data_0.1.29-2_all.deb ...
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194s Selecting previously unselected package libpango-1.0-0:s390x.
194s Preparing to unpack .../072-libpango-1.0-0_1.51.0+ds-4_s390x.deb ...
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194s Selecting previously unselected package libpangoft2-1.0-0:s390x.
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194s Selecting previously unselected package libpangocairo-1.0-0:s390x.
194s Preparing to unpack .../074-libpangocairo-1.0-0_1.51.0+ds-4_s390x.deb ...
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194s Preparing to unpack .../075-libpaper1_1.1.29_s390x.deb ...
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194s Selecting previously unselected package libpcre2-16-0:s390x.
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194s Selecting previously unselected package libpkgconf3:s390x.
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194s Selecting previously unselected package zlib1g-dev:s390x.
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194s Selecting previously unselected package libpng-dev:s390x.
194s Preparing to unpack .../083-libpng-dev_1.6.43-1_s390x.deb ...
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194s Selecting previously unselected package libreadline-dev:s390x.
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194s Selecting previously unselected package libsharpyuv0:s390x.
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194s Preparing to unpack .../086-libsm6_2%3a1.2.3-1build2_s390x.deb ...
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194s Selecting previously unselected package libtcl8.6:s390x.
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195s Selecting previously unselected package libtiff6:s390x.
195s Preparing to unpack .../090-libtiff6_4.5.1+git230720-3ubuntu1_s390x.deb ...
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195s Selecting previously unselected package libxft2:s390x.
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195s Selecting previously unselected package libtk8.6:s390x.
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195s Selecting previously unselected package liblzma-dev:s390x.
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195s Selecting previously unselected package r-bioc-biocgenerics.
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195s Selecting previously unselected package r-cran-formatr.
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195s Selecting previously unselected package r-cran-futile.logger.
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195s Selecting previously unselected package r-cran-codetools.
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195s Selecting previously unselected package r-cran-cpp11.
195s Preparing to unpack .../115-r-cran-cpp11_0.4.7-1_all.deb ...
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195s Selecting previously unselected package r-bioc-biocparallel.
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195s Selecting previously unselected package r-bioc-s4vectors.
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195s Selecting previously unselected package r-bioc-iranges.
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196s Selecting previously unselected package r-bioc-zlibbioc.
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196s Selecting previously unselected package r-bioc-xvector.
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196s Selecting previously unselected package r-cran-bitops.
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196s Selecting previously unselected package r-cran-rcurl.
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196s Unpacking r-cran-rcurl (1.98-1.14+dfsg-1) ...
196s Selecting previously unselected package r-bioc-genomeinfodbdata.
196s Preparing to unpack .../123-r-bioc-genomeinfodbdata_1.2.11-2_all.deb ...
196s Unpacking r-bioc-genomeinfodbdata (1.2.11-2) ...
196s Selecting previously unselected package r-bioc-genomeinfodb.
196s Preparing to unpack .../124-r-bioc-genomeinfodb_1.38.6+dfsg-1_all.deb ...
196s Unpacking r-bioc-genomeinfodb (1.38.6+dfsg-1) ...
196s Selecting previously unselected package r-cran-crayon.
196s Preparing to unpack .../125-r-cran-crayon_1.5.2-1_all.deb ...
196s Unpacking r-cran-crayon (1.5.2-1) ...
196s Selecting previously unselected package r-bioc-biostrings.
196s Preparing to unpack .../126-r-bioc-biostrings_2.70.2+dfsg-1_s390x.deb ...
196s Unpacking r-bioc-biostrings (2.70.2+dfsg-1) ...
196s Selecting previously unselected package r-bioc-genomicranges.
196s Preparing to unpack .../127-r-bioc-genomicranges_1.54.1+dfsg-1_s390x.deb ...
196s Unpacking r-bioc-genomicranges (1.54.1+dfsg-1) ...
196s Selecting previously unselected package r-bioc-rhtslib.
196s Preparing to unpack .../128-r-bioc-rhtslib_2.4.1+dfsg-1_s390x.deb ...
196s Unpacking r-bioc-rhtslib (2.4.1+dfsg-1) ...
196s Selecting previously unselected package r-bioc-rsamtools.
196s Preparing to unpack .../129-r-bioc-rsamtools_2.18.0+dfsg-1build1_s390x.deb ...
196s Unpacking r-bioc-rsamtools (2.18.0+dfsg-1build1) ...
196s Selecting previously unselected package r-cran-catools.
196s Preparing to unpack .../130-r-cran-catools_1.18.2-1_s390x.deb ...
196s Unpacking r-cran-catools (1.18.2-1) ...
196s Selecting previously unselected package r-cran-pkgkitten.
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196s Unpacking r-cran-pkgkitten (0.2.3-1) ...
196s Selecting previously unselected package r-cran-rcpp.
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196s Unpacking r-cran-rcpp (1.0.12-1) ...
196s Selecting previously unselected package r-cran-spp.
196s Preparing to unpack .../133-r-cran-spp_1.16.0-2_s390x.deb ...
196s Unpacking r-cran-spp (1.16.0-2) ...
196s Selecting previously unselected package autopkgtest-satdep.
196s Preparing to unpack .../134-1-autopkgtest-satdep.deb ...
196s Unpacking autopkgtest-satdep (0) ...
196s Setting up libgraphite2-3:s390x (1.3.14-2) ...
196s Setting up libpixman-1-0:s390x (0.42.2-1) ...
196s Setting up libsharpyuv0:s390x (1.3.2-0.4) ...
196s Setting up libpaper1:s390x (1.1.29) ...
196s 
196s Creating config file /etc/papersize with new version
196s Setting up libxrender1:s390x (1:0.9.10-1.1) ...
196s Setting up libdatrie1:s390x (0.2.13-3) ...
196s Setting up libxcb-render0:s390x (1.15-1) ...
196s Setting up unzip (6.0-28ubuntu3) ...
196s Setting up x11-common (1:7.7+23ubuntu2) ...
197s Setting up libpsl5t64:s390x (0.21.2-1.1) ...
197s Setting up libdeflate0:s390x (1.19-1) ...
197s Setting up linux-libc-dev:s390x (6.8.0-11.11) ...
197s Setting up libxcb-shm0:s390x (1.15-1) ...
197s Setting up libpaper-utils (1.1.29) ...
197s Setting up libgomp1:s390x (14-20240303-1ubuntu1) ...
197s Setting up libjbig0:s390x (2.1-6.1ubuntu1) ...
197s Setting up libpcre2-16-0:s390x (10.42-4ubuntu1) ...
197s Setting up zip (3.0-13) ...
197s Setting up libpcre2-32-0:s390x (10.42-4ubuntu1) ...
197s Setting up libblas3:s390x (3.12.0-3) ...
197s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so.3 to provide /usr/lib/s390x-linux-gnu/libblas.so.3 (libblas.so.3-s390x-linux-gnu) in auto mode
197s Setting up libtirpc-dev:s390x (1.3.4+ds-1build1) ...
197s Setting up libpkgconf3:s390x (1.8.1-2) ...
197s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ...
197s Setting up libfreetype6:s390x (2.13.2+dfsg-1) ...
197s Setting up fonts-dejavu-mono (2.37-8) ...
197s Setting up libmpc3:s390x (1.3.1-1) ...
197s Setting up libatomic1:s390x (14-20240303-1ubuntu1) ...
197s Setting up libtcl8.6:s390x (8.6.13+dfsg-2) ...
197s Setting up icu-devtools (74.2-1ubuntu1) ...
197s Setting up fonts-dejavu-core (2.37-8) ...
197s Setting up pkgconf-bin (1.8.1-2) ...
197s Setting up libjpeg-turbo8:s390x (2.1.5-2ubuntu1) ...
197s Setting up libgfortran5:s390x (14-20240303-1ubuntu1) ...
197s Setting up libwebp7:s390x (1.3.2-0.4) ...
197s Setting up liblzma-dev:s390x (5.4.5-0.3) ...
197s Setting up libubsan1:s390x (14-20240303-1ubuntu1) ...
197s Setting up libpcre2-posix3:s390x (10.42-4ubuntu1) ...
197s Setting up libnsl-dev:s390x (1.3.0-3) ...
197s Setting up libcrypt-dev:s390x (1:4.4.36-4) ...
197s Setting up libasan8:s390x (14-20240303-1ubuntu1) ...
197s Setting up libharfbuzz0b:s390x (8.3.0-2) ...
197s Setting up libthai-data (0.1.29-2) ...
197s Setting up libxss1:s390x (1:1.2.3-1build2) ...
197s Setting up libisl23:s390x (0.26-3) ...
197s Setting up libc-dev-bin (2.39-0ubuntu2) ...
197s Setting up xdg-utils (1.1.3-4.1ubuntu3) ...
197s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
197s Setting up libcc1-0:s390x (14-20240303-1ubuntu1) ...
197s Setting up libblas-dev:s390x (3.12.0-3) ...
197s update-alternatives: using /usr/lib/s390x-linux-gnu/blas/libblas.so to provide /usr/lib/s390x-linux-gnu/libblas.so (libblas.so-s390x-linux-gnu) in auto mode
197s Setting up dctrl-tools (2.24-3build2) ...
197s Setting up libitm1:s390x (14-20240303-1ubuntu1) ...
197s Setting up libjpeg8:s390x (8c-2ubuntu11) ...
197s Setting up libice6:s390x (2:1.0.10-1build2) ...
197s Setting up liblapack3:s390x (3.12.0-3) ...
197s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/s390x-linux-gnu/liblapack.so.3 (liblapack.so.3-s390x-linux-gnu) in auto mode
197s Setting up libcurl4t64:s390x (8.5.0-2ubuntu7) ...
197s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
197s Setting up pkgconf:s390x (1.8.1-2) ...
197s Setting up libthai0:s390x (0.1.29-2) ...
197s Setting up cpp-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
197s Setting up liblapack-dev:s390x (3.12.0-3) ...
197s update-alternatives: using /usr/lib/s390x-linux-gnu/lapack/liblapack.so to provide /usr/lib/s390x-linux-gnu/liblapack.so (liblapack.so-s390x-linux-gnu) in auto mode
197s Setting up pkg-config:s390x (1.8.1-2) ...
197s Setting up libgcc-13-dev:s390x (13.2.0-17ubuntu2) ...
197s Setting up libtiff6:s390x (4.5.1+git230720-3ubuntu1) ...
197s Setting up libc6-dev:s390x (2.39-0ubuntu2) ...
197s Setting up curl (8.5.0-2ubuntu7) ...
197s Setting up libfontconfig1:s390x (2.15.0-1ubuntu1) ...
197s Setting up libgfortran-13-dev:s390x (13.2.0-17ubuntu2) ...
197s Setting up libsm6:s390x (2:1.2.3-1build2) ...
197s Setting up libicu-dev:s390x (74.2-1ubuntu1) ...
197s Setting up libstdc++-13-dev:s390x (13.2.0-17ubuntu2) ...
197s Setting up libbz2-dev:s390x (1.0.8-5ubuntu1) ...
197s Setting up fontconfig (2.15.0-1ubuntu1) ...
199s Regenerating fonts cache... done.
199s Setting up libjpeg-turbo8-dev:s390x (2.1.5-2ubuntu1) ...
199s Setting up libxft2:s390x (2.3.6-1) ...
199s Setting up libboost1.83-dev:s390x (1.83.0-2ubuntu1) ...
199s Setting up libncurses-dev:s390x (6.4+20240113-1ubuntu1) ...
199s Setting up libpcre2-dev:s390x (10.42-4ubuntu1) ...
199s Setting up cpp-13 (13.2.0-17ubuntu2) ...
199s Setting up cpp-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
199s Setting up libtk8.6:s390x (8.6.13-2) ...
199s Setting up libpango-1.0-0:s390x (1.51.0+ds-4) ...
199s Setting up libreadline-dev:s390x (8.2-3) ...
199s Setting up libcairo2:s390x (1.18.0-1) ...
199s Setting up gcc-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
199s Setting up gcc-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
199s Setting up g++-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
199s Setting up gcc-13 (13.2.0-17ubuntu2) ...
199s Setting up libxt6:s390x (1:1.2.1-1.1) ...
199s Setting up zlib1g-dev:s390x (1:1.3.dfsg-3ubuntu1) ...
199s Setting up cpp (4:13.2.0-7ubuntu1) ...
199s Setting up gfortran-13-s390x-linux-gnu (13.2.0-17ubuntu2) ...
199s Setting up libboost-dev:s390x (1.83.0.1ubuntu2) ...
199s Setting up libpangoft2-1.0-0:s390x (1.51.0+ds-4) ...
199s Setting up libjpeg8-dev:s390x (8c-2ubuntu11) ...
199s Setting up libpangocairo-1.0-0:s390x (1.51.0+ds-4) ...
199s Setting up g++-13 (13.2.0-17ubuntu2) ...
199s Setting up gfortran-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
199s Setting up libpng-dev:s390x (1.6.43-1) ...
199s Setting up libjpeg-dev:s390x (8c-2ubuntu11) ...
199s Setting up g++-s390x-linux-gnu (4:13.2.0-7ubuntu1) ...
199s Setting up gcc (4:13.2.0-7ubuntu1) ...
199s Setting up gfortran-13 (13.2.0-17ubuntu2) ...
199s Setting up r-base-core (4.3.2-1build1) ...
199s 
199s Creating config file /etc/R/Renviron with new version
199s Setting up r-cran-crayon (1.5.2-1) ...
199s Setting up r-cran-futile.options (1.0.1-3build1) ...
199s Setting up r-cran-formatr (1.14-1) ...
199s Setting up g++ (4:13.2.0-7ubuntu1) ...
199s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
199s Setting up build-essential (12.10ubuntu1) ...
199s Setting up r-cran-pkgkitten (0.2.3-1) ...
199s Setting up r-bioc-genomeinfodbdata (1.2.11-2) ...
199s Setting up r-cran-littler (0.3.19-1) ...
199s Setting up r-cran-bh (1.84.0-1) ...
199s Setting up r-cran-rcpp (1.0.12-1) ...
199s Setting up r-cran-codetools (0.2-19-1) ...
199s Setting up r-bioc-biocgenerics (0.48.1-2) ...
199s Setting up littler (0.3.19-1) ...
199s Setting up r-cran-lambda.r (1.2.4-2build1) ...
199s Setting up r-cran-snow (1:0.4.4-2) ...
199s Setting up gfortran (4:13.2.0-7ubuntu1) ...
199s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
199s 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
199s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
199s 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
199s Setting up r-cran-bitops (1.0-7-1) ...
199s Setting up r-bioc-zlibbioc (1.48.0+dfsg-1) ...
199s Setting up r-cran-cpp11 (0.4.7-1) ...
199s Setting up r-bioc-s4vectors (0.40.2+dfsg-1) ...
199s Setting up r-cran-futile.logger (1.4.3-4build1) ...
199s Setting up r-cran-catools (1.18.2-1) ...
199s Setting up r-bioc-iranges (2.36.0-1) ...
199s Setting up r-cran-rcurl (1.98-1.14+dfsg-1) ...
199s Setting up r-base-dev (4.3.2-1build1) ...
199s Setting up r-bioc-biocparallel (1.36.0-1) ...
199s Setting up r-bioc-rhtslib (2.4.1+dfsg-1) ...
199s Setting up r-bioc-genomeinfodb (1.38.6+dfsg-1) ...
199s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
199s Setting up r-bioc-xvector (0.42.0-1) ...
199s Setting up r-bioc-genomicranges (1.54.1+dfsg-1) ...
199s Setting up r-bioc-biostrings (2.70.2+dfsg-1) ...
199s Setting up r-bioc-rsamtools (2.18.0+dfsg-1build1) ...
199s Setting up r-cran-spp (1.16.0-2) ...
199s Setting up autopkgtest-satdep (0) ...
199s Processing triggers for man-db (2.12.0-3) ...
200s Processing triggers for install-info (7.1-3) ...
200s Processing triggers for libc-bin (2.39-0ubuntu2) ...
205s (Reading database ... 77225 files and directories currently installed.)
205s Removing autopkgtest-satdep (0) ...
205s autopkgtest [18:58:20]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
205s autopkgtest [18:58:20]: test pkg-r-autopkgtest: [-----------------------
205s Test: Try to load the R library spp
205s 
205s R version 4.3.2 (2023-10-31) -- "Eye Holes"
205s Copyright (C) 2023 The R Foundation for Statistical Computing
205s Platform: s390x-ibm-linux-gnu (64-bit)
205s 
205s R is free software and comes with ABSOLUTELY NO WARRANTY.
205s You are welcome to redistribute it under certain conditions.
205s Type 'license()' or 'licence()' for distribution details.
205s 
205s R is a collaborative project with many contributors.
205s Type 'contributors()' for more information and
205s 'citation()' on how to cite R or R packages in publications.
205s 
205s Type 'demo()' for some demos, 'help()' for on-line help, or
205s 'help.start()' for an HTML browser interface to help.
205s Type 'q()' to quit R.
205s 
205s > library('spp')
205s Loading required package: Rcpp
206s > 
206s > 
206s Other tests are currently unsupported!
206s They will be progressively added.
206s autopkgtest [18:58:21]: test pkg-r-autopkgtest: -----------------------]
206s autopkgtest [18:58:21]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
206s pkg-r-autopkgtest    PASS
207s autopkgtest [18:58:22]: @@@@@@@@@@@@@@@@@@@@ summary
207s pkg-r-autopkgtest    PASS
218s Creating nova instance adt-noble-s390x-r-cran-spp-20240316-185454-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-s390x-server-20240315.img (UUID 72478735-497c-4832-870c-30bdd7312d7f)...