0s autopkgtest [14:46:47]: starting date and time: 2025-05-02 14:46:47+0000
  0s autopkgtest [14:46:47]: git checkout: 9986aa8c Merge branch 'skia/fix_network_interface' into 'ubuntu/production'
  0s autopkgtest [14:46:47]: host juju-7f2275-prod-proposed-migration-environment-23; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.ld4pnm25/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:r-base,src:r-bioc-bioccheck --apt-upgrade r-bioc-pwalign --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=r-base/4.5.0-3 r-bioc-bioccheck/1.42.1+dfsg-2' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest-cpu2-ram4-disk20-arm64 --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-23@sto01-arm64-1.secgroup --name adt-questing-arm64-r-bioc-pwalign-20250502-143924-juju-7f2275-prod-proposed-migration-environment-23-f09f020e-9549-4a10-a70a-76b12538e445 --image adt/ubuntu-questing-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-23 --net-id=net_prod-autopkgtest-workers-arm64 -e TERM=linux --mirror=http://ftpmaster.internal/ubuntu/
 76s autopkgtest [14:48:03]: testbed dpkg architecture: arm64
 76s autopkgtest [14:48:03]: testbed apt version: 3.0.0
 77s autopkgtest [14:48:04]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 77s autopkgtest [14:48:04]: testbed release detected to be: None
 77s autopkgtest [14:48:04]: updating testbed package index (apt update)
 78s Get:1 http://ftpmaster.internal/ubuntu questing-proposed InRelease [110 kB]
 78s Hit:2 http://ftpmaster.internal/ubuntu questing InRelease
 78s Hit:3 http://ftpmaster.internal/ubuntu questing-updates InRelease
 78s Hit:4 http://ftpmaster.internal/ubuntu questing-security InRelease
 78s Get:5 http://ftpmaster.internal/ubuntu questing-proposed/universe Sources [2024 kB]
 78s Get:6 http://ftpmaster.internal/ubuntu questing-proposed/main Sources [164 kB]
 78s Get:7 http://ftpmaster.internal/ubuntu questing-proposed/multiverse Sources [44.2 kB]
 78s Get:8 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 Packages [204 kB]
 78s Get:9 http://ftpmaster.internal/ubuntu questing-proposed/universe arm64 Packages [1467 kB]
 78s Get:10 http://ftpmaster.internal/ubuntu questing-proposed/multiverse arm64 Packages [14.8 kB]
 79s Fetched 4028 kB in 1s (4606 kB/s)
 79s Reading package lists...
 80s autopkgtest [14:48:07]: upgrading testbed (apt dist-upgrade and autopurge)
 80s Reading package lists...
 80s Building dependency tree...
 80s Reading state information...
 81s Calculating upgrade...Starting pkgProblemResolver with broken count: 0
 81s Starting 2 pkgProblemResolver with broken count: 0
 81s Done
 81s Entering ResolveByKeep
 82s 
 82s Calculating upgrade...
 82s The following packages will be upgraded:
 82s   libperl5.40 perl perl-base perl-modules-5.40
 82s 4 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 82s Need to get 10.0 MB of archives.
 82s After this operation, 0 B of additional disk space will be used.
 82s Get:1 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libperl5.40 arm64 5.40.1-3 [4780 kB]
 83s Get:2 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 perl arm64 5.40.1-3 [262 kB]
 83s Get:3 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 perl-base arm64 5.40.1-3 [1786 kB]
 83s Get:4 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 perl-modules-5.40 all 5.40.1-3 [3217 kB]
 83s Fetched 10.0 MB in 1s (20.1 MB/s)
 83s (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 ... 85225 files and directories currently installed.)
 83s Preparing to unpack .../libperl5.40_5.40.1-3_arm64.deb ...
 83s Unpacking libperl5.40:arm64 (5.40.1-3) over (5.40.1-2ubuntu0.1) ...
 84s Preparing to unpack .../perl_5.40.1-3_arm64.deb ...
 84s Unpacking perl (5.40.1-3) over (5.40.1-2ubuntu0.1) ...
 84s Preparing to unpack .../perl-base_5.40.1-3_arm64.deb ...
 84s Unpacking perl-base (5.40.1-3) over (5.40.1-2ubuntu0.1) ...
 84s Setting up perl-base (5.40.1-3) ...
 84s (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 ... 85225 files and directories currently installed.)
 84s Preparing to unpack .../perl-modules-5.40_5.40.1-3_all.deb ...
 84s Unpacking perl-modules-5.40 (5.40.1-3) over (5.40.1-2ubuntu0.1) ...
 84s Setting up perl-modules-5.40 (5.40.1-3) ...
 84s Setting up libperl5.40:arm64 (5.40.1-3) ...
 84s Setting up perl (5.40.1-3) ...
 84s Processing triggers for man-db (2.13.0-1) ...
 85s Processing triggers for libc-bin (2.41-6ubuntu1) ...
 85s Reading package lists...
 85s Building dependency tree...
 85s Reading state information...
 86s Starting pkgProblemResolver with broken count: 0
 86s Starting 2 pkgProblemResolver with broken count: 0
 86s Done
 86s Solving dependencies...
 86s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 89s autopkgtest [14:48:16]: testbed running kernel: Linux 6.14.0-15-generic #15-Ubuntu SMP PREEMPT_DYNAMIC Sun Apr  6 14:37:51 UTC 2025
 89s autopkgtest [14:48:16]: @@@@@@@@@@@@@@@@@@@@ apt-source r-bioc-pwalign
 90s Get:1 http://ftpmaster.internal/ubuntu questing/universe r-bioc-pwalign 1.2.0-2 (dsc) [2182 B]
 90s Get:2 http://ftpmaster.internal/ubuntu questing/universe r-bioc-pwalign 1.2.0-2 (tar) [327 kB]
 90s Get:3 http://ftpmaster.internal/ubuntu questing/universe r-bioc-pwalign 1.2.0-2 (diff) [5492 B]
 90s gpgv: Signature made Sun Jan 12 19:21:49 2025 UTC
 90s gpgv:                using RSA key 724D609337113C710550D7473C26763F6C67E6E2
 90s gpgv:                issuer "crusoe@debian.org"
 90s gpgv: Can't check signature: No public key
 90s dpkg-source: warning: cannot verify inline signature for ./r-bioc-pwalign_1.2.0-2.dsc: no acceptable signature found
 90s autopkgtest [14:48:17]: testing package r-bioc-pwalign version 1.2.0-2
 91s autopkgtest [14:48:18]: build not needed
 91s autopkgtest [14:48:18]: test pkg-r-autopkgtest: preparing testbed
 92s Reading package lists...
 92s Building dependency tree...
 92s Reading state information...
 92s Starting pkgProblemResolver with broken count: 5
 92s Starting 2 pkgProblemResolver with broken count: 5
 92s Investigating (0) r-base-core:arm64 < none -> 4.5.0-3 @un puN Ib >
 92s Broken r-base-core:arm64 Breaks on r-bioc-pwalign:arm64 < none -> 1.2.0-2 @un puN Ib > (< 1.2.0-3~)
 92s   Considering r-bioc-pwalign:arm64 -1 as a solution to r-base-core:arm64 20
 92s Investigating (0) r-bioc-xvector:arm64 < none -> 0.46.0-2 @un puN Ib >
 92s Broken r-bioc-xvector:arm64 Depends on r-bioc-iranges:arm64 < none @un pH > (>= 2.23.9)
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-xvector:arm64 1
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-xvector:arm64 1
 92s Investigating (0) r-bioc-genomeinfodb:arm64 < none -> 1.42.3+dfsg-1 @un puN Ib >
 92s Broken r-bioc-genomeinfodb:arm64 Depends on r-bioc-iranges:arm64 < none @un pH > (>= 2.13.12)
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-genomeinfodb:arm64 0
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-genomeinfodb:arm64 0
 92s Investigating (0) r-bioc-biostrings:arm64 < none -> 2.74.1+dfsg-2 @un puN Ib >
 92s Broken r-bioc-biostrings:arm64 Depends on r-bioc-iranges:arm64 < none @un pH > (>= 2.31.2)
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-biostrings:arm64 0
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-biostrings:arm64 0
 92s Investigating (0) r-bioc-pwalign:arm64 < none -> 1.2.0-2 @un puN Ib >
 92s Broken r-bioc-pwalign:arm64 Depends on r-bioc-iranges:arm64 < none @un pH >
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-pwalign:arm64 -1
 92s   Considering r-bioc-iranges:arm64 1 as a solution to r-bioc-pwalign:arm64 -1
 92s Done
 92s Some packages could not be installed. This may mean that you have
 92s requested an impossible situation or if you are using the unstable
 92s distribution that some required packages have not yet been created
 92s or been moved out of Incoming.
 92s The following information may help to resolve the situation:
 92s 
 92s The following packages have unmet dependencies:
 93s  r-base-core : Breaks: r-bioc-pwalign (< 1.2.0-3~) but 1.2.0-2 is to be installed
 93s  r-bioc-biostrings : Depends: r-bioc-iranges (>= 2.31.2) but it is not installable
 93s  r-bioc-genomeinfodb : Depends: r-bioc-iranges (>= 2.13.12) but it is not installable
 93s  r-bioc-pwalign : Depends: r-bioc-iranges but it is not installable
 93s  r-bioc-xvector : Depends: r-bioc-iranges (>= 2.23.9) but it is not installable
 93s E: Unable to correct problems, you have held broken packages.
 93s autopkgtest: WARNING: Test dependencies are unsatisfiable with using apt pinning. Retrying with using all packages from questing-proposed
 93s Reading package lists...
 93s Building dependency tree...
 93s Reading state information...
 94s Starting pkgProblemResolver with broken count: 0
 94s Starting 2 pkgProblemResolver with broken count: 0
 94s Done
 95s The following NEW packages will be installed:
 95s   build-essential cpp cpp-14 cpp-14-aarch64-linux-gnu cpp-aarch64-linux-gnu
 95s   dctrl-tools fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono
 95s   g++ g++-14 g++-14-aarch64-linux-gnu g++-aarch64-linux-gnu gcc gcc-14
 95s   gcc-14-aarch64-linux-gnu gcc-aarch64-linux-gnu gfortran gfortran-14
 95s   gfortran-14-aarch64-linux-gnu gfortran-aarch64-linux-gnu icu-devtools
 95s   libasan8 libblas-dev libblas3 libbz2-dev libcairo2 libcc1-0 libdatrie1
 95s   libdeflate-dev libdeflate0 libfontconfig1 libgcc-14-dev libgfortran-14-dev
 95s   libgfortran5 libgomp1 libgraphite2-3 libharfbuzz0b libhwasan0 libice6
 95s   libicu-dev libisl23 libitm1 libjbig0 libjpeg-dev libjpeg-turbo8
 95s   libjpeg-turbo8-dev libjpeg8 libjpeg8-dev liblapack-dev liblapack3 liblerc4
 95s   liblsan0 liblzma-dev libmpc3 libncurses-dev libpango-1.0-0
 95s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper2 libpcre2-16-0
 95s   libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpixman-1-0 libpkgconf3
 95s   libpng-dev libreadline-dev libsharpyuv0 libsm6 libstdc++-14-dev libtcl8.6
 95s   libthai-data libthai0 libtiff6 libtirpc-dev libtk8.6 libtsan2 libubsan1
 95s   libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1 libxt6t64
 95s   libzstd-dev pkg-r-autopkgtest pkgconf pkgconf-bin r-base-core r-base-dev
 95s   r-bioc-biocgenerics r-bioc-biostrings r-bioc-genomeinfodb
 95s   r-bioc-genomeinfodbdata r-bioc-iranges r-bioc-pwalign r-bioc-s4vectors
 95s   r-bioc-ucsc.utils r-bioc-xvector r-bioc-zlibbioc r-cran-askpass
 95s   r-cran-crayon r-cran-curl r-cran-httr r-cran-jsonlite r-cran-mime
 95s   r-cran-openssl r-cran-r6 r-cran-runit r-cran-sys unzip x11-common xdg-utils
 95s   zip zlib1g-dev
 95s The following packages will be upgraded:
 95s   gcc-14-base gcc-15-base libatomic1 libgcc-s1 libstdc++6 libtirpc-common
 95s   libtirpc3t64 libzstd1 zstd
 95s 9 upgraded, 119 newly installed, 0 to remove and 86 not upgraded.
 95s Need to get 173 MB of archives.
 95s After this operation, 464 MB of additional disk space will be used.
 95s Get:1 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 gcc-15-base arm64 15.1.0-1ubuntu1 [54.5 kB]
 95s Get:2 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libgcc-s1 arm64 15.1.0-1ubuntu1 [61.0 kB]
 95s Get:3 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libatomic1 arm64 15.1.0-1ubuntu1 [11.3 kB]
 95s Get:4 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libstdc++6 arm64 15.1.0-1ubuntu1 [761 kB]
 95s Get:5 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libzstd1 arm64 1.5.7+dfsg-1 [283 kB]
 95s Get:6 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 gcc-14-base arm64 14.2.0-22ubuntu1 [55.2 kB]
 95s Get:7 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libtirpc-common all 1.3.6+ds-1 [8198 B]
 95s Get:8 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libtirpc3t64 arm64 1.3.6+ds-1 [83.9 kB]
 95s Get:9 http://ftpmaster.internal/ubuntu questing/main arm64 libisl23 arm64 0.27-1 [676 kB]
 95s Get:10 http://ftpmaster.internal/ubuntu questing/main arm64 libmpc3 arm64 1.3.1-1build2 [56.8 kB]
 95s Get:11 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 cpp-14-aarch64-linux-gnu arm64 14.2.0-22ubuntu1 [10.6 MB]
 96s Get:12 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 cpp-14 arm64 14.2.0-22ubuntu1 [1030 B]
 96s Get:13 http://ftpmaster.internal/ubuntu questing/main arm64 cpp-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [5558 B]
 96s Get:14 http://ftpmaster.internal/ubuntu questing/main arm64 cpp arm64 4:14.2.0-1ubuntu1 [22.4 kB]
 96s Get:15 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libcc1-0 arm64 15.1.0-1ubuntu1 [49.1 kB]
 96s Get:16 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libgomp1 arm64 15.1.0-1ubuntu1 [147 kB]
 96s Get:17 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libitm1 arm64 15.1.0-1ubuntu1 [28.1 kB]
 96s Get:18 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libasan8 arm64 15.1.0-1ubuntu1 [2922 kB]
 96s Get:19 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 liblsan0 arm64 15.1.0-1ubuntu1 [1317 kB]
 96s Get:20 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libtsan2 arm64 15.1.0-1ubuntu1 [2691 kB]
 97s Get:21 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libubsan1 arm64 15.1.0-1ubuntu1 [1176 kB]
 97s Get:22 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libhwasan0 arm64 15.1.0-1ubuntu1 [1639 kB]
 97s Get:23 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libgcc-14-dev arm64 14.2.0-22ubuntu1 [2593 kB]
 97s Get:24 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 gcc-14-aarch64-linux-gnu arm64 14.2.0-22ubuntu1 [20.9 MB]
 97s Get:25 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 gcc-14 arm64 14.2.0-22ubuntu1 [536 kB]
 97s Get:26 http://ftpmaster.internal/ubuntu questing/main arm64 gcc-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [1200 B]
 97s Get:27 http://ftpmaster.internal/ubuntu questing/main arm64 gcc arm64 4:14.2.0-1ubuntu1 [4998 B]
 97s Get:28 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libstdc++-14-dev arm64 14.2.0-22ubuntu1 [2820 kB]
 97s Get:29 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 g++-14-aarch64-linux-gnu arm64 14.2.0-22ubuntu1 [12.1 MB]
 98s Get:30 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 g++-14 arm64 14.2.0-22ubuntu1 [24.0 kB]
 98s Get:31 http://ftpmaster.internal/ubuntu questing/main arm64 g++-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [956 B]
 98s Get:32 http://ftpmaster.internal/ubuntu questing/main arm64 g++ arm64 4:14.2.0-1ubuntu1 [1080 B]
 98s Get:33 http://ftpmaster.internal/ubuntu questing/main arm64 build-essential arm64 12.12ubuntu1 [5082 B]
 98s Get:34 http://ftpmaster.internal/ubuntu questing/main arm64 dctrl-tools arm64 2.24-3build3 [103 kB]
 98s Get:35 http://ftpmaster.internal/ubuntu questing/main arm64 fonts-dejavu-mono all 2.37-8 [502 kB]
 98s Get:36 http://ftpmaster.internal/ubuntu questing/main arm64 fonts-dejavu-core all 2.37-8 [835 kB]
 98s Get:37 http://ftpmaster.internal/ubuntu questing/main arm64 fontconfig-config arm64 2.15.0-2.2ubuntu1 [37.9 kB]
 98s Get:38 http://ftpmaster.internal/ubuntu questing/main arm64 libfontconfig1 arm64 2.15.0-2.2ubuntu1 [144 kB]
 98s Get:39 http://ftpmaster.internal/ubuntu questing/main arm64 fontconfig arm64 2.15.0-2.2ubuntu1 [191 kB]
 98s Get:40 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libgfortran5 arm64 15.1.0-1ubuntu1 [444 kB]
 98s Get:41 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libgfortran-14-dev arm64 14.2.0-22ubuntu1 [498 kB]
 98s Get:42 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 gfortran-14-aarch64-linux-gnu arm64 14.2.0-22ubuntu1 [11.4 MB]
 98s Get:43 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 gfortran-14 arm64 14.2.0-22ubuntu1 [14.4 kB]
 98s Get:44 http://ftpmaster.internal/ubuntu questing/main arm64 gfortran-aarch64-linux-gnu arm64 4:14.2.0-1ubuntu1 [1022 B]
 98s Get:45 http://ftpmaster.internal/ubuntu questing/main arm64 gfortran arm64 4:14.2.0-1ubuntu1 [1166 B]
 98s Get:46 http://ftpmaster.internal/ubuntu questing/main arm64 icu-devtools arm64 76.1-1ubuntu2 [213 kB]
 98s Get:47 http://ftpmaster.internal/ubuntu questing/main arm64 libblas3 arm64 3.12.1-2 [161 kB]
 98s Get:48 http://ftpmaster.internal/ubuntu questing/main arm64 libblas-dev arm64 3.12.1-2 [126 kB]
 98s Get:49 http://ftpmaster.internal/ubuntu questing/main arm64 libbz2-dev arm64 1.0.8-6 [36.1 kB]
 98s Get:50 http://ftpmaster.internal/ubuntu questing/main arm64 libpixman-1-0 arm64 0.44.0-3 [197 kB]
 98s Get:51 http://ftpmaster.internal/ubuntu questing/main arm64 libxcb-render0 arm64 1.17.0-2 [16.6 kB]
 98s Get:52 http://ftpmaster.internal/ubuntu questing/main arm64 libxcb-shm0 arm64 1.17.0-2 [5884 B]
 98s Get:53 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libxrender1 arm64 1:0.9.12-1 [19.5 kB]
 98s Get:54 http://ftpmaster.internal/ubuntu questing/main arm64 libcairo2 arm64 1.18.4-1 [560 kB]
 98s Get:55 http://ftpmaster.internal/ubuntu questing/main arm64 libdatrie1 arm64 0.2.13-3build1 [19.2 kB]
 98s Get:56 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libdeflate0 arm64 1.23-2 [46.4 kB]
 98s Get:57 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libdeflate-dev arm64 1.23-2 [53.6 kB]
 98s Get:58 http://ftpmaster.internal/ubuntu questing/main arm64 libgraphite2-3 arm64 1.3.14-2ubuntu1 [70.6 kB]
 98s Get:59 http://ftpmaster.internal/ubuntu questing/main arm64 libharfbuzz0b arm64 10.2.0-1 [490 kB]
 98s Get:60 http://ftpmaster.internal/ubuntu questing/main arm64 x11-common all 1:7.7+23ubuntu4 [21.8 kB]
 98s Get:61 http://ftpmaster.internal/ubuntu questing/main arm64 libice6 arm64 2:1.1.1-1 [42.3 kB]
 98s Get:62 http://ftpmaster.internal/ubuntu questing/main arm64 libicu-dev arm64 76.1-1ubuntu2 [12.2 MB]
 98s Get:63 http://ftpmaster.internal/ubuntu questing/main arm64 libjpeg-turbo8 arm64 2.1.5-3ubuntu2 [165 kB]
 98s Get:64 http://ftpmaster.internal/ubuntu questing/main arm64 libjpeg-turbo8-dev arm64 2.1.5-3ubuntu2 [306 kB]
 98s Get:65 http://ftpmaster.internal/ubuntu questing/main arm64 libjpeg8 arm64 8c-2ubuntu11 [2148 B]
 98s Get:66 http://ftpmaster.internal/ubuntu questing/main arm64 libjpeg8-dev arm64 8c-2ubuntu11 [1484 B]
 98s Get:67 http://ftpmaster.internal/ubuntu questing/main arm64 libjpeg-dev arm64 8c-2ubuntu11 [1482 B]
 98s Get:68 http://ftpmaster.internal/ubuntu questing/main arm64 liblapack3 arm64 3.12.1-2 [2307 kB]
 98s Get:69 http://ftpmaster.internal/ubuntu questing/main arm64 liblapack-dev arm64 3.12.1-2 [4439 kB]
 98s Get:70 http://ftpmaster.internal/ubuntu questing/main arm64 liblerc4 arm64 4.0.0+ds-5ubuntu1 [167 kB]
 98s Get:71 http://ftpmaster.internal/ubuntu questing/main arm64 libncurses-dev arm64 6.5+20250216-2 [389 kB]
 98s Get:72 http://ftpmaster.internal/ubuntu questing/main arm64 libthai-data all 0.1.29-2build1 [158 kB]
 98s Get:73 http://ftpmaster.internal/ubuntu questing/main arm64 libthai0 arm64 0.1.29-2build1 [18.2 kB]
 98s Get:74 http://ftpmaster.internal/ubuntu questing/main arm64 libpango-1.0-0 arm64 1.56.3-1 [238 kB]
 98s Get:75 http://ftpmaster.internal/ubuntu questing/main arm64 libpangoft2-1.0-0 arm64 1.56.3-1 [49.8 kB]
 98s Get:76 http://ftpmaster.internal/ubuntu questing/main arm64 libpangocairo-1.0-0 arm64 1.56.3-1 [27.6 kB]
 98s Get:77 http://ftpmaster.internal/ubuntu questing/main arm64 libpaper2 arm64 2.2.5-0.3 [17.3 kB]
 98s Get:78 http://ftpmaster.internal/ubuntu questing/main arm64 libpaper-utils arm64 2.2.5-0.3 [15.4 kB]
 98s Get:79 http://ftpmaster.internal/ubuntu questing/main arm64 libpcre2-16-0 arm64 10.45-1 [222 kB]
 98s Get:80 http://ftpmaster.internal/ubuntu questing/main arm64 libpcre2-32-0 arm64 10.45-1 [210 kB]
 98s Get:81 http://ftpmaster.internal/ubuntu questing/main arm64 libpcre2-posix3 arm64 10.45-1 [7084 B]
 98s Get:82 http://ftpmaster.internal/ubuntu questing/main arm64 libpcre2-dev arm64 10.45-1 [768 kB]
 98s Get:83 http://ftpmaster.internal/ubuntu questing/main arm64 libpkgconf3 arm64 1.8.1-4 [31.4 kB]
 98s Get:84 http://ftpmaster.internal/ubuntu questing/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1ubuntu1 [894 kB]
 98s Get:85 http://ftpmaster.internal/ubuntu questing/main arm64 libpng-dev arm64 1.6.47-1.1 [269 kB]
 98s Get:86 http://ftpmaster.internal/ubuntu questing/main arm64 libreadline-dev arm64 8.2-6 [179 kB]
 98s Get:87 http://ftpmaster.internal/ubuntu questing/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [16.9 kB]
 98s Get:88 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libsm6 arm64 2:1.2.6-1 [16.6 kB]
 98s Get:89 http://ftpmaster.internal/ubuntu questing/main arm64 libtcl8.6 arm64 8.6.16+dfsg-1 [987 kB]
 98s Get:90 http://ftpmaster.internal/ubuntu questing/main arm64 libjbig0 arm64 2.1-6.1ubuntu2 [29.3 kB]
 98s Get:91 http://ftpmaster.internal/ubuntu questing/main arm64 libwebp7 arm64 1.5.0-0.1 [194 kB]
 98s Get:92 http://ftpmaster.internal/ubuntu questing/main arm64 libtiff6 arm64 4.7.0-3ubuntu1 [197 kB]
 98s Get:93 http://ftpmaster.internal/ubuntu questing/main arm64 libxft2 arm64 2.3.6-1build1 [44.1 kB]
 98s Get:94 http://ftpmaster.internal/ubuntu questing/main arm64 libxss1 arm64 1:1.2.3-1build3 [7244 B]
 98s Get:95 http://ftpmaster.internal/ubuntu questing/main arm64 libtk8.6 arm64 8.6.16-1 [776 kB]
 98s Get:96 http://ftpmaster.internal/ubuntu questing/main arm64 libxt6t64 arm64 1:1.2.1-1.2build1 [168 kB]
 98s Get:97 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libzstd-dev arm64 1.5.7+dfsg-1 [358 kB]
 98s Get:98 http://ftpmaster.internal/ubuntu questing/main arm64 zip arm64 3.0-14ubuntu2 [173 kB]
 98s Get:99 http://ftpmaster.internal/ubuntu questing/main arm64 unzip arm64 6.0-28ubuntu6 [178 kB]
 98s Get:100 http://ftpmaster.internal/ubuntu questing/main arm64 xdg-utils all 1.2.1-2ubuntu1 [66.0 kB]
 98s Get:101 http://ftpmaster.internal/ubuntu questing-proposed/universe arm64 r-base-core arm64 4.5.0-3 [28.7 MB]
 99s Get:102 http://ftpmaster.internal/ubuntu questing/main arm64 liblzma-dev arm64 5.6.4-1ubuntu1 [180 kB]
 99s Get:103 http://ftpmaster.internal/ubuntu questing/main arm64 pkgconf-bin arm64 1.8.1-4 [20.9 kB]
 99s Get:104 http://ftpmaster.internal/ubuntu questing/main arm64 pkgconf arm64 1.8.1-4 [16.7 kB]
 99s Get:105 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 libtirpc-dev arm64 1.3.6+ds-1 [202 kB]
 99s Get:106 http://ftpmaster.internal/ubuntu questing-proposed/universe arm64 r-base-dev all 4.5.0-3 [4188 B]
 99s Get:107 http://ftpmaster.internal/ubuntu questing/universe arm64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
 99s Get:108 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-biocgenerics all 0.52.0-2 [624 kB]
 99s Get:109 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-s4vectors arm64 0.44.0+dfsg-2 [2054 kB]
 99s Get:110 http://ftpmaster.internal/ubuntu questing-proposed/universe arm64 r-bioc-iranges arm64 2.40.1-3 [2301 kB]
 99s Get:111 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [10.2 kB]
 99s Get:112 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-xvector arm64 0.46.0-2 [618 kB]
 99s Get:113 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-curl arm64 6.2.1+dfsg-1ubuntu1 [196 kB]
 99s Get:114 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-jsonlite arm64 1.9.1+dfsg-1 [445 kB]
 99s Get:115 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-mime arm64 0.12-2 [35.8 kB]
 99s Get:116 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-sys arm64 3.4.3-1 [45.2 kB]
 99s Get:117 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-askpass arm64 1.2.1-1 [24.8 kB]
 99s Get:118 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-openssl arm64 2.3.2+dfsg-1 [406 kB]
 99s Get:119 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-r6 all 2.6.1-1 [101 kB]
 99s Get:120 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-httr all 1.4.7+dfsg-1 [459 kB]
 99s Get:121 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.2 kB]
 99s Get:122 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB]
 99s Get:123 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3887 kB]
100s Get:124 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-crayon all 1.5.3-1 [165 kB]
100s Get:125 http://ftpmaster.internal/ubuntu questing/universe arm64 r-bioc-biostrings arm64 2.74.1+dfsg-2 [13.3 MB]
100s Get:126 http://ftpmaster.internal/ubuntu questing-proposed/universe arm64 r-bioc-pwalign arm64 1.2.0-3 [753 kB]
100s Get:127 http://ftpmaster.internal/ubuntu questing/universe arm64 r-cran-runit all 0.4.33-1 [377 kB]
100s Get:128 http://ftpmaster.internal/ubuntu questing-proposed/main arm64 zstd arm64 1.5.7+dfsg-1 [607 kB]
100s Preconfiguring packages ...
100s Fetched 173 MB in 5s (32.9 MB/s)
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100s Preparing to unpack .../gcc-15-base_15.1.0-1ubuntu1_arm64.deb ...
100s Unpacking gcc-15-base:arm64 (15.1.0-1ubuntu1) over (15-20250404-0ubuntu1) ...
100s Setting up gcc-15-base:arm64 (15.1.0-1ubuntu1) ...
100s (Reading database ... 
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100s Preparing to unpack .../libgcc-s1_15.1.0-1ubuntu1_arm64.deb ...
100s Unpacking libgcc-s1:arm64 (15.1.0-1ubuntu1) over (15-20250404-0ubuntu1) ...
100s Setting up libgcc-s1:arm64 (15.1.0-1ubuntu1) ...
101s (Reading database ... 
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101s Preparing to unpack .../libatomic1_15.1.0-1ubuntu1_arm64.deb ...
101s Unpacking libatomic1:arm64 (15.1.0-1ubuntu1) over (15-20250404-0ubuntu1) ...
101s Preparing to unpack .../libstdc++6_15.1.0-1ubuntu1_arm64.deb ...
101s Unpacking libstdc++6:arm64 (15.1.0-1ubuntu1) over (15-20250404-0ubuntu1) ...
101s Setting up libstdc++6:arm64 (15.1.0-1ubuntu1) ...
101s (Reading database ... 
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101s Preparing to unpack .../libzstd1_1.5.7+dfsg-1_arm64.deb ...
101s Unpacking libzstd1:arm64 (1.5.7+dfsg-1) over (1.5.6+dfsg-2) ...
101s Setting up libzstd1:arm64 (1.5.7+dfsg-1) ...
101s (Reading database ... 
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101s Preparing to unpack .../000-gcc-14-base_14.2.0-22ubuntu1_arm64.deb ...
101s Unpacking gcc-14-base:arm64 (14.2.0-22ubuntu1) over (14.2.0-19ubuntu2) ...
101s Preparing to unpack .../001-libtirpc-common_1.3.6+ds-1_all.deb ...
101s Unpacking libtirpc-common (1.3.6+ds-1) over (1.3.4+ds-1.3) ...
101s Preparing to unpack .../002-libtirpc3t64_1.3.6+ds-1_arm64.deb ...
101s Unpacking libtirpc3t64:arm64 (1.3.6+ds-1) over (1.3.4+ds-1.3) ...
101s Selecting previously unselected package libisl23:arm64.
101s Preparing to unpack .../003-libisl23_0.27-1_arm64.deb ...
101s Unpacking libisl23:arm64 (0.27-1) ...
101s Selecting previously unselected package libmpc3:arm64.
101s Preparing to unpack .../004-libmpc3_1.3.1-1build2_arm64.deb ...
101s Unpacking libmpc3:arm64 (1.3.1-1build2) ...
101s Selecting previously unselected package cpp-14-aarch64-linux-gnu.
101s Preparing to unpack .../005-cpp-14-aarch64-linux-gnu_14.2.0-22ubuntu1_arm64.deb ...
101s Unpacking cpp-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
101s Selecting previously unselected package cpp-14.
101s Preparing to unpack .../006-cpp-14_14.2.0-22ubuntu1_arm64.deb ...
101s Unpacking cpp-14 (14.2.0-22ubuntu1) ...
101s Selecting previously unselected package cpp-aarch64-linux-gnu.
101s Preparing to unpack .../007-cpp-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ...
101s Unpacking cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
101s Selecting previously unselected package cpp.
101s Preparing to unpack .../008-cpp_4%3a14.2.0-1ubuntu1_arm64.deb ...
101s Unpacking cpp (4:14.2.0-1ubuntu1) ...
101s Selecting previously unselected package libcc1-0:arm64.
101s Preparing to unpack .../009-libcc1-0_15.1.0-1ubuntu1_arm64.deb ...
101s Unpacking libcc1-0:arm64 (15.1.0-1ubuntu1) ...
101s Selecting previously unselected package libgomp1:arm64.
101s Preparing to unpack .../010-libgomp1_15.1.0-1ubuntu1_arm64.deb ...
101s Unpacking libgomp1:arm64 (15.1.0-1ubuntu1) ...
101s Selecting previously unselected package libitm1:arm64.
101s Preparing to unpack .../011-libitm1_15.1.0-1ubuntu1_arm64.deb ...
101s Unpacking libitm1:arm64 (15.1.0-1ubuntu1) ...
101s Selecting previously unselected package libasan8:arm64.
101s Preparing to unpack .../012-libasan8_15.1.0-1ubuntu1_arm64.deb ...
101s Unpacking libasan8:arm64 (15.1.0-1ubuntu1) ...
101s Selecting previously unselected package liblsan0:arm64.
101s Preparing to unpack .../013-liblsan0_15.1.0-1ubuntu1_arm64.deb ...
101s Unpacking liblsan0:arm64 (15.1.0-1ubuntu1) ...
101s Selecting previously unselected package libtsan2:arm64.
102s Preparing to unpack .../014-libtsan2_15.1.0-1ubuntu1_arm64.deb ...
102s Unpacking libtsan2:arm64 (15.1.0-1ubuntu1) ...
102s Selecting previously unselected package libubsan1:arm64.
102s Preparing to unpack .../015-libubsan1_15.1.0-1ubuntu1_arm64.deb ...
102s Unpacking libubsan1:arm64 (15.1.0-1ubuntu1) ...
102s Selecting previously unselected package libhwasan0:arm64.
102s Preparing to unpack .../016-libhwasan0_15.1.0-1ubuntu1_arm64.deb ...
102s Unpacking libhwasan0:arm64 (15.1.0-1ubuntu1) ...
102s Selecting previously unselected package libgcc-14-dev:arm64.
102s Preparing to unpack .../017-libgcc-14-dev_14.2.0-22ubuntu1_arm64.deb ...
102s Unpacking libgcc-14-dev:arm64 (14.2.0-22ubuntu1) ...
102s Selecting previously unselected package gcc-14-aarch64-linux-gnu.
102s Preparing to unpack .../018-gcc-14-aarch64-linux-gnu_14.2.0-22ubuntu1_arm64.deb ...
102s Unpacking gcc-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
102s Selecting previously unselected package gcc-14.
102s Preparing to unpack .../019-gcc-14_14.2.0-22ubuntu1_arm64.deb ...
102s Unpacking gcc-14 (14.2.0-22ubuntu1) ...
102s Selecting previously unselected package gcc-aarch64-linux-gnu.
102s Preparing to unpack .../020-gcc-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ...
102s Unpacking gcc-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
102s Selecting previously unselected package gcc.
102s Preparing to unpack .../021-gcc_4%3a14.2.0-1ubuntu1_arm64.deb ...
102s Unpacking gcc (4:14.2.0-1ubuntu1) ...
102s Selecting previously unselected package libstdc++-14-dev:arm64.
102s Preparing to unpack .../022-libstdc++-14-dev_14.2.0-22ubuntu1_arm64.deb ...
102s Unpacking libstdc++-14-dev:arm64 (14.2.0-22ubuntu1) ...
102s Selecting previously unselected package g++-14-aarch64-linux-gnu.
102s Preparing to unpack .../023-g++-14-aarch64-linux-gnu_14.2.0-22ubuntu1_arm64.deb ...
102s Unpacking g++-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
103s Selecting previously unselected package g++-14.
103s Preparing to unpack .../024-g++-14_14.2.0-22ubuntu1_arm64.deb ...
103s Unpacking g++-14 (14.2.0-22ubuntu1) ...
103s Selecting previously unselected package g++-aarch64-linux-gnu.
103s Preparing to unpack .../025-g++-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ...
103s Unpacking g++-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
103s Selecting previously unselected package g++.
103s Preparing to unpack .../026-g++_4%3a14.2.0-1ubuntu1_arm64.deb ...
103s Unpacking g++ (4:14.2.0-1ubuntu1) ...
103s Selecting previously unselected package build-essential.
103s Preparing to unpack .../027-build-essential_12.12ubuntu1_arm64.deb ...
103s Unpacking build-essential (12.12ubuntu1) ...
103s Selecting previously unselected package dctrl-tools.
103s Preparing to unpack .../028-dctrl-tools_2.24-3build3_arm64.deb ...
103s Unpacking dctrl-tools (2.24-3build3) ...
103s Selecting previously unselected package fonts-dejavu-mono.
103s Preparing to unpack .../029-fonts-dejavu-mono_2.37-8_all.deb ...
103s Unpacking fonts-dejavu-mono (2.37-8) ...
103s Selecting previously unselected package fonts-dejavu-core.
103s Preparing to unpack .../030-fonts-dejavu-core_2.37-8_all.deb ...
103s Unpacking fonts-dejavu-core (2.37-8) ...
103s Selecting previously unselected package fontconfig-config.
103s Preparing to unpack .../031-fontconfig-config_2.15.0-2.2ubuntu1_arm64.deb ...
103s Unpacking fontconfig-config (2.15.0-2.2ubuntu1) ...
103s Selecting previously unselected package libfontconfig1:arm64.
103s Preparing to unpack .../032-libfontconfig1_2.15.0-2.2ubuntu1_arm64.deb ...
103s Unpacking libfontconfig1:arm64 (2.15.0-2.2ubuntu1) ...
103s Selecting previously unselected package fontconfig.
103s Preparing to unpack .../033-fontconfig_2.15.0-2.2ubuntu1_arm64.deb ...
103s Unpacking fontconfig (2.15.0-2.2ubuntu1) ...
103s Selecting previously unselected package libgfortran5:arm64.
103s Preparing to unpack .../034-libgfortran5_15.1.0-1ubuntu1_arm64.deb ...
103s Unpacking libgfortran5:arm64 (15.1.0-1ubuntu1) ...
103s Selecting previously unselected package libgfortran-14-dev:arm64.
103s Preparing to unpack .../035-libgfortran-14-dev_14.2.0-22ubuntu1_arm64.deb ...
103s Unpacking libgfortran-14-dev:arm64 (14.2.0-22ubuntu1) ...
103s Selecting previously unselected package gfortran-14-aarch64-linux-gnu.
103s Preparing to unpack .../036-gfortran-14-aarch64-linux-gnu_14.2.0-22ubuntu1_arm64.deb ...
103s Unpacking gfortran-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
104s Selecting previously unselected package gfortran-14.
104s Preparing to unpack .../037-gfortran-14_14.2.0-22ubuntu1_arm64.deb ...
104s Unpacking gfortran-14 (14.2.0-22ubuntu1) ...
104s Selecting previously unselected package gfortran-aarch64-linux-gnu.
104s Preparing to unpack .../038-gfortran-aarch64-linux-gnu_4%3a14.2.0-1ubuntu1_arm64.deb ...
104s Unpacking gfortran-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
104s Selecting previously unselected package gfortran.
104s Preparing to unpack .../039-gfortran_4%3a14.2.0-1ubuntu1_arm64.deb ...
104s Unpacking gfortran (4:14.2.0-1ubuntu1) ...
104s Selecting previously unselected package icu-devtools.
104s Preparing to unpack .../040-icu-devtools_76.1-1ubuntu2_arm64.deb ...
104s Unpacking icu-devtools (76.1-1ubuntu2) ...
104s Selecting previously unselected package libblas3:arm64.
104s Preparing to unpack .../041-libblas3_3.12.1-2_arm64.deb ...
104s Unpacking libblas3:arm64 (3.12.1-2) ...
104s Selecting previously unselected package libblas-dev:arm64.
104s Preparing to unpack .../042-libblas-dev_3.12.1-2_arm64.deb ...
104s Unpacking libblas-dev:arm64 (3.12.1-2) ...
104s Selecting previously unselected package libbz2-dev:arm64.
104s Preparing to unpack .../043-libbz2-dev_1.0.8-6_arm64.deb ...
104s Unpacking libbz2-dev:arm64 (1.0.8-6) ...
104s Selecting previously unselected package libpixman-1-0:arm64.
104s Preparing to unpack .../044-libpixman-1-0_0.44.0-3_arm64.deb ...
104s Unpacking libpixman-1-0:arm64 (0.44.0-3) ...
104s Selecting previously unselected package libxcb-render0:arm64.
104s Preparing to unpack .../045-libxcb-render0_1.17.0-2_arm64.deb ...
104s Unpacking libxcb-render0:arm64 (1.17.0-2) ...
104s Selecting previously unselected package libxcb-shm0:arm64.
104s Preparing to unpack .../046-libxcb-shm0_1.17.0-2_arm64.deb ...
104s Unpacking libxcb-shm0:arm64 (1.17.0-2) ...
104s Selecting previously unselected package libxrender1:arm64.
104s Preparing to unpack .../047-libxrender1_1%3a0.9.12-1_arm64.deb ...
104s Unpacking libxrender1:arm64 (1:0.9.12-1) ...
104s Selecting previously unselected package libcairo2:arm64.
104s Preparing to unpack .../048-libcairo2_1.18.4-1_arm64.deb ...
104s Unpacking libcairo2:arm64 (1.18.4-1) ...
104s Selecting previously unselected package libdatrie1:arm64.
104s Preparing to unpack .../049-libdatrie1_0.2.13-3build1_arm64.deb ...
104s Unpacking libdatrie1:arm64 (0.2.13-3build1) ...
104s Selecting previously unselected package libdeflate0:arm64.
104s Preparing to unpack .../050-libdeflate0_1.23-2_arm64.deb ...
104s Unpacking libdeflate0:arm64 (1.23-2) ...
104s Selecting previously unselected package libdeflate-dev:arm64.
104s Preparing to unpack .../051-libdeflate-dev_1.23-2_arm64.deb ...
104s Unpacking libdeflate-dev:arm64 (1.23-2) ...
104s Selecting previously unselected package libgraphite2-3:arm64.
104s Preparing to unpack .../052-libgraphite2-3_1.3.14-2ubuntu1_arm64.deb ...
104s Unpacking libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
104s Selecting previously unselected package libharfbuzz0b:arm64.
104s Preparing to unpack .../053-libharfbuzz0b_10.2.0-1_arm64.deb ...
104s Unpacking libharfbuzz0b:arm64 (10.2.0-1) ...
104s Selecting previously unselected package x11-common.
104s Preparing to unpack .../054-x11-common_1%3a7.7+23ubuntu4_all.deb ...
104s Unpacking x11-common (1:7.7+23ubuntu4) ...
104s Selecting previously unselected package libice6:arm64.
104s Preparing to unpack .../055-libice6_2%3a1.1.1-1_arm64.deb ...
104s Unpacking libice6:arm64 (2:1.1.1-1) ...
104s Selecting previously unselected package libicu-dev:arm64.
104s Preparing to unpack .../056-libicu-dev_76.1-1ubuntu2_arm64.deb ...
104s Unpacking libicu-dev:arm64 (76.1-1ubuntu2) ...
105s Selecting previously unselected package libjpeg-turbo8:arm64.
105s Preparing to unpack .../057-libjpeg-turbo8_2.1.5-3ubuntu2_arm64.deb ...
105s Unpacking libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ...
105s Selecting previously unselected package libjpeg-turbo8-dev:arm64.
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105s Selecting previously unselected package libjpeg8:arm64.
105s Preparing to unpack .../059-libjpeg8_8c-2ubuntu11_arm64.deb ...
105s Unpacking libjpeg8:arm64 (8c-2ubuntu11) ...
105s Selecting previously unselected package libjpeg8-dev:arm64.
105s Preparing to unpack .../060-libjpeg8-dev_8c-2ubuntu11_arm64.deb ...
105s Unpacking libjpeg8-dev:arm64 (8c-2ubuntu11) ...
105s Selecting previously unselected package libjpeg-dev:arm64.
105s Preparing to unpack .../061-libjpeg-dev_8c-2ubuntu11_arm64.deb ...
105s Unpacking libjpeg-dev:arm64 (8c-2ubuntu11) ...
105s Selecting previously unselected package liblapack3:arm64.
105s Preparing to unpack .../062-liblapack3_3.12.1-2_arm64.deb ...
105s Unpacking liblapack3:arm64 (3.12.1-2) ...
105s Selecting previously unselected package liblapack-dev:arm64.
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105s Unpacking liblapack-dev:arm64 (3.12.1-2) ...
105s Selecting previously unselected package liblerc4:arm64.
105s Preparing to unpack .../064-liblerc4_4.0.0+ds-5ubuntu1_arm64.deb ...
105s Unpacking liblerc4:arm64 (4.0.0+ds-5ubuntu1) ...
105s Selecting previously unselected package libncurses-dev:arm64.
105s Preparing to unpack .../065-libncurses-dev_6.5+20250216-2_arm64.deb ...
105s Unpacking libncurses-dev:arm64 (6.5+20250216-2) ...
105s Selecting previously unselected package libthai-data.
105s Preparing to unpack .../066-libthai-data_0.1.29-2build1_all.deb ...
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105s Selecting previously unselected package libthai0:arm64.
105s Preparing to unpack .../067-libthai0_0.1.29-2build1_arm64.deb ...
105s Unpacking libthai0:arm64 (0.1.29-2build1) ...
105s Selecting previously unselected package libpango-1.0-0:arm64.
105s Preparing to unpack .../068-libpango-1.0-0_1.56.3-1_arm64.deb ...
105s Unpacking libpango-1.0-0:arm64 (1.56.3-1) ...
105s Selecting previously unselected package libpangoft2-1.0-0:arm64.
105s Preparing to unpack .../069-libpangoft2-1.0-0_1.56.3-1_arm64.deb ...
105s Unpacking libpangoft2-1.0-0:arm64 (1.56.3-1) ...
105s Selecting previously unselected package libpangocairo-1.0-0:arm64.
105s Preparing to unpack .../070-libpangocairo-1.0-0_1.56.3-1_arm64.deb ...
105s Unpacking libpangocairo-1.0-0:arm64 (1.56.3-1) ...
105s Selecting previously unselected package libpaper2:arm64.
105s Preparing to unpack .../071-libpaper2_2.2.5-0.3_arm64.deb ...
105s Unpacking libpaper2:arm64 (2.2.5-0.3) ...
105s Selecting previously unselected package libpaper-utils.
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105s Unpacking libpaper-utils (2.2.5-0.3) ...
105s Selecting previously unselected package libpcre2-16-0:arm64.
105s Preparing to unpack .../073-libpcre2-16-0_10.45-1_arm64.deb ...
105s Unpacking libpcre2-16-0:arm64 (10.45-1) ...
105s Selecting previously unselected package libpcre2-32-0:arm64.
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105s Unpacking libpcre2-32-0:arm64 (10.45-1) ...
105s Selecting previously unselected package libpcre2-posix3:arm64.
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105s Unpacking libpcre2-posix3:arm64 (10.45-1) ...
105s Selecting previously unselected package libpcre2-dev:arm64.
105s Preparing to unpack .../076-libpcre2-dev_10.45-1_arm64.deb ...
105s Unpacking libpcre2-dev:arm64 (10.45-1) ...
105s Selecting previously unselected package libpkgconf3:arm64.
105s Preparing to unpack .../077-libpkgconf3_1.8.1-4_arm64.deb ...
105s Unpacking libpkgconf3:arm64 (1.8.1-4) ...
105s Selecting previously unselected package zlib1g-dev:arm64.
105s Preparing to unpack .../078-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1ubuntu1_arm64.deb ...
105s Unpacking zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ...
105s Selecting previously unselected package libpng-dev:arm64.
105s Preparing to unpack .../079-libpng-dev_1.6.47-1.1_arm64.deb ...
105s Unpacking libpng-dev:arm64 (1.6.47-1.1) ...
106s Selecting previously unselected package libreadline-dev:arm64.
106s Preparing to unpack .../080-libreadline-dev_8.2-6_arm64.deb ...
106s Unpacking libreadline-dev:arm64 (8.2-6) ...
106s Selecting previously unselected package libsharpyuv0:arm64.
106s Preparing to unpack .../081-libsharpyuv0_1.5.0-0.1_arm64.deb ...
106s Unpacking libsharpyuv0:arm64 (1.5.0-0.1) ...
106s Selecting previously unselected package libsm6:arm64.
106s Preparing to unpack .../082-libsm6_2%3a1.2.6-1_arm64.deb ...
106s Unpacking libsm6:arm64 (2:1.2.6-1) ...
106s Selecting previously unselected package libtcl8.6:arm64.
106s Preparing to unpack .../083-libtcl8.6_8.6.16+dfsg-1_arm64.deb ...
106s Unpacking libtcl8.6:arm64 (8.6.16+dfsg-1) ...
106s Selecting previously unselected package libjbig0:arm64.
106s Preparing to unpack .../084-libjbig0_2.1-6.1ubuntu2_arm64.deb ...
106s Unpacking libjbig0:arm64 (2.1-6.1ubuntu2) ...
106s Selecting previously unselected package libwebp7:arm64.
106s Preparing to unpack .../085-libwebp7_1.5.0-0.1_arm64.deb ...
106s Unpacking libwebp7:arm64 (1.5.0-0.1) ...
106s Selecting previously unselected package libtiff6:arm64.
106s Preparing to unpack .../086-libtiff6_4.7.0-3ubuntu1_arm64.deb ...
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106s Selecting previously unselected package libxft2:arm64.
106s Preparing to unpack .../087-libxft2_2.3.6-1build1_arm64.deb ...
106s Unpacking libxft2:arm64 (2.3.6-1build1) ...
106s Selecting previously unselected package libxss1:arm64.
106s Preparing to unpack .../088-libxss1_1%3a1.2.3-1build3_arm64.deb ...
106s Unpacking libxss1:arm64 (1:1.2.3-1build3) ...
106s Selecting previously unselected package libtk8.6:arm64.
106s Preparing to unpack .../089-libtk8.6_8.6.16-1_arm64.deb ...
106s Unpacking libtk8.6:arm64 (8.6.16-1) ...
106s Selecting previously unselected package libxt6t64:arm64.
106s Preparing to unpack .../090-libxt6t64_1%3a1.2.1-1.2build1_arm64.deb ...
106s Unpacking libxt6t64:arm64 (1:1.2.1-1.2build1) ...
106s Selecting previously unselected package libzstd-dev:arm64.
106s Preparing to unpack .../091-libzstd-dev_1.5.7+dfsg-1_arm64.deb ...
106s Unpacking libzstd-dev:arm64 (1.5.7+dfsg-1) ...
106s Selecting previously unselected package zip.
106s Preparing to unpack .../092-zip_3.0-14ubuntu2_arm64.deb ...
106s Unpacking zip (3.0-14ubuntu2) ...
106s Selecting previously unselected package unzip.
106s Preparing to unpack .../093-unzip_6.0-28ubuntu6_arm64.deb ...
106s Unpacking unzip (6.0-28ubuntu6) ...
106s Selecting previously unselected package xdg-utils.
106s Preparing to unpack .../094-xdg-utils_1.2.1-2ubuntu1_all.deb ...
106s Unpacking xdg-utils (1.2.1-2ubuntu1) ...
106s Selecting previously unselected package r-base-core.
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106s Unpacking r-base-core (4.5.0-3) ...
106s Selecting previously unselected package liblzma-dev:arm64.
106s Preparing to unpack .../096-liblzma-dev_5.6.4-1ubuntu1_arm64.deb ...
106s Unpacking liblzma-dev:arm64 (5.6.4-1ubuntu1) ...
106s Selecting previously unselected package pkgconf-bin.
106s Preparing to unpack .../097-pkgconf-bin_1.8.1-4_arm64.deb ...
106s Unpacking pkgconf-bin (1.8.1-4) ...
106s Selecting previously unselected package pkgconf:arm64.
106s Preparing to unpack .../098-pkgconf_1.8.1-4_arm64.deb ...
106s Unpacking pkgconf:arm64 (1.8.1-4) ...
106s Selecting previously unselected package libtirpc-dev:arm64.
106s Preparing to unpack .../099-libtirpc-dev_1.3.6+ds-1_arm64.deb ...
106s Unpacking libtirpc-dev:arm64 (1.3.6+ds-1) ...
106s Selecting previously unselected package r-base-dev.
107s Preparing to unpack .../100-r-base-dev_4.5.0-3_all.deb ...
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107s Selecting previously unselected package pkg-r-autopkgtest.
107s Preparing to unpack .../101-pkg-r-autopkgtest_20231212ubuntu1_all.deb ...
107s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ...
107s Selecting previously unselected package r-bioc-biocgenerics.
107s Preparing to unpack .../102-r-bioc-biocgenerics_0.52.0-2_all.deb ...
107s Unpacking r-bioc-biocgenerics (0.52.0-2) ...
107s Selecting previously unselected package r-bioc-s4vectors.
107s Preparing to unpack .../103-r-bioc-s4vectors_0.44.0+dfsg-2_arm64.deb ...
107s Unpacking r-bioc-s4vectors (0.44.0+dfsg-2) ...
107s Selecting previously unselected package r-bioc-iranges.
107s Preparing to unpack .../104-r-bioc-iranges_2.40.1-3_arm64.deb ...
107s Unpacking r-bioc-iranges (2.40.1-3) ...
107s Selecting previously unselected package r-bioc-zlibbioc.
107s Preparing to unpack .../105-r-bioc-zlibbioc_1.52.0+dfsg-2_all.deb ...
107s Unpacking r-bioc-zlibbioc (1.52.0+dfsg-2) ...
107s Selecting previously unselected package r-bioc-xvector.
107s Preparing to unpack .../106-r-bioc-xvector_0.46.0-2_arm64.deb ...
107s Unpacking r-bioc-xvector (0.46.0-2) ...
107s Selecting previously unselected package r-cran-curl.
107s Preparing to unpack .../107-r-cran-curl_6.2.1+dfsg-1ubuntu1_arm64.deb ...
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107s Selecting previously unselected package r-cran-jsonlite.
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107s Unpacking r-cran-jsonlite (1.9.1+dfsg-1) ...
107s Selecting previously unselected package r-cran-mime.
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107s Unpacking r-cran-mime (0.12-2) ...
107s Selecting previously unselected package r-cran-sys.
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107s Selecting previously unselected package r-cran-askpass.
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107s Selecting previously unselected package r-cran-openssl.
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107s Unpacking r-cran-openssl (2.3.2+dfsg-1) ...
107s Selecting previously unselected package r-cran-r6.
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107s Selecting previously unselected package r-bioc-ucsc.utils.
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107s Selecting previously unselected package r-bioc-genomeinfodbdata.
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107s Selecting previously unselected package r-cran-crayon.
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107s Selecting previously unselected package r-bioc-biostrings.
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107s Unpacking zstd (1.5.7+dfsg-1) over (1.5.6+dfsg-2) ...
107s Setting up libgraphite2-3:arm64 (1.3.14-2ubuntu1) ...
107s Setting up libpixman-1-0:arm64 (0.44.0-3) ...
107s Setting up libsharpyuv0:arm64 (1.5.0-0.1) ...
107s Setting up libncurses-dev:arm64 (6.5+20250216-2) ...
107s Setting up liblerc4:arm64 (4.0.0+ds-5ubuntu1) ...
107s Setting up libzstd-dev:arm64 (1.5.7+dfsg-1) ...
107s Setting up libxrender1:arm64 (1:0.9.12-1) ...
107s Setting up libdatrie1:arm64 (0.2.13-3build1) ...
107s Setting up gcc-14-base:arm64 (14.2.0-22ubuntu1) ...
107s Setting up libxcb-render0:arm64 (1.17.0-2) ...
107s Setting up libtirpc-common (1.3.6+ds-1) ...
107s Setting up unzip (6.0-28ubuntu6) ...
107s Setting up x11-common (1:7.7+23ubuntu4) ...
108s Setting up libdeflate0:arm64 (1.23-2) ...
108s Setting up libxcb-shm0:arm64 (1.17.0-2) ...
108s Setting up libreadline-dev:arm64 (8.2-6) ...
108s Setting up libgomp1:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libjbig0:arm64 (2.1-6.1ubuntu2) ...
108s Setting up libpcre2-16-0:arm64 (10.45-1) ...
108s Setting up zip (3.0-14ubuntu2) ...
108s Setting up libpcre2-32-0:arm64 (10.45-1) ...
108s Setting up libblas3:arm64 (3.12.1-2) ...
108s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode
108s Setting up libpkgconf3:arm64 (1.8.1-4) ...
108s Setting up fonts-dejavu-mono (2.37-8) ...
108s Setting up libmpc3:arm64 (1.3.1-1build2) ...
108s Setting up libatomic1:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libtcl8.6:arm64 (8.6.16+dfsg-1) ...
108s Setting up icu-devtools (76.1-1ubuntu2) ...
108s Setting up fonts-dejavu-core (2.37-8) ...
108s Setting up pkgconf-bin (1.8.1-4) ...
108s Setting up libjpeg-turbo8:arm64 (2.1.5-3ubuntu2) ...
108s Setting up libgfortran5:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libwebp7:arm64 (1.5.0-0.1) ...
108s Setting up liblzma-dev:arm64 (5.6.4-1ubuntu1) ...
108s Setting up libubsan1:arm64 (15.1.0-1ubuntu1) ...
108s Setting up zlib1g-dev:arm64 (1:1.3.dfsg+really1.3.1-1ubuntu1) ...
108s Setting up libpcre2-posix3:arm64 (10.45-1) ...
108s Setting up libhwasan0:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libasan8:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libharfbuzz0b:arm64 (10.2.0-1) ...
108s Setting up libthai-data (0.1.29-2build1) ...
108s Setting up libxss1:arm64 (1:1.2.3-1build3) ...
108s Setting up libpaper2:arm64 (2.2.5-0.3) ...
108s Setting up libtsan2:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libisl23:arm64 (0.27-1) ...
108s Setting up libdeflate-dev:arm64 (1.23-2) ...
108s Setting up libicu-dev:arm64 (76.1-1ubuntu2) ...
108s Setting up xdg-utils (1.2.1-2ubuntu1) ...
108s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
108s Setting up zstd (1.5.7+dfsg-1) ...
108s Setting up libcc1-0:arm64 (15.1.0-1ubuntu1) ...
108s Setting up liblsan0:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libblas-dev:arm64 (3.12.1-2) ...
108s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode
108s Setting up dctrl-tools (2.24-3build3) ...
108s Setting up libitm1:arm64 (15.1.0-1ubuntu1) ...
108s Setting up libbz2-dev:arm64 (1.0.8-6) ...
108s Setting up libjpeg8:arm64 (8c-2ubuntu11) ...
108s Setting up libice6:arm64 (2:1.1.1-1) ...
108s Setting up libjpeg-turbo8-dev:arm64 (2.1.5-3ubuntu2) ...
108s Setting up liblapack3:arm64 (3.12.1-2) ...
108s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode
108s Setting up libpcre2-dev:arm64 (10.45-1) ...
108s Setting up libtirpc3t64:arm64 (1.3.6+ds-1) ...
108s Setting up fontconfig-config (2.15.0-2.2ubuntu1) ...
108s Setting up libpng-dev:arm64 (1.6.47-1.1) ...
108s Setting up libpaper-utils (2.2.5-0.3) ...
108s Setting up pkgconf:arm64 (1.8.1-4) ...
108s Setting up libthai0:arm64 (0.1.29-2build1) ...
108s Setting up libtirpc-dev:arm64 (1.3.6+ds-1) ...
108s Setting up liblapack-dev:arm64 (3.12.1-2) ...
108s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode
108s Setting up cpp-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
108s Setting up libtiff6:arm64 (4.7.0-3ubuntu1) ...
108s Setting up libfontconfig1:arm64 (2.15.0-2.2ubuntu1) ...
108s Setting up libgcc-14-dev:arm64 (14.2.0-22ubuntu1) ...
108s Setting up libjpeg8-dev:arm64 (8c-2ubuntu11) ...
108s Setting up libstdc++-14-dev:arm64 (14.2.0-22ubuntu1) ...
108s Setting up libsm6:arm64 (2:1.2.6-1) ...
108s Setting up libgfortran-14-dev:arm64 (14.2.0-22ubuntu1) ...
108s Setting up fontconfig (2.15.0-2.2ubuntu1) ...
110s Regenerating fonts cache... done.
110s Setting up libxft2:arm64 (2.3.6-1build1) ...
110s Setting up libtk8.6:arm64 (8.6.16-1) ...
110s Setting up libpango-1.0-0:arm64 (1.56.3-1) ...
110s Setting up libjpeg-dev:arm64 (8c-2ubuntu11) ...
110s Setting up libcairo2:arm64 (1.18.4-1) ...
110s Setting up cpp-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
110s Setting up libxt6t64:arm64 (1:1.2.1-1.2build1) ...
110s Setting up cpp-14 (14.2.0-22ubuntu1) ...
110s Setting up cpp (4:14.2.0-1ubuntu1) ...
110s Setting up gcc-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
110s Setting up libpangoft2-1.0-0:arm64 (1.56.3-1) ...
110s Setting up libpangocairo-1.0-0:arm64 (1.56.3-1) ...
110s Setting up gcc-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
110s Setting up g++-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
110s Setting up gcc-14 (14.2.0-22ubuntu1) ...
110s Setting up r-base-core (4.5.0-3) ...
110s Creating config file /etc/R/Renviron with new version
110s Setting up r-cran-crayon (1.5.3-1) ...
110s Setting up gfortran-14-aarch64-linux-gnu (14.2.0-22ubuntu1) ...
110s Setting up g++-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
110s Setting up gfortran-aarch64-linux-gnu (4:14.2.0-1ubuntu1) ...
110s Setting up g++-14 (14.2.0-22ubuntu1) ...
110s Setting up r-cran-r6 (2.6.1-1) ...
110s Setting up gfortran-14 (14.2.0-22ubuntu1) ...
110s Setting up r-bioc-genomeinfodbdata (1.2.13-2) ...
110s Setting up r-cran-curl (6.2.1+dfsg-1ubuntu1) ...
110s Setting up r-bioc-biocgenerics (0.52.0-2) ...
110s Setting up r-cran-sys (3.4.3-1) ...
110s Setting up r-cran-mime (0.12-2) ...
110s Setting up gcc (4:14.2.0-1ubuntu1) ...
110s Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ...
110s Setting up r-cran-askpass (1.2.1-1) ...
110s Setting up r-cran-jsonlite (1.9.1+dfsg-1) ...
110s Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ...
110s Setting up r-cran-runit (0.4.33-1) ...
110s Setting up g++ (4:14.2.0-1ubuntu1) ...
110s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
110s Setting up build-essential (12.12ubuntu1) ...
110s Setting up r-bioc-iranges (2.40.1-3) ...
110s Setting up r-cran-openssl (2.3.2+dfsg-1) ...
110s Setting up gfortran (4:14.2.0-1ubuntu1) ...
110s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
110s 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
110s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
110s 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
110s Setting up r-cran-httr (1.4.7+dfsg-1) ...
110s Setting up r-bioc-xvector (0.46.0-2) ...
110s Setting up r-base-dev (4.5.0-3) ...
110s Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ...
110s Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ...
110s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
110s Setting up r-bioc-biostrings (2.74.1+dfsg-2) ...
110s Setting up r-bioc-pwalign (1.2.0-3) ...
110s Processing triggers for man-db (2.13.0-1) ...
112s Processing triggers for install-info (7.1.1-1) ...
112s Processing triggers for libc-bin (2.41-6ubuntu1) ...
112s autopkgtest [14:48:39]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
112s autopkgtest [14:48:39]: test pkg-r-autopkgtest: [-----------------------
113s Test: Try to load the R library pwalign
113s 
113s R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
113s Copyright (C) 2025 The R Foundation for Statistical Computing
113s Platform: aarch64-unknown-linux-gnu
113s 
113s R is free software and comes with ABSOLUTELY NO WARRANTY.
113s You are welcome to redistribute it under certain conditions.
113s Type 'license()' or 'licence()' for distribution details.
113s 
113s R is a collaborative project with many contributors.
113s Type 'contributors()' for more information and
113s 'citation()' on how to cite R or R packages in publications.
113s 
113s Type 'demo()' for some demos, 'help()' for on-line help, or
113s 'help.start()' for an HTML browser interface to help.
113s Type 'q()' to quit R.
113s 
113s > library('pwalign')
113s Loading required package: BiocGenerics
113s 
113s Attaching package: ‘BiocGenerics’
113s 
113s The following objects are masked from ‘package:stats’:
113s 
113s     IQR, mad, sd, var, xtabs
113s 
113s The following objects are masked from ‘package:base’:
113s 
113s     anyDuplicated, aperm, append, as.data.frame, basename, cbind,
113s     colnames, dirname, do.call, duplicated, eval, evalq, Filter, Find,
113s     get, grep, grepl, intersect, is.unsorted, lapply, Map, mapply,
113s     match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
113s     Position, rank, rbind, Reduce, rownames, sapply, saveRDS, setdiff,
113s     table, tapply, union, unique, unsplit, which.max, which.min
113s 
113s Loading required package: S4Vectors
113s Loading required package: stats4
114s 
114s Attaching package: ‘S4Vectors’
114s 
114s The following object is masked from ‘package:utils’:
114s 
114s     findMatches
114s 
114s The following objects are masked from ‘package:base’:
114s 
114s     expand.grid, I, unname
114s 
114s Loading required package: IRanges
114s Loading required package: Biostrings
114s Loading required package: XVector
114s Loading required package: GenomeInfoDb
115s 
115s Attaching package: ‘Biostrings’
115s 
115s The following object is masked from ‘package:base’:
115s 
115s     strsplit
115s 
115s 
115s Attaching package: ‘pwalign’
115s 
115s > 
115s The following objects are masked from ‘package:Biostrings’:
115s 
115s     aligned, alignedPattern, alignedSubject, compareStrings, deletion,
115s     errorSubstitutionMatrices, indel, insertion, mismatchSummary,
115s     mismatchTable, nedit, nindel, nucleotideSubstitutionMatrix,
115s     pairwiseAlignment, PairwiseAlignments,
115s     PairwiseAlignmentsSingleSubject, pid, qualitySubstitutionMatrices,
115s     stringDist, unaligned, writePairwiseAlignments
115s 
115s Other tests are currently unsupported!
115s They will be progressively added.
116s autopkgtest [14:48:43]: test pkg-r-autopkgtest: -----------------------]
116s pkg-r-autopkgtest    PASS
116s autopkgtest [14:48:43]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
116s autopkgtest [14:48:43]: @@@@@@@@@@@@@@@@@@@@ summary
116s pkg-r-autopkgtest    PASS
120s nova [W] Using flock in prodstack7-arm64
120s Creating nova instance adt-questing-arm64-r-bioc-pwalign-20250502-143924-juju-7f2275-prod-proposed-migration-environment-23-f09f020e-9549-4a10-a70a-76b12538e445 from image adt/ubuntu-questing-arm64-server-20250502.img (UUID 8e5d326b-32f5-49da-83ce-e406e786e537)...
120s nova [W] Timed out waiting for e5bf59a8-214f-4da8-b418-66ce674ca0dc to get deleted.