0s autopkgtest [15:32:58]: starting date and time: 2024-03-22 15:32:58+0000
  0s autopkgtest [15:32:58]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps
  0s autopkgtest [15:32:58]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.9q590_7g/out --timeout-copy=6000 -a i386 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --setup-commands /home/ubuntu/autopkgtest/setup-commands/setup-testbed --apt-pocket=proposed=src:r-base --apt-upgrade r-cran-genetics --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=r-base/4.3.3-2build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@lcy02-22.secgroup --name adt-noble-i386-r-cran-genetics-20240322-153257-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-amd64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-2 --net-id=net_prod-proposed-migration -e TERM=linux -e ''"'"'http_proxy=http://squid.internal:3128'"'"'' -e ''"'"'https_proxy=http://squid.internal:3128'"'"'' -e ''"'"'no_proxy=127.0.0.1,127.0.1.1,login.ubuntu.com,localhost,localdomain,novalocal,internal,archive.ubuntu.com,ports.ubuntu.com,security.ubuntu.com,ddebs.ubuntu.com,changelogs.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com'"'"'' --mirror=http://ftpmaster.internal/ubuntu/
1077s autopkgtest [15:50:55]: testbed dpkg architecture: amd64
1078s autopkgtest [15:50:56]: testbed apt version: 2.7.12
1078s autopkgtest [15:50:56]: test architecture: i386
1078s autopkgtest [15:50:56]: @@@@@@@@@@@@@@@@@@@@ test bed setup
1078s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
1078s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3807 kB]
1078s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [497 kB]
1078s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [54.0 kB]
1078s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
1078s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 Packages [697 kB]
1078s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main i386 Packages [462 kB]
1078s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 c-n-f Metadata [3508 B]
1078s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted i386 Packages [6700 B]
1078s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 Packages [30.5 kB]
1078s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 c-n-f Metadata [116 B]
1078s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe i386 Packages [1286 kB]
1078s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 Packages [4251 kB]
1078s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 c-n-f Metadata [9396 B]
1078s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 Packages [93.7 kB]
1078s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/multiverse i386 Packages [26.8 kB]
1078s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 c-n-f Metadata [196 B]
1081s Fetched 11.3 MB in 1s (8056 kB/s)
1082s Reading package lists...
1083s Reading package lists...
1083s Building dependency tree...
1083s Reading state information...
1084s Calculating upgrade...
1084s The following packages will be upgraded:
1084s   cloud-init fonts-ubuntu-console python3-markupsafe
1084s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1084s Need to get 629 kB of archives.
1084s After this operation, 11.3 kB disk space will be freed.
1084s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-ubuntu-console all 0.869+git20240321-0ubuntu1 [18.7 kB]
1084s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 python3-markupsafe amd64 2.1.5-1build1 [12.6 kB]
1084s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 cloud-init all 24.1.2-0ubuntu1 [597 kB]
1084s Preconfiguring packages ...
1084s Fetched 629 kB in 0s (31.2 MB/s)
1085s (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 ... 71865 files and directories currently installed.)
1085s Preparing to unpack .../fonts-ubuntu-console_0.869+git20240321-0ubuntu1_all.deb ...
1085s Unpacking fonts-ubuntu-console (0.869+git20240321-0ubuntu1) over (0.869-0ubuntu1) ...
1085s Preparing to unpack .../python3-markupsafe_2.1.5-1build1_amd64.deb ...
1085s Unpacking python3-markupsafe (2.1.5-1build1) over (2.1.5-1) ...
1085s Preparing to unpack .../cloud-init_24.1.2-0ubuntu1_all.deb ...
1085s Unpacking cloud-init (24.1.2-0ubuntu1) over (24.1.1-0ubuntu1) ...
1085s Setting up fonts-ubuntu-console (0.869+git20240321-0ubuntu1) ...
1085s Setting up cloud-init (24.1.2-0ubuntu1) ...
1086s Setting up python3-markupsafe (2.1.5-1build1) ...
1086s Processing triggers for man-db (2.12.0-3) ...
1087s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
1087s Reading package lists...
1088s Building dependency tree...
1088s Reading state information...
1088s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1088s sh: Attempting to set up Debian/Ubuntu apt sources automatically
1088s sh: Distribution appears to be Ubuntu
1089s Reading package lists...
1090s Building dependency tree...
1090s Reading state information...
1090s eatmydata is already the newest version (131-1).
1090s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1090s Reading package lists...
1090s Building dependency tree...
1090s Reading state information...
1091s dbus is already the newest version (1.14.10-4ubuntu1).
1091s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1091s Reading package lists...
1091s Building dependency tree...
1091s Reading state information...
1091s rng-tools-debian is already the newest version (2.4).
1091s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1091s Reading package lists...
1092s Building dependency tree...
1092s Reading state information...
1092s The following packages will be REMOVED:
1092s   cloud-init* python3-configobj* python3-debconf*
1092s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded.
1092s After this operation, 3256 kB disk space will be freed.
1092s (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71864 files and directories currently installed.)
1092s Removing cloud-init (24.1.2-0ubuntu1) ...
1093s Removing python3-configobj (5.0.8-3) ...
1093s Removing python3-debconf (1.5.86) ...
1093s Processing triggers for man-db (2.12.0-3) ...
1093s (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71475 files and directories currently installed.)
1093s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ...
1094s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed
1094s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
1094s invoke-rc.d: policy-rc.d denied execution of try-restart.
1094s Reading package lists...
1094s Building dependency tree...
1094s Reading state information...
1095s linux-generic is already the newest version (6.8.0-11.11+1).
1095s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1095s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
1095s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
1095s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
1097s Reading package lists...
1097s Reading package lists...
1097s Building dependency tree...
1097s Reading state information...
1098s Calculating upgrade...
1098s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1098s Reading package lists...
1098s Building dependency tree...
1098s Reading state information...
1099s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
1099s autopkgtest [15:51:17]: rebooting testbed after setup commands that affected boot
1262s autopkgtest [15:54:00]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 00:29:05 UTC 2024
1263s autopkgtest [15:54:01]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-genetics
1264s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-cran-genetics 1.3.8.1.3-1 (dsc) [2255 B]
1264s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-cran-genetics 1.3.8.1.3-1 (tar) [199 kB]
1264s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-cran-genetics 1.3.8.1.3-1 (diff) [4408 B]
1264s gpgv: Signature made Mon Sep 20 06:21:21 2021 UTC
1264s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
1264s gpgv:                issuer "tille@debian.org"
1264s gpgv: Can't check signature: No public key
1264s dpkg-source: warning: cannot verify inline signature for ./r-cran-genetics_1.3.8.1.3-1.dsc: no acceptable signature found
1264s autopkgtest [15:54:02]: testing package r-cran-genetics version 1.3.8.1.3-1
1264s autopkgtest [15:54:02]: build not needed
1266s autopkgtest [15:54:04]: test run-unit-test: preparing testbed
1268s Note, using file '/tmp/autopkgtest.8EaPiy/1-autopkgtest-satdep.dsc' to get the build dependencies
1269s Reading package lists...
1269s Building dependency tree...
1269s Reading state information...
1269s Starting pkgProblemResolver with broken count: 0
1269s Starting 2 pkgProblemResolver with broken count: 0
1269s Done
1270s The following NEW packages will be installed:
1270s   build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu
1270s   fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono g++ g++-13
1270s   g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-13
1270s   gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libatomic1 libblas3
1270s   libc-dev-bin libc6-dev libcairo2 libcc1-0 libcrypt-dev libdatrie1
1270s   libdeflate0 libfontconfig1 libgcc-13-dev libgfortran5 libgomp1
1270s   libgraphite2-3 libharfbuzz0b libhwasan0 libice6 libisl23 libitm1 libjbig0
1270s   libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 liblsan0 libmpc3 libnsl-dev
1270s   libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
1270s   libpaper1 libpixman-1-0 libquadmath0 libsharpyuv0 libsm6 libstdc++-13-dev
1270s   libtcl8.6 libthai-data libthai0 libtiff6 libtirpc-dev libtk8.6 libtsan2
1270s   libubsan1 libwebp7 libxcb-render0 libxcb-shm0 libxft2 libxrender1 libxss1
1270s   libxt6 linux-libc-dev r-base-core r-cran-combinat r-cran-gdata
1270s   r-cran-genetics r-cran-gtools r-cran-mass r-cran-mvtnorm rpcsvc-proto unzip
1270s   x11-common xdg-utils zip
1270s 0 upgraded, 83 newly installed, 0 to remove and 0 not upgraded.
1270s Need to get 107 MB of archives.
1270s After this operation, 326 MB of additional disk space will be used.
1270s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 libc-dev-bin amd64 2.39-0ubuntu2 [20.4 kB]
1270s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 linux-libc-dev amd64 6.8.0-11.11 [1595 kB]
1270s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 libcrypt-dev amd64 1:4.4.36-4 [128 kB]
1270s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 libtirpc-dev amd64 1.3.4+ds-1build1 [222 kB]
1270s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 libnsl-dev amd64 1.3.0-3 [71.2 kB]
1270s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 rpcsvc-proto amd64 1.4.2-0ubuntu6 [68.5 kB]
1270s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 libc6-dev amd64 2.39-0ubuntu2 [2126 kB]
1270s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 libisl23 amd64 0.26-3 [741 kB]
1270s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 libmpc3 amd64 1.3.1-1 [54.1 kB]
1270s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.2 MB]
1270s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13 amd64 13.2.0-17ubuntu2 [1030 B]
1270s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [5326 B]
1270s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 cpp amd64 4:13.2.0-7ubuntu1 [22.4 kB]
1270s Get:14 http://ftpmaster.internal/ubuntu noble/main amd64 libcc1-0 amd64 14-20240303-1ubuntu1 [47.7 kB]
1270s Get:15 http://ftpmaster.internal/ubuntu noble/main amd64 libgomp1 amd64 14-20240303-1ubuntu1 [147 kB]
1270s Get:16 http://ftpmaster.internal/ubuntu noble/main amd64 libitm1 amd64 14-20240303-1ubuntu1 [29.1 kB]
1270s Get:17 http://ftpmaster.internal/ubuntu noble/main amd64 libatomic1 amd64 14-20240303-1ubuntu1 [10.4 kB]
1270s Get:18 http://ftpmaster.internal/ubuntu noble/main amd64 libasan8 amd64 14-20240303-1ubuntu1 [3026 kB]
1270s Get:19 http://ftpmaster.internal/ubuntu noble/main amd64 liblsan0 amd64 14-20240303-1ubuntu1 [1310 kB]
1270s Get:20 http://ftpmaster.internal/ubuntu noble/main amd64 libtsan2 amd64 14-20240303-1ubuntu1 [2732 kB]
1270s Get:21 http://ftpmaster.internal/ubuntu noble/main amd64 libubsan1 amd64 14-20240303-1ubuntu1 [1172 kB]
1270s Get:22 http://ftpmaster.internal/ubuntu noble/main amd64 libhwasan0 amd64 14-20240303-1ubuntu1 [1629 kB]
1270s Get:23 http://ftpmaster.internal/ubuntu noble/main amd64 libquadmath0 amd64 14-20240303-1ubuntu1 [155 kB]
1270s Get:24 http://ftpmaster.internal/ubuntu noble/main amd64 libgcc-13-dev amd64 13.2.0-17ubuntu2 [2687 kB]
1270s Get:25 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [21.9 MB]
1270s Get:26 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13 amd64 13.2.0-17ubuntu2 [477 kB]
1270s Get:27 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1212 B]
1270s Get:28 http://ftpmaster.internal/ubuntu noble/main amd64 gcc amd64 4:13.2.0-7ubuntu1 [5018 B]
1270s Get:29 http://ftpmaster.internal/ubuntu noble/main amd64 libstdc++-13-dev amd64 13.2.0-17ubuntu2 [2340 kB]
1270s Get:30 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [12.5 MB]
1271s Get:31 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13 amd64 13.2.0-17ubuntu2 [14.5 kB]
1271s Get:32 http://ftpmaster.internal/ubuntu noble/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [964 B]
1271s Get:33 http://ftpmaster.internal/ubuntu noble/main amd64 g++ amd64 4:13.2.0-7ubuntu1 [1100 B]
1271s Get:34 http://ftpmaster.internal/ubuntu noble/main amd64 build-essential amd64 12.10ubuntu1 [4928 B]
1271s Get:35 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB]
1271s Get:36 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-core all 2.37-8 [835 kB]
1271s Get:37 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig-config amd64 2.15.0-1ubuntu1 [36.9 kB]
1271s Get:38 http://ftpmaster.internal/ubuntu noble/main amd64 libfontconfig1 amd64 2.15.0-1ubuntu1 [139 kB]
1271s Get:39 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig amd64 2.15.0-1ubuntu1 [180 kB]
1271s Get:40 http://ftpmaster.internal/ubuntu noble/main amd64 libblas3 amd64 3.12.0-3 [238 kB]
1271s Get:41 http://ftpmaster.internal/ubuntu noble/main amd64 libpixman-1-0 amd64 0.42.2-1 [268 kB]
1271s Get:42 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-render0 amd64 1.15-1 [16.3 kB]
1271s Get:43 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-shm0 amd64 1.15-1 [5740 B]
1271s Get:44 http://ftpmaster.internal/ubuntu noble/main amd64 libxrender1 amd64 1:0.9.10-1.1 [20.0 kB]
1271s Get:45 http://ftpmaster.internal/ubuntu noble/main amd64 libcairo2 amd64 1.18.0-1 [572 kB]
1271s Get:46 http://ftpmaster.internal/ubuntu noble/main amd64 libdatrie1 amd64 0.2.13-3 [20.9 kB]
1271s Get:47 http://ftpmaster.internal/ubuntu noble/main amd64 libdeflate0 amd64 1.19-1 [43.7 kB]
1271s Get:48 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran5 amd64 14-20240303-1ubuntu1 [924 kB]
1271s Get:49 http://ftpmaster.internal/ubuntu noble/main amd64 libgraphite2-3 amd64 1.3.14-2 [83.1 kB]
1271s Get:50 http://ftpmaster.internal/ubuntu noble/main amd64 libharfbuzz0b amd64 8.3.0-2 [469 kB]
1271s Get:51 http://ftpmaster.internal/ubuntu noble/main amd64 x11-common all 1:7.7+23ubuntu2 [23.4 kB]
1271s Get:52 http://ftpmaster.internal/ubuntu noble/main amd64 libice6 amd64 2:1.0.10-1build2 [42.6 kB]
1271s Get:53 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu1 [147 kB]
1271s Get:54 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
1271s Get:55 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack3 amd64 3.12.0-3 [2649 kB]
1271s Get:56 http://ftpmaster.internal/ubuntu noble/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu1 [184 kB]
1271s Get:57 http://ftpmaster.internal/ubuntu noble/main amd64 libthai-data all 0.1.29-2 [158 kB]
1271s Get:58 http://ftpmaster.internal/ubuntu noble/main amd64 libthai0 amd64 0.1.29-2 [18.8 kB]
1271s Get:59 http://ftpmaster.internal/ubuntu noble/main amd64 libpango-1.0-0 amd64 1.51.0+ds-4 [228 kB]
1271s Get:60 http://ftpmaster.internal/ubuntu noble/main amd64 libpangoft2-1.0-0 amd64 1.51.0+ds-4 [42.1 kB]
1271s Get:61 http://ftpmaster.internal/ubuntu noble/main amd64 libpangocairo-1.0-0 amd64 1.51.0+ds-4 [29.0 kB]
1271s Get:62 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper1 amd64 1.1.29 [13.4 kB]
1271s Get:63 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper-utils amd64 1.1.29 [8658 B]
1271s Get:64 http://ftpmaster.internal/ubuntu noble/main amd64 libsharpyuv0 amd64 1.3.2-0.4 [15.6 kB]
1271s Get:65 http://ftpmaster.internal/ubuntu noble/main amd64 libsm6 amd64 2:1.2.3-1build2 [16.7 kB]
1271s Get:66 http://ftpmaster.internal/ubuntu noble/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [984 kB]
1271s Get:67 http://ftpmaster.internal/ubuntu noble/main amd64 libjbig0 amd64 2.1-6.1ubuntu1 [29.3 kB]
1271s Get:68 http://ftpmaster.internal/ubuntu noble/main amd64 libwebp7 amd64 1.3.2-0.4 [230 kB]
1271s Get:69 http://ftpmaster.internal/ubuntu noble/main amd64 libtiff6 amd64 4.5.1+git230720-3ubuntu1 [232 kB]
1271s Get:70 http://ftpmaster.internal/ubuntu noble/main amd64 libxft2 amd64 2.3.6-1 [44.5 kB]
1271s Get:71 http://ftpmaster.internal/ubuntu noble/main amd64 libxss1 amd64 1:1.2.3-1build2 [8476 B]
1271s Get:72 http://ftpmaster.internal/ubuntu noble/main amd64 libtk8.6 amd64 8.6.13-2 [776 kB]
1271s Get:73 http://ftpmaster.internal/ubuntu noble/main amd64 libxt6 amd64 1:1.2.1-1.1 [173 kB]
1271s Get:74 http://ftpmaster.internal/ubuntu noble/main amd64 zip amd64 3.0-13 [176 kB]
1271s Get:75 http://ftpmaster.internal/ubuntu noble/main amd64 unzip amd64 6.0-28ubuntu3 [174 kB]
1271s Get:76 http://ftpmaster.internal/ubuntu noble/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
1271s Get:77 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-core amd64 4.3.2-1build1 [27.0 MB]
1271s Get:78 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-combinat all 0.0-8-7build1 [43.1 kB]
1271s Get:79 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-gtools amd64 3.9.5-1 [340 kB]
1271s Get:80 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-gdata all 3.0.0-1 [483 kB]
1271s Get:81 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-mass amd64 7.3-60.0.1-1 [1119 kB]
1271s Get:82 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-mvtnorm amd64 1.2-4-1 [724 kB]
1271s Get:83 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-genetics all 1.3.8.1.3-1 [372 kB]
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1271s Preparing to unpack .../00-libc-dev-bin_2.39-0ubuntu2_amd64.deb ...
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1271s Selecting previously unselected package linux-libc-dev:amd64.
1271s Preparing to unpack .../01-linux-libc-dev_6.8.0-11.11_amd64.deb ...
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1272s Selecting previously unselected package libcrypt-dev:amd64.
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1272s Selecting previously unselected package cpp-13-x86-64-linux-gnu.
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1273s Selecting previously unselected package libstdc++-13-dev:amd64.
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1273s Selecting previously unselected package g++-13-x86-64-linux-gnu.
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1274s Selecting previously unselected package g++-13.
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1274s Selecting previously unselected package libblas3:amd64.
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1274s Preparing to unpack .../40-libpixman-1-0_0.42.2-1_amd64.deb ...
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1275s Selecting previously unselected package libice6:amd64.
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1275s Selecting previously unselected package liblapack3:amd64.
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1275s Selecting previously unselected package liblerc4:amd64.
1275s Preparing to unpack .../55-liblerc4_4.0.0+ds-4ubuntu1_amd64.deb ...
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1275s Selecting previously unselected package libthai-data.
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1275s Selecting previously unselected package libpango-1.0-0:amd64.
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1275s Selecting previously unselected package libpangoft2-1.0-0:amd64.
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1275s Selecting previously unselected package libpangocairo-1.0-0:amd64.
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1275s Selecting previously unselected package libpaper1:amd64.
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1277s Setting up libgraphite2-3:amd64 (1.3.14-2) ...
1277s Setting up libpixman-1-0:amd64 (0.42.2-1) ...
1277s Setting up libsharpyuv0:amd64 (1.3.2-0.4) ...
1277s Setting up libpaper1:amd64 (1.1.29) ...
1277s 
1277s Creating config file /etc/papersize with new version
1277s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu1) ...
1277s Setting up libxrender1:amd64 (1:0.9.10-1.1) ...
1277s Setting up libdatrie1:amd64 (0.2.13-3) ...
1277s Setting up libxcb-render0:amd64 (1.15-1) ...
1277s Setting up unzip (6.0-28ubuntu3) ...
1277s Setting up x11-common (1:7.7+23ubuntu2) ...
1277s Setting up libdeflate0:amd64 (1.19-1) ...
1277s Setting up linux-libc-dev:amd64 (6.8.0-11.11) ...
1277s Setting up libxcb-shm0:amd64 (1.15-1) ...
1277s Setting up libpaper-utils (1.1.29) ...
1277s Setting up libgomp1:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libjbig0:amd64 (2.1-6.1ubuntu1) ...
1277s Setting up zip (3.0-13) ...
1277s Setting up libblas3:amd64 (3.12.0-3) ...
1277s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/x86_64-linux-gnu/libblas.so.3 (libblas.so.3-x86_64-linux-gnu) in auto mode
1277s Setting up libtirpc-dev:amd64 (1.3.4+ds-1build1) ...
1277s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ...
1277s Setting up libquadmath0:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up fonts-dejavu-mono (2.37-8) ...
1277s Setting up libmpc3:amd64 (1.3.1-1) ...
1277s Setting up libatomic1:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libtcl8.6:amd64 (8.6.13+dfsg-2) ...
1277s Setting up fonts-dejavu-core (2.37-8) ...
1277s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu1) ...
1277s Setting up libgfortran5:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libwebp7:amd64 (1.3.2-0.4) ...
1277s Setting up libubsan1:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libnsl-dev:amd64 (1.3.0-3) ...
1277s Setting up libhwasan0:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libcrypt-dev:amd64 (1:4.4.36-4) ...
1277s Setting up libasan8:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libharfbuzz0b:amd64 (8.3.0-2) ...
1277s Setting up libthai-data (0.1.29-2) ...
1277s Setting up libxss1:amd64 (1:1.2.3-1build2) ...
1277s Setting up libtsan2:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libisl23:amd64 (0.26-3) ...
1277s Setting up libc-dev-bin (2.39-0ubuntu2) ...
1277s Setting up xdg-utils (1.1.3-4.1ubuntu3) ...
1277s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
1277s Setting up libcc1-0:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up liblsan0:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libitm1:amd64 (14-20240303-1ubuntu1) ...
1277s Setting up libjpeg8:amd64 (8c-2ubuntu11) ...
1277s Setting up libice6:amd64 (2:1.0.10-1build2) ...
1277s Setting up liblapack3:amd64 (3.12.0-3) ...
1277s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/x86_64-linux-gnu/liblapack.so.3 (liblapack.so.3-x86_64-linux-gnu) in auto mode
1277s Setting up cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
1277s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
1277s Setting up libthai0:amd64 (0.1.29-2) ...
1277s Setting up libgcc-13-dev:amd64 (13.2.0-17ubuntu2) ...
1277s Setting up libtiff6:amd64 (4.5.1+git230720-3ubuntu1) ...
1277s Setting up libc6-dev:amd64 (2.39-0ubuntu2) ...
1277s Setting up libfontconfig1:amd64 (2.15.0-1ubuntu1) ...
1277s Setting up libsm6:amd64 (2:1.2.3-1build2) ...
1277s Setting up libstdc++-13-dev:amd64 (13.2.0-17ubuntu2) ...
1277s Setting up cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1277s Setting up fontconfig (2.15.0-1ubuntu1) ...
1279s Regenerating fonts cache... done.
1279s Setting up libxft2:amd64 (2.3.6-1) ...
1279s Setting up cpp-13 (13.2.0-17ubuntu2) ...
1279s Setting up gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
1279s Setting up libtk8.6:amd64 (8.6.13-2) ...
1279s Setting up libpango-1.0-0:amd64 (1.51.0+ds-4) ...
1279s Setting up libcairo2:amd64 (1.18.0-1) ...
1279s Setting up gcc-13 (13.2.0-17ubuntu2) ...
1279s Setting up libxt6:amd64 (1:1.2.1-1.1) ...
1279s Setting up cpp (4:13.2.0-7ubuntu1) ...
1279s Setting up libpangoft2-1.0-0:amd64 (1.51.0+ds-4) ...
1279s Setting up libpangocairo-1.0-0:amd64 (1.51.0+ds-4) ...
1279s Setting up g++-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
1279s Setting up gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1279s Setting up gcc (4:13.2.0-7ubuntu1) ...
1279s Setting up r-base-core (4.3.2-1build1) ...
1280s 
1280s Creating config file /etc/R/Renviron with new version
1280s Setting up g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1280s Setting up r-cran-combinat (0.0-8-7build1) ...
1280s Setting up g++-13 (13.2.0-17ubuntu2) ...
1280s Setting up r-cran-mass (7.3-60.0.1-1) ...
1280s Setting up r-cran-gtools (3.9.5-1) ...
1280s Setting up r-cran-mvtnorm (1.2-4-1) ...
1280s Setting up g++ (4:13.2.0-7ubuntu1) ...
1280s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
1280s Setting up build-essential (12.10ubuntu1) ...
1280s Setting up r-cran-gdata (3.0.0-1) ...
1280s Setting up r-cran-genetics (1.3.8.1.3-1) ...
1280s Processing triggers for man-db (2.12.0-3) ...
1281s Processing triggers for install-info (7.1-3) ...
1281s Processing triggers for libc-bin (2.39-0ubuntu2) ...
1282s Reading package lists...
1282s Building dependency tree...
1282s Reading state information...
1283s Starting pkgProblemResolver with broken count: 0
1283s Starting 2 pkgProblemResolver with broken count: 0
1283s Done
1283s The following NEW packages will be installed:
1283s   autopkgtest-satdep
1283s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
1283s Need to get 0 B/700 B of archives.
1283s After this operation, 0 B of additional disk space will be used.
1283s Get:1 /tmp/autopkgtest.8EaPiy/2-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [700 B]
1283s Selecting previously unselected package autopkgtest-satdep.
1283s (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 ... 76707 files and directories currently installed.)
1283s Preparing to unpack .../2-autopkgtest-satdep.deb ...
1283s Unpacking autopkgtest-satdep (0) ...
1283s Setting up autopkgtest-satdep (0) ...
1285s (Reading database ... 76707 files and directories currently installed.)
1285s Removing autopkgtest-satdep (0) ...
1285s autopkgtest [15:54:23]: test run-unit-test: [-----------------------
1285s Test ci.balance.R passed
1286s Test makeGenotype_with_sep.R passed
1286s Test test.NA.R passed
1286s autopkgtest [15:54:24]: test run-unit-test: -----------------------]
1287s run-unit-test        PASS
1287s autopkgtest [15:54:25]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
1287s autopkgtest [15:54:25]: test pkg-r-autopkgtest: preparing testbed
1289s Note, using file '/tmp/autopkgtest.8EaPiy/3-autopkgtest-satdep.dsc' to get the build dependencies
1289s Reading package lists...
1289s Building dependency tree...
1289s Reading state information...
1289s Starting pkgProblemResolver with broken count: 0
1289s Starting 2 pkgProblemResolver with broken count: 0
1289s Done
1290s The following NEW packages will be installed:
1290s   dctrl-tools gfortran gfortran-13 gfortran-13-x86-64-linux-gnu
1290s   gfortran-x86-64-linux-gnu icu-devtools libblas-dev libbz2-dev
1290s   libgfortran-13-dev libicu-dev libjpeg-dev libjpeg-turbo8-dev libjpeg8-dev
1290s   liblapack-dev liblzma-dev libncurses-dev libpcre2-16-0 libpcre2-32-0
1290s   libpcre2-dev libpcre2-posix3 libpkgconf3 libpng-dev libreadline-dev
1290s   pkg-config pkg-r-autopkgtest pkgconf pkgconf-bin r-base-dev zlib1g-dev
1290s 0 upgraded, 29 newly installed, 0 to remove and 0 not upgraded.
1290s Need to get 33.6 MB of archives.
1290s After this operation, 130 MB of additional disk space will be used.
1290s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 dctrl-tools amd64 2.24-3build2 [66.9 kB]
1290s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran-13-dev amd64 13.2.0-17ubuntu2 [942 kB]
1290s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.6 MB]
1290s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-13 amd64 13.2.0-17ubuntu2 [10.3 kB]
1290s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1024 B]
1290s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 gfortran amd64 4:13.2.0-7ubuntu1 [1176 B]
1290s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 icu-devtools amd64 74.2-1ubuntu1 [212 kB]
1290s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 libblas-dev amd64 3.12.0-3 [170 kB]
1290s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 libbz2-dev amd64 1.0.8-5ubuntu1 [33.6 kB]
1290s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 libicu-dev amd64 74.2-1ubuntu1 [11.9 MB]
1290s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8-dev amd64 2.1.5-2ubuntu1 [294 kB]
1290s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8-dev amd64 8c-2ubuntu11 [1484 B]
1290s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-dev amd64 8c-2ubuntu11 [1482 B]
1290s Get:14 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack-dev amd64 3.12.0-3 [5196 kB]
1290s Get:15 http://ftpmaster.internal/ubuntu noble/main amd64 libncurses-dev amd64 6.4+20240113-1ubuntu1 [384 kB]
1290s Get:16 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-16-0 amd64 10.42-4ubuntu1 [211 kB]
1290s Get:17 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-32-0 amd64 10.42-4ubuntu1 [198 kB]
1290s Get:18 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-posix3 amd64 10.42-4ubuntu1 [6808 B]
1290s Get:19 http://ftpmaster.internal/ubuntu noble/main amd64 libpcre2-dev amd64 10.42-4ubuntu1 [743 kB]
1290s Get:20 http://ftpmaster.internal/ubuntu noble/main amd64 libpkgconf3 amd64 1.8.1-2 [31.1 kB]
1290s Get:21 http://ftpmaster.internal/ubuntu noble/main amd64 zlib1g-dev amd64 1:1.3.dfsg-3ubuntu1 [896 kB]
1290s Get:22 http://ftpmaster.internal/ubuntu noble/main amd64 libpng-dev amd64 1.6.43-1 [264 kB]
1290s Get:23 http://ftpmaster.internal/ubuntu noble/main amd64 libreadline-dev amd64 8.2-3 [167 kB]
1290s Get:24 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf-bin amd64 1.8.1-2 [20.7 kB]
1290s Get:25 http://ftpmaster.internal/ubuntu noble/main amd64 pkgconf amd64 1.8.1-2 [16.8 kB]
1290s Get:26 http://ftpmaster.internal/ubuntu noble/main amd64 pkg-config amd64 1.8.1-2 [7170 B]
1290s Get:27 http://ftpmaster.internal/ubuntu noble/main amd64 liblzma-dev amd64 5.4.5-0.3 [205 kB]
1290s Get:28 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-dev all 4.3.2-1build1 [4336 B]
1290s Get:29 http://ftpmaster.internal/ubuntu noble/universe amd64 pkg-r-autopkgtest all 20231212ubuntu1 [6448 B]
1290s Fetched 33.6 MB in 0s (98.7 MB/s)
1290s Selecting previously unselected package dctrl-tools.
1290s (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 ... 76707 files and directories currently installed.)
1290s Preparing to unpack .../00-dctrl-tools_2.24-3build2_amd64.deb ...
1290s Unpacking dctrl-tools (2.24-3build2) ...
1290s Selecting previously unselected package libgfortran-13-dev:amd64.
1290s Preparing to unpack .../01-libgfortran-13-dev_13.2.0-17ubuntu2_amd64.deb ...
1290s Unpacking libgfortran-13-dev:amd64 (13.2.0-17ubuntu2) ...
1290s Selecting previously unselected package gfortran-13-x86-64-linux-gnu.
1290s Preparing to unpack .../02-gfortran-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
1290s Unpacking gfortran-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
1291s Selecting previously unselected package gfortran-13.
1291s Preparing to unpack .../03-gfortran-13_13.2.0-17ubuntu2_amd64.deb ...
1291s Unpacking gfortran-13 (13.2.0-17ubuntu2) ...
1291s Selecting previously unselected package gfortran-x86-64-linux-gnu.
1291s Preparing to unpack .../04-gfortran-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
1291s Unpacking gfortran-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1291s Selecting previously unselected package gfortran.
1291s Preparing to unpack .../05-gfortran_4%3a13.2.0-7ubuntu1_amd64.deb ...
1291s Unpacking gfortran (4:13.2.0-7ubuntu1) ...
1291s Selecting previously unselected package icu-devtools.
1291s Preparing to unpack .../06-icu-devtools_74.2-1ubuntu1_amd64.deb ...
1291s Unpacking icu-devtools (74.2-1ubuntu1) ...
1291s Selecting previously unselected package libblas-dev:amd64.
1291s Preparing to unpack .../07-libblas-dev_3.12.0-3_amd64.deb ...
1291s Unpacking libblas-dev:amd64 (3.12.0-3) ...
1291s Selecting previously unselected package libbz2-dev:amd64.
1291s Preparing to unpack .../08-libbz2-dev_1.0.8-5ubuntu1_amd64.deb ...
1291s Unpacking libbz2-dev:amd64 (1.0.8-5ubuntu1) ...
1291s Selecting previously unselected package libicu-dev:amd64.
1291s Preparing to unpack .../09-libicu-dev_74.2-1ubuntu1_amd64.deb ...
1291s Unpacking libicu-dev:amd64 (74.2-1ubuntu1) ...
1291s Selecting previously unselected package libjpeg-turbo8-dev:amd64.
1291s Preparing to unpack .../10-libjpeg-turbo8-dev_2.1.5-2ubuntu1_amd64.deb ...
1291s Unpacking libjpeg-turbo8-dev:amd64 (2.1.5-2ubuntu1) ...
1291s Selecting previously unselected package libjpeg8-dev:amd64.
1291s Preparing to unpack .../11-libjpeg8-dev_8c-2ubuntu11_amd64.deb ...
1291s Unpacking libjpeg8-dev:amd64 (8c-2ubuntu11) ...
1291s Selecting previously unselected package libjpeg-dev:amd64.
1291s Preparing to unpack .../12-libjpeg-dev_8c-2ubuntu11_amd64.deb ...
1291s Unpacking libjpeg-dev:amd64 (8c-2ubuntu11) ...
1291s Selecting previously unselected package liblapack-dev:amd64.
1291s Preparing to unpack .../13-liblapack-dev_3.12.0-3_amd64.deb ...
1291s Unpacking liblapack-dev:amd64 (3.12.0-3) ...
1291s Selecting previously unselected package libncurses-dev:amd64.
1291s Preparing to unpack .../14-libncurses-dev_6.4+20240113-1ubuntu1_amd64.deb ...
1291s Unpacking libncurses-dev:amd64 (6.4+20240113-1ubuntu1) ...
1291s Selecting previously unselected package libpcre2-16-0:amd64.
1291s Preparing to unpack .../15-libpcre2-16-0_10.42-4ubuntu1_amd64.deb ...
1291s Unpacking libpcre2-16-0:amd64 (10.42-4ubuntu1) ...
1291s Selecting previously unselected package libpcre2-32-0:amd64.
1291s Preparing to unpack .../16-libpcre2-32-0_10.42-4ubuntu1_amd64.deb ...
1291s Unpacking libpcre2-32-0:amd64 (10.42-4ubuntu1) ...
1291s Selecting previously unselected package libpcre2-posix3:amd64.
1291s Preparing to unpack .../17-libpcre2-posix3_10.42-4ubuntu1_amd64.deb ...
1291s Unpacking libpcre2-posix3:amd64 (10.42-4ubuntu1) ...
1291s Selecting previously unselected package libpcre2-dev:amd64.
1291s Preparing to unpack .../18-libpcre2-dev_10.42-4ubuntu1_amd64.deb ...
1291s Unpacking libpcre2-dev:amd64 (10.42-4ubuntu1) ...
1292s Selecting previously unselected package libpkgconf3:amd64.
1292s Preparing to unpack .../19-libpkgconf3_1.8.1-2_amd64.deb ...
1292s Unpacking libpkgconf3:amd64 (1.8.1-2) ...
1292s Selecting previously unselected package zlib1g-dev:amd64.
1292s Preparing to unpack .../20-zlib1g-dev_1%3a1.3.dfsg-3ubuntu1_amd64.deb ...
1292s Unpacking zlib1g-dev:amd64 (1:1.3.dfsg-3ubuntu1) ...
1292s Selecting previously unselected package libpng-dev:amd64.
1292s Preparing to unpack .../21-libpng-dev_1.6.43-1_amd64.deb ...
1292s Unpacking libpng-dev:amd64 (1.6.43-1) ...
1292s Selecting previously unselected package libreadline-dev:amd64.
1292s Preparing to unpack .../22-libreadline-dev_8.2-3_amd64.deb ...
1292s Unpacking libreadline-dev:amd64 (8.2-3) ...
1292s Selecting previously unselected package pkgconf-bin.
1292s Preparing to unpack .../23-pkgconf-bin_1.8.1-2_amd64.deb ...
1292s Unpacking pkgconf-bin (1.8.1-2) ...
1292s Selecting previously unselected package pkgconf:amd64.
1292s Preparing to unpack .../24-pkgconf_1.8.1-2_amd64.deb ...
1292s Unpacking pkgconf:amd64 (1.8.1-2) ...
1292s Selecting previously unselected package pkg-config:amd64.
1292s Preparing to unpack .../25-pkg-config_1.8.1-2_amd64.deb ...
1292s Unpacking pkg-config:amd64 (1.8.1-2) ...
1292s Selecting previously unselected package liblzma-dev:amd64.
1292s Preparing to unpack .../26-liblzma-dev_5.4.5-0.3_amd64.deb ...
1292s Unpacking liblzma-dev:amd64 (5.4.5-0.3) ...
1292s Selecting previously unselected package r-base-dev.
1292s Preparing to unpack .../27-r-base-dev_4.3.2-1build1_all.deb ...
1292s Unpacking r-base-dev (4.3.2-1build1) ...
1292s Selecting previously unselected package pkg-r-autopkgtest.
1292s Preparing to unpack .../28-pkg-r-autopkgtest_20231212ubuntu1_all.deb ...
1292s Unpacking pkg-r-autopkgtest (20231212ubuntu1) ...
1292s Setting up libjpeg-turbo8-dev:amd64 (2.1.5-2ubuntu1) ...
1292s Setting up libncurses-dev:amd64 (6.4+20240113-1ubuntu1) ...
1292s Setting up libreadline-dev:amd64 (8.2-3) ...
1292s Setting up libpcre2-16-0:amd64 (10.42-4ubuntu1) ...
1292s Setting up libpcre2-32-0:amd64 (10.42-4ubuntu1) ...
1292s Setting up libpkgconf3:amd64 (1.8.1-2) ...
1292s Setting up icu-devtools (74.2-1ubuntu1) ...
1292s Setting up pkgconf-bin (1.8.1-2) ...
1292s Setting up liblzma-dev:amd64 (5.4.5-0.3) ...
1292s Setting up zlib1g-dev:amd64 (1:1.3.dfsg-3ubuntu1) ...
1292s Setting up libpcre2-posix3:amd64 (10.42-4ubuntu1) ...
1292s Setting up libjpeg8-dev:amd64 (8c-2ubuntu11) ...
1292s Setting up libgfortran-13-dev:amd64 (13.2.0-17ubuntu2) ...
1292s Setting up libicu-dev:amd64 (74.2-1ubuntu1) ...
1292s Setting up libblas-dev:amd64 (3.12.0-3) ...
1292s update-alternatives: using /usr/lib/x86_64-linux-gnu/blas/libblas.so to provide /usr/lib/x86_64-linux-gnu/libblas.so (libblas.so-x86_64-linux-gnu) in auto mode
1292s Setting up dctrl-tools (2.24-3build2) ...
1292s Setting up libbz2-dev:amd64 (1.0.8-5ubuntu1) ...
1292s Setting up libpcre2-dev:amd64 (10.42-4ubuntu1) ...
1292s Setting up libpng-dev:amd64 (1.6.43-1) ...
1292s Setting up libjpeg-dev:amd64 (8c-2ubuntu11) ...
1292s Setting up gfortran-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
1292s Setting up pkgconf:amd64 (1.8.1-2) ...
1292s Setting up gfortran-13 (13.2.0-17ubuntu2) ...
1292s Setting up liblapack-dev:amd64 (3.12.0-3) ...
1292s update-alternatives: using /usr/lib/x86_64-linux-gnu/lapack/liblapack.so to provide /usr/lib/x86_64-linux-gnu/liblapack.so (liblapack.so-x86_64-linux-gnu) in auto mode
1292s Setting up pkg-config:amd64 (1.8.1-2) ...
1292s Setting up gfortran-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
1292s Setting up gfortran (4:13.2.0-7ubuntu1) ...
1292s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
1292s 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
1292s update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
1292s 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
1292s Setting up r-base-dev (4.3.2-1build1) ...
1292s Setting up pkg-r-autopkgtest (20231212ubuntu1) ...
1292s Processing triggers for libc-bin (2.39-0ubuntu2) ...
1292s Processing triggers for man-db (2.12.0-3) ...
1293s Processing triggers for install-info (7.1-3) ...
1295s Reading package lists...
1295s Building dependency tree...
1295s Reading state information...
1295s Starting pkgProblemResolver with broken count: 0
1295s Starting 2 pkgProblemResolver with broken count: 0
1295s Done
1295s The following NEW packages will be installed:
1295s   autopkgtest-satdep
1295s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
1295s Need to get 0 B/696 B of archives.
1295s After this operation, 0 B of additional disk space will be used.
1295s Get:1 /tmp/autopkgtest.8EaPiy/4-autopkgtest-satdep.deb autopkgtest-satdep amd64 0 [696 B]
1296s Selecting previously unselected package autopkgtest-satdep.
1296s (Reading database ... 
(Reading database ... 5%
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(Reading database ... 15%
(Reading database ... 20%
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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 ... 77436 files and directories currently installed.)
1296s Preparing to unpack .../4-autopkgtest-satdep.deb ...
1296s Unpacking autopkgtest-satdep (0) ...
1296s Setting up autopkgtest-satdep (0) ...
1297s (Reading database ... 77436 files and directories currently installed.)
1297s Removing autopkgtest-satdep (0) ...
1297s autopkgtest [15:54:35]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
1297s autopkgtest [15:54:35]: test pkg-r-autopkgtest: [-----------------------
1297s Test: Try to load the R library genetics
1298s 
1298s R version 4.3.2 (2023-10-31) -- "Eye Holes"
1298s Copyright (C) 2023 The R Foundation for Statistical Computing
1298s Platform: x86_64-pc-linux-gnu (64-bit)
1298s 
1298s R is free software and comes with ABSOLUTELY NO WARRANTY.
1298s You are welcome to redistribute it under certain conditions.
1298s Type 'license()' or 'licence()' for distribution details.
1298s 
1298s R is a collaborative project with many contributors.
1298s Type 'contributors()' for more information and
1298s 'citation()' on how to cite R or R packages in publications.
1298s 
1298s Type 'demo()' for some demos, 'help()' for on-line help, or
1298s 'help.start()' for an HTML browser interface to help.
1298s Type 'q()' to quit R.
1298s 
1298s > library('genetics')
1298s Loading required package: combinat
1298s 
1298s Attaching package: ‘combinat’
1298s 
1298s The following object is masked from ‘package:utils’:
1298s 
1298s     combn
1298s 
1298s Loading required package: gdata
1298s 
1298s Attaching package: ‘gdata’
1298s 
1298s The following object is masked from ‘package:stats’:
1298s 
1298s     nobs
1298s 
1298s The following object is masked from ‘package:utils’:
1298s 
1298s     object.size
1298s 
1298s The following object is masked from ‘package:base’:
1298s 
1298s     startsWith
1298s 
1298s Loading required package: gtools
1298s Loading required package: MASS
1298s Loading required package: mvtnorm
1298s 
1298s 
1298s NOTE: THIS PACKAGE IS NOW OBSOLETE.
1298s 
1298s 
1298s 
1298s   The R-Genetics project has developed an set of enhanced genetics
1298s 
1298s   packages to replace 'genetics'. Please visit the project homepage
1298s 
1298s   at http://rgenetics.org for informtion.
1298s 
1298s 
1298s 
1298s 
1298s Attaching package: ‘genetics’
1298s 
1298s The following objects are masked from ‘package:base’:
1298s 
1298s     %in%, as.factor, order
1298s 
1298s > 
1298s > 
1298s Other tests are currently unsupported!
1298s They will be progressively added.
1298s autopkgtest [15:54:36]: test pkg-r-autopkgtest: -----------------------]
1298s pkg-r-autopkgtest    PASS
1298s autopkgtest [15:54:36]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
1298s autopkgtest [15:54:36]: @@@@@@@@@@@@@@@@@@@@ summary
1298s run-unit-test        PASS
1298s pkg-r-autopkgtest    PASS
1308s Creating nova instance adt-noble-i386-r-cran-genetics-20240322-153257-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-amd64-server-20240321.img (UUID 6f9effbc-61d8-4d0a-a7e9-883547f42ac1)...