0s autopkgtest [00:57:19]: starting date and time: 2024-03-24 00:57:19+0000
  0s autopkgtest [00:57:19]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps
  0s autopkgtest [00:57:19]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.c69413w4/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-squarem --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@lcy02-87.secgroup --name adt-noble-i386-r-cran-squarem-20240324-005719-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/
 80s autopkgtest [00:58:39]: testbed dpkg architecture: amd64
 80s autopkgtest [00:58:39]: testbed apt version: 2.7.12
 80s autopkgtest [00:58:39]: test architecture: i386
 80s autopkgtest [00:58:39]: @@@@@@@@@@@@@@@@@@@@ test bed setup
 80s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB]
 80s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B]
 81s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [56.9 kB]
 81s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3972 kB]
 81s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [494 kB]
 81s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 Packages [725 kB]
 81s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main i386 Packages [483 kB]
 81s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main amd64 c-n-f Metadata [3508 B]
 81s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 Packages [30.5 kB]
 81s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/restricted i386 Packages [6700 B]
 81s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/restricted amd64 c-n-f Metadata [116 B]
 81s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe i386 Packages [1305 kB]
 81s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 Packages [4417 kB]
 81s Get:14 http://ftpmaster.internal/ubuntu noble-proposed/universe amd64 c-n-f Metadata [9396 B]
 81s Get:15 http://ftpmaster.internal/ubuntu noble-proposed/multiverse i386 Packages [27.1 kB]
 81s Get:16 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 Packages [96.1 kB]
 81s Get:17 http://ftpmaster.internal/ubuntu noble-proposed/multiverse amd64 c-n-f Metadata [196 B]
 84s Fetched 11.8 MB in 2s (7094 kB/s)
 84s Reading package lists...
 86s Reading package lists...
 87s Building dependency tree...
 87s Reading state information...
 87s Calculating upgrade...
 87s The following packages will be upgraded:
 87s   libc-bin libc6 locales
 87s 3 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 87s Need to get 8176 kB of archives.
 87s After this operation, 2048 B of additional disk space will be used.
 87s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 libc6 amd64 2.39-0ubuntu6 [3262 kB]
 87s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 libc-bin amd64 2.39-0ubuntu6 [682 kB]
 87s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 locales all 2.39-0ubuntu6 [4232 kB]
 88s Preconfiguring packages ...
 88s Fetched 8176 kB in 0s (85.8 MB/s)
 88s (Reading database ... 
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(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.)
 88s Preparing to unpack .../libc6_2.39-0ubuntu6_amd64.deb ...
 88s Unpacking libc6:amd64 (2.39-0ubuntu6) over (2.39-0ubuntu2) ...
 88s Setting up libc6:amd64 (2.39-0ubuntu6) ...
 89s (Reading database ... 
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(Reading database ... 70%
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71864 files and directories currently installed.)
 89s Preparing to unpack .../libc-bin_2.39-0ubuntu6_amd64.deb ...
 89s Unpacking libc-bin (2.39-0ubuntu6) over (2.39-0ubuntu2) ...
 89s Setting up libc-bin (2.39-0ubuntu6) ...
 89s (Reading database ... 
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(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71864 files and directories currently installed.)
 89s Preparing to unpack .../locales_2.39-0ubuntu6_all.deb ...
 89s Unpacking locales (2.39-0ubuntu6) over (2.39-0ubuntu2) ...
 89s Setting up locales (2.39-0ubuntu6) ...
 90s Generating locales (this might take a while)...
 91s   en_US.UTF-8... done
 91s Generation complete.
 91s Processing triggers for man-db (2.12.0-3) ...
 93s Reading package lists...
 93s Building dependency tree...
 93s Reading state information...
 94s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 94s sh: Attempting to set up Debian/Ubuntu apt sources automatically
 94s sh: Distribution appears to be Ubuntu
 95s Reading package lists...
 95s Building dependency tree...
 95s Reading state information...
 96s eatmydata is already the newest version (131-1).
 96s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 96s Reading package lists...
 96s Building dependency tree...
 96s Reading state information...
 96s dbus is already the newest version (1.14.10-4ubuntu1).
 96s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 96s Reading package lists...
 97s Building dependency tree...
 97s Reading state information...
 97s rng-tools-debian is already the newest version (2.4).
 97s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
 97s Reading package lists...
 97s Building dependency tree...
 97s Reading state information...
 98s The following packages will be REMOVED:
 98s   cloud-init* python3-configobj* python3-debconf*
 98s 0 upgraded, 0 newly installed, 3 to remove and 0 not upgraded.
 98s After this operation, 3256 kB disk space will be freed.
 98s (Reading database ... 
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(Reading database ... 70%
(Reading database ... 75%
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 71864 files and directories currently installed.)
 98s Removing cloud-init (24.1.2-0ubuntu1) ...
 99s Removing python3-configobj (5.0.8-3) ...
 99s Removing python3-debconf (1.5.86) ...
 99s Processing triggers for man-db (2.12.0-3) ...
 99s (Reading database ... 
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(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.)
 99s Purging configuration files for cloud-init (24.1.2-0ubuntu1) ...
100s dpkg: warning: while removing cloud-init, directory '/etc/cloud/cloud.cfg.d' not empty so not removed
100s Processing triggers for rsyslog (8.2312.0-3ubuntu3) ...
100s invoke-rc.d: policy-rc.d denied execution of try-restart.
100s Reading package lists...
100s Building dependency tree...
100s Reading state information...
100s linux-generic is already the newest version (6.8.0-11.11+1).
100s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
101s Hit:1 http://ftpmaster.internal/ubuntu noble InRelease
101s Hit:2 http://ftpmaster.internal/ubuntu noble-updates InRelease
101s Hit:3 http://ftpmaster.internal/ubuntu noble-security InRelease
103s Reading package lists...
103s Reading package lists...
103s Building dependency tree...
103s Reading state information...
103s Calculating upgrade...
104s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
104s Reading package lists...
104s Building dependency tree...
104s Reading state information...
104s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
104s autopkgtest [00:59:03]: rebooting testbed after setup commands that affected boot
143s autopkgtest [00:59:42]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP PREEMPT_DYNAMIC Wed Feb 14 00:29:05 UTC 2024
144s autopkgtest [00:59:43]: @@@@@@@@@@@@@@@@@@@@ apt-source r-cran-squarem
145s Get:1 http://ftpmaster.internal/ubuntu noble/universe r-cran-squarem 2021.1-1 (dsc) [2107 B]
145s Get:2 http://ftpmaster.internal/ubuntu noble/universe r-cran-squarem 2021.1-1 (tar) [242 kB]
145s Get:3 http://ftpmaster.internal/ubuntu noble/universe r-cran-squarem 2021.1-1 (diff) [2436 B]
145s gpgv: Signature made Sat Jan 16 17:03:24 2021 UTC
145s gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
145s gpgv:                issuer "tille@debian.org"
145s gpgv: Can't check signature: No public key
145s dpkg-source: warning: cannot verify inline signature for ./r-cran-squarem_2021.1-1.dsc: no acceptable signature found
145s autopkgtest [00:59:44]: testing package r-cran-squarem version 2021.1-1
146s autopkgtest [00:59:45]: build not needed
148s autopkgtest [00:59:47]: test run-unit-test: preparing testbed
150s Note, using file '/tmp/autopkgtest.H1ea8c/1-autopkgtest-satdep.dsc' to get the build dependencies
150s Reading package lists...
151s Building dependency tree...
151s Reading state information...
151s Starting pkgProblemResolver with broken count: 0
151s Starting 2 pkgProblemResolver with broken count: 0
151s Done
152s The following NEW packages will be installed:
152s   build-essential cpp cpp-13 cpp-13-x86-64-linux-gnu cpp-x86-64-linux-gnu
152s   fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono g++ g++-13
152s   g++-13-x86-64-linux-gnu g++-x86-64-linux-gnu gcc gcc-13
152s   gcc-13-x86-64-linux-gnu gcc-x86-64-linux-gnu libasan8 libatomic1 libblas3
152s   libc-dev-bin libc6-dev libcairo2 libcc1-0 libcrypt-dev libdatrie1
152s   libdeflate0 libfontconfig1 libgcc-13-dev libgfortran5 libgomp1
152s   libgraphite2-3 libharfbuzz0b libhwasan0 libice6 libisl23 libitm1 libjbig0
152s   libjpeg-turbo8 libjpeg8 liblapack3 liblerc4 liblsan0 libmpc3 libpango-1.0-0
152s   libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpixman-1-0
152s   libquadmath0 libsharpyuv0 libsm6 libstdc++-13-dev libtcl8.6 libthai-data
152s   libthai0 libtiff6 libtk8.6 libtsan2 libubsan1 libwebp7 libxcb-render0
152s   libxcb-shm0 libxft2 libxrender1 libxss1 libxt6 linux-libc-dev r-base-core
152s   r-cran-setrng r-cran-squarem rpcsvc-proto unzip x11-common xdg-utils zip
152s 0 upgraded, 77 newly installed, 0 to remove and 0 not upgraded.
152s Need to get 104 MB of archives.
152s After this operation, 321 MB of additional disk space will be used.
152s Get:1 http://ftpmaster.internal/ubuntu noble/main amd64 libc-dev-bin amd64 2.39-0ubuntu6 [20.4 kB]
152s Get:2 http://ftpmaster.internal/ubuntu noble/main amd64 linux-libc-dev amd64 6.8.0-11.11 [1595 kB]
152s Get:3 http://ftpmaster.internal/ubuntu noble/main amd64 libcrypt-dev amd64 1:4.4.36-4 [128 kB]
152s Get:4 http://ftpmaster.internal/ubuntu noble/main amd64 rpcsvc-proto amd64 1.4.2-0ubuntu6 [68.5 kB]
152s Get:5 http://ftpmaster.internal/ubuntu noble/main amd64 libc6-dev amd64 2.39-0ubuntu6 [2126 kB]
152s Get:6 http://ftpmaster.internal/ubuntu noble/main amd64 libisl23 amd64 0.26-3 [741 kB]
152s Get:7 http://ftpmaster.internal/ubuntu noble/main amd64 libmpc3 amd64 1.3.1-1 [54.1 kB]
152s Get:8 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [11.2 MB]
152s Get:9 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-13 amd64 13.2.0-17ubuntu2 [1030 B]
152s Get:10 http://ftpmaster.internal/ubuntu noble/main amd64 cpp-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [5326 B]
152s Get:11 http://ftpmaster.internal/ubuntu noble/main amd64 cpp amd64 4:13.2.0-7ubuntu1 [22.4 kB]
152s Get:12 http://ftpmaster.internal/ubuntu noble/main amd64 libcc1-0 amd64 14-20240303-1ubuntu1 [47.7 kB]
152s Get:13 http://ftpmaster.internal/ubuntu noble/main amd64 libgomp1 amd64 14-20240303-1ubuntu1 [147 kB]
152s Get:14 http://ftpmaster.internal/ubuntu noble/main amd64 libitm1 amd64 14-20240303-1ubuntu1 [29.1 kB]
152s Get:15 http://ftpmaster.internal/ubuntu noble/main amd64 libatomic1 amd64 14-20240303-1ubuntu1 [10.4 kB]
152s Get:16 http://ftpmaster.internal/ubuntu noble/main amd64 libasan8 amd64 14-20240303-1ubuntu1 [3026 kB]
152s Get:17 http://ftpmaster.internal/ubuntu noble/main amd64 liblsan0 amd64 14-20240303-1ubuntu1 [1310 kB]
152s Get:18 http://ftpmaster.internal/ubuntu noble/main amd64 libtsan2 amd64 14-20240303-1ubuntu1 [2732 kB]
152s Get:19 http://ftpmaster.internal/ubuntu noble/main amd64 libubsan1 amd64 14-20240303-1ubuntu1 [1172 kB]
152s Get:20 http://ftpmaster.internal/ubuntu noble/main amd64 libhwasan0 amd64 14-20240303-1ubuntu1 [1629 kB]
152s Get:21 http://ftpmaster.internal/ubuntu noble/main amd64 libquadmath0 amd64 14-20240303-1ubuntu1 [155 kB]
152s Get:22 http://ftpmaster.internal/ubuntu noble/main amd64 libgcc-13-dev amd64 13.2.0-17ubuntu2 [2687 kB]
152s Get:23 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [21.9 MB]
152s Get:24 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-13 amd64 13.2.0-17ubuntu2 [477 kB]
152s Get:25 http://ftpmaster.internal/ubuntu noble/main amd64 gcc-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [1212 B]
152s Get:26 http://ftpmaster.internal/ubuntu noble/main amd64 gcc amd64 4:13.2.0-7ubuntu1 [5018 B]
152s Get:27 http://ftpmaster.internal/ubuntu noble/main amd64 libstdc++-13-dev amd64 13.2.0-17ubuntu2 [2340 kB]
152s Get:28 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13-x86-64-linux-gnu amd64 13.2.0-17ubuntu2 [12.5 MB]
153s Get:29 http://ftpmaster.internal/ubuntu noble/main amd64 g++-13 amd64 13.2.0-17ubuntu2 [14.5 kB]
153s Get:30 http://ftpmaster.internal/ubuntu noble/main amd64 g++-x86-64-linux-gnu amd64 4:13.2.0-7ubuntu1 [964 B]
153s Get:31 http://ftpmaster.internal/ubuntu noble/main amd64 g++ amd64 4:13.2.0-7ubuntu1 [1100 B]
153s Get:32 http://ftpmaster.internal/ubuntu noble/main amd64 build-essential amd64 12.10ubuntu1 [4928 B]
153s Get:33 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-mono all 2.37-8 [502 kB]
153s Get:34 http://ftpmaster.internal/ubuntu noble/main amd64 fonts-dejavu-core all 2.37-8 [835 kB]
153s Get:35 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig-config amd64 2.15.0-1ubuntu1 [36.9 kB]
153s Get:36 http://ftpmaster.internal/ubuntu noble/main amd64 libfontconfig1 amd64 2.15.0-1ubuntu1 [139 kB]
153s Get:37 http://ftpmaster.internal/ubuntu noble/main amd64 fontconfig amd64 2.15.0-1ubuntu1 [180 kB]
153s Get:38 http://ftpmaster.internal/ubuntu noble/main amd64 libblas3 amd64 3.12.0-3 [238 kB]
153s Get:39 http://ftpmaster.internal/ubuntu noble/main amd64 libpixman-1-0 amd64 0.42.2-1 [268 kB]
153s Get:40 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-render0 amd64 1.15-1 [16.3 kB]
153s Get:41 http://ftpmaster.internal/ubuntu noble/main amd64 libxcb-shm0 amd64 1.15-1 [5740 B]
153s Get:42 http://ftpmaster.internal/ubuntu noble/main amd64 libxrender1 amd64 1:0.9.10-1.1 [20.0 kB]
153s Get:43 http://ftpmaster.internal/ubuntu noble/main amd64 libcairo2 amd64 1.18.0-1 [572 kB]
153s Get:44 http://ftpmaster.internal/ubuntu noble/main amd64 libdatrie1 amd64 0.2.13-3 [20.9 kB]
153s Get:45 http://ftpmaster.internal/ubuntu noble/main amd64 libdeflate0 amd64 1.19-1 [43.7 kB]
153s Get:46 http://ftpmaster.internal/ubuntu noble/main amd64 libgfortran5 amd64 14-20240303-1ubuntu1 [924 kB]
153s Get:47 http://ftpmaster.internal/ubuntu noble/main amd64 libgraphite2-3 amd64 1.3.14-2 [83.1 kB]
153s Get:48 http://ftpmaster.internal/ubuntu noble/main amd64 libharfbuzz0b amd64 8.3.0-2 [469 kB]
153s Get:49 http://ftpmaster.internal/ubuntu noble/main amd64 x11-common all 1:7.7+23ubuntu2 [23.4 kB]
153s Get:50 http://ftpmaster.internal/ubuntu noble/main amd64 libice6 amd64 2:1.0.10-1build2 [42.6 kB]
153s Get:51 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg-turbo8 amd64 2.1.5-2ubuntu1 [147 kB]
153s Get:52 http://ftpmaster.internal/ubuntu noble/main amd64 libjpeg8 amd64 8c-2ubuntu11 [2148 B]
153s Get:53 http://ftpmaster.internal/ubuntu noble/main amd64 liblapack3 amd64 3.12.0-3 [2649 kB]
153s Get:54 http://ftpmaster.internal/ubuntu noble/main amd64 liblerc4 amd64 4.0.0+ds-4ubuntu1 [184 kB]
153s Get:55 http://ftpmaster.internal/ubuntu noble/main amd64 libthai-data all 0.1.29-2 [158 kB]
153s Get:56 http://ftpmaster.internal/ubuntu noble/main amd64 libthai0 amd64 0.1.29-2 [18.8 kB]
153s Get:57 http://ftpmaster.internal/ubuntu noble/main amd64 libpango-1.0-0 amd64 1.51.0+ds-4 [228 kB]
153s Get:58 http://ftpmaster.internal/ubuntu noble/main amd64 libpangoft2-1.0-0 amd64 1.51.0+ds-4 [42.1 kB]
153s Get:59 http://ftpmaster.internal/ubuntu noble/main amd64 libpangocairo-1.0-0 amd64 1.51.0+ds-4 [29.0 kB]
153s Get:60 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper1 amd64 1.1.29 [13.4 kB]
153s Get:61 http://ftpmaster.internal/ubuntu noble/main amd64 libpaper-utils amd64 1.1.29 [8658 B]
153s Get:62 http://ftpmaster.internal/ubuntu noble/main amd64 libsharpyuv0 amd64 1.3.2-0.4 [15.6 kB]
153s Get:63 http://ftpmaster.internal/ubuntu noble/main amd64 libsm6 amd64 2:1.2.3-1build2 [16.7 kB]
153s Get:64 http://ftpmaster.internal/ubuntu noble/main amd64 libtcl8.6 amd64 8.6.13+dfsg-2 [984 kB]
153s Get:65 http://ftpmaster.internal/ubuntu noble/main amd64 libjbig0 amd64 2.1-6.1ubuntu1 [29.3 kB]
153s Get:66 http://ftpmaster.internal/ubuntu noble/main amd64 libwebp7 amd64 1.3.2-0.4 [230 kB]
153s Get:67 http://ftpmaster.internal/ubuntu noble/main amd64 libtiff6 amd64 4.5.1+git230720-3ubuntu1 [232 kB]
153s Get:68 http://ftpmaster.internal/ubuntu noble/main amd64 libxft2 amd64 2.3.6-1 [44.5 kB]
153s Get:69 http://ftpmaster.internal/ubuntu noble/main amd64 libxss1 amd64 1:1.2.3-1build2 [8476 B]
153s Get:70 http://ftpmaster.internal/ubuntu noble/main amd64 libtk8.6 amd64 8.6.14-1 [779 kB]
153s Get:71 http://ftpmaster.internal/ubuntu noble/main amd64 libxt6 amd64 1:1.2.1-1.1 [173 kB]
153s Get:72 http://ftpmaster.internal/ubuntu noble/main amd64 zip amd64 3.0-13 [176 kB]
153s Get:73 http://ftpmaster.internal/ubuntu noble/main amd64 unzip amd64 6.0-28ubuntu3 [174 kB]
153s Get:74 http://ftpmaster.internal/ubuntu noble/main amd64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB]
153s Get:75 http://ftpmaster.internal/ubuntu noble/universe amd64 r-base-core amd64 4.3.2-1build1 [27.0 MB]
153s Get:76 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-setrng all 2022.4-1-1 [55.3 kB]
153s Get:77 http://ftpmaster.internal/ubuntu noble/universe amd64 r-cran-squarem all 2021.1-1 [179 kB]
153s Preconfiguring packages ...
154s Fetched 104 MB in 1s (104 MB/s)
154s Selecting previously unselected package libc-dev-bin.
154s (Reading database ... 
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(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%
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154s Preparing to unpack .../00-libc-dev-bin_2.39-0ubuntu6_amd64.deb ...
154s Unpacking libc-dev-bin (2.39-0ubuntu6) ...
154s Selecting previously unselected package linux-libc-dev:amd64.
154s Preparing to unpack .../01-linux-libc-dev_6.8.0-11.11_amd64.deb ...
154s Unpacking linux-libc-dev:amd64 (6.8.0-11.11) ...
154s Selecting previously unselected package libcrypt-dev:amd64.
154s Preparing to unpack .../02-libcrypt-dev_1%3a4.4.36-4_amd64.deb ...
154s Unpacking libcrypt-dev:amd64 (1:4.4.36-4) ...
154s Selecting previously unselected package rpcsvc-proto.
154s Preparing to unpack .../03-rpcsvc-proto_1.4.2-0ubuntu6_amd64.deb ...
154s Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ...
154s Selecting previously unselected package libc6-dev:amd64.
154s Preparing to unpack .../04-libc6-dev_2.39-0ubuntu6_amd64.deb ...
154s Unpacking libc6-dev:amd64 (2.39-0ubuntu6) ...
154s Selecting previously unselected package libisl23:amd64.
154s Preparing to unpack .../05-libisl23_0.26-3_amd64.deb ...
154s Unpacking libisl23:amd64 (0.26-3) ...
154s Selecting previously unselected package libmpc3:amd64.
154s Preparing to unpack .../06-libmpc3_1.3.1-1_amd64.deb ...
154s Unpacking libmpc3:amd64 (1.3.1-1) ...
154s Selecting previously unselected package cpp-13-x86-64-linux-gnu.
154s Preparing to unpack .../07-cpp-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
154s Unpacking cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
155s Selecting previously unselected package cpp-13.
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155s Unpacking cpp-13 (13.2.0-17ubuntu2) ...
155s Selecting previously unselected package cpp-x86-64-linux-gnu.
155s Preparing to unpack .../09-cpp-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
155s Unpacking cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
155s Selecting previously unselected package cpp.
155s Preparing to unpack .../10-cpp_4%3a13.2.0-7ubuntu1_amd64.deb ...
155s Unpacking cpp (4:13.2.0-7ubuntu1) ...
155s Selecting previously unselected package libcc1-0:amd64.
155s Preparing to unpack .../11-libcc1-0_14-20240303-1ubuntu1_amd64.deb ...
155s Unpacking libcc1-0:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package libgomp1:amd64.
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155s Unpacking libgomp1:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package libitm1:amd64.
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155s Unpacking libitm1:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package libatomic1:amd64.
155s Preparing to unpack .../14-libatomic1_14-20240303-1ubuntu1_amd64.deb ...
155s Unpacking libatomic1:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package libasan8:amd64.
155s Preparing to unpack .../15-libasan8_14-20240303-1ubuntu1_amd64.deb ...
155s Unpacking libasan8:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package liblsan0:amd64.
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155s Unpacking liblsan0:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package libtsan2:amd64.
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155s Selecting previously unselected package libubsan1:amd64.
155s Preparing to unpack .../18-libubsan1_14-20240303-1ubuntu1_amd64.deb ...
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155s Selecting previously unselected package libhwasan0:amd64.
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155s Unpacking libhwasan0:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package libquadmath0:amd64.
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155s Unpacking libquadmath0:amd64 (14-20240303-1ubuntu1) ...
155s Selecting previously unselected package libgcc-13-dev:amd64.
155s Preparing to unpack .../21-libgcc-13-dev_13.2.0-17ubuntu2_amd64.deb ...
155s Unpacking libgcc-13-dev:amd64 (13.2.0-17ubuntu2) ...
155s Selecting previously unselected package gcc-13-x86-64-linux-gnu.
155s Preparing to unpack .../22-gcc-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
155s Unpacking gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
156s Selecting previously unselected package gcc-13.
156s Preparing to unpack .../23-gcc-13_13.2.0-17ubuntu2_amd64.deb ...
156s Unpacking gcc-13 (13.2.0-17ubuntu2) ...
156s Selecting previously unselected package gcc-x86-64-linux-gnu.
156s Preparing to unpack .../24-gcc-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
156s Unpacking gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
156s Selecting previously unselected package gcc.
156s Preparing to unpack .../25-gcc_4%3a13.2.0-7ubuntu1_amd64.deb ...
156s Unpacking gcc (4:13.2.0-7ubuntu1) ...
156s Selecting previously unselected package libstdc++-13-dev:amd64.
156s Preparing to unpack .../26-libstdc++-13-dev_13.2.0-17ubuntu2_amd64.deb ...
156s Unpacking libstdc++-13-dev:amd64 (13.2.0-17ubuntu2) ...
156s Selecting previously unselected package g++-13-x86-64-linux-gnu.
156s Preparing to unpack .../27-g++-13-x86-64-linux-gnu_13.2.0-17ubuntu2_amd64.deb ...
156s Unpacking g++-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
156s Selecting previously unselected package g++-13.
156s Preparing to unpack .../28-g++-13_13.2.0-17ubuntu2_amd64.deb ...
156s Unpacking g++-13 (13.2.0-17ubuntu2) ...
156s Selecting previously unselected package g++-x86-64-linux-gnu.
156s Preparing to unpack .../29-g++-x86-64-linux-gnu_4%3a13.2.0-7ubuntu1_amd64.deb ...
156s Unpacking g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
156s Selecting previously unselected package g++.
156s Preparing to unpack .../30-g++_4%3a13.2.0-7ubuntu1_amd64.deb ...
156s Unpacking g++ (4:13.2.0-7ubuntu1) ...
156s Selecting previously unselected package build-essential.
156s Preparing to unpack .../31-build-essential_12.10ubuntu1_amd64.deb ...
156s Unpacking build-essential (12.10ubuntu1) ...
157s Selecting previously unselected package fonts-dejavu-mono.
157s Preparing to unpack .../32-fonts-dejavu-mono_2.37-8_all.deb ...
157s Unpacking fonts-dejavu-mono (2.37-8) ...
157s Selecting previously unselected package fonts-dejavu-core.
157s Preparing to unpack .../33-fonts-dejavu-core_2.37-8_all.deb ...
157s Unpacking fonts-dejavu-core (2.37-8) ...
157s Selecting previously unselected package fontconfig-config.
157s Preparing to unpack .../34-fontconfig-config_2.15.0-1ubuntu1_amd64.deb ...
157s Unpacking fontconfig-config (2.15.0-1ubuntu1) ...
157s Selecting previously unselected package libfontconfig1:amd64.
157s Preparing to unpack .../35-libfontconfig1_2.15.0-1ubuntu1_amd64.deb ...
157s Unpacking libfontconfig1:amd64 (2.15.0-1ubuntu1) ...
157s Selecting previously unselected package fontconfig.
157s Preparing to unpack .../36-fontconfig_2.15.0-1ubuntu1_amd64.deb ...
157s Unpacking fontconfig (2.15.0-1ubuntu1) ...
157s Selecting previously unselected package libblas3:amd64.
157s Preparing to unpack .../37-libblas3_3.12.0-3_amd64.deb ...
157s Unpacking libblas3:amd64 (3.12.0-3) ...
157s Selecting previously unselected package libpixman-1-0:amd64.
157s Preparing to unpack .../38-libpixman-1-0_0.42.2-1_amd64.deb ...
157s Unpacking libpixman-1-0:amd64 (0.42.2-1) ...
157s Selecting previously unselected package libxcb-render0:amd64.
157s Preparing to unpack .../39-libxcb-render0_1.15-1_amd64.deb ...
157s Unpacking libxcb-render0:amd64 (1.15-1) ...
157s Selecting previously unselected package libxcb-shm0:amd64.
157s Preparing to unpack .../40-libxcb-shm0_1.15-1_amd64.deb ...
157s Unpacking libxcb-shm0:amd64 (1.15-1) ...
157s Selecting previously unselected package libxrender1:amd64.
157s Preparing to unpack .../41-libxrender1_1%3a0.9.10-1.1_amd64.deb ...
157s Unpacking libxrender1:amd64 (1:0.9.10-1.1) ...
157s Selecting previously unselected package libcairo2:amd64.
157s Preparing to unpack .../42-libcairo2_1.18.0-1_amd64.deb ...
157s Unpacking libcairo2:amd64 (1.18.0-1) ...
157s Selecting previously unselected package libdatrie1:amd64.
157s Preparing to unpack .../43-libdatrie1_0.2.13-3_amd64.deb ...
157s Unpacking libdatrie1:amd64 (0.2.13-3) ...
157s Selecting previously unselected package libdeflate0:amd64.
157s Preparing to unpack .../44-libdeflate0_1.19-1_amd64.deb ...
157s Unpacking libdeflate0:amd64 (1.19-1) ...
157s Selecting previously unselected package libgfortran5:amd64.
157s Preparing to unpack .../45-libgfortran5_14-20240303-1ubuntu1_amd64.deb ...
157s Unpacking libgfortran5:amd64 (14-20240303-1ubuntu1) ...
157s Selecting previously unselected package libgraphite2-3:amd64.
157s Preparing to unpack .../46-libgraphite2-3_1.3.14-2_amd64.deb ...
157s Unpacking libgraphite2-3:amd64 (1.3.14-2) ...
157s Selecting previously unselected package libharfbuzz0b:amd64.
157s Preparing to unpack .../47-libharfbuzz0b_8.3.0-2_amd64.deb ...
157s Unpacking libharfbuzz0b:amd64 (8.3.0-2) ...
157s Selecting previously unselected package x11-common.
157s Preparing to unpack .../48-x11-common_1%3a7.7+23ubuntu2_all.deb ...
157s Unpacking x11-common (1:7.7+23ubuntu2) ...
158s Selecting previously unselected package libice6:amd64.
158s Preparing to unpack .../49-libice6_2%3a1.0.10-1build2_amd64.deb ...
158s Unpacking libice6:amd64 (2:1.0.10-1build2) ...
158s Selecting previously unselected package libjpeg-turbo8:amd64.
158s Preparing to unpack .../50-libjpeg-turbo8_2.1.5-2ubuntu1_amd64.deb ...
158s Unpacking libjpeg-turbo8:amd64 (2.1.5-2ubuntu1) ...
158s Selecting previously unselected package libjpeg8:amd64.
158s Preparing to unpack .../51-libjpeg8_8c-2ubuntu11_amd64.deb ...
158s Unpacking libjpeg8:amd64 (8c-2ubuntu11) ...
158s Selecting previously unselected package liblapack3:amd64.
158s Preparing to unpack .../52-liblapack3_3.12.0-3_amd64.deb ...
158s Unpacking liblapack3:amd64 (3.12.0-3) ...
158s Selecting previously unselected package liblerc4:amd64.
158s Preparing to unpack .../53-liblerc4_4.0.0+ds-4ubuntu1_amd64.deb ...
158s Unpacking liblerc4:amd64 (4.0.0+ds-4ubuntu1) ...
158s Selecting previously unselected package libthai-data.
158s Preparing to unpack .../54-libthai-data_0.1.29-2_all.deb ...
158s Unpacking libthai-data (0.1.29-2) ...
158s Selecting previously unselected package libthai0:amd64.
158s Preparing to unpack .../55-libthai0_0.1.29-2_amd64.deb ...
158s Unpacking libthai0:amd64 (0.1.29-2) ...
158s Selecting previously unselected package libpango-1.0-0:amd64.
158s Preparing to unpack .../56-libpango-1.0-0_1.51.0+ds-4_amd64.deb ...
158s Unpacking libpango-1.0-0:amd64 (1.51.0+ds-4) ...
158s Selecting previously unselected package libpangoft2-1.0-0:amd64.
158s Preparing to unpack .../57-libpangoft2-1.0-0_1.51.0+ds-4_amd64.deb ...
158s Unpacking libpangoft2-1.0-0:amd64 (1.51.0+ds-4) ...
158s Selecting previously unselected package libpangocairo-1.0-0:amd64.
158s Preparing to unpack .../58-libpangocairo-1.0-0_1.51.0+ds-4_amd64.deb ...
158s Unpacking libpangocairo-1.0-0:amd64 (1.51.0+ds-4) ...
158s Selecting previously unselected package libpaper1:amd64.
158s Preparing to unpack .../59-libpaper1_1.1.29_amd64.deb ...
158s Unpacking libpaper1:amd64 (1.1.29) ...
158s Selecting previously unselected package libpaper-utils.
158s Preparing to unpack .../60-libpaper-utils_1.1.29_amd64.deb ...
158s Unpacking libpaper-utils (1.1.29) ...
158s Selecting previously unselected package libsharpyuv0:amd64.
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158s Unpacking libsharpyuv0:amd64 (1.3.2-0.4) ...
158s Selecting previously unselected package libsm6:amd64.
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158s Unpacking libsm6:amd64 (2:1.2.3-1build2) ...
158s Selecting previously unselected package libtcl8.6:amd64.
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158s Unpacking libtcl8.6:amd64 (8.6.13+dfsg-2) ...
158s Selecting previously unselected package libjbig0:amd64.
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158s Unpacking libjbig0:amd64 (2.1-6.1ubuntu1) ...
158s Selecting previously unselected package libwebp7:amd64.
158s Preparing to unpack .../65-libwebp7_1.3.2-0.4_amd64.deb ...
158s Unpacking libwebp7:amd64 (1.3.2-0.4) ...
158s Selecting previously unselected package libtiff6:amd64.
158s Preparing to unpack .../66-libtiff6_4.5.1+git230720-3ubuntu1_amd64.deb ...
158s Unpacking libtiff6:amd64 (4.5.1+git230720-3ubuntu1) ...
158s Selecting previously unselected package libxft2:amd64.
158s Preparing to unpack .../67-libxft2_2.3.6-1_amd64.deb ...
158s Unpacking libxft2:amd64 (2.3.6-1) ...
158s Selecting previously unselected package libxss1:amd64.
158s Preparing to unpack .../68-libxss1_1%3a1.2.3-1build2_amd64.deb ...
158s Unpacking libxss1:amd64 (1:1.2.3-1build2) ...
158s Selecting previously unselected package libtk8.6:amd64.
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158s Unpacking libtk8.6:amd64 (8.6.14-1) ...
158s Selecting previously unselected package libxt6:amd64.
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158s Preparing to unpack .../72-unzip_6.0-28ubuntu3_amd64.deb ...
158s Unpacking unzip (6.0-28ubuntu3) ...
158s Selecting previously unselected package xdg-utils.
158s Preparing to unpack .../73-xdg-utils_1.1.3-4.1ubuntu3_all.deb ...
158s Unpacking xdg-utils (1.1.3-4.1ubuntu3) ...
158s Selecting previously unselected package r-base-core.
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158s Unpacking r-base-core (4.3.2-1build1) ...
159s Selecting previously unselected package r-cran-setrng.
159s Preparing to unpack .../75-r-cran-setrng_2022.4-1-1_all.deb ...
159s Unpacking r-cran-setrng (2022.4-1-1) ...
159s Selecting previously unselected package r-cran-squarem.
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159s Unpacking r-cran-squarem (2021.1-1) ...
159s Setting up libgraphite2-3:amd64 (1.3.14-2) ...
159s Setting up libpixman-1-0:amd64 (0.42.2-1) ...
159s Setting up libsharpyuv0:amd64 (1.3.2-0.4) ...
159s Setting up libpaper1:amd64 (1.1.29) ...
159s 
159s Creating config file /etc/papersize with new version
159s Setting up liblerc4:amd64 (4.0.0+ds-4ubuntu1) ...
159s Setting up libxrender1:amd64 (1:0.9.10-1.1) ...
159s Setting up libdatrie1:amd64 (0.2.13-3) ...
159s Setting up libxcb-render0:amd64 (1.15-1) ...
159s Setting up unzip (6.0-28ubuntu3) ...
159s Setting up x11-common (1:7.7+23ubuntu2) ...
159s Setting up libdeflate0:amd64 (1.19-1) ...
159s Setting up linux-libc-dev:amd64 (6.8.0-11.11) ...
159s Setting up libxcb-shm0:amd64 (1.15-1) ...
159s Setting up libpaper-utils (1.1.29) ...
159s Setting up libgomp1:amd64 (14-20240303-1ubuntu1) ...
159s Setting up libjbig0:amd64 (2.1-6.1ubuntu1) ...
159s Setting up zip (3.0-13) ...
159s Setting up libblas3:amd64 (3.12.0-3) ...
159s 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
159s Setting up rpcsvc-proto (1.4.2-0ubuntu6) ...
159s Setting up libquadmath0:amd64 (14-20240303-1ubuntu1) ...
159s Setting up fonts-dejavu-mono (2.37-8) ...
159s Setting up libmpc3:amd64 (1.3.1-1) ...
159s Setting up libatomic1:amd64 (14-20240303-1ubuntu1) ...
159s Setting up libtcl8.6:amd64 (8.6.13+dfsg-2) ...
159s Setting up fonts-dejavu-core (2.37-8) ...
160s Setting up libjpeg-turbo8:amd64 (2.1.5-2ubuntu1) ...
160s Setting up libgfortran5:amd64 (14-20240303-1ubuntu1) ...
160s Setting up libwebp7:amd64 (1.3.2-0.4) ...
160s Setting up libubsan1:amd64 (14-20240303-1ubuntu1) ...
160s Setting up libhwasan0:amd64 (14-20240303-1ubuntu1) ...
160s Setting up libcrypt-dev:amd64 (1:4.4.36-4) ...
160s Setting up libasan8:amd64 (14-20240303-1ubuntu1) ...
160s Setting up libharfbuzz0b:amd64 (8.3.0-2) ...
160s Setting up libthai-data (0.1.29-2) ...
160s Setting up libxss1:amd64 (1:1.2.3-1build2) ...
160s Setting up libtsan2:amd64 (14-20240303-1ubuntu1) ...
160s Setting up libisl23:amd64 (0.26-3) ...
160s Setting up libc-dev-bin (2.39-0ubuntu6) ...
160s Setting up xdg-utils (1.1.3-4.1ubuntu3) ...
160s update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
160s Setting up libcc1-0:amd64 (14-20240303-1ubuntu1) ...
160s Setting up liblsan0:amd64 (14-20240303-1ubuntu1) ...
160s Setting up libitm1:amd64 (14-20240303-1ubuntu1) ...
160s Setting up libjpeg8:amd64 (8c-2ubuntu11) ...
160s Setting up libice6:amd64 (2:1.0.10-1build2) ...
160s Setting up liblapack3:amd64 (3.12.0-3) ...
160s 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
160s Setting up cpp-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
160s Setting up fontconfig-config (2.15.0-1ubuntu1) ...
160s Setting up libthai0:amd64 (0.1.29-2) ...
160s Setting up libgcc-13-dev:amd64 (13.2.0-17ubuntu2) ...
160s Setting up libtiff6:amd64 (4.5.1+git230720-3ubuntu1) ...
160s Setting up libc6-dev:amd64 (2.39-0ubuntu6) ...
160s Setting up libfontconfig1:amd64 (2.15.0-1ubuntu1) ...
160s Setting up libsm6:amd64 (2:1.2.3-1build2) ...
160s Setting up libstdc++-13-dev:amd64 (13.2.0-17ubuntu2) ...
160s Setting up cpp-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
160s Setting up fontconfig (2.15.0-1ubuntu1) ...
162s Regenerating fonts cache... done.
162s Setting up libxft2:amd64 (2.3.6-1) ...
162s Setting up cpp-13 (13.2.0-17ubuntu2) ...
162s Setting up gcc-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
162s Setting up libtk8.6:amd64 (8.6.14-1) ...
162s Setting up libpango-1.0-0:amd64 (1.51.0+ds-4) ...
162s Setting up libcairo2:amd64 (1.18.0-1) ...
162s Setting up gcc-13 (13.2.0-17ubuntu2) ...
162s Setting up libxt6:amd64 (1:1.2.1-1.1) ...
162s Setting up cpp (4:13.2.0-7ubuntu1) ...
162s Setting up libpangoft2-1.0-0:amd64 (1.51.0+ds-4) ...
162s Setting up libpangocairo-1.0-0:amd64 (1.51.0+ds-4) ...
162s Setting up g++-13-x86-64-linux-gnu (13.2.0-17ubuntu2) ...
162s Setting up gcc-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
162s Setting up gcc (4:13.2.0-7ubuntu1) ...
162s Setting up r-base-core (4.3.2-1build1) ...
162s 
162s Creating config file /etc/R/Renviron with new version
162s Setting up r-cran-squarem (2021.1-1) ...
162s Setting up g++-x86-64-linux-gnu (4:13.2.0-7ubuntu1) ...
162s Setting up g++-13 (13.2.0-17ubuntu2) ...
162s Setting up r-cran-setrng (2022.4-1-1) ...
162s Setting up g++ (4:13.2.0-7ubuntu1) ...
162s update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode
162s Setting up build-essential (12.10ubuntu1) ...
162s Processing triggers for libc-bin (2.39-0ubuntu6) ...
162s Processing triggers for man-db (2.12.0-3) ...
164s Processing triggers for install-info (7.1-3) ...
168s Reading package lists...
168s Building dependency tree...
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172s autopkgtest [01:00:11]: test run-unit-test: [-----------------------
172s BEGIN TEST Hasselblad1969.R
172s 
172s R version 4.3.2 (2023-10-31) -- "Eye Holes"
172s Copyright (C) 2023 The R Foundation for Statistical Computing
172s Platform: x86_64-pc-linux-gnu (64-bit)
172s 
172s R is free software and comes with ABSOLUTELY NO WARRANTY.
172s You are welcome to redistribute it under certain conditions.
172s Type 'license()' or 'licence()' for distribution details.
172s 
172s R is a collaborative project with many contributors.
172s Type 'contributors()' for more information and
172s 'citation()' on how to cite R or R packages in publications.
172s 
172s Type 'demo()' for some demos, 'help()' for on-line help, or
172s 'help.start()' for an HTML browser interface to help.
172s Type 'q()' to quit R.
172s 
172s > require("SQUAREM")  # master funcion and the 4 different SQUAREM algorithms
172s Loading required package: SQUAREM
172s Loading required package: setRNG
172s > require("setRNG")   # needed to reproduce the same results
172s > 
172s > # data for Poisson mixture estimation  from Hasselblad (JASA 1969)
172s > poissmix.dat <- data.frame(death=0:9, freq=c(162,267,271,185,111,61,27,8,3,1))
172s > 
172s > y <- poissmix.dat$freq
172s > tol <- 1.e-08
172s > 
172s > # generate a random initial guess for 3 parameters
172s > setRNG(list(kind="Wichmann-Hill", normal.kind="Box-Muller", seed=123))
172s > p0 <- c(runif(1),runif(2,0,4))    
172s > 
172s > # fixptfn = function that computes a single update of fixed-point iteration
172s > # objfn = underlying objective function that needs to be maximized
172s > #
172s > 
172s > # EM algorithm
172s > 
172s > poissmix.em <- function(p,y) {
172s + # The fixed point mapping giving a single E and M step of the EM algorithm
172s + # 
172s + pnew <- rep(NA,3)
172s + i <- 0:(length(y)-1)
172s + zi <- p[1]*exp(-p[2])*p[2]^i / (p[1]*exp(-p[2])*p[2]^i + (1 - p[1])*exp(-p[3])*p[3]^i)
172s + pnew[1] <- sum(y*zi)/sum(y)
172s + pnew[2] <- sum(y*i*zi)/sum(y*zi)
172s + pnew[3] <- sum(y*i*(1-zi))/sum(y*(1-zi))
172s + p <- pnew
172s + return(pnew)
172s + }
172s > 
172s > poissmix.loglik <- function(p,y) {
172s + # Objective function whose local minimum is a fixed point \
172s + # negative log-likelihood of binary poisson mixture
172s + i <- 0:(length(y)-1)
172s + loglik <- y*log(p[1]*exp(-p[2])*p[2]^i/exp(lgamma(i+1)) + 
172s + 		(1 - p[1])*exp(-p[3])*p[3]^i/exp(lgamma(i+1)))
172s + return ( -sum(loglik) )
172s + }
172s > 
172s > good.tol <- 1.e-05
172s > 
172s > good <-  c(0.6401146029910, 2.6634043566619, 1.2560951012662)
172s > 
172s >   pf1 <- fpiter(p=p0, y=y, fixptfn=poissmix.em, objfn=poissmix.loglik, control=list(tol=tol))
172s >   print(pf1$par, digits=16)
172s [1] 0.6401136228187346 2.6634055536337877 1.2560968051580201
172s > #  good <- c(0.6401136228187346, 2.6634055536337877, 1.2560968051580201)
172s >   if (good.tol < max(abs(good - pf1$par))) stop("error in EM algorithm.")
172s > 
172s > 
172s > # First-order SQUAREM algorithm with SqS3 method
172s >   pf2 <- squarem(par=p0, y=y, fixptfn=poissmix.em, objfn=poissmix.loglik,   
172s +     control=list(tol=tol))
172s >   print(pf2$par, digits=16)
172s [1] 0.640115150897306 2.663403687572512 1.256094148796550
172s > #[1] 0.640114475404004 2.663404513995809 1.256095320343123 linux Ubuntu 10.04 Intel core 2 duo/Dell
172s > #[1] 0.640114475330512 2.663404514085158 1.256095320471585 linux Ubuntu 10.04 Intel Centrino/Toshiba
172s > 
172s > #  good <- c(0.640114475404004, 2.663404513995809, 1.256095320343123)
172s >   if (good.tol < max(abs(good - pf2$par))) stop("error in First-order SQUAREM algorithm with SqS3 method.")
172s > 
172s > # First-order SQUAREM algorithm with SqS2 method
172s >   pf3 <- squarem(par=p0, y=y, fixptfn=poissmix.em, objfn=poissmix.loglik, 
172s +     control=list(method=2, tol=tol))
172s >   print(pf3$par, digits=16)
172s [1] 0.640115225547420 2.663403596411611 1.256094019026301
172s > #[1] 0.640115228256831  2.663403593105286  1.256094014312148 linux Ubuntu 10.04 Intel core 2 duo/Dell
172s > #[1] 0.6401152283764715 2.6634035929591846 1.2560940141041679linux Ubuntu 10.04 Intel Centrino/Toshiba
172s > 
172s > #  good <- c(0.640115228256831, 2.663403593105286, 1.256094014312148)
172s >   if (good.tol < max(abs(good - pf3$par))) stop("error in First-order SQUAREM algorithm with SqS2 method.")
172s > 
172s > # First-order SQUAREM algorithm with SqS3 method; non-monotone 
172s > # Note: the objective function is not evaluated when objfn.inc = Inf 
172s >   pf4 <- squarem(par=p0,y=y, fixptfn=poissmix.em, 
172s +     control=list(tol=tol, objfn.inc=Inf))
172s >   print(pf4$par, digits=16)
172s [1] 0.640115150897306 2.663403687572512 1.256094148796550
172s > #[1] 0.640114475404004 2.663404513995809 1.256095320343123 linux Ubuntu 10.04 Intel core 2 duo/Dell
172s > #[1] 0.640114475330512 2.663404514085158 1.256095320471585 linux Ubuntu 10.04 Intel Centrino/Toshiba
172s > 
172s > #  good <- c(0.640114475404004, 2.663404513995809, 1.256095320343123)
172s >   if (good.tol < max(abs(good - pf4$par))) stop("error in First-order SQUAREM algorithm with SqS3 method; non-monotone.")
172s > 
172s > # First-order SQUAREM algorithm with SqS3 method; objective function is not specified
172s >   pf5 <- squarem(par=p0,y=y, fixptfn=poissmix.em, control=list(tol=tol, kr=0.1))
172s >   print(pf5$par, digits=16)
172s [1] 0.640115150897306 2.663403687572512 1.256094148796550
172s > #[1] 0.640114475404004 2.663404513995809 1.256095320343123 linux Ubuntu 10.04 Intel core 2 duo/Dell
172s > #[1] 0.640114475330512 2.663404514085158 1.256095320471585 linux Ubuntu 10.04 Intel Centrino/Toshiba
172s > 
172s > #  good <- c(0.640114475404004, 2.663404513995809, 1.256095320343123)
172s >   if (good.tol < max(abs(good - pf5$par))) stop("error in First-order SQUAREM algorithm with SqS3 (and no objective function).")
172s > 
172s > # Second-order (K=2) SQUAREM algorithm with SqRRE 
172s >   pf6 <- squarem(par=p0, y=y, fixptfn=poissmix.em, objfn=poissmix.loglik,
172s +     control=list (K=2, tol=tol))
172s >   print(pf6$par, digits=16)
172s [1] 0.6401146031475133 2.6634043564297323 1.2560951010670145
172s > #[1] 0.640114603181059 2.663404356560964 1.256095100702419 linux Ubuntu 10.04 Intel core 2 duo/Dell
172s > #[1] 0.640114603175754 2.663404356262396 1.256095101254215 linux Ubuntu 10.04 Intel Centrino/Toshiba
172s > 
172s > #  good <- c(0.640114603181059, 2.663404356560964, 1.256095100702419)
172s >   if (good.tol < max(abs(good - pf6$par))) stop("error in Second-order (K=2) SQUAREM algorithm with SqRRE.")
172s > 
172s > # Second-order SQUAREM algorithm with SqRRE; objective function is not specified
172s >   pf7 <- squarem(par=p0, y=y, fixptfn=poissmix.em, control=list(K=2, tol=tol))
172s >   print(pf7$par, digits=16)
172s [1] 0.6401146031709708 2.6634043566506542 1.2560951005823398
172s > #[1] 0.640114603108274  2.663404357034439  1.256095100144889  linux Ubuntu 10.04 Intel core 2 duo/Dell
172s > #[1] 0.6401146029029904 2.6634043571424155 1.2560951007555829 linux Ubuntu 10.04 Intel Centrino/Toshiba
172s > 
172s > #  good <- c(0.640114603108274, 2.663404357034439, 1.256095100144889)
172s >   if (good.tol < max(abs(good - pf7$par))) stop("error in Second-order SQUAREM algorithm with SqRRE (and no objective function).")
172s > 
172s > # Number of fixed-point evaluations
172s >   c(pf1$fpeval, pf2$fpeval, pf3$fpeval, pf4$fpeval, pf5$fpeval, pf6$fpeval, pf7$fpeval)
172s [1] 2556   66   57   66   66   36   46
172s > 
172s > # Number of objective function evaluations
172s >   c(pf1$objfeval, pf2$objfeval, pf3$objfeval, pf4$objfeval, pf5$objfeval, pf6$objfeval, pf7$objfeval)
172s [1]  0 23 20  0  0  8  0
172s > 
172s > # Comparison of converged parameter estimates
172s >   par.mat <- rbind(pf1$par, pf2$par, pf3$par, pf4$par, pf5$par, pf6$par, pf7$par)
172s >   par.mat
172s           [,1]     [,2]     [,3]
172s [1,] 0.6401136 2.663406 1.256097
172s [2,] 0.6401152 2.663404 1.256094
172s [3,] 0.6401152 2.663404 1.256094
172s [4,] 0.6401152 2.663404 1.256094
172s [5,] 0.6401152 2.663404 1.256094
172s [6,] 0.6401146 2.663404 1.256095
172s [7,] 0.6401146 2.663404 1.256095
172s > 
172s > 
173s autopkgtest [01:00:12]: test run-unit-test: -----------------------]
173s run-unit-test        PASS
173s autopkgtest [01:00:12]: test run-unit-test:  - - - - - - - - - - results - - - - - - - - - -
173s autopkgtest [01:00:12]: test pkg-r-autopkgtest: preparing testbed
175s Note, using file '/tmp/autopkgtest.H1ea8c/3-autopkgtest-satdep.dsc' to get the build dependencies
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186s autopkgtest [01:00:25]: test pkg-r-autopkgtest: /usr/share/dh-r/pkg-r-autopkgtest
186s autopkgtest [01:00:25]: test pkg-r-autopkgtest: [-----------------------
187s Test: Try to load the R library SQUAREM
187s 
187s R version 4.3.2 (2023-10-31) -- "Eye Holes"
187s Copyright (C) 2023 The R Foundation for Statistical Computing
187s Platform: x86_64-pc-linux-gnu (64-bit)
187s 
187s R is free software and comes with ABSOLUTELY NO WARRANTY.
187s You are welcome to redistribute it under certain conditions.
187s Type 'license()' or 'licence()' for distribution details.
187s 
187s R is a collaborative project with many contributors.
187s Type 'contributors()' for more information and
187s 'citation()' on how to cite R or R packages in publications.
187s 
187s Type 'demo()' for some demos, 'help()' for on-line help, or
187s 'help.start()' for an HTML browser interface to help.
187s Type 'q()' to quit R.
187s 
187s > library('SQUAREM')
187s > 
187s > 
187s Other tests are currently unsupported!
187s They will be progressively added.
187s autopkgtest [01:00:26]: test pkg-r-autopkgtest: -----------------------]
187s autopkgtest [01:00:26]: test pkg-r-autopkgtest:  - - - - - - - - - - results - - - - - - - - - -
187s pkg-r-autopkgtest    PASS
188s autopkgtest [01:00:27]: @@@@@@@@@@@@@@@@@@@@ summary
188s run-unit-test        PASS
188s pkg-r-autopkgtest    PASS
198s Creating nova instance adt-noble-i386-r-cran-squarem-20240324-005719-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-amd64-server-20240323.img (UUID 5df8a563-0957-4fdd-8453-862df650aaf8)...