0s autopkgtest [18:07:24]: starting date and time: 2025-03-15 18:07:24+0000 0s autopkgtest [18:07:24]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [18:07:24]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.n0e2v7jl/out --timeout-copy=6000 --setup-commands 'ln -s /dev/null /etc/systemd/system/bluetooth.service; printf "http_proxy=http://squid.internal:3128\nhttps_proxy=http://squid.internal:3128\nno_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,keyserver.ubuntu.com,launchpadlibrarian.net,launchpadcontent.net,launchpad.net,10.24.0.0/24,keystone.ps5.canonical.com,objectstorage.prodstack5.canonical.com,radosgw.ps5.canonical.com\n" >> /etc/environment' --apt-pocket=proposed=src:glibc --apt-upgrade trinculo --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- lxd -r lxd-armhf-10.145.243.141 lxd-armhf-10.145.243.141:autopkgtest/ubuntu/plucky/armhf 20s autopkgtest [18:07:44]: testbed dpkg architecture: armhf 22s autopkgtest [18:07:46]: testbed apt version: 2.9.33 26s autopkgtest [18:07:50]: @@@@@@@@@@@@@@@@@@@@ test bed setup 28s autopkgtest [18:07:52]: testbed release detected to be: None 35s autopkgtest [18:07:59]: updating testbed package index (apt update) 37s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 38s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 38s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 39s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 39s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 39s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [99.7 kB] 39s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [379 kB] 39s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [114 kB] 40s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1832 B] 40s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 40s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [312 kB] 40s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [11.1 kB] 40s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 40s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [240 B] 40s Get:15 http://ftpmaster.internal/ubuntu plucky/main Sources [1394 kB] 42s Get:16 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 42s Get:17 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 65s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 67s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 67s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 67s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 82s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 84s Fetched 41.0 MB in 47s (877 kB/s) 85s Reading package lists... 91s autopkgtest [18:08:55]: upgrading testbed (apt dist-upgrade and autopurge) 93s Reading package lists... 94s Building dependency tree... 94s Reading state information... 95s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 95s Starting 2 pkgProblemResolver with broken count: 0 95s Done 96s Entering ResolveByKeep 96s 96s Calculating upgrade... 97s The following packages will be upgraded: 97s libc-bin libc6 locales pinentry-curses python3-jinja2 sos strace 97s 7 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 97s Need to get 8683 kB of archives. 97s After this operation, 23.6 kB of additional disk space will be used. 97s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 100s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 101s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 104s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 105s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf pinentry-curses armhf 1.3.1-2ubuntu3 [40.6 kB] 105s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 105s Get:7 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 106s Preconfiguring packages ... 106s Fetched 8683 kB in 8s (1089 kB/s) 106s (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 ... 64655 files and directories currently installed.) 106s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 106s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 106s Setting up libc6:armhf (2.41-1ubuntu2) ... 107s (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 ... 64655 files and directories currently installed.) 107s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 107s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 107s Setting up libc-bin (2.41-1ubuntu2) ... 107s (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 ... 64655 files and directories currently installed.) 107s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 107s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 108s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 108s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 108s Preparing to unpack .../pinentry-curses_1.3.1-2ubuntu3_armhf.deb ... 108s Unpacking pinentry-curses (1.3.1-2ubuntu3) over (1.3.1-2ubuntu2) ... 108s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 108s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 108s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 108s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 109s Setting up sos (4.9.0-5) ... 109s Setting up pinentry-curses (1.3.1-2ubuntu3) ... 109s Setting up locales (2.41-1ubuntu2) ... 110s Generating locales (this might take a while)... 115s en_US.UTF-8... done 115s Generation complete. 115s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 116s Setting up strace (6.13+ds-1ubuntu1) ... 116s Processing triggers for man-db (2.13.0-1) ... 117s Processing triggers for systemd (257.3-1ubuntu3) ... 119s Reading package lists... 120s Building dependency tree... 120s Reading state information... 120s Starting pkgProblemResolver with broken count: 0 120s Starting 2 pkgProblemResolver with broken count: 0 120s Done 121s Solving dependencies... 121s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 123s autopkgtest [18:09:27]: rebooting testbed after setup commands that affected boot 165s autopkgtest [18:10:09]: testbed running kernel: Linux 6.8.0-52-generic #53~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jan 15 18:10:51 UTC 2 201s autopkgtest [18:10:45]: @@@@@@@@@@@@@@@@@@@@ apt-source trinculo 212s Get:1 http://ftpmaster.internal/ubuntu plucky/universe trinculo 0.96+dfsg-4 (dsc) [2076 B] 212s Get:2 http://ftpmaster.internal/ubuntu plucky/universe trinculo 0.96+dfsg-4 (tar) [61.4 kB] 212s Get:3 http://ftpmaster.internal/ubuntu plucky/universe trinculo 0.96+dfsg-4 (diff) [13.5 kB] 212s gpgv: Signature made Sun Oct 31 19:18:58 2021 UTC 212s gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1 212s gpgv: issuer "nilesh@debian.org" 212s gpgv: Can't check signature: No public key 212s dpkg-source: warning: cannot verify inline signature for ./trinculo_0.96+dfsg-4.dsc: no acceptable signature found 212s autopkgtest [18:10:56]: testing package trinculo version 0.96+dfsg-4 215s autopkgtest [18:10:59]: build not needed 217s autopkgtest [18:11:01]: test run-unit-test: preparing testbed 219s Reading package lists... 220s Building dependency tree... 220s Reading state information... 220s Starting pkgProblemResolver with broken count: 0 220s Starting 2 pkgProblemResolver with broken count: 0 220s Done 221s The following NEW packages will be installed: 221s libblas3 libgfortran5 liblapack3 trinculo 221s 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. 221s Need to get 2647 kB of archives. 221s After this operation, 5679 kB of additional disk space will be used. 221s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf libblas3 armhf 3.12.1-2 [132 kB] 221s Get:2 http://ftpmaster.internal/ubuntu plucky/main armhf libgfortran5 armhf 15-20250222-0ubuntu1 [330 kB] 222s Get:3 http://ftpmaster.internal/ubuntu plucky/main armhf liblapack3 armhf 3.12.1-2 [2091 kB] 224s Get:4 http://ftpmaster.internal/ubuntu plucky/universe armhf trinculo armhf 0.96+dfsg-4 [93.1 kB] 225s Fetched 2647 kB in 3s (859 kB/s) 225s Selecting previously unselected package libblas3:armhf. 225s (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 ... 64655 files and directories currently installed.) 225s Preparing to unpack .../libblas3_3.12.1-2_armhf.deb ... 225s Unpacking libblas3:armhf (3.12.1-2) ... 225s Selecting previously unselected package libgfortran5:armhf. 225s Preparing to unpack .../libgfortran5_15-20250222-0ubuntu1_armhf.deb ... 225s Unpacking libgfortran5:armhf (15-20250222-0ubuntu1) ... 225s Selecting previously unselected package liblapack3:armhf. 225s Preparing to unpack .../liblapack3_3.12.1-2_armhf.deb ... 225s Unpacking liblapack3:armhf (3.12.1-2) ... 225s Selecting previously unselected package trinculo. 225s Preparing to unpack .../trinculo_0.96+dfsg-4_armhf.deb ... 225s Unpacking trinculo (0.96+dfsg-4) ... 225s Setting up libblas3:armhf (3.12.1-2) ... 225s update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode 225s Setting up libgfortran5:armhf (15-20250222-0ubuntu1) ... 225s Setting up liblapack3:armhf (3.12.1-2) ... 225s update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode 225s Setting up trinculo (0.96+dfsg-4) ... 225s Processing triggers for man-db (2.13.0-1) ... 225s Processing triggers for libc-bin (2.41-1ubuntu2) ... 233s autopkgtest [18:11:17]: test run-unit-test: [----------------------- 235s 1. Testing frequentist association (plink)... 235s Running a multinomial logistic analysis 235s Reading FAM file 235s Reading BIM file 235s Reading BED file 235s BED in SNP-Major format 235s Reading phenotypes file 235s Carrying out association testing on 5 SNPs. 235s Analyses finished. 235s PASSED 235s 2. Testing frequentist association (dosage)... 235s Running a multinomial logistic analysis 235s Reading dosage file 235s Read 0 235s Read 1000 235s Reading phenotypes file 235s Carrying out association testing on 5 SNPs. 235s Analyses finished. 235s PASSED 235s 3. Testing frequentist association (covariates)... 235s Running a multinomial logistic analysis 235s Reading FAM file 235s Reading BIM file 235s Reading BED file 235s BED in SNP-Major format 235s Reading covariants file 235s Reading phenotypes file 235s Carrying out association testing on 5 SNPs. 235s Analyses finished. 235s PASSED 235s 4. Testing frequentist association (conditioning)... 235s Running a multinomial logistic analysis 235s Reading FAM file 235s Reading BIM file 235s Reading BED file 235s BED in SNP-Major format 235s Conditioning on 1 SNPs. 235s Reading covariants file 235s Reading phenotypes file 235s Carrying out association testing on 5 SNPs. 235s Analyses finished. 235s PASSED 235s 5. Testing Bayesian association... 235s Running a multinomial logistic analysis 235s Reading FAM file 235s Reading BIM file 235s Reading BED file 235s BED in SNP-Major format 235s Reading covariants file 235s Reading phenotypes file 235s Carrying out association testing on 5 SNPs. 235s Analyses finished. 235s PASSED 235s 6. Testing Bayesian association (prior file)... 235s Running a multinomial logistic analysis 235s Reading FAM file 235s Reading BIM file 235s Reading BED file 235s BED in SNP-Major format 235s Reading covariants file 235s Reading phenotypes file 235s Carrying out association testing on 5 SNPs. 235s Analyses finished. 235s PASSED 235s 7. Testing Bayesian model selection... 235s Running a multinomial logistic analysis 235s Reading FAM file 235s Reading BIM file 235s Reading BED file 235s BED in SNP-Major format 235s Reading covariants file 235s Reading phenotypes file 235s Carrying out association testing on 5 SNPs. 235s Analyses finished. 235s PASSED 235s 8. Testing Bayesian model selection (empirical prior)... 235s Running a multinomial logistic analysis 235s Reading FAM file 235s Reading BIM file 235s Reading BED file 235s BED in SNP-Major format 235s Reading covariants file 235s Reading phenotypes file 235s Inferred phenotype covariance matrix: 235s 0.493951 0.365634 235s 0.365634 0.424441 235s Carrying out association testing on 5 SNPs. 236s Analyses finished. 236s PASSED 236s 9. Testing ordinal regression... 236s Running a ordinal (proportional odds) logistic analysis 236s Reading FAM file 236s Reading BIM file 236s Reading BED file 236s BED in SNP-Major format 236s Reading covariants file 236s Reading phenotypes file 236s Carrying out association testing on 5 SNPs. 236s Warning: Alt model did not coverge for SNP SNP1 236s Warning: Alt model did not coverge for SNP SNP2 236s Warning: Alt model did not coverge for SNP SNP3 236s Warning: Alt model did not coverge for SNP SNP4 236s Analyses finished. 236s PASSED 236s autopkgtest [18:11:20]: test run-unit-test: -----------------------] 240s autopkgtest [18:11:24]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 240s run-unit-test PASS 244s autopkgtest [18:11:28]: test run-upstream-test: preparing testbed 245s Reading package lists... 246s Building dependency tree... 246s Reading state information... 247s Starting pkgProblemResolver with broken count: 0 247s Starting 2 pkgProblemResolver with broken count: 0 247s Done 247s The following NEW packages will be installed: 247s python3-all 248s 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 248s Need to get 886 B of archives. 248s After this operation, 6144 B of additional disk space will be used. 248s Get:1 http://ftpmaster.internal/ubuntu plucky/main armhf python3-all armhf 3.13.2-2 [886 B] 248s Fetched 886 B in 0s (5342 B/s) 248s Selecting previously unselected package python3-all. 248s (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 ... 64695 files and directories currently installed.) 248s Preparing to unpack .../python3-all_3.13.2-2_armhf.deb ... 248s Unpacking python3-all (3.13.2-2) ... 248s Setting up python3-all (3.13.2-2) ... 256s autopkgtest [18:11:40]: test run-upstream-test: [----------------------- 259s Testing with python3.13 in /tmp/autopkgtest.xOh5cv/autopkgtest_tmp: 259s Testing trinculo (v0.95) 259s Test files are written to: /tmp/tmpq5m00yvi 259s 1. Testing frequentist association (plink)... PASSED 259s 2. Testing frequentist association (dosage)... PASSED 259s 3. Testing frequentist association (covariates)... PASSED 259s 4. Testing frequentist association (conditioning)... PASSED 259s 5. Testing Bayesian association... PASSED 259s 6. Testing Bayesian association (prior file)... PASSED 259s 7. Testing Bayesian model selection... PASSED 259s 8. Testing Bayesian model selection (empirical prior)... PASSED 259s 9. Testing ordinal regression... PASSED 259s PASSED 259s autopkgtest [18:11:43]: test run-upstream-test: -----------------------] 263s run-upstream-test PASS 263s autopkgtest [18:11:47]: test run-upstream-test: - - - - - - - - - - results - - - - - - - - - - 267s autopkgtest [18:11:51]: @@@@@@@@@@@@@@@@@@@@ summary 267s run-unit-test PASS 267s run-upstream-test PASS