0s autopkgtest [15:22:51]: starting date and time: 2025-03-15 15:22:51+0000 0s autopkgtest [15:22:51]: git checkout: 325255d2 Merge branch 'pin-any-arch' into 'ubuntu/production' 0s autopkgtest [15:22:51]: host juju-7f2275-prod-proposed-migration-environment-9; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.6jszytl0/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 probcons --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=glibc/2.41-1ubuntu2 -- lxd -r lxd-armhf-10.145.243.188 lxd-armhf-10.145.243.188:autopkgtest/ubuntu/plucky/armhf 27s autopkgtest [15:23:18]: testbed dpkg architecture: armhf 29s autopkgtest [15:23:20]: testbed apt version: 2.9.33 33s autopkgtest [15:23:24]: @@@@@@@@@@@@@@@@@@@@ test bed setup 35s autopkgtest [15:23:26]: testbed release detected to be: None 43s autopkgtest [15:23:34]: updating testbed package index (apt update) 45s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [126 kB] 46s Get:2 http://ftpmaster.internal/ubuntu plucky InRelease [257 kB] 46s Get:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease [126 kB] 46s Get:4 http://ftpmaster.internal/ubuntu plucky-security InRelease [126 kB] 46s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [101 kB] 46s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [404 kB] 46s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.8 kB] 46s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf Packages [81.0 kB] 46s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf c-n-f Metadata [1944 B] 46s Get:10 http://ftpmaster.internal/ubuntu plucky-proposed/restricted armhf c-n-f Metadata [116 B] 46s Get:11 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf Packages [326 kB] 46s Get:12 http://ftpmaster.internal/ubuntu plucky-proposed/universe armhf c-n-f Metadata [12.1 kB] 46s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf Packages [3472 B] 46s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse armhf c-n-f Metadata [332 B] 46s Get:15 http://ftpmaster.internal/ubuntu plucky/multiverse Sources [299 kB] 46s Get:16 http://ftpmaster.internal/ubuntu plucky/universe Sources [21.0 MB] 47s Get:17 http://ftpmaster.internal/ubuntu plucky/main Sources [1400 kB] 48s Get:18 http://ftpmaster.internal/ubuntu plucky/main armhf Packages [1378 kB] 48s Get:19 http://ftpmaster.internal/ubuntu plucky/main armhf c-n-f Metadata [29.4 kB] 48s Get:20 http://ftpmaster.internal/ubuntu plucky/restricted armhf c-n-f Metadata [108 B] 48s Get:21 http://ftpmaster.internal/ubuntu plucky/universe armhf Packages [15.1 MB] 49s Get:22 http://ftpmaster.internal/ubuntu plucky/multiverse armhf Packages [172 kB] 52s Fetched 41.0 MB in 6s (6636 kB/s) 53s Reading package lists... 59s autopkgtest [15:23:50]: upgrading testbed (apt dist-upgrade and autopurge) 61s Reading package lists... 62s Building dependency tree... 62s Reading state information... 62s Calculating upgrade...Starting pkgProblemResolver with broken count: 0 63s Starting 2 pkgProblemResolver with broken count: 0 63s Done 64s Entering ResolveByKeep 64s 65s Calculating upgrade... 65s The following packages will be upgraded: 65s libc-bin libc6 locales python3-jinja2 sos strace 66s 6 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 66s Need to get 8642 kB of archives. 66s After this operation, 23.6 kB of additional disk space will be used. 66s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc6 armhf 2.41-1ubuntu2 [2932 kB] 67s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf libc-bin armhf 2.41-1ubuntu2 [545 kB] 67s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main armhf locales all 2.41-1ubuntu2 [4246 kB] 67s Get:4 http://ftpmaster.internal/ubuntu plucky/main armhf strace armhf 6.13+ds-1ubuntu1 [445 kB] 67s Get:5 http://ftpmaster.internal/ubuntu plucky/main armhf python3-jinja2 all 3.1.5-2ubuntu1 [109 kB] 67s Get:6 http://ftpmaster.internal/ubuntu plucky/main armhf sos all 4.9.0-5 [365 kB] 68s Preconfiguring packages ... 68s Fetched 8642 kB in 2s (5512 kB/s) 68s (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.) 68s Preparing to unpack .../libc6_2.41-1ubuntu2_armhf.deb ... 68s Unpacking libc6:armhf (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 68s Setting up libc6:armhf (2.41-1ubuntu2) ... 69s (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.) 69s Preparing to unpack .../libc-bin_2.41-1ubuntu2_armhf.deb ... 69s Unpacking libc-bin (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 69s Setting up libc-bin (2.41-1ubuntu2) ... 69s (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.) 69s Preparing to unpack .../locales_2.41-1ubuntu2_all.deb ... 69s Unpacking locales (2.41-1ubuntu2) over (2.41-1ubuntu1) ... 69s Preparing to unpack .../strace_6.13+ds-1ubuntu1_armhf.deb ... 69s Unpacking strace (6.13+ds-1ubuntu1) over (6.11-0ubuntu1) ... 70s Preparing to unpack .../python3-jinja2_3.1.5-2ubuntu1_all.deb ... 70s Unpacking python3-jinja2 (3.1.5-2ubuntu1) over (3.1.5-2) ... 70s Preparing to unpack .../archives/sos_4.9.0-5_all.deb ... 70s Unpacking sos (4.9.0-5) over (4.9.0-4) ... 70s Setting up sos (4.9.0-5) ... 71s Setting up locales (2.41-1ubuntu2) ... 73s Generating locales (this might take a while)... 76s en_US.UTF-8... done 76s Generation complete. 76s Setting up python3-jinja2 (3.1.5-2ubuntu1) ... 76s Setting up strace (6.13+ds-1ubuntu1) ... 76s Processing triggers for man-db (2.13.0-1) ... 77s Processing triggers for systemd (257.3-1ubuntu3) ... 80s Reading package lists... 80s Building dependency tree... 80s Reading state information... 81s Starting pkgProblemResolver with broken count: 0 81s Starting 2 pkgProblemResolver with broken count: 0 81s Done 82s Solving dependencies... 82s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 85s autopkgtest [15:24:16]: rebooting testbed after setup commands that affected boot 127s autopkgtest [15:24:58]: 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 153s autopkgtest [15:25:24]: @@@@@@@@@@@@@@@@@@@@ apt-source probcons 167s Get:1 http://ftpmaster.internal/ubuntu plucky/universe probcons 1.12-14 (dsc) [2049 B] 167s Get:2 http://ftpmaster.internal/ubuntu plucky/universe probcons 1.12-14 (tar) [43.2 kB] 167s Get:3 http://ftpmaster.internal/ubuntu plucky/universe probcons 1.12-14 (diff) [13.2 kB] 167s gpgv: Signature made Thu Aug 26 08:43:07 2021 UTC 167s gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 167s gpgv: issuer "tille@debian.org" 167s gpgv: Can't check signature: No public key 167s dpkg-source: warning: cannot verify inline signature for ./probcons_1.12-14.dsc: no acceptable signature found 167s autopkgtest [15:25:38]: testing package probcons version 1.12-14 170s autopkgtest [15:25:41]: build not needed 172s autopkgtest [15:25:43]: test run-unit-test: preparing testbed 174s Reading package lists... 174s Building dependency tree... 174s Reading state information... 175s Starting pkgProblemResolver with broken count: 0 175s Starting 2 pkgProblemResolver with broken count: 0 175s Done 177s The following NEW packages will be installed: 177s probcons probcons-extra 178s 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. 178s Need to get 158 kB of archives. 178s After this operation, 345 kB of additional disk space will be used. 178s Get:1 http://ftpmaster.internal/ubuntu plucky/universe armhf probcons armhf 1.12-14 [120 kB] 178s Get:2 http://ftpmaster.internal/ubuntu plucky/universe armhf probcons-extra armhf 1.12-14 [38.4 kB] 179s Fetched 158 kB in 1s (301 kB/s) 179s Selecting previously unselected package probcons. 179s (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.) 179s Preparing to unpack .../probcons_1.12-14_armhf.deb ... 179s Unpacking probcons (1.12-14) ... 179s Selecting previously unselected package probcons-extra. 179s Preparing to unpack .../probcons-extra_1.12-14_armhf.deb ... 179s Unpacking probcons-extra (1.12-14) ... 179s Setting up probcons (1.12-14) ... 179s Setting up probcons-extra (1.12-14) ... 179s Processing triggers for man-db (2.13.0-1) ... 189s autopkgtest [15:26:00]: test run-unit-test: [----------------------- 191s 191s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 191s Written by Chuong Do 191s 191s Using parameter set: 191s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 191s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 191s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 191s 191s Loading sequence file: example.fa 192s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 192s 192s 192s 192s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 192s Written by Chuong Do 192s 192s Using parameter set: 192s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 192s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 192s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 192s 192s Loading sequence file: example.fa 193s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 193s 193s 193s 193s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 193s Written by Chuong Do 193s 193s Using parameter set: 193s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 193s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 193s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 193s 193s Loading sequence file: example.fa 193s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 193s 194s 194s 194s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 194s Written by Chuong Do 194s 194s Using parameter set: 194s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 194s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 194s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 194s 194s Loading sequence file: example.fa 194s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 194s 195s 195s 195s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 195s Written by Chuong Do 195s 195s Using parameter set: 195s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 195s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 195s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 195s 195s Loading sequence file: example.fa 195s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 195s 201s 201s 201s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 201s Written by Chuong Do 201s 201s Using parameter set: 201s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 201s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 201s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 201s 201s Loading sequence file: example.fa 201s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 201s 207s 207s 207s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 207s Written by Chuong Do 207s 207s Using parameter set: 207s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 207s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 207s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 207s 207s Loading sequence file: example.fa 207s Recomputed parameter set: 207s initDistrib[] = { 0.6472742558 8.228807019e-06 8.228807019e-06 0.1763546914 0.1763546914 } 207s gapOpen[] = { 0.01773784496 0.01773784496 0.03060442209 0.03060442209 } 207s gapExtend[] = { 0.4129967988 0.4129967988 0.9416549802 0.9416549802 } 207s 207s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 207s 208s 208s 208s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 208s Written by Chuong Do 208s 208s Using parameter set: 208s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 208s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 208s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 208s 208s Loading sequence file: example.fa 208s Recomputed parameter set: 208s initDistrib[] = { 0.6472742558 8.228807019e-06 8.228807019e-06 0.1763546914 0.1763546914 } 208s gapOpen[] = { 0.01773784496 0.01773784496 0.03060442209 0.03060442209 } 208s gapExtend[] = { 0.4129967988 0.4129967988 0.9416549802 0.9416549802 } 208s 209s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 209s 209s 209s 209s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 209s Written by Chuong Do 209s 209s Using parameter set: 209s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 209s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 209s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 209s 209s Loading sequence file: example.fa 210s 210s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 210s Written by Chuong Do 210s 210s Using parameter set: 210s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 210s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 210s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 210s 210s Loading sequence file: example.fa 210s 210s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 210s Written by Chuong Do 210s 210s Using parameter set: 210s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 210s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 210s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 210s 210s Loading sequence file: example.fa 210s Computing posterior matrix: (1) CALM_HUMAN vs. (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA -- 0.2207173109 210s Computing posterior matrix: (1) CALM_HUMAN vs. (3) P53_HUMAN -- 0.39826864 210s Computing posterior matrix: (1) CALM_HUMAN vs. (4) TUBE_DROME -- 0.231062457 210s Computing posterior matrix: (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (3) P53_HUMAN -- 0.2095562667 210s Computing posterior matrix: (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (4) TUBE_DROME -- 0.2288912833 210s Computing posterior matrix: (3) P53_HUMAN vs. (4) TUBE_DROME -- 0.2899473011 210s Relaxing (1) CALM_HUMAN vs. (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA: 2141 --> 1139 -- done. 210s Relaxing (1) CALM_HUMAN vs. (3) P53_HUMAN: 1367 --> 864 -- done. 210s Relaxing (1) CALM_HUMAN vs. (4) TUBE_DROME: 2094 --> 1268 -- done. 210s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (3) P53_HUMAN: 5476 --> 3181 -- done. 210s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (4) TUBE_DROME: 5680 --> 3332 -- done. 210s Relaxing (3) P53_HUMAN vs. (4) TUBE_DROME: 3329 --> 2222 -- done. 210s Relaxing (1) CALM_HUMAN vs. (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA: 1139 --> 557 -- done. 210s Relaxing (1) CALM_HUMAN vs. (3) P53_HUMAN: 864 --> 525 -- done. 210s Relaxing (1) CALM_HUMAN vs. (4) TUBE_DROME: 1268 --> 732 -- done. 210s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (3) P53_HUMAN: 3181 --> 1744 -- done. 210s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (4) TUBE_DROME: 3332 --> 1803 -- done. 210s Relaxing (3) P53_HUMAN vs. (4) TUBE_DROME: 2222 --> 1486 -- done. 210s 210s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 210s 210s [0] vs. [2]: 0.105049856 210s [1] vs. [3]: 0.05933808908 210s [0,2] vs. [1,3]: 0.02306859009 210s [0,2,3] vs. [1]: 0.02062036656 210s [0,1] vs. [2,3]: 0.02155044302 210s [0,1,3] vs. [2]: 0.03732475638 210s [1,2] vs. [0,3]: 0.03665075451 210s [0,2,3] vs. [1]: 0.02072210051 210s [3] vs. [0,1,2]: 0.04131013528 210s [0,1,2] vs. [3]: 0.04131013528 210s [2,3] vs. [0,1]: 0.0214038752 210s [0,2] vs. [1,3]: 0.02389729209 210s [1] vs. [0,2,3]: 0.02051857486 210s [0,2] vs. [1,3]: 0.02381483652 210s [0,3] vs. [1,2]: 0.03669310361 210s [3] vs. [0,1,2]: 0.04146927595 210s [0,1,3] vs. [2]: 0.03778645396 210s [1,3] vs. [0,2]: 0.02382776886 210s [0,1,3] vs. [2]: 0.03782300279 210s [1,3] vs. [0,2]: 0.02382776886 210s [2] vs. [0,1,3]: 0.03782300279 210s [0] vs. [1,2,3]: 0.05895869061 210s [2,3] vs. [0,1]: 0.02192682773 210s [1] vs. [0,2,3]: 0.02071260847 210s [2] vs. [0,1,3]: 0.03613614663 210s [3] vs. [0,1,2]: 0.04357581958 210s [0] vs. [1,2,3]: 0.05895869061 210s [0,1,2] vs. [3]: 0.04357581958 210s [0] vs. [1,2,3]: 0.05895869061 210s [0,3] vs. [1,2]: 0.03590114042 210s [0,1,3] vs. [2]: 0.03613614663 210s [1,2,3] vs. [0]: 0.05895869061 210s [0,1,2] vs. [3]: 0.04357581958 210s [0,1,3] vs. [2]: 0.03613614663 210s [1,2] vs. [0,3]: 0.03590114042 210s [1,3] vs. [0,2]: 0.0253394153 210s [0,1] vs. [2,3]: 0.02192682773 210s [1,3] vs. [0,2]: 0.0253394153 210s [1,3] vs. [0,2]: 0.0253394153 210s [1,2,3] vs. [0]: 0.05895869061 210s [0] vs. [1,2,3]: 0.05895869061 210s [0,2] vs. [1,3]: 0.0253394153 210s [0,2,3] vs. [1]: 0.02071260847 210s [0,1,2] vs. [3]: 0.04357581958 210s [1,2] vs. [0,3]: 0.03590114042 210s [0,1,3] vs. [2]: 0.03613614663 210s [1,2,3] vs. [0]: 0.05895869061 210s [0,1] vs. [2,3]: 0.02192682773 210s [0,1,3] vs. [2]: 0.03613614663 210s [2,3] vs. [0,1]: 0.02192682773 210s [0] vs. [1,2,3]: 0.05895869061 210s [0,1,2] vs. [3]: 0.04357581958 210s [1,3] vs. [0,2]: 0.0253394153 210s [1,3] vs. [0,2]: 0.0253394153 210s [2,3] vs. [0,1]: 0.02192682773 210s [2] vs. [0,1,3]: 0.03613614663 210s [2,3] vs. [0,1]: 0.02192682773 210s [0,3] vs. [1,2]: 0.03590114042 211s [2,3] vs. [0,1]: 0.02192682773 211s [0,2,3] vs. [1]: 0.02071260847 211s [0,3] vs. [1,2]: 0.03590114042 211s [1] vs. [0,2,3]: 0.02071260847 211s [3] vs. [0,1,2]: 0.04357581958 211s [1,2] vs. [0,3]: 0.03590114042 211s [1,2,3] vs. [0]: 0.05895869061 211s [0,2] vs. [1,3]: 0.0253394153 211s [1,2,3] vs. [0]: 0.05895869061 211s [0,2,3] vs. [1]: 0.02071260847 211s [0,3] vs. [1,2]: 0.03590114042 211s [1,2] vs. [0,3]: 0.03590114042 211s [0,2] vs. [1,3]: 0.0253394153 211s [2,3] vs. [0,1]: 0.02192682773 211s [3] vs. [0,1,2]: 0.04357581958 211s [1,2] vs. [0,3]: 0.03590114042 211s [0,2,3] vs. [1]: 0.02071260847 211s [1,2] vs. [0,3]: 0.03590114042 211s [0] vs. [1,2,3]: 0.05895869061 211s [3] vs. [0,1,2]: 0.04357581958 211s [1] vs. [0,2,3]: 0.02071260847 211s [0,1,3] vs. [2]: 0.03613614663 211s [3] vs. [0,1,2]: 0.04357581958 211s [0,1,2] vs. [3]: 0.04357581958 211s [1] vs. [0,2,3]: 0.02071260847 211s [0,1,2] vs. [3]: 0.04357581958 211s [1] vs. [0,2,3]: 0.02071260847 211s [0,2,3] vs. [1]: 0.02071260847 211s [0,1,3] vs. [2]: 0.03613614663 211s [0,3] vs. [1,2]: 0.03590114042 211s [1] vs. [0,2,3]: 0.02071260847 211s 211s 211s PROBCONS version 1.12 - align multiple protein sequences and print to standard output 211s Written by Chuong Do 211s 211s Using parameter set: 211s initDistrib[] = { 0.6814756989 8.615339902e-05 8.615339902e-05 0.1591759622 0.1591759622 } 211s gapOpen[] = { 0.0119511066 0.0119511066 0.008008334786 0.008008334786 } 211s gapExtend[] = { 0.3965826333 0.3965826333 0.8988758326 0.8988758326 } 211s 211s Loading sequence file: example.fa 211s Computing posterior matrix: (1) CALM_HUMAN vs. (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA -- 0.2207173109 211s Computing posterior matrix: (1) CALM_HUMAN vs. (3) P53_HUMAN -- 0.39826864 211s Computing posterior matrix: (1) CALM_HUMAN vs. (4) TUBE_DROME -- 0.231062457 211s Computing posterior matrix: (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (3) P53_HUMAN -- 0.2095562667 211s Computing posterior matrix: (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (4) TUBE_DROME -- 0.2288912833 211s Computing posterior matrix: (3) P53_HUMAN vs. (4) TUBE_DROME -- 0.2899473011 211s Relaxing (1) CALM_HUMAN vs. (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA: 2141 --> 1139 -- done. 211s Relaxing (1) CALM_HUMAN vs. (3) P53_HUMAN: 1367 --> 864 -- done. 211s Relaxing (1) CALM_HUMAN vs. (4) TUBE_DROME: 2094 --> 1268 -- done. 211s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (3) P53_HUMAN: 5476 --> 3181 -- done. 211s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (4) TUBE_DROME: 5680 --> 3332 -- done. 211s Relaxing (3) P53_HUMAN vs. (4) TUBE_DROME: 3329 --> 2222 -- done. 211s Relaxing (1) CALM_HUMAN vs. (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA: 1139 --> 557 -- done. 211s Relaxing (1) CALM_HUMAN vs. (3) P53_HUMAN: 864 --> 525 -- done. 211s Relaxing (1) CALM_HUMAN vs. (4) TUBE_DROME: 1268 --> 732 -- done. 211s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (3) P53_HUMAN: 3181 --> 1744 -- done. 211s Relaxing (2) AF01595 Human telomerase reverse transcriptase (hTRT) mRNA vs. (4) TUBE_DROME: 3332 --> 1803 -- done. 211s Relaxing (3) P53_HUMAN vs. (4) TUBE_DROME: 2222 --> 1486 -- done. 211s 211s Alignment tree: ((CALM_HUMAN P53_HUMAN) (AF01595 Human telomerase reverse transcriptase (hTRT) mRNA TUBE_DROME)) 211s 211s [0] vs. [2]: 0.105049856 211s [1] vs. [3]: 0.05933808908 211s [0,2] vs. [1,3]: 0.02306859009 211s [0,2,3] vs. [1]: 0.02062036656 211s [0,1] vs. [2,3]: 0.02155044302 211s [0,1,3] vs. [2]: 0.03732475638 211s [1,2] vs. [0,3]: 0.03665075451 211s [0,2,3] vs. [1]: 0.02072210051 211s [3] vs. [0,1,2]: 0.04131013528 211s [0,1,2] vs. [3]: 0.04131013528 211s [2,3] vs. [0,1]: 0.0214038752 211s [0,2] vs. [1,3]: 0.02389729209 211s [1] vs. [0,2,3]: 0.02051857486 211s [0,2] vs. [1,3]: 0.02381483652 211s [0,3] vs. [1,2]: 0.03669310361 211s [3] vs. [0,1,2]: 0.04146927595 211s [0,1,3] vs. [2]: 0.03778645396 211s [1,3] vs. [0,2]: 0.02382776886 211s [0,1,3] vs. [2]: 0.03782300279 211s [1,3] vs. [0,2]: 0.02382776886 211s [2] vs. [0,1,3]: 0.03782300279 211s [0] vs. [1,2,3]: 0.05895869061 211s [2,3] vs. [0,1]: 0.02192682773 211s [1] vs. [0,2,3]: 0.02071260847 211s [2] vs. [0,1,3]: 0.03613614663 211s [3] vs. [0,1,2]: 0.04357581958 211s [0] vs. [1,2,3]: 0.05895869061 211s [0,1,2] vs. [3]: 0.04357581958 211s [0] vs. [1,2,3]: 0.05895869061 211s [0,3] vs. [1,2]: 0.03590114042 211s [0,1,3] vs. [2]: 0.03613614663 211s [1,2,3] vs. [0]: 0.05895869061 211s [0,1,2] vs. [3]: 0.04357581958 211s [0,1,3] vs. [2]: 0.03613614663 211s [1,2] vs. [0,3]: 0.03590114042 211s [1,3] vs. [0,2]: 0.0253394153 211s [0,1] vs. [2,3]: 0.02192682773 211s [1,3] vs. [0,2]: 0.0253394153 211s [1,3] vs. [0,2]: 0.0253394153 211s [1,2,3] vs. [0]: 0.05895869061 211s [0] vs. [1,2,3]: 0.05895869061 211s [0,2] vs. [1,3]: 0.0253394153 211s [0,2,3] vs. [1]: 0.02071260847 211s [0,1,2] vs. [3]: 0.04357581958 211s [1,2] vs. [0,3]: 0.03590114042 211s [0,1,3] vs. [2]: 0.03613614663 211s [1,2,3] vs. [0]: 0.05895869061 211s [0,1] vs. [2,3]: 0.02192682773 211s [0,1,3] vs. [2]: 0.03613614663 211s [2,3] vs. [0,1]: 0.02192682773 211s [0] vs. [1,2,3]: 0.05895869061 211s [0,1,2] vs. [3]: 0.04357581958 211s [1,3] vs. [0,2]: 0.0253394153 211s [1,3] vs. [0,2]: 0.0253394153 211s [2,3] vs. [0,1]: 0.02192682773 211s [2] vs. [0,1,3]: 0.03613614663 211s [2,3] vs. [0,1]: 0.02192682773 211s [0,3] vs. [1,2]: 0.03590114042 211s [2,3] vs. [0,1]: 0.02192682773 211s [0,2,3] vs. [1]: 0.02071260847 211s [0,3] vs. [1,2]: 0.03590114042 211s [1] vs. [0,2,3]: 0.02071260847 211s [3] vs. [0,1,2]: 0.04357581958 211s [1,2] vs. [0,3]: 0.03590114042 211s [1,2,3] vs. [0]: 0.05895869061 212s [0,2] vs. [1,3]: 0.0253394153 212s [1,2,3] vs. [0]: 0.05895869061 212s [0,2,3] vs. [1]: 0.02071260847 212s [0,3] vs. [1,2]: 0.03590114042 212s [1,2] vs. [0,3]: 0.03590114042 212s [0,2] vs. [1,3]: 0.0253394153 212s [2,3] vs. [0,1]: 0.02192682773 212s [3] vs. [0,1,2]: 0.04357581958 212s [1,2] vs. [0,3]: 0.03590114042 212s [0,2,3] vs. [1]: 0.02071260847 212s [1,2] vs. [0,3]: 0.03590114042 212s [0] vs. [1,2,3]: 0.05895869061 212s [3] vs. [0,1,2]: 0.04357581958 212s [1] vs. [0,2,3]: 0.02071260847 212s [0,1,3] vs. [2]: 0.03613614663 212s [3] vs. [0,1,2]: 0.04357581958 212s [0,1,2] vs. [3]: 0.04357581958 212s [1] vs. [0,2,3]: 0.02071260847 212s [0,1,2] vs. [3]: 0.04357581958 212s [1] vs. [0,2,3]: 0.02071260847 212s [0,2,3] vs. [1]: 0.02071260847 212s [0,1,3] vs. [2]: 0.03613614663 212s [0,3] vs. [1,2]: 0.03590114042 212s [1] vs. [0,2,3]: 0.02071260847 212s 212s PASS 212s autopkgtest [15:26:23]: test run-unit-test: -----------------------] 216s autopkgtest [15:26:27]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 216s run-unit-test PASS 220s autopkgtest [15:26:31]: @@@@@@@@@@@@@@@@@@@@ summary 220s run-unit-test PASS