0s autopkgtest [15:29:26]: starting date and time: 2024-03-19 15:29:26+0000 0s autopkgtest [15:29:26]: git checkout: 4a1cd702 l/adt_testbed: don't blame the testbed for unsolvable build deps 0s autopkgtest [15:29:26]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.rnn0k5x8/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:wise,src:glib2.0 --apt-upgrade wise --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=wise/2.4.1-24 glib2.0/2.79.3-3ubuntu5' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos01-ppc64el-11.secgroup --name adt-noble-ppc64el-wise-20240319-152925-juju-7f2275-prod-proposed-migration-environment-2 --image adt/ubuntu-noble-ppc64el-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://us.ports.ubuntu.com/ubuntu-ports/ 271s autopkgtest [15:33:57]: testbed dpkg architecture: ppc64el 271s autopkgtest [15:33:57]: testbed apt version: 2.7.12 271s autopkgtest [15:33:57]: @@@@@@@@@@@@@@@@@@@@ test bed setup 272s Get:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] 272s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe Sources [3777 kB] 274s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main Sources [486 kB] 274s Get:4 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Sources [52.7 kB] 274s Get:5 http://ftpmaster.internal/ubuntu noble-proposed/restricted Sources [6540 B] 274s Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el Packages [647 kB] 274s Get:7 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el c-n-f Metadata [3116 B] 274s Get:8 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el Packages [1372 B] 274s Get:9 http://ftpmaster.internal/ubuntu noble-proposed/restricted ppc64el c-n-f Metadata [116 B] 274s Get:10 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el Packages [4059 kB] 275s Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el c-n-f Metadata [8652 B] 275s Get:12 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el Packages [47.7 kB] 275s Get:13 http://ftpmaster.internal/ubuntu noble-proposed/multiverse ppc64el c-n-f Metadata [116 B] 283s Fetched 9206 kB in 6s (1511 kB/s) 283s Reading package lists... 288s Reading package lists... 289s Building dependency tree... 289s Reading state information... 289s Calculating upgrade... 290s The following packages will be REMOVED: 290s libglib2.0-0 290s The following NEW packages will be installed: 290s libglib2.0-0t64 xdg-user-dirs 290s The following packages will be upgraded: 290s gir1.2-glib-2.0 libglib2.0-data ubuntu-minimal ubuntu-standard 290s 4 upgraded, 2 newly installed, 1 to remove and 0 not upgraded. 290s Need to get 2044 kB of archives. 290s After this operation, 204 kB of additional disk space will be used. 290s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el gir1.2-glib-2.0 ppc64el 2.79.3-3ubuntu5 [182 kB] 290s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libglib2.0-0t64 ppc64el 2.79.3-3ubuntu5 [1773 kB] 291s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main ppc64el libglib2.0-data all 2.79.3-3ubuntu5 [46.6 kB] 291s Get:4 http://ftpmaster.internal/ubuntu noble/main ppc64el ubuntu-minimal ppc64el 1.536build1 [10.7 kB] 291s Get:5 http://ftpmaster.internal/ubuntu noble/main ppc64el xdg-user-dirs ppc64el 0.18-1 [20.0 kB] 291s Get:6 http://ftpmaster.internal/ubuntu noble/main ppc64el ubuntu-standard ppc64el 1.536build1 [10.7 kB] 292s Fetched 2044 kB in 1s (1641 kB/s) 293s (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 ... 70095 files and directories currently installed.) 293s Preparing to unpack .../gir1.2-glib-2.0_2.79.3-3ubuntu5_ppc64el.deb ... 293s Unpacking gir1.2-glib-2.0:ppc64el (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 293s dpkg: libglib2.0-0:ppc64el: dependency problems, but removing anyway as you requested: 293s udisks2 depends on libglib2.0-0 (>= 2.77.0). 293s shared-mime-info depends on libglib2.0-0 (>= 2.75.3). 293s python3-gi depends on libglib2.0-0 (>= 2.77.0). 293s python3-dbus depends on libglib2.0-0 (>= 2.16.0). 293s netplan.io depends on libglib2.0-0 (>= 2.70.0). 293s netplan-generator depends on libglib2.0-0 (>= 2.70.0). 293s libxmlb2:ppc64el depends on libglib2.0-0 (>= 2.54.0). 293s libvolume-key1:ppc64el depends on libglib2.0-0 (>= 2.18.0). 293s libudisks2-0:ppc64el depends on libglib2.0-0 (>= 2.75.3). 293s libqrtr-glib0:ppc64el depends on libglib2.0-0 (>= 2.56). 293s libqmi-proxy depends on libglib2.0-0 (>= 2.30.0). 293s libqmi-glib5:ppc64el depends on libglib2.0-0 (>= 2.54.0). 293s libpolkit-gobject-1-0:ppc64el depends on libglib2.0-0 (>= 2.38.0). 293s libpolkit-agent-1-0:ppc64el depends on libglib2.0-0 (>= 2.38.0). 293s libnetplan0:ppc64el depends on libglib2.0-0 (>= 2.75.3). 293s libmm-glib0:ppc64el depends on libglib2.0-0 (>= 2.62.0). 293s libmbim-proxy depends on libglib2.0-0 (>= 2.56). 293s libmbim-glib4:ppc64el depends on libglib2.0-0 (>= 2.56). 293s libjson-glib-1.0-0:ppc64el depends on libglib2.0-0 (>= 2.75.3). 293s libjcat1:ppc64el depends on libglib2.0-0 (>= 2.75.3). 293s libgusb2:ppc64el depends on libglib2.0-0 (>= 2.75.3). 293s libgudev-1.0-0:ppc64el depends on libglib2.0-0 (>= 2.38.0). 293s libgirepository-1.0-1:ppc64el depends on libglib2.0-0 (>= 2.79.0). 293s libfwupd2:ppc64el depends on libglib2.0-0 (>= 2.79.0). 293s libblockdev3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s libblockdev-utils3:ppc64el depends on libglib2.0-0 (>= 2.75.3). 293s libblockdev-swap3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s libblockdev-part3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s libblockdev-nvme3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s libblockdev-mdraid3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s libblockdev-loop3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s libblockdev-fs3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s libblockdev-crypto3:ppc64el depends on libglib2.0-0 (>= 2.42.2). 293s fwupd depends on libglib2.0-0 (>= 2.79.0). 293s bolt depends on libglib2.0-0 (>= 2.56.0). 293s 293s (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 ... 70095 files and directories currently installed.) 293s Removing libglib2.0-0:ppc64el (2.79.2-1~ubuntu1) ... 293s Selecting previously unselected package libglib2.0-0t64:ppc64el. 293s (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 ... 70070 files and directories currently installed.) 293s Preparing to unpack .../libglib2.0-0t64_2.79.3-3ubuntu5_ppc64el.deb ... 293s libglib2.0-0t64.preinst: Removing /var/lib/dpkg/info/libglib2.0-0:ppc64el.postrm to avoid loss of /usr/share/glib-2.0/schemas/gschemas.compiled... 293s removed '/var/lib/dpkg/info/libglib2.0-0:ppc64el.postrm' 293s Unpacking libglib2.0-0t64:ppc64el (2.79.3-3ubuntu5) ... 294s Preparing to unpack .../libglib2.0-data_2.79.3-3ubuntu5_all.deb ... 294s Unpacking libglib2.0-data (2.79.3-3ubuntu5) over (2.79.2-1~ubuntu1) ... 294s Preparing to unpack .../ubuntu-minimal_1.536build1_ppc64el.deb ... 294s Unpacking ubuntu-minimal (1.536build1) over (1.536) ... 294s Selecting previously unselected package xdg-user-dirs. 294s Preparing to unpack .../xdg-user-dirs_0.18-1_ppc64el.deb ... 294s Unpacking xdg-user-dirs (0.18-1) ... 294s Preparing to unpack .../ubuntu-standard_1.536build1_ppc64el.deb ... 294s Unpacking ubuntu-standard (1.536build1) over (1.536) ... 294s Setting up ubuntu-minimal (1.536build1) ... 294s Setting up xdg-user-dirs (0.18-1) ... 294s Setting up ubuntu-standard (1.536build1) ... 294s Setting up libglib2.0-0t64:ppc64el (2.79.3-3ubuntu5) ... 294s No schema files found: doing nothing. 294s Setting up libglib2.0-data (2.79.3-3ubuntu5) ... 294s Setting up gir1.2-glib-2.0:ppc64el (2.79.3-3ubuntu5) ... 294s Processing triggers for man-db (2.12.0-3) ... 296s Processing triggers for libc-bin (2.39-0ubuntu2) ... 297s Reading package lists... 297s Building dependency tree... 297s Reading state information... 297s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 298s Hit:1 http://ftpmaster.internal/ubuntu noble-proposed InRelease 298s Hit:2 http://ftpmaster.internal/ubuntu noble InRelease 298s Hit:3 http://ftpmaster.internal/ubuntu noble-updates InRelease 298s Hit:4 http://ftpmaster.internal/ubuntu noble-security InRelease 300s Reading package lists... 300s Reading package lists... 300s Building dependency tree... 300s Reading state information... 301s Calculating upgrade... 301s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 301s Reading package lists... 301s Building dependency tree... 301s Reading state information... 302s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 305s autopkgtest [15:34:31]: testbed running kernel: Linux 6.8.0-11-generic #11-Ubuntu SMP Wed Feb 14 00:33:03 UTC 2024 305s autopkgtest [15:34:31]: @@@@@@@@@@@@@@@@@@@@ apt-source wise 311s Get:1 http://ftpmaster.internal/ubuntu noble-proposed/universe wise 2.4.1-24 (dsc) [2154 B] 311s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe wise 2.4.1-24 (tar) [3410 kB] 311s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe wise 2.4.1-24 (diff) [38.5 kB] 312s gpgv: Signature made Mon Mar 18 16:53:38 2024 UTC 312s gpgv: using RSA key 4A31DB5A1EE4096C87399880903649294C33F9B7 312s gpgv: Can't check signature: No public key 312s dpkg-source: warning: cannot verify inline signature for ./wise_2.4.1-24.dsc: no acceptable signature found 313s autopkgtest [15:34:39]: testing package wise version 2.4.1-24 315s autopkgtest [15:34:41]: build not needed 486s autopkgtest [15:37:32]: test run-unit-test: preparing testbed 489s Reading package lists... 489s Building dependency tree... 489s Reading state information... 490s Starting pkgProblemResolver with broken count: 0 490s Starting 2 pkgProblemResolver with broken count: 0 490s Done 490s The following additional packages will be installed: 490s wise wise-data 490s Suggested packages: 490s wise-doc 490s The following NEW packages will be installed: 490s autopkgtest-satdep wise wise-data 490s 0 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. 490s Need to get 1156 kB/1157 kB of archives. 490s After this operation, 5376 kB of additional disk space will be used. 490s Get:1 /tmp/autopkgtest.eFmomU/1-autopkgtest-satdep.deb autopkgtest-satdep ppc64el 0 [712 B] 491s Get:2 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el wise-data all 2.4.1-24 [82.7 kB] 492s Get:3 http://ftpmaster.internal/ubuntu noble-proposed/universe ppc64el wise ppc64el 2.4.1-24 [1074 kB] 493s Fetched 1156 kB in 2s (505 kB/s) 493s Selecting previously unselected package wise-data. 493s (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 ... 70109 files and directories currently installed.) 493s Preparing to unpack .../wise-data_2.4.1-24_all.deb ... 493s Unpacking wise-data (2.4.1-24) ... 493s Selecting previously unselected package wise. 493s Preparing to unpack .../wise_2.4.1-24_ppc64el.deb ... 493s Unpacking wise (2.4.1-24) ... 493s Selecting previously unselected package autopkgtest-satdep. 493s Preparing to unpack .../1-autopkgtest-satdep.deb ... 493s Unpacking autopkgtest-satdep (0) ... 493s Setting up wise-data (2.4.1-24) ... 493s Setting up wise (2.4.1-24) ... 493s Setting up autopkgtest-satdep (0) ... 493s Processing triggers for man-db (2.12.0-3) ... 497s (Reading database ... 70203 files and directories currently installed.) 497s Removing autopkgtest-satdep (0) ... 497s autopkgtest [15:37:43]: test run-unit-test: [----------------------- 498s >>> Doing promoterwise promoterwise standard test 498s >>> Calling [promoterwise -silent pw.human pw.mouse > TEMP-PW] 498s >>> promoterwise ... Failed 498s >>> Doing basic-cdna cdna test case (protein v cdna), all outputs 498s >>> Calling [estwise short.pep short.dna -indel 1e-5 -subs 1e-5 -pretty -para -sum -alb -pal -silent -alg 333 > TEMP] 498s >>> basic-cdna ... Failed 498s >>> Doing basic-genomic genomic test case (protein v genomic), all outputs 498s >>> Calling [genewise short.pep short.dna -pretty -para -genes -sum -cdna -trans -ace -gener -alb -pal -quiet -dymem linear > TEMP] 498s Warning Error 498s Strangely truncated line in fasta file 498s Warning Error 498s Strangely truncated line in fasta file 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:0 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:1 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:2 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:3 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:4 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:5 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:6 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:7 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:8 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:9 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:10 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:11 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:12 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:13 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:14 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:15 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:16 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:17 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:18 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:19 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:20 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:21 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:22 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:23 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:24 (they must 498s be bound between 0:26, returning 0 here 498s Warning Error 498s Attempting to access CompMat with aminoacid numbers 190:25 (they must 498s be bound between 0:26, returning 0 here 498s >>> basic-genomic ... Failed 498s >>> Doing hmm-binary-cdna cdna test case (protein v cdna), all outputs 498s >>> Calling [estwise HMM.binary -indel 1e-5 -subs 1e-5 -hmmer short.dna -pretty -para -sum -alb -pal -quiet -alg 333L > TEMP] 498s Warning Error 498s Strangely truncated line in fasta file 498s >>> hmm-binary-cdna ... Failed 498s >>> Doing hmm-wrong-dna HMMs vs DNA sequence when there is no match 498s >>> Calling [genewise wrong.hmm -hmmer short.dna -alg 623 -pal > TEMP] 498s Warning Error 498s Strangely truncated line in fasta file 498s Information 498s In making HSHNCPA1 a genomic sequence, converted 3 bases (0.7%) to 498s N's from non ATGCN 498s GeneWise6 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 60%[ 21000] Cells 63%[ 22000] Cells 66%[ 23000] Cells 69%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% 498s >>> hmm-wrong-dna ... Passed 498s >>> Doing hmm-wrong-dna-est HMMs vs DNA sequence when there is no match 498s >>> Calling [estwise wrong.hmm -hmmer short.dna -alg 333 -pal > TEMP] 498s Warning Error 498s Strangely truncated line in fasta file 498s Information 498s In making HSHNCPA1 a cdna sequence, converted 3 bases (0.7%) to N's 498s from non ATGCN 498s EstWise3 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 60%[ 21000] Cells 63%[ 22000] Cells 66%[ 23000] Cells 69%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% 498s EstWise3 Matrix calculation: [ 0] Cells 0%[ 1000] Cells 3%[ 2000] Cells 6%[ 3000] Cells 9%[ 4000] Cells 12%[ 5000] Cells 15%[ 6000] Cells 18%[ 7000] Cells 21%[ 8000] Cells 24%[ 9000] Cells 27%[ 10000] Cells 30%[ 11000] Cells 33%[ 12000] Cells 36%[ 13000] Cells 39%[ 14000] Cells 42%[ 15000] Cells 45%[ 16000] Cells 48%[ 17000] Cells 51%[ 18000] Cells 54%[ 19000] Cells 57%[ 20000] Cells 60%[ 21000] Cells 63%[ 22000] Cells 66%[ 23000] Cells 69%[ 24000] Cells 73%[ 25000] Cells 76%[ 26000] Cells 79%[ 27000] Cells 82%[ 28000] Cells 85%[ 29000] Cells 88%[ 30000] Cells 91%[ 31000] Cells 94%[ 32000] Cells 97% 498s >>> hmm-wrong-dna-est ... Failed 498s >>> Doing hmm-ascii-genomic cdna test case (protein v cdna), all outputs 498s >>> Calling [genewise -init local HMM.ascii -hmmer short.dna -pretty -para -genes -sum -cdna -trans -ace -gener -alb -pal -quiet > TEMP] 498s Warning Error 498s Strangely truncated line in fasta file 498s >>> hmm-ascii-genomic ... Failed 498s >>> Doing genewise-db genewisedb hmm vs DNA sequences. Could take a while 498s >>> Calling [genewisedb rrm.HMM -hmmer dna.db -pretty -para -gener -genes -cdna -trans -ace -quiet -init global > TEMP] 498s Warning Error 498s DB searching: just finished [Query Pos: 0] [Target Pos: 5] 498s Strangely truncated line in fasta file 498s Warning Error 498s Strangely truncated line in fasta file 498s >>> genewise-db ... Passed 498s >>> Doing genewise-db-lite genewisedb hmm vs DNA sequences, using GWLITE. Could take a while 498s >>> Calling [genewisedb rrm.HMM -hmmer dna.db -pretty -para -gener -genes -cdna -trans -ace -quiet -init global -alg 6LITE > TEMP] 498s Warning Error 498s DB searching: just finished [Query Pos: 0] [Target Pos: 5] 498s Strangely truncated line in fasta file 498s Warning Error 498s Strangely truncated line in fasta file 498s >>> genewise-db-lite ... Passed 498s >>> Doing estwise-db estwisedb hmm vs DNA sequences. Could take a while 498s >>> Calling [estwisedb -init local rrm.HMM -hmmer dna.db -pretty -para -alb -quiet -alg 333 -aalg 333 > TEMP] 498s Warning Error 498s DB searching: just finished [Query Pos: 0] [Target Pos: 5] 498s Strangely truncated line in fasta file 498s Warning Error 498s Strangely truncated line in fasta file 498s >>> estwise-db ... Passed 498s >>> Doing pswdb Protein smith waterman db search 498s >>> Calling [pswdb road.pep pep.fa -quiet > TEMP ] 498s Warning Error 498s Strangely truncated line in fasta file 498s Warning Error 498s Before any actual search in db searching 498s Out of memory, trying to realloc 1499028788 bytes 498s 498s Fatal Error 498s Before any actual search in db searching 498s Cannot realloc histogram... going to die... sorry! 498s >>> Bad exit status - 512 (system - ) 498s >>> pswdb ... Failed 498s >>> Doing genewisedb-pfam-mode genewisedb designed for Pfam searching 498s >>> Calling [genewisedb -pfam rrm.HMM -dnas short.dna -pretty -para -alb -quiet -alg 623 -aalg 623L > TEMP] 498s Warning Error 498s Strangely truncated line in fasta file 498s >>> genewisedb-pfam-mode ... Failed 498s Tests failed 498s PLEASE: email ewan birney (birney@sanger.ac.uk) with the test.results file 498s 498s autopkgtest [15:37:44]: test run-unit-test: -----------------------] 499s autopkgtest [15:37:45]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 499s run-unit-test PASS 499s autopkgtest [15:37:45]: @@@@@@@@@@@@@@@@@@@@ summary 499s run-unit-test PASS 522s Creating nova instance adt-noble-ppc64el-wise-20240319-152925-juju-7f2275-prod-proposed-migration-environment-2 from image adt/ubuntu-noble-ppc64el-server-20240319.img (UUID 9d87beed-6c32-481f-958d-7469e26317f3)...