0s autopkgtest [09:34:49]: starting date and time: 2024-11-13 09:34:49+0000 0s autopkgtest [09:34:49]: git checkout: 0acbae0a WIP show VirtSubproc stderr in real-time 0s autopkgtest [09:34:49]: host juju-7f2275-prod-proposed-migration-environment-2; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.1el1e5o7/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:python3-defaults,src:python3-stdlib-extensions --apt-upgrade macs --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 '--env=ADT_TEST_TRIGGERS=python3-defaults/3.12.7-1 python3-stdlib-extensions/3.12.7-1' -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-2@bos03-arm64-52.secgroup --name adt-plucky-arm64-macs-20241113-093449-juju-7f2275-prod-proposed-migration-environment-2-51a4bee6-3f1d-402c-8647-5c83f52697bd --image adt/ubuntu-plucky-arm64-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,keyserver.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/ 115s autopkgtest [09:36:44]: testbed dpkg architecture: arm64 115s autopkgtest [09:36:44]: testbed apt version: 2.9.8 115s autopkgtest [09:36:44]: @@@@@@@@@@@@@@@@@@@@ test bed setup 116s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 117s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.3 kB] 117s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 117s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [849 kB] 117s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [76.4 kB] 117s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [104 kB] 117s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 117s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [601 kB] 117s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [17.1 kB] 117s Fetched 1793 kB in 1s (1830 kB/s) 117s Reading package lists... 120s Reading package lists... 120s Building dependency tree... 120s Reading state information... 121s Calculating upgrade... 122s The following NEW packages will be installed: 122s python3.13-gdbm 122s The following packages will be upgraded: 122s libpython3-stdlib python3 python3-gdbm python3-minimal 122s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 122s Need to get 101 kB of archives. 122s After this operation, 141 kB of additional disk space will be used. 122s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-minimal arm64 3.12.7-1 [27.4 kB] 122s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3 arm64 3.12.7-1 [24.0 kB] 122s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 libpython3-stdlib arm64 3.12.7-1 [10.0 kB] 122s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 python3.13-gdbm arm64 3.13.0-2 [30.7 kB] 122s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 python3-gdbm arm64 3.12.7-1 [8642 B] 123s Fetched 101 kB in 0s (247 kB/s) 123s (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 ... 79924 files and directories currently installed.) 123s Preparing to unpack .../python3-minimal_3.12.7-1_arm64.deb ... 123s Unpacking python3-minimal (3.12.7-1) over (3.12.6-0ubuntu1) ... 123s Setting up python3-minimal (3.12.7-1) ... 124s (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 ... 79924 files and directories currently installed.) 124s Preparing to unpack .../python3_3.12.7-1_arm64.deb ... 124s Unpacking python3 (3.12.7-1) over (3.12.6-0ubuntu1) ... 124s Preparing to unpack .../libpython3-stdlib_3.12.7-1_arm64.deb ... 124s Unpacking libpython3-stdlib:arm64 (3.12.7-1) over (3.12.6-0ubuntu1) ... 124s Selecting previously unselected package python3.13-gdbm. 124s Preparing to unpack .../python3.13-gdbm_3.13.0-2_arm64.deb ... 124s Unpacking python3.13-gdbm (3.13.0-2) ... 124s Preparing to unpack .../python3-gdbm_3.12.7-1_arm64.deb ... 124s Unpacking python3-gdbm:arm64 (3.12.7-1) over (3.12.6-1ubuntu1) ... 124s Setting up python3.13-gdbm (3.13.0-2) ... 124s Setting up libpython3-stdlib:arm64 (3.12.7-1) ... 124s Setting up python3 (3.12.7-1) ... 124s Setting up python3-gdbm:arm64 (3.12.7-1) ... 124s Processing triggers for man-db (2.12.1-3) ... 125s Reading package lists... 125s Building dependency tree... 125s Reading state information... 126s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 127s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 127s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 127s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 127s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 128s Reading package lists... 128s Reading package lists... 128s Building dependency tree... 128s Reading state information... 129s Calculating upgrade... 129s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 129s Reading package lists... 130s Building dependency tree... 130s Reading state information... 131s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 135s autopkgtest [09:37:04]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024 135s autopkgtest [09:37:04]: @@@@@@@@@@@@@@@@@@@@ apt-source macs 148s Get:1 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (dsc) [2152 B] 148s Get:2 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (tar) [197 MB] 148s Get:3 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (diff) [1268 kB] 148s gpgv: Signature made Sat Sep 7 23:10:03 2024 UTC 148s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 148s gpgv: Can't check signature: No public key 148s dpkg-source: warning: cannot verify inline signature for ./macs_3.0.2-1.dsc: no acceptable signature found 152s autopkgtest [09:37:21]: testing package macs version 3.0.2-1 153s autopkgtest [09:37:22]: build not needed 168s autopkgtest [09:37:37]: test run-unit-test: preparing testbed 170s Reading package lists... 170s Building dependency tree... 170s Reading state information... 171s Starting pkgProblemResolver with broken count: 0 171s Starting 2 pkgProblemResolver with broken count: 0 171s Done 172s The following additional packages will be installed: 172s libblas3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 macs python3-cykhash 172s python3-decorator python3-hmmlearn python3-joblib python3-numpy 172s python3-scipy python3-sklearn python3-sklearn-lib python3-threadpoolctl 172s Suggested packages: 172s python-joblib-doc gcc gfortran python-numpy-doc python3-dev python3-pytest 172s python-scipy-doc python3-dap python-sklearn-doc ipython3 172s Recommended packages: 172s python3-pytest python3-simplejson python3-psutil g++ | c++-compiler 172s python3-pil python3-matplotlib 172s The following NEW packages will be installed: 172s autopkgtest-satdep libblas3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 macs 172s python3-cykhash python3-decorator python3-hmmlearn python3-joblib 172s python3-numpy python3-scipy python3-sklearn python3-sklearn-lib 172s python3-threadpoolctl 172s 0 upgraded, 16 newly installed, 0 to remove and 0 not upgraded. 172s Need to get 33.0 MB/33.0 MB of archives. 172s After this operation, 141 MB of additional disk space will be used. 172s Get:1 /tmp/autopkgtest.SMMPvT/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [704 B] 172s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB] 172s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB] 172s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-8ubuntu1 [145 kB] 172s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB] 173s Get:6 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1build1 [27.7 kB] 173s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB] 173s Get:8 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cykhash arm64 2.0.0-3build1 [457 kB] 173s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-decorator all 5.1.1-5 [10.1 kB] 173s Get:10 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-scipy arm64 1.13.1-5 [16.3 MB] 173s Get:11 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-joblib all 1.3.2-5 [206 kB] 173s Get:12 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 173s Get:13 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sklearn-lib arm64 1.4.2+dfsg-6 [3806 kB] 173s Get:14 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-sklearn all 1.4.2+dfsg-6 [2257 kB] 173s Get:15 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-hmmlearn arm64 0.3.2-2 [120 kB] 173s Get:16 http://ftpmaster.internal/ubuntu plucky/universe arm64 macs arm64 3.0.2-1 [3105 kB] 174s Fetched 33.0 MB in 2s (19.0 MB/s) 174s Selecting previously unselected package libblas3:arm64. 174s (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 ... 79931 files and directories currently installed.) 174s Preparing to unpack .../00-libblas3_3.12.0-3build2_arm64.deb ... 174s Unpacking libblas3:arm64 (3.12.0-3build2) ... 174s Selecting previously unselected package libgfortran5:arm64. 174s Preparing to unpack .../01-libgfortran5_14.2.0-8ubuntu1_arm64.deb ... 174s Unpacking libgfortran5:arm64 (14.2.0-8ubuntu1) ... 174s Selecting previously unselected package libgomp1:arm64. 174s Preparing to unpack .../02-libgomp1_14.2.0-8ubuntu1_arm64.deb ... 174s Unpacking libgomp1:arm64 (14.2.0-8ubuntu1) ... 174s Selecting previously unselected package liblapack3:arm64. 174s Preparing to unpack .../03-liblapack3_3.12.0-3build2_arm64.deb ... 174s Unpacking liblapack3:arm64 (3.12.0-3build2) ... 174s Selecting previously unselected package liblbfgsb0:arm64. 174s Preparing to unpack .../04-liblbfgsb0_3.0+dfsg.4-1build1_arm64.deb ... 174s Unpacking liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 174s Selecting previously unselected package python3-numpy. 174s Preparing to unpack .../05-python3-numpy_1%3a1.26.4+ds-11build1_arm64.deb ... 174s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 174s Selecting previously unselected package python3-cykhash. 174s Preparing to unpack .../06-python3-cykhash_2.0.0-3build1_arm64.deb ... 174s Unpacking python3-cykhash (2.0.0-3build1) ... 174s Selecting previously unselected package python3-decorator. 174s Preparing to unpack .../07-python3-decorator_5.1.1-5_all.deb ... 174s Unpacking python3-decorator (5.1.1-5) ... 174s Selecting previously unselected package python3-scipy. 174s Preparing to unpack .../08-python3-scipy_1.13.1-5_arm64.deb ... 174s Unpacking python3-scipy (1.13.1-5) ... 175s Selecting previously unselected package python3-joblib. 175s Preparing to unpack .../09-python3-joblib_1.3.2-5_all.deb ... 175s Unpacking python3-joblib (1.3.2-5) ... 175s Selecting previously unselected package python3-threadpoolctl. 175s Preparing to unpack .../10-python3-threadpoolctl_3.1.0-1_all.deb ... 175s Unpacking python3-threadpoolctl (3.1.0-1) ... 175s Selecting previously unselected package python3-sklearn-lib:arm64. 175s Preparing to unpack .../11-python3-sklearn-lib_1.4.2+dfsg-6_arm64.deb ... 175s Unpacking python3-sklearn-lib:arm64 (1.4.2+dfsg-6) ... 175s Selecting previously unselected package python3-sklearn. 175s Preparing to unpack .../12-python3-sklearn_1.4.2+dfsg-6_all.deb ... 175s Unpacking python3-sklearn (1.4.2+dfsg-6) ... 175s Selecting previously unselected package python3-hmmlearn. 175s Preparing to unpack .../13-python3-hmmlearn_0.3.2-2_arm64.deb ... 175s Unpacking python3-hmmlearn (0.3.2-2) ... 175s Selecting previously unselected package macs. 176s Preparing to unpack .../14-macs_3.0.2-1_arm64.deb ... 176s Unpacking macs (3.0.2-1) ... 176s Selecting previously unselected package autopkgtest-satdep. 176s Preparing to unpack .../15-1-autopkgtest-satdep.deb ... 176s Unpacking autopkgtest-satdep (0) ... 176s Setting up python3-joblib (1.3.2-5) ... 176s Setting up python3-threadpoolctl (3.1.0-1) ... 176s Setting up libgomp1:arm64 (14.2.0-8ubuntu1) ... 176s Setting up python3-cykhash (2.0.0-3build1) ... 176s Setting up python3-decorator (5.1.1-5) ... 176s Setting up libblas3:arm64 (3.12.0-3build2) ... 176s update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode 176s Setting up libgfortran5:arm64 (14.2.0-8ubuntu1) ... 176s Setting up liblapack3:arm64 (3.12.0-3build2) ... 176s update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode 176s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 179s Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 179s Setting up python3-scipy (1.13.1-5) ... 183s Setting up python3-sklearn-lib:arm64 (1.4.2+dfsg-6) ... 183s Setting up python3-sklearn (1.4.2+dfsg-6) ... 185s Setting up python3-hmmlearn (0.3.2-2) ... 185s Setting up macs (3.0.2-1) ... 185s Setting up autopkgtest-satdep (0) ... 185s Processing triggers for man-db (2.12.1-3) ... 186s Processing triggers for libc-bin (2.40-1ubuntu3) ... 189s (Reading database ... 83489 files and directories currently installed.) 189s Removing autopkgtest-satdep (0) ... 190s autopkgtest [09:37:59]: test run-unit-test: [----------------------- 190s + pkg=macs 190s + '[' /tmp/autopkgtest.SMMPvT/autopkgtest_tmp = '' ']' 190s + cp -a /usr/share/doc/macs/examples/aluY.chr1.bed.gz /usr/share/doc/macs/examples/gerp.chr1.bed.gz /tmp/autopkgtest.SMMPvT/autopkgtest_tmp 190s + cd /tmp/autopkgtest.SMMPvT/autopkgtest_tmp 190s + gunzip aluY.chr1.bed.gz gerp.chr1.bed.gz 190s + macs3 callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 190s INFO @ 13 Nov 2024 09:37:59: [38 MB] 190s # Command line: callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 190s # ARGUMENTS LIST: 190s # name = test 190s # format = AUTO 190s # ChIP-seq file = ['aluY.chr1.bed'] 190s # control file = None 190s # effective genome size = 2.91e+09 190s # band width = 300 190s # model fold = [5, 50] 190s # qvalue cutoff = 1.00e-02 190s # The maximum gap between significant sites is assigned as the read length/tag size. 190s # The minimum length of peaks is assigned as the predicted fragment length "d". 190s # Larger dataset will be scaled towards smaller dataset. 190s # Range for calculating regional lambda is: 10000 bps 190s # Broad region calling is off 190s # Paired-End mode is off 190s 190s INFO @ 13 Nov 2024 09:37:59: [38 MB] #1 read tag files... 190s INFO @ 13 Nov 2024 09:37:59: [38 MB] #1 read treatment tags... 190s INFO @ 13 Nov 2024 09:37:59: [38 MB] Detected format is: BED 191s INFO @ 13 Nov 2024 09:37:59: [39 MB] #1 tag size is determined as 294 bps 191s INFO @ 13 Nov 2024 09:37:59: [39 MB] #1 tag size = 294.0 191s INFO @ 13 Nov 2024 09:37:59: [39 MB] #1 total tags in treatment: 11628 191s INFO @ 13 Nov 2024 09:37:59: [39 MB] #1 user defined the maximum tags... 191s INFO @ 13 Nov 2024 09:37:59: [39 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #1 tags after filtering in treatment: 11628 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #1 Redundant rate of treatment: 0.00 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #1 finished! 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #2 Build Peak Model... 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #2 Skipped... 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #2 Use 200 as fragment length 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #3 Call peaks... 191s INFO @ 13 Nov 2024 09:37:59: [40 MB] #3 Pre-compute pvalue-qvalue table... 191s INFO @ 13 Nov 2024 09:38:00: [42 MB] #3 In the peak calling step, the following will be performed simultaneously: 191s INFO @ 13 Nov 2024 09:38:00: [42 MB] #3 Write bedGraph files for treatment pileup (after scaling if necessary)... test_treat_pileup.bdg 191s INFO @ 13 Nov 2024 09:38:00: [42 MB] #3 Write bedGraph files for control lambda (after scaling if necessary)... test_control_lambda.bdg 191s INFO @ 13 Nov 2024 09:38:00: [42 MB] #3 Pileup will be based on sequencing depth in treatment. 191s INFO @ 13 Nov 2024 09:38:00: [42 MB] #3 Call peaks for each chromosome... 191s INFO @ 13 Nov 2024 09:38:00: [43 MB] #4 Write output xls file... test_peaks.xls 191s INFO @ 13 Nov 2024 09:38:00: [43 MB] #4 Write peak in narrowPeak format file... test_peaks.narrowPeak 191s INFO @ 13 Nov 2024 09:38:00: [43 MB] #4 Write summits bed file... test_summits.bed 191s INFO @ 13 Nov 2024 09:38:00: [43 MB] Done! 191s + macs3 callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 191s INFO @ 13 Nov 2024 09:38:00: [38 MB] 191s # Command line: callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 191s # ARGUMENTS LIST: 191s # name = NA 191s # format = AUTO 191s # ChIP-seq file = ['gerp.chr1.bed'] 191s # control file = None 191s # effective genome size = 2.91e+09 191s # band width = 300 191s # model fold = [5, 50] 191s # qvalue cutoff for narrow/strong regions = 5.00e-02 191s # qvalue cutoff for broad/weak regions = 1.00e-01 191s # The maximum gap between significant sites is assigned as the read length/tag size. 191s # The minimum length of peaks is assigned as the predicted fragment length "d". 191s # Larger dataset will be scaled towards smaller dataset. 191s # Range for calculating regional lambda is: 10000 bps 191s # Broad region calling is on 191s # Paired-End mode is off 191s 191s INFO @ 13 Nov 2024 09:38:00: [38 MB] #1 read tag files... 191s INFO @ 13 Nov 2024 09:38:00: [38 MB] #1 read treatment tags... 191s INFO @ 13 Nov 2024 09:38:00: [38 MB] Detected format is: BED 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 tag size is determined as 181 bps 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 tag size = 181.0 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 total tags in treatment: 88292 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 user defined the maximum tags... 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 tags after filtering in treatment: 88292 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 Redundant rate of treatment: 0.00 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #1 finished! 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #2 Build Peak Model... 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #2 Skipped... 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #2 Use 200 as fragment length 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #3 Call peaks... 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #3 Call broad peaks with given level1 -log10qvalue cutoff and level2: 1.301030, 1.000000... 191s INFO @ 13 Nov 2024 09:38:00: [49 MB] #3 Pre-compute pvalue-qvalue table... 191s INFO @ 13 Nov 2024 09:38:00: [66 MB] #3 Call peaks for each chromosome... 191s INFO @ 13 Nov 2024 09:38:00: [68 MB] #4 Write output xls file... NA_peaks.xls 191s INFO @ 13 Nov 2024 09:38:00: [68 MB] #4 Write broad peak in broadPeak format file... NA_peaks.broadPeak 191s INFO @ 13 Nov 2024 09:38:00: [68 MB] #4 Write broad peak in bed12/gappedPeak format file... NA_peaks.gappedPeak 191s INFO @ 13 Nov 2024 09:38:00: [68 MB] Done! 192s autopkgtest [09:38:01]: test run-unit-test: -----------------------] 192s autopkgtest [09:38:01]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 192s run-unit-test PASS 193s autopkgtest [09:38:02]: @@@@@@@@@@@@@@@@@@@@ summary 193s run-unit-test PASS 209s virt: nova [W] Skipping flock in bos03-arm64 209s virt: Creating nova instance adt-plucky-arm64-macs-20241113-093449-juju-7f2275-prod-proposed-migration-environment-2-51a4bee6-3f1d-402c-8647-5c83f52697bd from image adt/ubuntu-plucky-arm64-server-20241113.img (UUID 2d7760e6-2439-4200-89d6-5ed33e5c6330)...