0s autopkgtest [20:15:21]: starting date and time: 2024-11-15 20:15:21+0000 0s autopkgtest [20:15:21]: git checkout: 6f3be7a8 Fix armhf LXD image generation for plucky 0s autopkgtest [20:15:21]: host juju-7f2275-prod-proposed-migration-environment-20; command line: /home/ubuntu/autopkgtest/runner/autopkgtest --output-dir /tmp/autopkgtest-work.q7y0os6m/out --timeout-copy=6000 --setup-commands /home/ubuntu/autopkgtest-cloud/worker-config-production/setup-canonical.sh --apt-pocket=proposed=src:scikit-learn --apt-upgrade macs --timeout-short=300 --timeout-copy=20000 --timeout-build=20000 --env=ADT_TEST_TRIGGERS=scikit-learn/1.4.2+dfsg-6build1 -- ssh -s /home/ubuntu/autopkgtest/ssh-setup/nova -- --flavor autopkgtest --security-groups autopkgtest-juju-7f2275-prod-proposed-migration-environment-20@bos03-arm64-16.secgroup --name adt-plucky-arm64-macs-20241115-201521-juju-7f2275-prod-proposed-migration-environment-20-5b505c9e-40bb-465a-ad29-e0015b133b3f --image adt/ubuntu-plucky-arm64-server --keyname testbed-juju-7f2275-prod-proposed-migration-environment-20 --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/ 58s autopkgtest [20:16:19]: testbed dpkg architecture: arm64 58s autopkgtest [20:16:19]: testbed apt version: 2.9.8 58s autopkgtest [20:16:19]: @@@@@@@@@@@@@@@@@@@@ test bed setup 59s Get:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease [73.9 kB] 59s Get:2 http://ftpmaster.internal/ubuntu plucky-proposed/main Sources [92.2 kB] 59s Get:3 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse Sources [15.5 kB] 59s Get:4 http://ftpmaster.internal/ubuntu plucky-proposed/restricted Sources [7016 B] 59s Get:5 http://ftpmaster.internal/ubuntu plucky-proposed/universe Sources [1043 kB] 59s Get:6 http://ftpmaster.internal/ubuntu plucky-proposed/main arm64 Packages [168 kB] 59s Get:7 http://ftpmaster.internal/ubuntu plucky-proposed/restricted arm64 Packages [50.3 kB] 59s Get:8 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 Packages [789 kB] 59s Get:9 http://ftpmaster.internal/ubuntu plucky-proposed/multiverse arm64 Packages [6404 B] 60s Fetched 2245 kB in 1s (2449 kB/s) 60s Reading package lists... 62s Reading package lists... 63s Building dependency tree... 63s Reading state information... 63s Calculating upgrade... 64s The following NEW packages will be installed: 64s libassuan9 64s The following packages will be upgraded: 64s libgpgme11t64 libseccomp2 python3-cffi-backend python3-markupsafe 64s 4 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. 64s Need to get 337 kB of archives. 64s After this operation, 447 kB of additional disk space will be used. 64s Get:1 http://ftpmaster.internal/ubuntu plucky/main arm64 libseccomp2 arm64 2.5.5-1ubuntu5 [51.4 kB] 64s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-cffi-backend arm64 1.17.1-2build1 [89.9 kB] 64s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libassuan9 arm64 3.0.1-2 [40.6 kB] 64s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libgpgme11t64 arm64 1.24.0-2ubuntu1 [142 kB] 64s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-markupsafe arm64 2.1.5-1build3 [13.0 kB] 64s Fetched 337 kB in 0s (713 kB/s) 65s (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 ... 79957 files and directories currently installed.) 65s Preparing to unpack .../libseccomp2_2.5.5-1ubuntu5_arm64.deb ... 65s Unpacking libseccomp2:arm64 (2.5.5-1ubuntu5) over (2.5.5-1ubuntu4) ... 65s Setting up libseccomp2:arm64 (2.5.5-1ubuntu5) ... 65s (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 ... 79957 files and directories currently installed.) 65s Preparing to unpack .../python3-cffi-backend_1.17.1-2build1_arm64.deb ... 65s Unpacking python3-cffi-backend:arm64 (1.17.1-2build1) over (1.17.1-2) ... 65s Selecting previously unselected package libassuan9:arm64. 65s Preparing to unpack .../libassuan9_3.0.1-2_arm64.deb ... 65s Unpacking libassuan9:arm64 (3.0.1-2) ... 65s Preparing to unpack .../libgpgme11t64_1.24.0-2ubuntu1_arm64.deb ... 65s Unpacking libgpgme11t64:arm64 (1.24.0-2ubuntu1) over (1.23.2-5ubuntu4) ... 65s Preparing to unpack .../python3-markupsafe_2.1.5-1build3_arm64.deb ... 65s Unpacking python3-markupsafe (2.1.5-1build3) over (2.1.5-1build2) ... 65s Setting up python3-markupsafe (2.1.5-1build3) ... 65s Setting up libassuan9:arm64 (3.0.1-2) ... 65s Setting up libgpgme11t64:arm64 (1.24.0-2ubuntu1) ... 65s Setting up python3-cffi-backend:arm64 (1.17.1-2build1) ... 65s Processing triggers for libc-bin (2.40-1ubuntu3) ... 65s Reading package lists... 66s Building dependency tree... 66s Reading state information... 66s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 67s Hit:1 http://ftpmaster.internal/ubuntu plucky-proposed InRelease 67s Hit:2 http://ftpmaster.internal/ubuntu plucky InRelease 67s Hit:3 http://ftpmaster.internal/ubuntu plucky-updates InRelease 67s Hit:4 http://ftpmaster.internal/ubuntu plucky-security InRelease 68s Reading package lists... 68s Reading package lists... 68s Building dependency tree... 68s Reading state information... 69s Calculating upgrade... 69s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 69s Reading package lists... 70s Building dependency tree... 70s Reading state information... 70s 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 73s autopkgtest [20:16:34]: testbed running kernel: Linux 6.11.0-8-generic #8-Ubuntu SMP PREEMPT_DYNAMIC Mon Sep 16 14:19:41 UTC 2024 73s autopkgtest [20:16:34]: @@@@@@@@@@@@@@@@@@@@ apt-source macs 88s Get:1 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (dsc) [2152 B] 88s Get:2 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (tar) [197 MB] 88s Get:3 http://ftpmaster.internal/ubuntu plucky/universe macs 3.0.2-1 (diff) [1268 kB] 89s gpgv: Signature made Sat Sep 7 23:10:03 2024 UTC 89s gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 89s gpgv: Can't check signature: No public key 89s dpkg-source: warning: cannot verify inline signature for ./macs_3.0.2-1.dsc: no acceptable signature found 93s autopkgtest [20:16:54]: testing package macs version 3.0.2-1 93s autopkgtest [20:16:54]: build not needed 107s autopkgtest [20:17:08]: test run-unit-test: preparing testbed 108s Reading package lists... 109s Building dependency tree... 109s Reading state information... 109s Starting pkgProblemResolver with broken count: 0 109s Starting 2 pkgProblemResolver with broken count: 0 109s Done 110s The following additional packages will be installed: 110s libblas3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 macs python3-cykhash 110s python3-decorator python3-hmmlearn python3-joblib python3-numpy 110s python3-scipy python3-sklearn python3-sklearn-lib python3-threadpoolctl 110s Suggested packages: 110s python-joblib-doc gcc gfortran python-numpy-doc python3-dev python3-pytest 110s python-scipy-doc python3-dap python-sklearn-doc ipython3 110s Recommended packages: 110s python3-pytest python3-simplejson python3-psutil g++ | c++-compiler 110s python3-pil python3-matplotlib 110s The following NEW packages will be installed: 110s autopkgtest-satdep libblas3 libgfortran5 libgomp1 liblapack3 liblbfgsb0 macs 110s python3-cykhash python3-decorator python3-hmmlearn python3-joblib 110s python3-numpy python3-scipy python3-sklearn python3-sklearn-lib 110s python3-threadpoolctl 110s 0 upgraded, 16 newly installed, 0 to remove and 0 not upgraded. 110s Need to get 35.6 MB/35.6 MB of archives. 110s After this operation, 163 MB of additional disk space will be used. 110s Get:1 /tmp/autopkgtest.QBBRfo/1-autopkgtest-satdep.deb autopkgtest-satdep arm64 0 [700 B] 110s Get:2 http://ftpmaster.internal/ubuntu plucky/main arm64 libblas3 arm64 3.12.0-3build2 [152 kB] 110s Get:3 http://ftpmaster.internal/ubuntu plucky/main arm64 libgfortran5 arm64 14.2.0-8ubuntu1 [438 kB] 111s Get:4 http://ftpmaster.internal/ubuntu plucky/main arm64 libgomp1 arm64 14.2.0-8ubuntu1 [145 kB] 111s Get:5 http://ftpmaster.internal/ubuntu plucky/main arm64 liblapack3 arm64 3.12.0-3build2 [2293 kB] 111s Get:6 http://ftpmaster.internal/ubuntu plucky/universe arm64 liblbfgsb0 arm64 3.0+dfsg.4-1build1 [27.7 kB] 111s Get:7 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-numpy arm64 1:1.26.4+ds-11build1 [3654 kB] 111s Get:8 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-cykhash arm64 2.0.0-3build1 [457 kB] 111s Get:9 http://ftpmaster.internal/ubuntu plucky/main arm64 python3-decorator all 5.1.1-5 [10.1 kB] 111s Get:10 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-scipy arm64 1.13.1-5 [16.3 MB] 112s Get:11 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-joblib all 1.3.2-5 [206 kB] 112s Get:12 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-threadpoolctl all 3.1.0-1 [21.3 kB] 112s Get:13 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 python3-sklearn-lib arm64 1.4.2+dfsg-6build1 [6350 kB] 112s Get:14 http://ftpmaster.internal/ubuntu plucky-proposed/universe arm64 python3-sklearn all 1.4.2+dfsg-6build1 [2257 kB] 112s Get:15 http://ftpmaster.internal/ubuntu plucky/universe arm64 python3-hmmlearn arm64 0.3.2-2 [120 kB] 112s Get:16 http://ftpmaster.internal/ubuntu plucky/universe arm64 macs arm64 3.0.2-1 [3105 kB] 113s Fetched 35.6 MB in 2s (14.5 MB/s) 113s Selecting previously unselected package libblas3:arm64. 113s (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 ... 79964 files and directories currently installed.) 113s Preparing to unpack .../00-libblas3_3.12.0-3build2_arm64.deb ... 113s Unpacking libblas3:arm64 (3.12.0-3build2) ... 113s Selecting previously unselected package libgfortran5:arm64. 113s Preparing to unpack .../01-libgfortran5_14.2.0-8ubuntu1_arm64.deb ... 113s Unpacking libgfortran5:arm64 (14.2.0-8ubuntu1) ... 113s Selecting previously unselected package libgomp1:arm64. 113s Preparing to unpack .../02-libgomp1_14.2.0-8ubuntu1_arm64.deb ... 113s Unpacking libgomp1:arm64 (14.2.0-8ubuntu1) ... 113s Selecting previously unselected package liblapack3:arm64. 113s Preparing to unpack .../03-liblapack3_3.12.0-3build2_arm64.deb ... 113s Unpacking liblapack3:arm64 (3.12.0-3build2) ... 113s Selecting previously unselected package liblbfgsb0:arm64. 113s Preparing to unpack .../04-liblbfgsb0_3.0+dfsg.4-1build1_arm64.deb ... 113s Unpacking liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 113s Selecting previously unselected package python3-numpy. 113s Preparing to unpack .../05-python3-numpy_1%3a1.26.4+ds-11build1_arm64.deb ... 113s Unpacking python3-numpy (1:1.26.4+ds-11build1) ... 113s Selecting previously unselected package python3-cykhash. 113s Preparing to unpack .../06-python3-cykhash_2.0.0-3build1_arm64.deb ... 113s Unpacking python3-cykhash (2.0.0-3build1) ... 113s Selecting previously unselected package python3-decorator. 113s Preparing to unpack .../07-python3-decorator_5.1.1-5_all.deb ... 113s Unpacking python3-decorator (5.1.1-5) ... 113s Selecting previously unselected package python3-scipy. 113s Preparing to unpack .../08-python3-scipy_1.13.1-5_arm64.deb ... 113s Unpacking python3-scipy (1.13.1-5) ... 114s Selecting previously unselected package python3-joblib. 114s Preparing to unpack .../09-python3-joblib_1.3.2-5_all.deb ... 114s Unpacking python3-joblib (1.3.2-5) ... 114s Selecting previously unselected package python3-threadpoolctl. 114s Preparing to unpack .../10-python3-threadpoolctl_3.1.0-1_all.deb ... 114s Unpacking python3-threadpoolctl (3.1.0-1) ... 114s Selecting previously unselected package python3-sklearn-lib:arm64. 114s Preparing to unpack .../11-python3-sklearn-lib_1.4.2+dfsg-6build1_arm64.deb ... 114s Unpacking python3-sklearn-lib:arm64 (1.4.2+dfsg-6build1) ... 114s Selecting previously unselected package python3-sklearn. 114s Preparing to unpack .../12-python3-sklearn_1.4.2+dfsg-6build1_all.deb ... 114s Unpacking python3-sklearn (1.4.2+dfsg-6build1) ... 114s Selecting previously unselected package python3-hmmlearn. 114s Preparing to unpack .../13-python3-hmmlearn_0.3.2-2_arm64.deb ... 114s Unpacking python3-hmmlearn (0.3.2-2) ... 114s Selecting previously unselected package macs. 114s Preparing to unpack .../14-macs_3.0.2-1_arm64.deb ... 114s Unpacking macs (3.0.2-1) ... 114s Selecting previously unselected package autopkgtest-satdep. 114s Preparing to unpack .../15-1-autopkgtest-satdep.deb ... 114s Unpacking autopkgtest-satdep (0) ... 115s Setting up python3-joblib (1.3.2-5) ... 115s Setting up python3-threadpoolctl (3.1.0-1) ... 115s Setting up libgomp1:arm64 (14.2.0-8ubuntu1) ... 115s Setting up python3-cykhash (2.0.0-3build1) ... 115s Setting up python3-decorator (5.1.1-5) ... 115s Setting up libblas3:arm64 (3.12.0-3build2) ... 115s 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 115s Setting up libgfortran5:arm64 (14.2.0-8ubuntu1) ... 115s Setting up liblapack3:arm64 (3.12.0-3build2) ... 115s 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 115s Setting up python3-numpy (1:1.26.4+ds-11build1) ... 117s Setting up liblbfgsb0:arm64 (3.0+dfsg.4-1build1) ... 117s Setting up python3-scipy (1.13.1-5) ... 121s Setting up python3-sklearn-lib:arm64 (1.4.2+dfsg-6build1) ... 121s Setting up python3-sklearn (1.4.2+dfsg-6build1) ... 124s Setting up python3-hmmlearn (0.3.2-2) ... 124s Setting up macs (3.0.2-1) ... 124s Setting up autopkgtest-satdep (0) ... 124s Processing triggers for man-db (2.13.0-1) ... 125s Processing triggers for libc-bin (2.40-1ubuntu3) ... 128s (Reading database ... 83590 files and directories currently installed.) 128s Removing autopkgtest-satdep (0) ... 129s autopkgtest [20:17:30]: test run-unit-test: [----------------------- 129s + pkg=macs 129s + '[' /tmp/autopkgtest.QBBRfo/autopkgtest_tmp = '' ']' 129s + cp -a /usr/share/doc/macs/examples/aluY.chr1.bed.gz /usr/share/doc/macs/examples/gerp.chr1.bed.gz /tmp/autopkgtest.QBBRfo/autopkgtest_tmp 129s + cd /tmp/autopkgtest.QBBRfo/autopkgtest_tmp 129s + gunzip aluY.chr1.bed.gz gerp.chr1.bed.gz 129s + macs3 callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] 129s # Command line: callpeak -t aluY.chr1.bed --nomodel -g hs -n test -B -q 0.01 129s # ARGUMENTS LIST: 129s # name = test 129s # format = AUTO 129s # ChIP-seq file = ['aluY.chr1.bed'] 129s # control file = None 129s # effective genome size = 2.91e+09 129s # band width = 300 129s # model fold = [5, 50] 129s # qvalue cutoff = 1.00e-02 129s # The maximum gap between significant sites is assigned as the read length/tag size. 129s # The minimum length of peaks is assigned as the predicted fragment length "d". 129s # Larger dataset will be scaled towards smaller dataset. 129s # Range for calculating regional lambda is: 10000 bps 129s # Broad region calling is off 129s # Paired-End mode is off 129s 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] #1 read tag files... 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] #1 read treatment tags... 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] Detected format is: BED 129s INFO @ 15 Nov 2024 20:17:30: [39 MB] #1 tag size is determined as 294 bps 129s INFO @ 15 Nov 2024 20:17:30: [39 MB] #1 tag size = 294.0 129s INFO @ 15 Nov 2024 20:17:30: [39 MB] #1 total tags in treatment: 11628 129s INFO @ 15 Nov 2024 20:17:30: [39 MB] #1 user defined the maximum tags... 129s INFO @ 15 Nov 2024 20:17:30: [39 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #1 tags after filtering in treatment: 11628 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #1 Redundant rate of treatment: 0.00 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #1 finished! 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #2 Build Peak Model... 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #2 Skipped... 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #2 Use 200 as fragment length 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #3 Call peaks... 129s INFO @ 15 Nov 2024 20:17:30: [40 MB] #3 Pre-compute pvalue-qvalue table... 129s INFO @ 15 Nov 2024 20:17:30: [42 MB] #3 In the peak calling step, the following will be performed simultaneously: 129s INFO @ 15 Nov 2024 20:17:30: [42 MB] #3 Write bedGraph files for treatment pileup (after scaling if necessary)... test_treat_pileup.bdg 129s INFO @ 15 Nov 2024 20:17:30: [42 MB] #3 Write bedGraph files for control lambda (after scaling if necessary)... test_control_lambda.bdg 129s INFO @ 15 Nov 2024 20:17:30: [42 MB] #3 Pileup will be based on sequencing depth in treatment. 129s INFO @ 15 Nov 2024 20:17:30: [42 MB] #3 Call peaks for each chromosome... 129s INFO @ 15 Nov 2024 20:17:30: [43 MB] #4 Write output xls file... test_peaks.xls 129s INFO @ 15 Nov 2024 20:17:30: [43 MB] #4 Write peak in narrowPeak format file... test_peaks.narrowPeak 129s INFO @ 15 Nov 2024 20:17:30: [43 MB] #4 Write summits bed file... test_summits.bed 129s INFO @ 15 Nov 2024 20:17:30: [43 MB] Done! 129s + macs3 callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] 129s # Command line: callpeak -t gerp.chr1.bed --nomodel --broad -g hs --broad-cutoff 0.1 129s # ARGUMENTS LIST: 129s # name = NA 129s # format = AUTO 129s # ChIP-seq file = ['gerp.chr1.bed'] 129s # control file = None 129s # effective genome size = 2.91e+09 129s # band width = 300 129s # model fold = [5, 50] 129s # qvalue cutoff for narrow/strong regions = 5.00e-02 129s # qvalue cutoff for broad/weak regions = 1.00e-01 129s # The maximum gap between significant sites is assigned as the read length/tag size. 129s # The minimum length of peaks is assigned as the predicted fragment length "d". 129s # Larger dataset will be scaled towards smaller dataset. 129s # Range for calculating regional lambda is: 10000 bps 129s # Broad region calling is on 129s # Paired-End mode is off 129s 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] #1 read tag files... 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] #1 read treatment tags... 129s INFO @ 15 Nov 2024 20:17:30: [38 MB] Detected format is: BED 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 tag size is determined as 181 bps 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 tag size = 181.0 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 total tags in treatment: 88292 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 user defined the maximum tags... 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 tags after filtering in treatment: 88292 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 Redundant rate of treatment: 0.00 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #1 finished! 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #2 Build Peak Model... 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #2 Skipped... 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #2 Use 200 as fragment length 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #3 Call peaks... 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #3 Call broad peaks with given level1 -log10qvalue cutoff and level2: 1.301030, 1.000000... 129s INFO @ 15 Nov 2024 20:17:30: [49 MB] #3 Pre-compute pvalue-qvalue table... 130s INFO @ 15 Nov 2024 20:17:31: [66 MB] #3 Call peaks for each chromosome... 130s INFO @ 15 Nov 2024 20:17:31: [68 MB] #4 Write output xls file... NA_peaks.xls 130s INFO @ 15 Nov 2024 20:17:31: [68 MB] #4 Write broad peak in broadPeak format file... NA_peaks.broadPeak 130s INFO @ 15 Nov 2024 20:17:31: [68 MB] #4 Write broad peak in bed12/gappedPeak format file... NA_peaks.gappedPeak 130s INFO @ 15 Nov 2024 20:17:31: [68 MB] Done! 130s autopkgtest [20:17:31]: test run-unit-test: -----------------------] 131s autopkgtest [20:17:32]: test run-unit-test: - - - - - - - - - - results - - - - - - - - - - 131s run-unit-test PASS 131s autopkgtest [20:17:32]: @@@@@@@@@@@@@@@@@@@@ summary 131s run-unit-test PASS 143s nova [W] Skipping flock in bos03-arm64 143s Creating nova instance adt-plucky-arm64-macs-20241115-201521-juju-7f2275-prod-proposed-migration-environment-20-5b505c9e-40bb-465a-ad29-e0015b133b3f from image adt/ubuntu-plucky-arm64-server-20241115.img (UUID bf337bb2-b8c9-4fc7-87ba-f6e99408dba6)...