Started by upstream project "BIOFORMATS-test-repo" build number 281
originally caused by:
Started by upstream project "Trigger" build number 301
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5
[BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins312780267955416020.sh
+ '[' tillvision = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_44347_merge_ci -v /uod/idr/repos/curated/tillvision:/data -v /uod/idr-scratch/merge-ci/curated/tillvision:/config snoopycrimecop/bioformats:merge_ci -Dtestng.memory=15g -Dtestng.threadCount=12
Buildfile: /bio-formats-build/bioformats/components/test-suite/build.xml
[echo] isSnapshot = true
init-title:
[echo] ----------=========== bio-formats-testing-framework ===========----------
init-timestamp:
init:
copy-resources:
compile:
[resolver:resolve] Resolving artifacts
compile-tests:
[resolver:resolve] Resolving artifacts
[javac] Compiling 1 source file to /bio-formats-build/bioformats/components/test-suite/test
test-automated:
[testng] File leak detector installed
[testng] 01:42:04,179 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 01:42:04,181 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service.
[testng] 01:42:04,181 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:42:04,182 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 01:42:04,182 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 01:42:04,182 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 01:42:04,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
[testng] 01:42:04,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:42:04,183 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 01:42:04,184 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 01:42:04,184 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 01:42:04,184 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 01:42:04,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 01:42:04,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 01:42:04,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 01:42:04,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 01:42:04,472 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 01:42:04,472 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 01:42:04,473 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 01:42:04,473 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 01:42:04,473 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration.
[testng] 01:42:04,474 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point
[testng] 01:42:04,474 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 291 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-12-06 01:42:04,484] [main] java.version = 1.8.0_342
[testng] 01:42:04,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 01:42:04,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:42:04,534 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_01-42-04.log]
[testng] 01:42:04,536 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration.
[testng] [2024-12-06 01:42:04,538] [main] testng.directory = /data
[testng] [2024-12-06 01:42:04,538] [main] testng.configDirectory = /config
[testng] [2024-12-06 01:42:04,551] [main] testng.multiplier = 1.0
[testng] [2024-12-06 01:42:04,551] [main] testng.in-memory = false
[testng] [2024-12-06 01:42:04,551] [main] testng.allow-missing = false
[testng] [2024-12-06 01:42:04,551] [main] user.language = en
[testng] [2024-12-06 01:42:04,551] [main] user.country = ${user.country}
[testng] [2024-12-06 01:42:04,551] [main] Maximum heap size = 13653 MB
[testng] Scanning for files...
[testng] [2024-12-06 01:42:18,999] [main] ----------------------------------------
[testng] [2024-12-06 01:42:19,000] [main] Total files: 46
[testng] [2024-12-06 01:42:19,000] [main] Scan time: 14.448 s (314 ms/file)
[testng] [2024-12-06 01:42:19,000] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 25 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-06 01:43:10,998] [pool-1-thread-1] Initializing /data/venu/060310/Visible parts of Fluorescence 380nm1_test1.tif:
[testng] 01:43:10,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 01:43:10,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:11,000 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_01-43-11.log]
[testng] 01:43:11,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a67efe6 - End of configuration.
[testng] [2024-12-06 01:43:12,485] [pool-1-thread-12] Initializing /data/gerhard/test.vws:
[testng] 01:43:12,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 01:43:12,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:12,486 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_01-43-12.log]
[testng] 01:43:12,487 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1fac60c5 - End of configuration.
[testng] [2024-12-06 01:43:12,978] [pool-1-thread-11] Initializing /data/venu/060310/1_glass bottom dish snapshot.tif:
[testng] 01:43:12,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 01:43:12,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:12,979 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_01-43-12.log]
[testng] 01:43:12,979 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73caaf25 - End of configuration.
[testng] [2024-12-06 01:43:14,850] [pool-1-thread-10] Initializing /data/venu/060310/060310_glass_Wrkspc1.vws:
[testng] 01:43:14,851 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 01:43:14,851 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:14,851 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_01-43-14.log]
[testng] 01:43:14,852 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62316aee - End of configuration.
[testng] [2024-12-06 01:43:16,956] [pool-1-thread-9] Initializing /data/samples/fibre.vws:
[testng] 01:43:16,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 01:43:16,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:16,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_01-43-16.log]
[testng] 01:43:16,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b9a2fb6 - End of configuration.
[testng] [2024-12-06 01:43:17,408] [pool-1-thread-8] Initializing /data/venu/061410/Rat LD muscle fibers Wrkspc3.vws:
[testng] 01:43:17,408 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 01:43:17,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:17,409 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_01-43-17.log]
[testng] 01:43:17,409 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9d650cb - End of configuration.
[testng] [2024-12-06 01:43:18,809] [pool-1-thread-7] Initializing /data/qinghai/TillvisIOn Sample Dataset/Bgr.vws:
[testng] 01:43:18,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 01:43:18,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:18,810 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_01-43-18.log]
[testng] 01:43:18,810 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24640aba - End of configuration.
[testng] [2024-12-06 01:43:20,296] [pool-1-thread-6] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc1.vws:
[testng] 01:43:20,296 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 01:43:20,296 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:20,297 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_01-43-20.log]
[testng] 01:43:20,297 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cdfc793 - End of configuration.
[testng] [2024-12-06 01:43:21,389] [pool-1-thread-5] Initializing /data/ian/working_tillvision_vws/20120322.vws:
[testng] 01:43:21,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 01:43:21,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:21,390 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_01-43-21.log]
[testng] 01:43:21,390 |-INFO in ch.qos.logback.core.sift.SiftProcessor@147bbc59 - End of configuration.
[testng] [2024-12-06 01:43:25,541] [pool-1-thread-4] Initializing /data/andreas/090812E4.vws:
[testng] 01:43:25,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 01:43:25,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:25,541 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_01-43-25.log]
[testng] 01:43:25,542 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51cfd1f6 - End of configuration.
[testng] [2024-12-06 01:43:27,873] [pool-1-thread-3] Initializing /data/imagesc-84715/not working.vws:
[testng] 01:43:27,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 01:43:27,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:27,874 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_01-43-27.log]
[testng] 01:43:27,874 |-INFO in ch.qos.logback.core.sift.SiftProcessor@678b7290 - End of configuration.
[testng] [2024-12-06 01:43:28,539] [pool-1-thread-2] Initializing /data/venu/060310/Fluorescence 340nm1_test 1.tif:
[testng] 01:43:28,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 01:43:28,540 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 01:43:28,540 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_01-43-28.log]
[testng] 01:43:28,541 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30797fac - End of configuration.
[testng] [2024-12-06 01:43:40,934] [pool-1-thread-9] Initializing /data/ian/non_working_tillvision_vws/20120404.vws:
[testng] [2024-12-06 01:43:48,372] [pool-1-thread-12] Initializing /data/venu/060310/drug addition _BAM.vws:
[testng] [2024-12-06 01:43:50,996] [pool-1-thread-1] Initializing /data/imagesc-84715/working.vws:
[testng] [2024-12-06 01:43:51,985] [pool-1-thread-11] Initializing /data/venu/060310/1_ drug addition actual test_ glass_Wrkspc6.vws:
[testng] [2024-12-06 01:43:52,936] [pool-1-thread-2] Initializing /data/andreas/090811E1.vws:
[testng] [2024-12-06 01:44:15,756] [pool-1-thread-3] Initializing /data/christian/080807ionophore/080807ionophore3.vws:
[testng] [2024-12-06 01:44:17,079] [pool-1-thread-6] Initializing /data/venu/060310/1_glass bottom dish_fluorescence snapshot.tif:
[testng] [2024-12-06 01:44:21,343] [pool-1-thread-7] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated BAM_Wrkspc1.vws:
[testng] [2024-12-06 01:44:28,127] [pool-1-thread-8] Initializing /data/stephan/two sequences.vws:
[testng] [2024-12-06 01:44:31,293] [pool-1-thread-6] Initializing /data/christian/080807epi/080807epi2.vws:
[testng] [2024-12-06 01:44:34,108] [pool-1-thread-12] Initializing /data/venu/060310/drug addition protocol testing_Wrkspc3.vws:
[testng] [2024-12-06 01:44:39,726] [pool-1-thread-11] Initializing /data/oliver/TillVision-Data-2-from-Oliver-Mueller-Homburg-Germany/2006 DG2 V1 Indo-1 Ratte.vws:
[testng] [2024-12-06 01:44:43,516] [pool-1-thread-3] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc2.vws:
[testng]
[testng] ===============================================
[testng] Bio-Formats software test suite
[testng] Total tests run: 1325, Failures: 0, Skips: 0
[testng] ===============================================
[testng]
BUILD SUCCESSFUL
Total time: 20 minutes 26 seconds
Finished: SUCCESS