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Started by upstream project "BIOFORMATS-test-repo" build number 381 originally caused by: Started by upstream project "Trigger" build number 403 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins17934465685777059601.sh + '[' tillvision = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_60301_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 -Duser.language=fr -Duser.country=FR 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] 07:36:45,092 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 07:36:45,094 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 07:36:45,094 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:36:45,095 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:36:45,095 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:36:45,095 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:36:45,095 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:36:45,095 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:36:45,096 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:36:45,096 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:36:45,096 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:36:45,096 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:36:45,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:36:45,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:36:45,331 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:36:45,331 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:36:45,339 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:36:45,339 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:36:45,339 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:36:45,339 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:36:45,339 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 07:36:45,340 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 07:36:45,340 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 244 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-17 07:36:45,349] [main] java.version = 1.8.0_342 [testng] 07:36:45,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:36:45,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:36:45,395 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-17_07-36-45.log] [testng] 07:36:45,397 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-17 07:36:45,398] [main] testng.directory = /data [testng] [2025-03-17 07:36:45,398] [main] testng.configDirectory = /config [testng] [2025-03-17 07:36:45,410] [main] testng.multiplier = 1.0 [testng] [2025-03-17 07:36:45,410] [main] testng.in-memory = false [testng] [2025-03-17 07:36:45,411] [main] testng.allow-missing = false [testng] [2025-03-17 07:36:45,411] [main] user.language = fr [testng] [2025-03-17 07:36:45,411] [main] user.country = FR [testng] [2025-03-17 07:36:45,411] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-17 07:37:39,660] [main] ---------------------------------------- [testng] [2025-03-17 07:37:39,661] [main] Total files: 46 [testng] [2025-03-17 07:37:39,661] [main] Scan time: 54.249 s (1179 ms/file) [testng] [2025-03-17 07:37:39,661] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 25 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-17 07:41:10,074] [pool-1-thread-1] Initializing /data/venu/060310/Visible parts of Fluorescence 380nm1_test1.tif: [testng] 07:41:10,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:41:10,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:41:10,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-17_07-41-10.log] [testng] 07:41:10,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e88f042 - End of configuration. [testng] [2025-03-17 07:41:29,466] [pool-1-thread-12] Initializing /data/gerhard/test.vws: [testng] 07:41:29,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:41:29,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:41:29,467 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-17_07-41-29.log] [testng] 07:41:29,467 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d025fd9 - End of configuration. [testng] [2025-03-17 07:41:35,906] [pool-1-thread-11] Initializing /data/venu/060310/1_glass bottom dish snapshot.tif: [testng] 07:41:35,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:41:35,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:41:35,907 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-17_07-41-35.log] [testng] 07:41:35,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38b0025c - End of configuration. [testng] [2025-03-17 07:41:56,801] [pool-1-thread-10] Initializing /data/venu/060310/060310_glass_Wrkspc1.vws: [testng] 07:41:56,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:41:56,801 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:41:56,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-17_07-41-56.log] [testng] 07:41:56,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@364dc88b - End of configuration. [testng] [2025-03-17 07:42:05,588] [pool-1-thread-9] Initializing /data/samples/fibre.vws: [testng] 07:42:05,588 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:42:05,589 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:42:05,589 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-17_07-42-05.log] [testng] 07:42:05,589 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ea802bb - End of configuration. [testng] [2025-03-17 07:42:12,886] [pool-1-thread-8] Initializing /data/venu/061410/Rat LD muscle fibers Wrkspc3.vws: [testng] 07:42:12,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:42:12,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:42:12,887 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-17_07-42-12.log] [testng] 07:42:12,888 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e7c6eb5 - End of configuration. [testng] [2025-03-17 07:42:24,321] [pool-1-thread-7] Initializing /data/qinghai/TillvisIOn Sample Dataset/Bgr.vws: [testng] 07:42:24,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:42:24,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:42:24,322 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-17_07-42-24.log] [testng] 07:42:24,322 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ab6457f - End of configuration. [testng] [2025-03-17 07:42:38,830] [pool-1-thread-6] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc1.vws: [testng] 07:42:38,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:42:38,830 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:42:38,830 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-17_07-42-38.log] [testng] 07:42:38,831 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6337f442 - End of configuration. [testng] [2025-03-17 07:42:52,461] [pool-1-thread-5] Initializing /data/ian/working_tillvision_vws/20120322.vws: [testng] 07:42:52,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:42:52,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:42:52,462 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-17_07-42-52.log] [testng] 07:42:52,463 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18110214 - End of configuration. [testng] [2025-03-17 07:43:18,453] [pool-1-thread-4] Initializing /data/andreas/090812E4.vws: [testng] 07:43:18,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:43:18,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:43:18,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-17_07-43-18.log] [testng] 07:43:18,455 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22e00236 - End of configuration. [testng] [2025-03-17 07:43:45,307] [pool-1-thread-3] Initializing /data/imagesc-84715/not working.vws: [testng] 07:43:45,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:43:45,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:43:45,308 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-17_07-43-45.log] [testng] 07:43:45,309 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73caaf25 - End of configuration. [testng] [2025-03-17 07:43:56,306] [pool-1-thread-2] Initializing /data/venu/060310/Fluorescence 340nm1_test 1.tif: [testng] 07:43:56,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:43:56,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:43:56,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-17_07-43-56.log] [testng] 07:43:56,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b9a2fb6 - End of configuration. [testng] [2025-03-17 07:46:59,604] [pool-1-thread-9] Initializing /data/ian/non_working_tillvision_vws/20120404.vws: [testng] [2025-03-17 07:47:35,191] [pool-1-thread-12] Initializing /data/venu/060310/drug addition _BAM.vws: [testng] [2025-03-17 07:48:43,401] [pool-1-thread-11] Initializing /data/imagesc-84715/working.vws: [testng] [2025-03-17 07:49:04,707] [pool-1-thread-2] Initializing /data/venu/060310/1_ drug addition actual test_ glass_Wrkspc6.vws: [testng] [2025-03-17 07:49:23,198] [pool-1-thread-1] Initializing /data/andreas/090811E1.vws: [testng] [2025-03-17 07:52:30,469] [pool-1-thread-3] Initializing /data/christian/080807ionophore/080807ionophore3.vws: [testng] [2025-03-17 07:53:54,369] [pool-1-thread-6] Initializing /data/venu/060310/1_glass bottom dish_fluorescence snapshot.tif: [testng] [2025-03-17 07:54:22,603] [pool-1-thread-8] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated BAM_Wrkspc1.vws: [testng] [2025-03-17 07:54:32,266] [pool-1-thread-7] Initializing /data/stephan/two sequences.vws: [testng] [2025-03-17 07:55:39,208] [pool-1-thread-12] Initializing /data/christian/080807epi/080807epi2.vws: [testng] [2025-03-17 07:56:04,684] [pool-1-thread-6] Initializing /data/venu/060310/drug addition protocol testing_Wrkspc3.vws: [testng] [2025-03-17 07:56:23,406] [pool-1-thread-3] Initializing /data/oliver/TillVision-Data-2-from-Oliver-Mueller-Homburg-Germany/2006 DG2 V1 Indo-1 Ratte.vws: [testng] [2025-03-17 07:56:41,238] [pool-1-thread-10] Initializing /data/venu/061410/Differentiating MPCs on Matrigel coated glass_Wrkspc2.vws: [testng] 09:35:11,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 09:35:11,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:35:11,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-17_09-35-11.log] [testng] 09:35:11,801 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31da6b2e - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1325, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 118 minutes 31 seconds Finished: SUCCESS