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Started by upstream project "BIOFORMATS-test-repo" build number 371 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins12931817587503428189.sh + '[' flex = 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_59017_merge_ci -v /uod/idr/repos/curated/flex:/data -v /uod/idr-scratch/merge-ci/curated/flex:/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] 12:12:14,695 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 12:12:14,697 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - No custom configurators were discovered as a service. [testng] 12:12:14,697 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:12:14,698 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:12:14,699 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:12:14,699 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:12:14,699 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 12:12:14,699 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:12:14,700 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:12:14,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:12:14,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:12:14,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:12:14,923 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:12:14,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:12:14,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:12:14,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:12:14,960 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:12:14,960 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:12:14,960 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:12:14,960 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:12:14,961 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@63355449 - End of configuration. [testng] 12:12:14,961 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48ae9b55 - Registering current configuration as safe fallback point [testng] 12:12:14,961 |-INFO in ch.qos.logback.classic.util.ContextInitializer@7ff95560 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 261 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-10 12:12:14,971] [main] java.version = 1.8.0_342 [testng] 12:12:14,975 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:12:14,975 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:12:15,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-10_12-12-14.log] [testng] 12:12:15,022 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765d7657 - End of configuration. [testng] [2025-03-10 12:12:15,024] [main] testng.directory = /data [testng] [2025-03-10 12:12:15,024] [main] testng.configDirectory = /config [testng] [2025-03-10 12:12:15,036] [main] testng.multiplier = 1.0 [testng] [2025-03-10 12:12:15,037] [main] testng.in-memory = false [testng] [2025-03-10 12:12:15,037] [main] testng.allow-missing = false [testng] [2025-03-10 12:12:15,037] [main] user.language = fr [testng] [2025-03-10 12:12:15,037] [main] user.country = FR [testng] [2025-03-10 12:12:15,037] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2025-03-10 12:14:33,462] [main] ---------------------------------------- [testng] [2025-03-10 12:14:33,462] [main] Total files: 791 [testng] [2025-03-10 12:14:33,462] [main] Scan time: 138.425 s (175 ms/file) [testng] [2025-03-10 12:14:33,462] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 42 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-10 12:20:11,818] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_03(2007-12-14_10-50-56)/004006000.flex: [testng] 12:20:11,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:20:11,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:11,819 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-10_12-20-11.log] [testng] 12:20:11,820 |-INFO in ch.qos.logback.core.sift.SiftProcessor@773cf4b5 - End of configuration. [testng] [2025-03-10 12:20:12,581] [pool-1-thread-12] Initializing /data/tamjid/006004000.flex: [testng] 12:20:12,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 12:20:12,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:12,582 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-10_12-20-12.log] [testng] 12:20:12,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50ed886d - End of configuration. [testng] [2025-03-10 12:20:13,340] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement2_stack/Meas_01(2007-12-13_17-49-27)/004006000.flex: [testng] 12:20:13,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:20:13,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:13,341 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-10_12-20-13.log] [testng] 12:20:13,342 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33509868 - End of configuration. [testng] [2025-03-10 12:20:14,150] [pool-1-thread-10] Initializing /data/manuel/003003001.flex: [testng] 12:20:14,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:20:14,150 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:14,151 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-10_12-20-14.log] [testng] 12:20:14,151 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b0175fa - End of configuration. [testng] [2025-03-10 12:20:14,984] [pool-1-thread-9] Initializing /data/stephane/006013000.flex: [testng] 12:20:14,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:20:14,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:14,985 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-10_12-20-14.log] [testng] 12:20:14,985 |-INFO in ch.qos.logback.core.sift.SiftProcessor@796b2a83 - End of configuration. [testng] [2025-03-10 12:20:15,785] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_01(2007-12-14_10-35-55)/004006000.flex: [testng] 12:20:15,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:20:15,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:15,786 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-10_12-20-15.log] [testng] 12:20:15,786 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ef530f9 - End of configuration. [testng] [2025-03-10 12:20:16,599] [pool-1-thread-7] Initializing /data/qa-17190/002002011.flex: [testng] 12:20:16,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:20:16,599 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:16,600 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-10_12-20-16.log] [testng] 12:20:16,600 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ae33b96 - End of configuration. [testng] [2025-03-10 12:20:17,357] [pool-1-thread-6] Initializing /data/tony/001001000_objects.flex: [testng] 12:20:17,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:20:17,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:17,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-10_12-20-17.log] [testng] 12:20:17,358 |-INFO in ch.qos.logback.core.sift.SiftProcessor@412e19fd - End of configuration. [testng] [2025-03-10 12:20:18,104] [pool-1-thread-5] Initializing /data/public/idr0001/X_110331_S13/Meas_03(2011-03-31_13-14-40)/001001000.flex: [testng] 12:20:18,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:20:18,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:18,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-10_12-20-18.log] [testng] 12:20:18,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@372b07ae - End of configuration. [testng] [2025-03-10 12:20:24,523] [pool-1-thread-4] Initializing /data/public/idr0001/X_110331_S13/Meas_04(2011-03-31_13-55-29)/001002000.flex: [testng] 12:20:24,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:20:24,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:24,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-10_12-20-24.log] [testng] 12:20:24,525 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25f6a79b - End of configuration. [testng] [2025-03-10 12:20:31,524] [pool-1-thread-3] Initializing /data/tony/001014000 - from flex.tif: [testng] 12:20:31,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:20:31,525 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:31,525 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-10_12-20-31.log] [testng] 12:20:31,526 |-INFO in ch.qos.logback.core.sift.SiftProcessor@92bca45 - End of configuration. [testng] [2025-03-10 12:20:33,597] [pool-1-thread-2] Initializing /data/tony/test.tiff: [testng] 12:20:33,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:20:33,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:20:33,597 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-10_12-20-33.log] [testng] 12:20:33,598 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33d9764e - End of configuration. [testng] [2025-03-10 12:20:48,089] [pool-1-thread-3] Initializing /data/qa-2983/004007000.flex: [testng] [2025-03-10 12:20:49,255] [pool-1-thread-2] Initializing /data/public/idr0007/Plate1/001001000.flex: [testng] [2025-03-10 12:20:56,412] [pool-1-thread-12] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_06(2007-12-14_11-50-57)/004006000.flex: [testng] [2025-03-10 12:20:57,890] [pool-1-thread-7] Initializing /data/ghislain/test.flex: [testng] [2025-03-10 12:20:58,888] [pool-1-thread-6] Initializing /data/tony/000101400 - from PE sofwatre.tif: [testng] [2025-03-10 12:21:05,938] [pool-1-thread-8] Initializing /data/tony/test1.flex: [testng] [2025-03-10 12:21:07,029] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_08(2007-12-14_12-55-57)/004006000.flex: [testng] [2025-03-10 12:21:08,057] [pool-1-thread-9] Initializing /data/anatole/Meas_05(2012-05-16_18-51-33)/001009001.flex: [testng] [2025-03-10 12:21:10,108] [pool-1-thread-11] Initializing /data/qa-7469/002002.flex: [testng] [2025-03-10 12:21:16,272] [pool-1-thread-6] Initializing /data/achim/003003000.flex: [testng] [2025-03-10 12:21:17,297] [pool-1-thread-10] Initializing /data/qa-18096/002003001.flex: [testng] [2025-03-10 12:21:18,435] [pool-1-thread-3] Initializing /data/public/idr0001/X_110331_S13/Meas_02(2011-03-31_12-33-53)/001001000.flex: [testng] [2025-03-10 12:21:26,919] [pool-1-thread-7] Initializing /data/tony/015002000.tiff: [testng] [2025-03-10 12:21:36,156] [pool-1-thread-11] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_02(2007-12-14_10-40-56)/004006000.flex: [testng] [2025-03-10 12:21:37,366] [pool-1-thread-8] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071213_measurement1_6fields/Meas_01(2007-12-13_17-19-36)/004006000.flex: [testng] [2025-03-10 12:21:40,055] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_04(2007-12-14_11-05-56)/004006000.flex: [testng] [2025-03-10 12:21:45,120] [pool-1-thread-10] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_07(2007-12-14_12-20-57)/004006000.flex: [testng] [2025-03-10 12:21:46,282] [pool-1-thread-7] Initializing /data/lee/RLM1 SSN3 300308 008015000.flex: [testng] [2025-03-10 12:21:52,465] [pool-1-thread-6] Initializing /data/christophe/B5_1 GFP RFP Draq5 20times 7planes step2.flex: [testng] [2025-03-10 12:21:57,511] [pool-1-thread-11] Initializing /data/anatole/001004000.flex: [testng] [2025-03-10 12:22:00,376] [pool-1-thread-1] Initializing /data/karsten/BioFormats_FLEX181_PKI/AFo_071214_measurement3_kinetics_10x/Meas_05(2007-12-14_11-25-56)/004006000.flex: [testng] [2025-03-10 12:22:04,014] [pool-1-thread-7] Initializing /data/public/idr0001/X_110331_S13/Meas_01(2011-03-31_11-53-03)/001001000.flex: [testng] [2025-03-10 12:22:12,186] [pool-1-thread-12] Initializing /data/tamjid/006003000.flex: [testng] [2025-03-10 12:22:14,756] [pool-1-thread-10] Initializing /data/public/idr0001/X_110331_S13/Meas_05(2011-03-31_14-36-06)/001001000.flex: [testng] [2025-03-10 12:22:28,403] [pool-1-thread-8] Initializing /data/public/idr0001/X_110331_S13/Meas_06(2011-03-31_15-16-53)/001001000.flex: [testng] [2025-03-10 12:22:42,906] [pool-1-thread-12] Initializing /data/stephane/002007000.flex: [testng] [2025-03-10 12:22:44,223] [pool-1-thread-1] Initializing /data/qa-18096/002002001.flex: [testng] [2025-03-10 12:22:57,270] [pool-1-thread-11] Initializing /data/tamjid/006005000.flex: [testng] [2025-03-10 12:22:59,770] [pool-1-thread-1] Initializing /data/tony/003003000.tiff: [testng] [2025-03-10 12:23:02,215] [pool-1-thread-12] Initializing /data/tony/003008000.flex: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 2226, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 17 minutes 20 seconds Finished: SUCCESS