Started by upstream project "BIOFORMATS-test-repo" build number 190 originally caused by: Started by upstream project "Trigger" build number 212 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/jenkins15281335834630119087.sh + '[' specs = 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_30019_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/merge-ci/curated/specs:/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] 01:39:20,739 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:39:20,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:39:20,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:39:20,742 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:39:20,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:39:20,743 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:39:20,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:39:20,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:39:20,744 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:39:20,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:39:20,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:39:20,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:39:20,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:39:20,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:39:21,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:39:21,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:39:21,028 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:39:21,028 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:39:21,028 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:39:21,029 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:39:21,029 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:39:21,030 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:39:21,030 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 286 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-16 01:39:21,040] [main] java.version = 1.8.0_342 [testng] 01:39:21,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:39:21,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:21,096 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-16_01-39-21.log] [testng] 01:39:21,098 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-09-16 01:39:21,101] [main] testng.directory = /data [testng] [2024-09-16 01:39:21,101] [main] testng.configDirectory = /config [testng] [2024-09-16 01:39:21,114] [main] testng.multiplier = 1.0 [testng] [2024-09-16 01:39:21,115] [main] testng.in-memory = false [testng] [2024-09-16 01:39:21,115] [main] testng.allow-missing = false [testng] [2024-09-16 01:39:21,115] [main] user.language = fr [testng] [2024-09-16 01:39:21,115] [main] user.country = FR [testng] [2024-09-16 01:39:21,115] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-09-16 01:39:39,122] [main] ---------------------------------------- [testng] [2024-09-16 01:39:39,122] [main] Total files: 226 [testng] [2024-09-16 01:39:39,122] [main] Scan time: 18.007 s (79 ms/file) [testng] [2024-09-16 01:39:39,122] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-16 01:39:50,185] [pool-1-thread-1] Initializing /data/fluoview/SpineAnimation.avi: [testng] 01:39:50,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:39:50,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,187 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-16_01-39-50.log] [testng] 01:39:50,188 |-INFO in ch.qos.logback.core.sift.SiftProcessor@671a42cc - End of configuration. [testng] [2024-09-16 01:39:50,249] [pool-1-thread-12] Initializing /data/iplab/Color Image.IPL: [testng] 01:39:50,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:39:50,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,250 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-09-16_01-39-50.log] [testng] 01:39:50,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c29db4a - End of configuration. [testng] [2024-09-16 01:39:50,262] [pool-1-thread-11] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 01:39:50,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:39:50,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-09-16_01-39-50.log] [testng] 01:39:50,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40b47d84 - End of configuration. [testng] [2024-09-16 01:39:50,344] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] 01:39:50,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:39:50,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-09-16_01-39-50.log] [testng] 01:39:50,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2934cac1 - End of configuration. [testng] [2024-09-16 01:39:50,356] [pool-1-thread-9] Initializing /data/fluoview/SpineAnimation.tif: [testng] 01:39:50,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:39:50,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,357 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-16_01-39-50.log] [testng] 01:39:50,357 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15c9ddcc - End of configuration. [testng] [2024-09-16 01:39:50,425] [pool-1-thread-8] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 01:39:50,425 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:39:50,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,427 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-16_01-39-50.log] [testng] 01:39:50,427 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65935ee9 - End of configuration. [testng] [2024-09-16 01:39:50,440] [pool-1-thread-7] Initializing /data/iplab/3t3 Cell.IPL: [testng] 01:39:50,441 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:39:50,441 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,442 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-16_01-39-50.log] [testng] 01:39:50,442 |-INFO in ch.qos.logback.core.sift.SiftProcessor@716a12d3 - End of configuration. [testng] [2024-09-16 01:39:50,450] [pool-1-thread-6] Initializing /data/iplab/Color Histology.IPL: [testng] 01:39:50,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:39:50,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-16_01-39-50.log] [testng] 01:39:50,451 |-INFO in ch.qos.logback.core.sift.SiftProcessor@103c16ea - End of configuration. [testng] [2024-09-16 01:39:50,465] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 01:39:50,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:39:50,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,467 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-16_01-39-50.log] [testng] 01:39:50,468 |-INFO in ch.qos.logback.core.sift.SiftProcessor@658851d3 - End of configuration. [testng] [2024-09-16 01:39:50,583] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 01:39:50,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:39:50,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,585 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-16_01-39-50.log] [testng] 01:39:50,585 |-INFO in ch.qos.logback.core.sift.SiftProcessor@690351fd - End of configuration. [testng] [2024-09-16 01:39:50,611] [pool-1-thread-3] Initializing /data/iplab/Actin.IPL: [testng] 01:39:50,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:39:50,611 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,612 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-16_01-39-50.log] [testng] 01:39:50,613 |-INFO in ch.qos.logback.core.sift.SiftProcessor@615ef94e - End of configuration. [testng] [2024-09-16 01:39:50,621] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 01:39:50,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:39:50,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:39:50,622 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-16_01-39-50.log] [testng] 01:39:50,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38a3da3d - End of configuration. [testng] [2024-09-16 01:39:52,710] [pool-1-thread-12] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-09-16 01:39:52,724] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2024-09-16 01:39:52,761] [pool-1-thread-6] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-09-16 01:39:52,776] [pool-1-thread-3] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-09-16 01:39:52,873] [pool-1-thread-7] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-09-16 01:39:52,970] [pool-1-thread-10] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-09-16 01:39:52,987] [pool-1-thread-4] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-09-16 01:39:52,994] [pool-1-thread-2] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-09-16 01:39:53,005] [pool-1-thread-8] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-09-16 01:39:53,015] [pool-1-thread-1] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-09-16 01:39:53,021] [pool-1-thread-11] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-09-16 01:39:53,827] [pool-1-thread-1] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-09-16 01:39:53,869] [pool-1-thread-4] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-09-16 01:39:53,932] [pool-1-thread-12] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-09-16 01:39:54,228] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-09-16 01:39:54,376] [pool-1-thread-6] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 42 seconds Finished: SUCCESS