Started by upstream project "BIOFORMATS-test-repo" build number 129 originally caused by: Started by user devspace 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/jenkins1778226744384495753.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_20172_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] 13:53:39,836 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:53:39,838 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 13:53:39,838 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:53:39,839 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:53:39,839 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:53:39,840 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:53:39,840 |-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] 13:53:39,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:53:39,840 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:53:39,841 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:53:39,841 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:53:39,841 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:53:40,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:53:40,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:53:40,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:53:40,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:53:40,113 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:53:40,113 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:53:40,113 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:53:40,114 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:53:40,114 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 13:53:40,115 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 13:53:40,115 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 275 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-22 13:53:40,125] [main] java.version = 1.8.0_342 [testng] 13:53:40,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:53:40,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:40,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-22_13-53-40.log] [testng] 13:53:40,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-22 13:53:40,180] [main] testng.directory = /data [testng] [2024-07-22 13:53:40,180] [main] testng.configDirectory = /config [testng] [2024-07-22 13:53:40,193] [main] testng.multiplier = 1.0 [testng] [2024-07-22 13:53:40,193] [main] testng.in-memory = false [testng] [2024-07-22 13:53:40,193] [main] testng.allow-missing = false [testng] [2024-07-22 13:53:40,193] [main] user.language = fr [testng] [2024-07-22 13:53:40,194] [main] user.country = FR [testng] [2024-07-22 13:53:40,194] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-22 13:53:51,642] [main] ---------------------------------------- [testng] [2024-07-22 13:53:51,642] [main] Total files: 226 [testng] [2024-07-22 13:53:51,642] [main] Scan time: 11.448 s (50 ms/file) [testng] [2024-07-22 13:53:51,642] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-22 13:53:58,253] [pool-1-thread-1] Initializing /data/fluoview/Sample_XYT.TIF: [testng] 13:53:58,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:53:58,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,255 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-22_13-53-58.log] [testng] 13:53:58,256 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f25293 - End of configuration. [testng] [2024-07-22 13:53:58,307] [pool-1-thread-12] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 13:53:58,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 13:53:58,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,308 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-22_13-53-58.log] [testng] 13:53:58,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ebc6a2e - End of configuration. [testng] [2024-07-22 13:53:58,317] [pool-1-thread-11] Initializing /data/iplab/3t3 Cell.IPL: [testng] 13:53:58,317 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:53:58,317 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,318 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-22_13-53-58.log] [testng] 13:53:58,337 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30c284af - End of configuration. [testng] [2024-07-22 13:53:58,343] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 13:53:58,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:53:58,343 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,343 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-22_13-53-58.log] [testng] 13:53:58,344 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69dc5c78 - End of configuration. [testng] [2024-07-22 13:53:58,350] [pool-1-thread-9] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] 13:53:58,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:53:58,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,351 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-22_13-53-58.log] [testng] 13:53:58,351 |-INFO in ch.qos.logback.core.sift.SiftProcessor@135f583f - End of configuration. [testng] [2024-07-22 13:53:58,388] [pool-1-thread-8] Initializing /data/fluoview/Sample_XT.tif: [testng] 13:53:58,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:53:58,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-22_13-53-58.log] [testng] 13:53:58,390 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5698a9a0 - End of configuration. [testng] [2024-07-22 13:53:58,436] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 13:53:58,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:53:58,436 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,437 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-22_13-53-58.log] [testng] 13:53:58,437 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12355945 - End of configuration. [testng] [2024-07-22 13:53:58,463] [pool-1-thread-6] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 13:53:58,463 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:53:58,464 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,464 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-22_13-53-58.log] [testng] 13:53:58,465 |-INFO in ch.qos.logback.core.sift.SiftProcessor@209e57f2 - End of configuration. [testng] [2024-07-22 13:53:58,476] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 13:53:58,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:53:58,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,477 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-22_13-53-58.log] [testng] 13:53:58,477 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f3bbbb4 - End of configuration. [testng] [2024-07-22 13:53:58,551] [pool-1-thread-4] Initializing /data/iplab/Actin.IPL: [testng] 13:53:58,551 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:53:58,551 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,552 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-22_13-53-58.log] [testng] 13:53:58,552 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b6b4df8 - End of configuration. [testng] [2024-07-22 13:53:58,560] [pool-1-thread-3] Initializing /data/iplab/16Bit XRay.IPL: [testng] 13:53:58,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:53:58,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-22_13-53-58.log] [testng] 13:53:58,561 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d60afa2 - End of configuration. [testng] [2024-07-22 13:53:58,568] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 13:53:58,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:53:58,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:58,569 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-22_13-53-58.log] [testng] 13:53:58,569 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b9b1ff3 - End of configuration. [testng] [2024-07-22 13:54:00,381] [pool-1-thread-11] Initializing /data/fluoview/SpineAnimation.tif: [testng] [2024-07-22 13:54:00,424] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-07-22 13:54:00,497] [pool-1-thread-10] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-07-22 13:54:00,513] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-07-22 13:54:00,523] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2024-07-22 13:54:00,559] [pool-1-thread-12] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-07-22 13:54:00,654] [pool-1-thread-2] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-07-22 13:54:00,662] [pool-1-thread-7] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-07-22 13:54:00,669] [pool-1-thread-9] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-07-22 13:54:00,684] [pool-1-thread-1] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-07-22 13:54:00,693] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-07-22 13:54:01,306] [pool-1-thread-2] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-07-22 13:54:01,377] [pool-1-thread-8] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-07-22 13:54:01,547] [pool-1-thread-7] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-07-22 13:54:01,628] [pool-1-thread-9] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2024-07-22 13:54:01,872] [pool-1-thread-1] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 27 seconds Finished: SUCCESS