Started by upstream project "BIOFORMATS-test-repo" build number 227 originally caused by: Started by upstream project "Trigger" build number 252 originally caused by: Started by user devspace 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/jenkins6335357685062266846.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35565_merge_ci -v /uod/idr/repos/curated/zip:/data -v /uod/idr-scratch/merge-ci/curated/zip:/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] 07:56:20,171 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:56:20,172 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 07:56:20,172 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:56:20,173 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:56:20,173 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:56:20,173 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:56:20,174 |-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] 07:56:20,174 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:56:20,174 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:56:20,175 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:56:20,175 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:56:20,175 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:56:20,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:56:20,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:56:20,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:56:20,416 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:56:20,424 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:56:20,424 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:56:20,424 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:56:20,425 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:56:20,425 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 07:56:20,426 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 07:56:20,426 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 252 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-18 07:56:20,435] [main] java.version = 1.8.0_342 [testng] 07:56:20,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:56:20,439 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:56:20,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-18_07-56-20.log] [testng] 07:56:20,483 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-18 07:56:20,485] [main] testng.directory = /data [testng] [2024-10-18 07:56:20,485] [main] testng.configDirectory = /config [testng] [2024-10-18 07:56:20,497] [main] testng.multiplier = 1.0 [testng] [2024-10-18 07:56:20,497] [main] testng.in-memory = false [testng] [2024-10-18 07:56:20,497] [main] testng.allow-missing = false [testng] [2024-10-18 07:56:20,497] [main] user.language = en [testng] [2024-10-18 07:56:20,497] [main] user.country = ${user.country} [testng] [2024-10-18 07:56:20,497] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-18 07:56:21,157] [main] ---------------------------------------- [testng] [2024-10-18 07:56:21,157] [main] Total files: 22 [testng] [2024-10-18 07:56:21,157] [main] Scan time: 0.66 s (30 ms/file) [testng] [2024-10-18 07:56:21,157] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-18 08:08:12,338] [pool-1-thread-1] Initializing /data/samples/sdub.zip: [testng] 08:08:12,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:08:12,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:12,340 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-18_08-08-12.log] [testng] 08:08:12,340 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36605f07 - End of configuration. [testng] [2024-10-18 08:08:17,597] [pool-1-thread-12] Initializing /data/imagej/mri-stack.zip: [testng] 08:08:17,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:08:17,597 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:17,597 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-18_08-08-17.log] [testng] 08:08:17,598 |-INFO in ch.qos.logback.core.sift.SiftProcessor@779b8265 - End of configuration. [testng] [2024-10-18 08:08:36,591] [pool-1-thread-11] Initializing /data/imagej/hela-cells.zip: [testng] 08:08:36,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:08:36,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:08:36,592 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-18_08-08-36.log] [testng] 08:08:36,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38a3da3d - End of configuration. [testng] [2024-10-18 08:09:04,640] [pool-1-thread-10] Initializing /data/imagej/watershed-animation.zip: [testng] 08:09:04,640 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:09:04,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:09:04,641 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-18_08-09-04.log] [testng] 08:09:04,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17c0f24d - End of configuration. [testng] [2024-10-18 08:09:33,145] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 08:09:33,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:09:33,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:09:33,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-18_08-09-33.log] [testng] 08:09:33,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@29443761 - End of configuration. [testng] [2024-10-18 08:10:26,581] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 08:10:26,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:10:26,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:26,583 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-18_08-10-26.log] [testng] 08:10:26,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3431f982 - End of configuration. [testng] [2024-10-18 08:11:00,472] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 08:11:00,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:11:00,472 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:11:00,473 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-18_08-11-00.log] [testng] 08:11:00,473 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b8a7980 - End of configuration. [testng] [2024-10-18 08:11:34,737] [pool-1-thread-6] Initializing /data/imagej/xrays.zip: [testng] 08:11:34,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:11:34,737 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:11:34,738 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-18_08-11-34.log] [testng] 08:11:34,738 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d4008dd - End of configuration. [testng] [2024-10-18 08:11:53,156] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] 08:11:53,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:11:53,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:11:53,157 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-18_08-11-53.log] [testng] 08:11:53,157 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ce00860 - End of configuration. [testng] [2024-10-18 08:12:50,762] [pool-1-thread-4] Initializing /data/imagej/FluorescentCells.zip: [testng] 08:12:50,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:12:50,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:12:50,763 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-18_08-12-50.log] [testng] 08:12:50,764 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e21a2f3 - End of configuration. [testng] [2024-10-18 08:13:23,646] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 08:13:23,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:13:23,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:13:23,647 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-18_08-13-23.log] [testng] 08:13:23,647 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60d9f6d0 - End of configuration. [testng] [2024-10-18 08:13:54,828] [pool-1-thread-2] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 08:13:54,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:13:54,828 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:13:54,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-18_08-13-54.log] [testng] 08:13:54,829 |-INFO in ch.qos.logback.core.sift.SiftProcessor@238e95e4 - End of configuration. [testng] [2024-10-18 08:16:06,246] [pool-1-thread-1] Initializing /data/imagej/se3.zip: [testng] [2024-10-18 08:20:55,924] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip: [testng] [2024-10-18 08:22:04,454] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-10-18 08:23:18,738] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-10-18 08:23:56,164] [pool-1-thread-8] Initializing /data/imagej/scala-media.zip: [testng] [2024-10-18 08:24:24,467] [pool-1-thread-4] Initializing /data/imagej/flybrain.zip: [testng] [2024-10-18 08:25:17,167] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-10-18 08:25:36,513] [pool-1-thread-11] Initializing /data/imagej/confocal-series.zip: [testng] [2024-10-18 08:26:12,830] [pool-1-thread-2] Initializing /data/imagej/m51.zip: [testng] [2024-10-18 08:26:46,802] [pool-1-thread-3] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 46 minutes 30 seconds Finished: SUCCESS