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Started by upstream project "BIOFORMATS-test-repo" build number 273 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/jenkins1764633809570698280.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42981_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] 07:01:09,605 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:01:09,607 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 07:01:09,607 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:01:09,608 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:01:09,608 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:01:09,608 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:01:09,609 |-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] 07:01:09,609 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:01:09,609 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:01:09,610 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:01:09,610 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:01:09,610 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:01:09,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:01:09,850 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:01:09,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:01:09,879 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:01:09,888 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:01:09,888 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:01:09,888 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:01:09,888 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:01:09,889 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 07:01:09,889 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 07:01:09,889 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 280 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 07:01:09,901] [main] java.version = 1.8.0_342 [testng] 07:01:09,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:01:09,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:01:09,959 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_07-01-09.log] [testng] 07:01:09,961 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 07:01:09,962] [main] testng.directory = /data [testng] [2024-11-29 07:01:09,963] [main] testng.configDirectory = /config [testng] [2024-11-29 07:01:09,975] [main] testng.multiplier = 1.0 [testng] [2024-11-29 07:01:09,975] [main] testng.in-memory = false [testng] [2024-11-29 07:01:09,975] [main] testng.allow-missing = false [testng] [2024-11-29 07:01:09,975] [main] user.language = en [testng] [2024-11-29 07:01:09,975] [main] user.country = ${user.country} [testng] [2024-11-29 07:01:09,975] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 07:01:10,628] [main] ---------------------------------------- [testng] [2024-11-29 07:01:10,628] [main] Total files: 22 [testng] [2024-11-29 07:01:10,628] [main] Scan time: 0.653 s (29 ms/file) [testng] [2024-11-29 07:01:10,628] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-29 07:04:06,938] [pool-1-thread-1] Initializing /data/samples/sdub.zip: [testng] 07:04:06,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:04:06,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:06,939 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-29_07-04-06.log] [testng] 07:04:06,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1aa1ed11 - End of configuration. [testng] [2024-11-29 07:04:08,348] [pool-1-thread-12] Initializing /data/imagej/mri-stack.zip: [testng] 07:04:08,348 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:04:08,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:08,349 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-29_07-04-08.log] [testng] 07:04:08,350 |-INFO in ch.qos.logback.core.sift.SiftProcessor@575729e - End of configuration. [testng] [2024-11-29 07:04:11,630] [pool-1-thread-11] Initializing /data/imagej/hela-cells.zip: [testng] 07:04:11,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:04:11,631 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:11,631 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-29_07-04-11.log] [testng] 07:04:11,632 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3622d3e0 - End of configuration. [testng] [2024-11-29 07:04:17,722] [pool-1-thread-10] Initializing /data/imagej/watershed-animation.zip: [testng] 07:04:17,722 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:04:17,722 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:17,722 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-29_07-04-17.log] [testng] 07:04:17,723 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e8e72bc - End of configuration. [testng] [2024-11-29 07:04:22,721] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 07:04:22,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:04:22,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:22,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-29_07-04-22.log] [testng] 07:04:22,722 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c7efd87 - End of configuration. [testng] [2024-11-29 07:04:35,107] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 07:04:35,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:04:35,108 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:35,108 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-29_07-04-35.log] [testng] 07:04:35,109 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f37eaaa - End of configuration. [testng] [2024-11-29 07:04:39,831] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 07:04:39,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:04:39,831 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:39,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-29_07-04-39.log] [testng] 07:04:39,832 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23bfe909 - End of configuration. [testng] [2024-11-29 07:04:44,615] [pool-1-thread-6] Initializing /data/imagej/xrays.zip: [testng] 07:04:44,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:04:44,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:44,616 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-29_07-04-44.log] [testng] 07:04:44,616 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39bcd7b3 - End of configuration. [testng] [2024-11-29 07:04:47,475] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] 07:04:47,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:04:47,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:04:47,476 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-29_07-04-47.log] [testng] 07:04:47,476 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b683cd3 - End of configuration. [testng] [2024-11-29 07:05:02,213] [pool-1-thread-4] Initializing /data/imagej/FluorescentCells.zip: [testng] 07:05:02,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:05:02,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:02,214 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-29_07-05-02.log] [testng] 07:05:02,214 |-INFO in ch.qos.logback.core.sift.SiftProcessor@781b2598 - End of configuration. [testng] [2024-11-29 07:05:06,250] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 07:05:06,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:05:06,250 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:06,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-29_07-05-06.log] [testng] 07:05:06,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16dc9764 - End of configuration. [testng] [2024-11-29 07:05:16,744] [pool-1-thread-2] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 07:05:16,744 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:05:16,744 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:05:16,744 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-29_07-05-16.log] [testng] 07:05:16,745 |-INFO in ch.qos.logback.core.sift.SiftProcessor@352fbcc6 - End of configuration. [testng] [2024-11-29 07:05:43,500] [pool-1-thread-1] Initializing /data/imagej/se3.zip: [testng] [2024-11-29 07:06:22,508] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip: [testng] [2024-11-29 07:06:33,377] [pool-1-thread-10] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-11-29 07:06:48,182] [pool-1-thread-12] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-11-29 07:06:55,532] [pool-1-thread-4] Initializing /data/imagej/scala-media.zip: [testng] [2024-11-29 07:07:01,933] [pool-1-thread-7] Initializing /data/imagej/confocal-series.zip: [testng] [2024-11-29 07:07:30,697] [pool-1-thread-11] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-11-29 07:07:35,174] [pool-1-thread-2] Initializing /data/imagej/flybrain.zip: [testng] [2024-11-29 07:07:47,796] [pool-1-thread-8] Initializing /data/imagej/m51.zip: [testng] [2024-11-29 07:07:57,439] [pool-1-thread-6] 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: 11 minutes 38 seconds Finished: SUCCESS