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Started by upstream project "BIOFORMATS-test-repo" build number 256 originally caused by: Started by upstream project "Trigger" build number 280 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins14469368141986249896.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_40322_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] 00:28:25,121 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:28:25,123 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 00:28:25,123 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:28:25,124 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:28:25,124 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:28:25,125 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:28:25,125 |-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] 00:28:25,125 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:28:25,126 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:28:25,126 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:28:25,126 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:28:25,126 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:28:25,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:28:25,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:28:25,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:28:25,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:28:25,418 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:28:25,419 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:28:25,419 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:28:25,419 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:28:25,419 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 00:28:25,420 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 00:28:25,420 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 295 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-15 00:28:25,430] [main] java.version = 1.8.0_342 [testng] 00:28:25,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:28:25,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:25,480 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-15_00-28-25.log] [testng] 00:28:25,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-15 00:28:25,483] [main] testng.directory = /data [testng] [2024-11-15 00:28:25,483] [main] testng.configDirectory = /config [testng] [2024-11-15 00:28:25,495] [main] testng.multiplier = 1.0 [testng] [2024-11-15 00:28:25,495] [main] testng.in-memory = false [testng] [2024-11-15 00:28:25,495] [main] testng.allow-missing = false [testng] [2024-11-15 00:28:25,495] [main] user.language = en [testng] [2024-11-15 00:28:25,496] [main] user.country = ${user.country} [testng] [2024-11-15 00:28:25,496] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-15 00:28:26,086] [main] ---------------------------------------- [testng] [2024-11-15 00:28:26,087] [main] Total files: 22 [testng] [2024-11-15 00:28:26,087] [main] Scan time: 0.59 s (26 ms/file) [testng] [2024-11-15 00:28:26,087] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-15 00:30:20,656] [pool-1-thread-1] Initializing /data/samples/sdub.zip: [testng] 00:30:20,657 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:30:20,657 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:20,658 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-15_00-30-20.log] [testng] 00:30:20,658 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f11c664 - End of configuration. [testng] [2024-11-15 00:30:21,552] [pool-1-thread-12] Initializing /data/imagej/mri-stack.zip: [testng] 00:30:21,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:30:21,552 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:21,553 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-15_00-30-21.log] [testng] 00:30:21,553 |-INFO in ch.qos.logback.core.sift.SiftProcessor@352fbcc6 - End of configuration. [testng] [2024-11-15 00:30:23,904] [pool-1-thread-11] Initializing /data/imagej/hela-cells.zip: [testng] 00:30:23,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:30:23,904 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:23,905 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-15_00-30-23.log] [testng] 00:30:23,905 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c807c08 - End of configuration. [testng] [2024-11-15 00:30:27,341] [pool-1-thread-10] Initializing /data/imagej/watershed-animation.zip: [testng] 00:30:27,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:30:27,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:27,341 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-15_00-30-27.log] [testng] 00:30:27,342 |-INFO in ch.qos.logback.core.sift.SiftProcessor@261342e - End of configuration. [testng] [2024-11-15 00:30:29,701] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:30:29,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:30:29,701 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:29,702 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-15_00-30-29.log] [testng] 00:30:29,702 |-INFO in ch.qos.logback.core.sift.SiftProcessor@125510db - End of configuration. [testng] [2024-11-15 00:30:40,141] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:30:40,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:30:40,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:40,142 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-15_00-30-40.log] [testng] 00:30:40,142 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a2adc - End of configuration. [testng] [2024-11-15 00:30:44,539] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 00:30:44,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:30:44,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:44,540 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-15_00-30-44.log] [testng] 00:30:44,540 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ac7e464 - End of configuration. [testng] [2024-11-15 00:30:47,788] [pool-1-thread-6] Initializing /data/imagej/xrays.zip: [testng] 00:30:47,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:30:47,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:47,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-15_00-30-47.log] [testng] 00:30:47,789 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21dea394 - End of configuration. [testng] [2024-11-15 00:30:49,820] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] 00:30:49,820 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:30:49,820 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:49,821 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-15_00-30-49.log] [testng] 00:30:49,821 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42e829aa - End of configuration. [testng] [2024-11-15 00:31:01,639] [pool-1-thread-4] Initializing /data/imagej/FluorescentCells.zip: [testng] 00:31:01,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:31:01,639 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:01,640 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-15_00-31-01.log] [testng] 00:31:01,641 |-INFO in ch.qos.logback.core.sift.SiftProcessor@732b2eff - End of configuration. [testng] [2024-11-15 00:31:04,112] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 00:31:04,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:31:04,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:04,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-15_00-31-04.log] [testng] 00:31:04,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e9c2fd0 - End of configuration. [testng] [2024-11-15 00:31:08,808] [pool-1-thread-2] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:31:08,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:31:08,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:08,809 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-15_00-31-08.log] [testng] 00:31:08,810 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3db61f94 - End of configuration. [testng] [2024-11-15 00:31:26,887] [pool-1-thread-1] Initializing /data/imagej/se3.zip: [testng] [2024-11-15 00:31:41,814] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip: [testng] [2024-11-15 00:31:45,810] [pool-1-thread-10] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-11-15 00:31:56,599] [pool-1-thread-12] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-11-15 00:32:02,634] [pool-1-thread-4] Initializing /data/imagej/scala-media.zip: [testng] [2024-11-15 00:32:04,654] [pool-1-thread-7] Initializing /data/imagej/confocal-series.zip: [testng] [2024-11-15 00:32:22,092] [pool-1-thread-6] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-11-15 00:32:23,900] [pool-1-thread-11] Initializing /data/imagej/flybrain.zip: [testng] [2024-11-15 00:32:35,397] [pool-1-thread-2] Initializing /data/imagej/m51.zip: [testng] [2024-11-15 00:32:36,638] [pool-1-thread-4] 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: 8 minutes 45 seconds Finished: SUCCESS