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Started by upstream project "BIOFORMATS-test-repo" build number 11 originally caused by: Started by upstream project "Trigger" build number 14 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins14028438418053982452.sh + '[' zip = 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_1632_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 -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] 00:23:03,385 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:23:03,387 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 00:23:03,387 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:03,388 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:23:03,388 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:23:03,388 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:23:03,389 |-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] 00:23:03,389 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:03,389 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:23:03,390 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:23:03,390 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:23:03,390 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:23:03,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:23:03,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:23:03,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:23:03,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:23:03,664 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:23:03,664 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:23:03,664 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:23:03,665 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:23:03,665 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 00:23:03,666 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 00:23:03,666 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 277 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-25 00:23:03,676] [main] java.version = 1.8.0_342 [testng] 00:23:03,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:23:03,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:23:03,724 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-25_00-23-03.log] [testng] 00:23:03,726 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-25 00:23:03,728] [main] testng.directory = /data [testng] [2024-03-25 00:23:03,728] [main] testng.configDirectory = /config [testng] [2024-03-25 00:23:03,740] [main] testng.multiplier = 1.0 [testng] [2024-03-25 00:23:03,740] [main] testng.in-memory = false [testng] [2024-03-25 00:23:03,740] [main] testng.allow-missing = false [testng] [2024-03-25 00:23:03,741] [main] user.language = fr [testng] [2024-03-25 00:23:03,741] [main] user.country = FR [testng] [2024-03-25 00:23:03,741] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-25 00:23:04,156] [main] ---------------------------------------- [testng] [2024-03-25 00:23:04,157] [main] Total files: 22 [testng] [2024-03-25 00:23:04,157] [main] Scan time: 0.415 s (18 ms/file) [testng] [2024-03-25 00:23:04,157] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-25 00:24:09,545] [pool-1-thread-1] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:24:09,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:24:09,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:09,547 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-25_00-24-09.log] [testng] 00:24:09,547 |-INFO in ch.qos.logback.core.sift.SiftProcessor@495f1c26 - End of configuration. [testng] [2024-03-25 00:24:11,565] [pool-1-thread-12] Initializing /data/imagej/scala-media.zip: [testng] 00:24:11,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:24:11,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:11,566 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-25_00-24-11.log] [testng] 00:24:11,567 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e9f8d3c - End of configuration. [testng] [2024-03-25 00:24:12,045] [pool-1-thread-11] Initializing /data/imagej/xrays.zip: [testng] 00:24:12,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:24:12,046 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:12,046 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-25_00-24-12.log] [testng] 00:24:12,047 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d934119 - End of configuration. [testng] [2024-03-25 00:24:12,318] [pool-1-thread-10] Initializing /data/imagej/RatBrain.zip: [testng] 00:24:12,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:24:12,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:12,319 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-25_00-24-12.log] [testng] 00:24:12,319 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51e52882 - End of configuration. [testng] [2024-03-25 00:24:12,732] [pool-1-thread-9] Initializing /data/imagej/flybrain.zip: [testng] 00:24:12,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:24:12,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:12,733 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-25_00-24-12.log] [testng] 00:24:12,734 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1df5367c - End of configuration. [testng] [2024-03-25 00:24:18,607] [pool-1-thread-8] Initializing /data/samples/sdub.zip: [testng] 00:24:18,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:24:18,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:18,608 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-25_00-24-18.log] [testng] 00:24:18,608 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f498a55 - End of configuration. [testng] [2024-03-25 00:24:19,232] [pool-1-thread-7] Initializing /data/imagej/fat-cells.zip: [testng] 00:24:19,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:24:19,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:19,233 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-25_00-24-19.log] [testng] 00:24:19,234 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4452a5ba - End of configuration. [testng] [2024-03-25 00:24:22,496] [pool-1-thread-6] Initializing /data/imagej/FluorescentCells.zip: [testng] 00:24:22,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:24:22,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:22,497 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-25_00-24-22.log] [testng] 00:24:22,497 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12c25415 - End of configuration. [testng] [2024-03-25 00:24:23,323] [pool-1-thread-5] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:24:23,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:24:23,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:23,324 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-25_00-24-23.log] [testng] 00:24:23,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18968eb3 - End of configuration. [testng] [2024-03-25 00:24:24,765] [pool-1-thread-4] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:24:24,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:24:24,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:24,766 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-25_00-24-24.log] [testng] 00:24:24,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68593954 - End of configuration. [testng] [2024-03-25 00:24:31,088] [pool-1-thread-3] Initializing /data/imagej/se3.zip: [testng] 00:24:31,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:24:31,089 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:31,089 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-25_00-24-31.log] [testng] 00:24:31,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e5e1fe9 - End of configuration. [testng] [2024-03-25 00:24:35,340] [pool-1-thread-2] Initializing /data/imagej/mri-stack.zip: [testng] 00:24:35,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:24:35,340 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:24:35,341 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-25_00-24-35.log] [testng] 00:24:35,341 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e1a856b - End of configuration. [testng] [2024-03-25 00:24:42,002] [pool-1-thread-11] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-03-25 00:24:43,615] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-03-25 00:24:50,340] [pool-1-thread-10] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-03-25 00:25:01,004] [pool-1-thread-8] Initializing /data/imagej/hela-cells.zip: [testng] [2024-03-25 00:25:03,514] [pool-1-thread-2] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-03-25 00:25:04,474] [pool-1-thread-6] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-03-25 00:25:16,007] [pool-1-thread-2] Initializing /data/imagej/m51.zip: [testng] [2024-03-25 00:25:22,957] [pool-1-thread-6] Initializing /data/imagej/confocal-series.zip: [testng] [2024-03-25 00:25:27,894] [pool-1-thread-2] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-03-25 00:25:30,346] [pool-1-thread-5] Initializing /data/imagej/cheetah_256_8.tif.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 43 seconds Finished: SUCCESS