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Started by upstream project "BIOFORMATS-test-repo" build number 274 originally caused by: Started by upstream project "Trigger" build number 295 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins15574874322902666.sh + '[' zip = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_43145_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 00:26:38,791 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:26:38,793 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 00:26:38,793 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:38,794 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:38,795 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:26:38,795 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:26:38,795 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:26:38,795 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:38,796 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:38,796 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:26:38,797 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:26:38,797 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:26:38,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:26:38,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:26:38,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:26:38,995 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:26:39,001 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:26:39,001 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:26:39,001 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:26:39,001 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:26:39,002 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 00:26:39,002 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 00:26:39,002 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 206 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-30 00:26:39,011] [main] java.version = 11.0.16 [testng] 00:26:39,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:26:39,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:39,056 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-30_00-26-39.log] [testng] 00:26:39,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-30 00:26:39,060] [main] testng.directory = /data [testng] [2024-11-30 00:26:39,060] [main] testng.configDirectory = /config [testng] [2024-11-30 00:26:39,069] [main] testng.multiplier = 1.0 [testng] [2024-11-30 00:26:39,071] [main] testng.in-memory = false [testng] [2024-11-30 00:26:39,071] [main] testng.allow-missing = false [testng] [2024-11-30 00:26:39,071] [main] user.language = en [testng] [2024-11-30 00:26:39,071] [main] user.country = ${user.country} [testng] [2024-11-30 00:26:39,071] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-30 00:26:39,738] [main] ---------------------------------------- [testng] [2024-11-30 00:26:39,738] [main] Total files: 22 [testng] [2024-11-30 00:26:39,738] [main] Scan time: 0.667 s (30 ms/file) [testng] [2024-11-30 00:26:39,738] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-30 00:28:24,248] [pool-1-thread-1] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 00:28:24,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:28:24,249 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:24,251 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-30_00-28-24.log] [testng] 00:28:24,251 |-INFO in ch.qos.logback.core.sift.SiftProcessor@530689cd - End of configuration. [testng] [2024-11-30 00:28:34,835] [pool-1-thread-12] Initializing /data/imagej/confocal-series.zip: [testng] 00:28:34,835 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:28:34,835 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:34,836 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-30_00-28-34.log] [testng] 00:28:34,837 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e93d9b7 - End of configuration. [testng] [2024-11-30 00:28:41,650] [pool-1-thread-11] Initializing /data/imagej/m51.zip: [testng] 00:28:41,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:28:41,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:41,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-30_00-28-41.log] [testng] 00:28:41,651 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71e0142f - End of configuration. [testng] [2024-11-30 00:28:43,505] [pool-1-thread-10] Initializing /data/imagej/xrays.zip: [testng] 00:28:43,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:28:43,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:43,505 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-30_00-28-43.log] [testng] 00:28:43,506 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79325cc3 - End of configuration. [testng] [2024-11-30 00:28:45,354] [pool-1-thread-9] Initializing /data/imagej/se3.zip: [testng] 00:28:45,354 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:28:45,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:45,355 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-30_00-28-45.log] [testng] 00:28:45,355 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45a3a492 - End of configuration. [testng] [2024-11-30 00:28:53,070] [pool-1-thread-8] Initializing /data/imagej/mri-stack.zip: [testng] 00:28:53,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:28:53,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:53,071 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-30_00-28-53.log] [testng] 00:28:53,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23e21520 - End of configuration. [testng] [2024-11-30 00:28:55,188] [pool-1-thread-7] Initializing /data/imagej/RatBrain.zip: [testng] 00:28:55,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:28:55,188 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:55,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-30_00-28-55.log] [testng] 00:28:55,189 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28b95d44 - End of configuration. [testng] [2024-11-30 00:28:57,704] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip: [testng] 00:28:57,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:28:57,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:57,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-30_00-28-57.log] [testng] 00:28:57,705 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50edd8b4 - End of configuration. [testng] [2024-11-30 00:29:03,437] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip: [testng] 00:29:03,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:29:03,438 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:03,438 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-30_00-29-03.log] [testng] 00:29:03,439 |-INFO in ch.qos.logback.core.sift.SiftProcessor@520bea7c - End of configuration. [testng] [2024-11-30 00:29:05,816] [pool-1-thread-4] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:29:05,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:29:05,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:05,817 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-30_00-29-05.log] [testng] 00:29:05,817 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56db8742 - End of configuration. [testng] [2024-11-30 00:29:09,165] [pool-1-thread-3] Initializing /data/imagej/flybrain.zip: [testng] 00:29:09,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:29:09,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:09,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-30_00-29-09.log] [testng] 00:29:09,166 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b58e326 - End of configuration. [testng] [2024-11-30 00:29:17,262] [pool-1-thread-2] Initializing /data/imagej/hela-cells.zip: [testng] 00:29:17,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:29:17,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:17,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-30_00-29-17.log] [testng] 00:29:17,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fef87a4 - End of configuration. [testng] [2024-11-30 00:29:45,666] [pool-1-thread-11] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-11-30 00:29:49,493] [pool-1-thread-10] Initializing /data/imagej/fat-cells.zip: [testng] [2024-11-30 00:29:54,175] [pool-1-thread-6] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-11-30 00:29:58,466] [pool-1-thread-8] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] [2024-11-30 00:30:01,603] [pool-1-thread-7] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] [2024-11-30 00:30:11,516] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] [2024-11-30 00:30:33,683] [pool-1-thread-2] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-11-30 00:30:52,257] [pool-1-thread-4] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-11-30 00:30:54,827] [pool-1-thread-8] Initializing /data/samples/sdub.zip: [testng] [2024-11-30 00:30:57,821] [pool-1-thread-5] Initializing /data/imagej/Rat_Hippocampal_Neuron.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 40 seconds Finished: SUCCESS