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Started by upstream project "BIOFORMATS-test-repo" build number 295 originally caused by: Started by upstream project "Trigger" build number 314 originally caused by: Started by timer 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/jenkins3068027816308507652.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_46594_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 00:28:57,893 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:28:57,895 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 00:28:57,895 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:28:57,896 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:28:57,896 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:28:57,897 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:28:57,897 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:28:57,897 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:28:57,898 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:28:57,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:28:57,899 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:28:57,899 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:28:58,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:28:58,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:28:58,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:28:58,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:28:58,101 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:28:58,102 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:28:58,102 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:28:58,102 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:28:58,102 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 00:28:58,103 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 00:28:58,103 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 205 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-19 00:28:58,113] [main] java.version = 21 [testng] 00:28:58,116 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:28:58,116 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:58,176 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-19_00-28-58.log] [testng] 00:28:58,178 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-12-19 00:28:58,180] [main] testng.directory = /data [testng] [2024-12-19 00:28:58,181] [main] testng.configDirectory = /config [testng] [2024-12-19 00:28:58,194] [main] testng.multiplier = 1.0 [testng] [2024-12-19 00:28:58,195] [main] testng.in-memory = false [testng] [2024-12-19 00:28:58,195] [main] testng.allow-missing = false [testng] [2024-12-19 00:28:58,196] [main] user.language = en [testng] [2024-12-19 00:28:58,196] [main] user.country = ${user.country} [testng] [2024-12-19 00:28:58,196] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-19 00:28:58,822] [main] ---------------------------------------- [testng] [2024-12-19 00:28:58,822] [main] Total files: 22 [testng] [2024-12-19 00:28:58,822] [main] Scan time: 0.626 s (28 ms/file) [testng] [2024-12-19 00:28:58,823] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-19 00:31:47,422] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:31:47,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:31:47,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:47,425 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-19_00-31-47.log] [testng] 00:31:47,425 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72538fad - End of configuration. [testng] [2024-12-19 00:31:54,832] [pool-1-thread-12] Initializing /data/samples/sdub.zip: [testng] 00:31:54,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:31:54,832 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:54,833 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-19_00-31-54.log] [testng] 00:31:54,834 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b58e326 - End of configuration. [testng] [2024-12-19 00:31:56,282] [pool-1-thread-11] Initializing /data/imagej/confocal-stack.zip: [testng] 00:31:56,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:31:56,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:31:56,284 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-19_00-31-56.log] [testng] 00:31:56,284 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39455cc8 - End of configuration. [testng] [2024-12-19 00:32:15,124] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 00:32:15,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:32:15,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:15,125 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-19_00-32-15.log] [testng] 00:32:15,125 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77e243ac - End of configuration. [testng] [2024-12-19 00:32:20,876] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:32:20,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:32:20,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:20,877 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-19_00-32-20.log] [testng] 00:32:20,877 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4385f9a5 - End of configuration. [testng] [2024-12-19 00:32:36,590] [pool-1-thread-8] Initializing /data/imagej/flybrain.zip: [testng] 00:32:36,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:32:36,590 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:36,591 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-19_00-32-36.log] [testng] 00:32:36,591 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f5eb0ce - End of configuration. [testng] [2024-12-19 00:32:49,817] [pool-1-thread-7] Initializing /data/imagej/RatBrain.zip: [testng] 00:32:49,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:32:49,818 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:49,818 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-19_00-32-49.log] [testng] 00:32:49,818 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4137d3bd - End of configuration. [testng] [2024-12-19 00:32:53,559] [pool-1-thread-6] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 00:32:53,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:32:53,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:53,560 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-19_00-32-53.log] [testng] 00:32:53,560 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f035dac - End of configuration. [testng] [2024-12-19 00:32:57,890] [pool-1-thread-5] Initializing /data/imagej/confocal-series.zip: [testng] 00:32:57,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:32:57,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:57,890 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-19_00-32-57.log] [testng] 00:32:57,891 |-INFO in ch.qos.logback.core.sift.SiftProcessor@648de2ba - End of configuration. [testng] [2024-12-19 00:33:09,852] [pool-1-thread-4] Initializing /data/samples/bat-cochlea-volume.zip: [testng] 00:33:09,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:33:09,852 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:09,853 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-19_00-33-09.log] [testng] 00:33:09,853 |-INFO in ch.qos.logback.core.sift.SiftProcessor@326191 - End of configuration. [testng] [2024-12-19 00:33:15,996] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 00:33:15,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:33:15,996 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:15,996 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-19_00-33-15.log] [testng] 00:33:15,997 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7af252af - End of configuration. [testng] [2024-12-19 00:33:23,017] [pool-1-thread-2] Initializing /data/imagej/hela-cells.zip: [testng] 00:33:23,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:33:23,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:23,018 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-19_00-33-23.log] [testng] 00:33:23,019 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36338337 - End of configuration. [testng] [2024-12-19 00:33:48,715] [pool-1-thread-12] Initializing /data/imagej/m51.zip: [testng] [2024-12-19 00:34:35,960] [pool-1-thread-7] Initializing /data/imagej/scala-media.zip: [testng] [2024-12-19 00:34:45,506] [pool-1-thread-12] Initializing /data/imagej/se3.zip: [testng] [2024-12-19 00:34:57,646] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-12-19 00:35:15,581] [pool-1-thread-2] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-12-19 00:35:25,424] [pool-1-thread-4] Initializing /data/imagej/mri-stack.zip: [testng] [2024-12-19 00:35:31,418] [pool-1-thread-10] Initializing /data/imagej/FluorescentCells.zip: [testng] [2024-12-19 00:35:35,031] [pool-1-thread-1] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-12-19 00:35:53,160] [pool-1-thread-7] Initializing /data/imagej/xrays.zip: [testng] [2024-12-19 00:36:20,772] [pool-1-thread-2] Initializing /data/imagej/3D_Chromosome.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 12 minutes 17 seconds Finished: SUCCESS