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Started by upstream project "BIOFORMATS-test-repo" build number 359 originally caused by: Started by upstream project "Trigger" build number 385 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins15547208789058760638.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_57160_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 00:33:53,753 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:33:53,754 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 00:33:53,754 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:33:53,755 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:33:53,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:33:53,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:33:53,756 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:33:53,756 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:33:53,757 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:33:53,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:33:53,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:33:53,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:33:53,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:33:53,962 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:33:53,989 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:33:53,989 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:33:53,996 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:33:53,997 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:33:53,997 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:33:53,997 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:33:53,997 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 00:33:53,998 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 00:33:53,998 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 241 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-02-27 00:33:54,008] [main] java.version = 21 [testng] 00:33:54,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:33:54,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:54,056 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-02-27_00-33-54.log] [testng] 00:33:54,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-02-27 00:33:54,060] [main] testng.directory = /data [testng] [2025-02-27 00:33:54,060] [main] testng.configDirectory = /config [testng] [2025-02-27 00:33:54,069] [main] testng.multiplier = 1.0 [testng] [2025-02-27 00:33:54,070] [main] testng.in-memory = false [testng] [2025-02-27 00:33:54,070] [main] testng.allow-missing = false [testng] [2025-02-27 00:33:54,070] [main] user.language = en [testng] [2025-02-27 00:33:54,070] [main] user.country = ${user.country} [testng] [2025-02-27 00:33:54,070] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-02-27 00:33:54,681] [main] ---------------------------------------- [testng] [2025-02-27 00:33:54,681] [main] Total files: 22 [testng] [2025-02-27 00:33:54,682] [main] Scan time: 0.611 s (27 ms/file) [testng] [2025-02-27 00:33:54,682] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-02-27 00:36:37,258] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 00:36:37,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:36:37,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:37,260 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-02-27_00-36-37.log] [testng] 00:36:37,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@94eb9c3 - End of configuration. [testng] [2025-02-27 00:36:47,808] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 00:36:47,808 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:36:47,808 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:47,809 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-02-27_00-36-47.log] [testng] 00:36:47,809 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12e241f9 - End of configuration. [testng] [2025-02-27 00:36:50,558] [pool-1-thread-11] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 00:36:50,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:36:50,558 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:50,559 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-02-27_00-36-50.log] [testng] 00:36:50,559 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38a1d97f - End of configuration. [testng] [2025-02-27 00:36:53,280] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:36:53,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:36:53,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:53,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-02-27_00-36-53.log] [testng] 00:36:53,282 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5517552 - End of configuration. [testng] [2025-02-27 00:36:57,142] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 00:36:57,143 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:36:57,143 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:57,143 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-02-27_00-36-57.log] [testng] 00:36:57,144 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2da7d7c2 - End of configuration. [testng] [2025-02-27 00:36:59,409] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:36:59,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:36:59,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:36:59,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-02-27_00-36-59.log] [testng] 00:36:59,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67fb6eff - End of configuration. [testng] [2025-02-27 00:37:03,212] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip: [testng] 00:37:03,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:37:03,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:37:03,213 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-02-27_00-37-03.log] [testng] 00:37:03,213 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36c6b355 - End of configuration. [testng] [2025-02-27 00:37:05,647] [pool-1-thread-6] Initializing /data/imagej/hela-cells.zip: [testng] 00:37:05,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:37:05,647 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:37:05,648 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-02-27_00-37-05.log] [testng] 00:37:05,648 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40def581 - End of configuration. [testng] [2025-02-27 00:37:09,105] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] 00:37:09,105 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:37:09,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:37:09,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-02-27_00-37-09.log] [testng] 00:37:09,107 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c4759b0 - End of configuration. [testng] [2025-02-27 00:37:12,589] [pool-1-thread-4] Initializing /data/imagej/flybrain.zip: [testng] 00:37:12,589 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:37:12,589 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:37:12,590 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-02-27_00-37-12.log] [testng] 00:37:12,590 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b33f7f4 - End of configuration. [testng] [2025-02-27 00:37:23,095] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:37:23,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:37:23,095 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:37:23,096 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-02-27_00-37-23.log] [testng] 00:37:23,096 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72ab1e71 - End of configuration. [testng] [2025-02-27 00:37:36,448] [pool-1-thread-2] Initializing /data/imagej/xrays.zip: [testng] 00:37:36,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:37:36,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:37:36,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-02-27_00-37-36.log] [testng] 00:37:36,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24a990a9 - End of configuration. [testng] [2025-02-27 00:38:05,422] [pool-1-thread-2] Initializing /data/imagej/confocal-series.zip: [testng] [2025-02-27 00:38:20,994] [pool-1-thread-12] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2025-02-27 00:38:28,646] [pool-1-thread-9] Initializing /data/imagej/RatBrain.zip: [testng] [2025-02-27 00:38:31,350] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] [2025-02-27 00:38:44,132] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] [2025-02-27 00:38:46,519] [pool-1-thread-7] Initializing /data/imagej/m51.zip: [testng] [2025-02-27 00:39:05,876] [pool-1-thread-6] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2025-02-27 00:39:24,010] [pool-1-thread-7] Initializing /data/imagej/se3.zip: [testng] [2025-02-27 00:39:31,944] [pool-1-thread-1] Initializing /data/samples/sdub.zip: [testng] [2025-02-27 00:39:32,671] [pool-1-thread-10] Initializing /data/imagej/fat-cells.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 13 seconds Finished: SUCCESS