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Started by upstream project "BIOFORMATS-test-repo" build number 221 originally caused by: Started by upstream project "Trigger" build number 248 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/jenkins15040353920320864467.sh + '[' zip = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35046_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] 01:41:53,198 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:41:53,200 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 01:41:53,200 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:41:53,201 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:41:53,201 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:41:53,202 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:41:53,202 |-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] 01:41:53,202 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:41:53,203 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:41:53,203 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:41:53,204 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:41:53,204 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:41:53,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:41:53,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:41:53,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:41:53,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:41:53,402 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:41:53,403 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:41:53,403 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:41:53,403 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:41:53,403 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 01:41:53,404 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 01:41:53,404 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 201 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-15 01:41:53,412] [main] java.version = 11.0.16 [testng] 01:41:53,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:41:53,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:53,457 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-15_01-41-53.log] [testng] 01:41:53,458 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-15 01:41:53,460] [main] testng.directory = /data [testng] [2024-10-15 01:41:53,460] [main] testng.configDirectory = /config [testng] [2024-10-15 01:41:53,470] [main] testng.multiplier = 1.0 [testng] [2024-10-15 01:41:53,471] [main] testng.in-memory = false [testng] [2024-10-15 01:41:53,471] [main] testng.allow-missing = false [testng] [2024-10-15 01:41:53,471] [main] user.language = en [testng] [2024-10-15 01:41:53,471] [main] user.country = ${user.country} [testng] [2024-10-15 01:41:53,471] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-15 01:41:57,687] [main] ---------------------------------------- [testng] [2024-10-15 01:41:57,687] [main] Total files: 22 [testng] [2024-10-15 01:41:57,687] [main] Scan time: 4.216 s (191 ms/file) [testng] [2024-10-15 01:41:57,687] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-15 01:46:47,306] [pool-1-thread-1] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 01:46:47,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:46:47,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:46:47,309 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-15_01-46-47.log] [testng] 01:46:47,309 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d2af6cc - End of configuration. [testng] [2024-10-15 01:47:13,689] [pool-1-thread-12] Initializing /data/imagej/confocal-series.zip: [testng] 01:47:13,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:47:13,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:47:13,690 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-15_01-47-13.log] [testng] 01:47:13,691 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32e5bb33 - End of configuration. [testng] [2024-10-15 01:47:33,881] [pool-1-thread-11] Initializing /data/imagej/m51.zip: [testng] 01:47:33,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:47:33,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:47:33,882 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-15_01-47-33.log] [testng] 01:47:33,882 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1995b358 - End of configuration. [testng] [2024-10-15 01:47:42,064] [pool-1-thread-10] Initializing /data/imagej/xrays.zip: [testng] 01:47:42,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:47:42,064 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:47:42,065 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-15_01-47-42.log] [testng] 01:47:42,065 |-INFO in ch.qos.logback.core.sift.SiftProcessor@473e2494 - End of configuration. [testng] [2024-10-15 01:47:48,515] [pool-1-thread-9] Initializing /data/imagej/se3.zip: [testng] 01:47:48,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:47:48,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:47:48,515 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-15_01-47-48.log] [testng] 01:47:48,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d98bd7e - End of configuration. [testng] [2024-10-15 01:48:11,075] [pool-1-thread-8] Initializing /data/imagej/mri-stack.zip: [testng] 01:48:11,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:48:11,075 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:11,076 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-15_01-48-11.log] [testng] 01:48:11,076 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56c0c053 - End of configuration. [testng] [2024-10-15 01:48:20,106] [pool-1-thread-7] Initializing /data/imagej/RatBrain.zip: [testng] 01:48:20,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:48:20,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:20,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-15_01-48-20.log] [testng] 01:48:20,108 |-INFO in ch.qos.logback.core.sift.SiftProcessor@f25b784 - End of configuration. [testng] [2024-10-15 01:48:29,720] [pool-1-thread-6] Initializing /data/imagej/scala-media.zip: [testng] 01:48:29,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:48:29,721 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:29,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-15_01-48-29.log] [testng] 01:48:29,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c3b43c4 - End of configuration. [testng] [2024-10-15 01:48:37,099] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:48:37,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:48:37,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:37,100 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-15_01-48-37.log] [testng] 01:48:37,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79869d92 - End of configuration. [testng] [2024-10-15 01:48:46,418] [pool-1-thread-4] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 01:48:46,418 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:48:46,418 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:46,419 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-15_01-48-46.log] [testng] 01:48:46,419 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68b2cb6d - End of configuration. [testng] [2024-10-15 01:48:54,793] [pool-1-thread-3] Initializing /data/imagej/flybrain.zip: [testng] 01:48:54,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:48:54,794 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:54,794 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-15_01-48-54.log] [testng] 01:48:54,794 |-INFO in ch.qos.logback.core.sift.SiftProcessor@790ef9ee - End of configuration. [testng] [2024-10-15 01:49:16,229] [pool-1-thread-2] Initializing /data/imagej/hela-cells.zip: [testng] 01:49:16,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:49:16,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:16,230 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-15_01-49-16.log] [testng] 01:49:16,230 |-INFO in ch.qos.logback.core.sift.SiftProcessor@756ab44c - End of configuration. [testng] [2024-10-15 01:50:46,214] [pool-1-thread-11] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-10-15 01:50:59,822] [pool-1-thread-10] Initializing /data/imagej/fat-cells.zip: [testng] [2024-10-15 01:51:13,218] [pool-1-thread-8] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-10-15 01:51:26,443] [pool-1-thread-6] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] [2024-10-15 01:51:38,709] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] [2024-10-15 01:51:48,649] [pool-1-thread-7] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] [2024-10-15 01:53:08,248] [pool-1-thread-4] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-10-15 01:53:44,802] [pool-1-thread-2] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-10-15 01:55:08,508] [pool-1-thread-5] Initializing /data/samples/sdub.zip: [testng] [2024-10-15 01:55:19,208] [pool-1-thread-6] 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: 20 minutes 3 seconds Finished: SUCCESS