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Started by upstream project "BIOFORMATS-test-repo" build number 81 originally caused by: Started by upstream project "Trigger" build number 89 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/jenkins16992080297029372847.sh + '[' zip = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_12295_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] 01:23:24,010 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:23:24,011 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 01:23:24,011 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:24,012 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:24,013 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:23:24,013 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:23:24,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:23:24,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:24,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:24,015 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:23:24,015 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:23:24,016 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:23:24,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:23:24,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:23:24,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:23:24,278 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:23:24,287 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:23:24,287 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:23:24,287 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:23:24,288 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:23:24,288 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 01:23:24,291 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 01:23:24,291 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 277 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-01 01:23:24,305] [main] java.version = 11.0.16 [testng] 01:23:24,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:23:24,311 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:24,379 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-01_01-23-24.log] [testng] 01:23:24,382 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-06-01 01:23:24,385] [main] testng.directory = /data [testng] [2024-06-01 01:23:24,385] [main] testng.configDirectory = /config [testng] [2024-06-01 01:23:24,401] [main] testng.multiplier = 1.0 [testng] [2024-06-01 01:23:24,403] [main] testng.in-memory = false [testng] [2024-06-01 01:23:24,403] [main] testng.allow-missing = false [testng] [2024-06-01 01:23:24,403] [main] user.language = en [testng] [2024-06-01 01:23:24,404] [main] user.country = ${user.country} [testng] [2024-06-01 01:23:24,404] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-01 01:23:25,011] [main] ---------------------------------------- [testng] [2024-06-01 01:23:25,011] [main] Total files: 22 [testng] [2024-06-01 01:23:25,011] [main] Scan time: 0.607 s (27 ms/file) [testng] [2024-06-01 01:23:25,011] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-01 01:24:07,104] [pool-1-thread-1] Initializing /data/imagej/confocal-series.zip: [testng] 01:24:07,105 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:24:07,105 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:07,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-01_01-24-07.log] [testng] 01:24:07,107 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b259a72 - End of configuration. [testng] [2024-06-01 01:24:10,708] [pool-1-thread-12] Initializing /data/imagej/xrays.zip: [testng] 01:24:10,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:24:10,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:10,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-01_01-24-10.log] [testng] 01:24:10,711 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5dcdc8b2 - End of configuration. [testng] [2024-06-01 01:24:10,897] [pool-1-thread-11] Initializing /data/imagej/fat-cells.zip: [testng] 01:24:10,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:24:10,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:10,898 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-01_01-24-10.log] [testng] 01:24:10,898 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dce2da6 - End of configuration. [testng] [2024-06-01 01:24:13,361] [pool-1-thread-10] Initializing /data/imagej/confocal-stack.zip: [testng] 01:24:13,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:24:13,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:13,362 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-01_01-24-13.log] [testng] 01:24:13,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b923de7 - End of configuration. [testng] [2024-06-01 01:24:19,799] [pool-1-thread-9] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:24:19,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:24:19,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:19,800 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-01_01-24-19.log] [testng] 01:24:19,801 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f1a37c6 - End of configuration. [testng] [2024-06-01 01:24:20,753] [pool-1-thread-8] Initializing /data/imagej/m51.zip: [testng] 01:24:20,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:24:20,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:20,754 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-01_01-24-20.log] [testng] 01:24:20,755 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3285db32 - End of configuration. [testng] [2024-06-01 01:24:20,866] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:24:20,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:24:20,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:20,867 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-01_01-24-20.log] [testng] 01:24:20,867 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61a5e29f - End of configuration. [testng] [2024-06-01 01:24:21,045] [pool-1-thread-6] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 01:24:21,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:24:21,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:21,046 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-01_01-24-21.log] [testng] 01:24:21,046 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3eb47eab - End of configuration. [testng] [2024-06-01 01:24:22,049] [pool-1-thread-5] Initializing /data/imagej/flybrain.zip: [testng] 01:24:22,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:24:22,049 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:22,050 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-01_01-24-22.log] [testng] 01:24:22,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cfd5188 - End of configuration. [testng] [2024-06-01 01:24:26,415] [pool-1-thread-4] Initializing /data/imagej/RatBrain.zip: [testng] 01:24:26,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:24:26,415 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:26,416 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-01_01-24-26.log] [testng] 01:24:26,417 |-INFO in ch.qos.logback.core.sift.SiftProcessor@103e211f - End of configuration. [testng] [2024-06-01 01:24:26,586] [pool-1-thread-3] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:24:26,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:24:26,586 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:26,586 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-01_01-24-26.log] [testng] 01:24:26,587 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3424afd6 - End of configuration. [testng] [2024-06-01 01:24:26,906] [pool-1-thread-2] Initializing /data/imagej/se3.zip: [testng] 01:24:26,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:24:26,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:26,906 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-01_01-24-26.log] [testng] 01:24:26,907 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75dfbc66 - End of configuration. [testng] [2024-06-01 01:24:32,007] [pool-1-thread-12] Initializing /data/samples/sdub.zip: [testng] [2024-06-01 01:24:32,532] [pool-1-thread-8] Initializing /data/imagej/scala-media.zip: [testng] [2024-06-01 01:24:32,934] [pool-1-thread-7] Initializing /data/imagej/watershed-animation.zip: [testng] [2024-06-01 01:24:33,500] [pool-1-thread-4] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-06-01 01:24:35,834] [pool-1-thread-8] Initializing /data/imagej/hela-cells.zip: [testng] [2024-06-01 01:24:37,110] [pool-1-thread-7] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-06-01 01:24:39,891] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] [2024-06-01 01:24:40,566] [pool-1-thread-12] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] [2024-06-01 01:24:48,398] [pool-1-thread-3] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-06-01 01:25:01,403] [pool-1-thread-7] Initializing /data/imagej/mri-stack.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 38 seconds Finished: SUCCESS