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Started by upstream project "BIOFORMATS-test-repo" build number 372 originally caused by: Started by upstream project "Trigger" build number 397 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins16439959620293614718.sh + '[' zip = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_59147_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] 00:29:59,959 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 00:29:59,961 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - No custom configurators were discovered as a service. [testng] 00:29:59,961 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:59,962 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:29:59,962 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:29:59,962 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:29:59,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:29:59,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:59,963 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:29:59,964 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:29:59,964 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:29:59,964 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:30:00,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:30:00,153 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:30:00,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:30:00,178 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:30:00,184 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:30:00,185 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:30:00,185 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:30:00,185 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:30:00,185 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@65c7a252 - End of configuration. [testng] 00:30:00,187 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@38cee291 - Registering current configuration as safe fallback point [testng] 00:30:00,187 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 224 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-11 00:30:00,197] [main] java.version = 11.0.16 [testng] 00:30:00,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:30:00,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:00,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-11_00-30-00.log] [testng] 00:30:00,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13d73f29 - End of configuration. [testng] [2025-03-11 00:30:00,248] [main] testng.directory = /data [testng] [2025-03-11 00:30:00,248] [main] testng.configDirectory = /config [testng] [2025-03-11 00:30:00,257] [main] testng.multiplier = 1.0 [testng] [2025-03-11 00:30:00,258] [main] testng.in-memory = false [testng] [2025-03-11 00:30:00,259] [main] testng.allow-missing = false [testng] [2025-03-11 00:30:00,259] [main] user.language = en [testng] [2025-03-11 00:30:00,259] [main] user.country = ${user.country} [testng] [2025-03-11 00:30:00,259] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-11 00:30:01,252] [main] ---------------------------------------- [testng] [2025-03-11 00:30:01,253] [main] Total files: 22 [testng] [2025-03-11 00:30:01,253] [main] Scan time: 0.993 s (45 ms/file) [testng] [2025-03-11 00:30:01,253] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-11 00:32:13,592] [pool-1-thread-1] Initializing /data/imagej/hela-cells.zip: [testng] 00:32:13,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:32:13,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:13,595 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-11_00-32-13.log] [testng] 00:32:13,596 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d105da3 - End of configuration. [testng] [2025-03-11 00:32:19,059] [pool-1-thread-12] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 00:32:19,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:32:19,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:19,061 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-11_00-32-19.log] [testng] 00:32:19,061 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9c8979c - End of configuration. [testng] [2025-03-11 00:32:24,618] [pool-1-thread-11] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:32:24,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:32:24,619 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:24,620 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-11_00-32-24.log] [testng] 00:32:24,620 |-INFO in ch.qos.logback.core.sift.SiftProcessor@606d36f1 - End of configuration. [testng] [2025-03-11 00:32:37,036] [pool-1-thread-10] Initializing /data/imagej/m51.zip: [testng] 00:32:37,036 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:32:37,037 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:37,037 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-11_00-32-37.log] [testng] 00:32:37,037 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7339ac33 - End of configuration. [testng] [2025-03-11 00:32:40,017] [pool-1-thread-9] Initializing /data/imagej/confocal-stack.zip: [testng] 00:32:40,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:32:40,018 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:40,018 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-11_00-32-40.log] [testng] 00:32:40,019 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58d90431 - End of configuration. [testng] [2025-03-11 00:32:54,062] [pool-1-thread-8] Initializing /data/imagej/xrays.zip: [testng] 00:32:54,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:32:54,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:54,063 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-11_00-32-54.log] [testng] 00:32:54,063 |-INFO in ch.qos.logback.core.sift.SiftProcessor@459a1ca - End of configuration. [testng] [2025-03-11 00:32:56,974] [pool-1-thread-7] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:32:56,974 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:32:56,974 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:32:56,975 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-11_00-32-56.log] [testng] 00:32:56,975 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54047901 - End of configuration. [testng] [2025-03-11 00:33:01,384] [pool-1-thread-6] Initializing /data/imagej/fat-cells.zip: [testng] 00:33:01,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:33:01,384 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:01,385 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-11_00-33-01.log] [testng] 00:33:01,385 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50edd8b4 - End of configuration. [testng] [2025-03-11 00:33:07,002] [pool-1-thread-5] Initializing /data/imagej/3D_Chromosome.zip: [testng] 00:33:07,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:33:07,003 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:07,003 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-11_00-33-07.log] [testng] 00:33:07,004 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b7718bc - End of configuration. [testng] [2025-03-11 00:33:10,905] [pool-1-thread-4] Initializing /data/imagej/scala-media.zip: [testng] 00:33:10,905 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:33:10,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:10,906 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-11_00-33-10.log] [testng] 00:33:10,906 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b9e178d - End of configuration. [testng] [2025-03-11 00:33:14,379] [pool-1-thread-3] Initializing /data/imagej/confocal-series.zip: [testng] 00:33:14,379 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:33:14,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:14,380 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-11_00-33-14.log] [testng] 00:33:14,381 |-INFO in ch.qos.logback.core.sift.SiftProcessor@178a1e09 - End of configuration. [testng] [2025-03-11 00:33:25,891] [pool-1-thread-2] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 00:33:25,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:33:25,891 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:25,892 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-11_00-33-25.log] [testng] 00:33:25,893 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b22364f - End of configuration. [testng] [2025-03-11 00:34:05,664] [pool-1-thread-10] Initializing /data/imagej/mri-stack.zip: [testng] [2025-03-11 00:34:09,783] [pool-1-thread-8] Initializing /data/samples/sdub.zip: [testng] [2025-03-11 00:34:14,019] [pool-1-thread-4] Initializing /data/imagej/se3.zip: [testng] [2025-03-11 00:34:33,949] [pool-1-thread-5] Initializing /data/imagej/watershed-animation.zip: [testng] [2025-03-11 00:34:40,283] [pool-1-thread-8] Initializing /data/imagej/FluorescentCells.zip: [testng] [2025-03-11 00:34:53,883] [pool-1-thread-1] Initializing /data/imagej/RatBrain.zip: [testng] [2025-03-11 00:35:05,551] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] [2025-03-11 00:35:09,498] [pool-1-thread-2] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2025-03-11 00:35:19,884] [pool-1-thread-7] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2025-03-11 00:35:24,225] [pool-1-thread-12] Initializing /data/imagej/flybrain.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 9 minutes 17 seconds Finished: SUCCESS