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Started by upstream project "BIOFORMATS-test-repo" build number 282 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins670432081860610041.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44459_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 test-automated: [testng] File leak detector installed [testng] 10:13:31,663 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 10:13:31,665 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 10:13:31,665 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:13:31,666 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:13:31,666 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 10:13:31,666 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 10:13:31,667 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 10:13:31,667 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:13:31,667 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:13:31,667 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 10:13:31,668 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 10:13:31,668 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 10:13:31,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 10:13:31,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 10:13:31,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 10:13:31,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 10:13:31,929 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 10:13:31,929 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 10:13:31,929 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 10:13:31,929 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 10:13:31,929 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 10:13:31,930 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 10:13:31,930 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 263 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-06 10:13:31,940] [main] java.version = 1.8.0_342 [testng] 10:13:31,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:13:31,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:13:31,988 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_10-13-31.log] [testng] 10:13:31,989 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-06 10:13:31,991] [main] testng.directory = /data [testng] [2024-12-06 10:13:31,992] [main] testng.configDirectory = /config [testng] [2024-12-06 10:13:32,003] [main] testng.multiplier = 1.0 [testng] [2024-12-06 10:13:32,004] [main] testng.in-memory = false [testng] [2024-12-06 10:13:32,004] [main] testng.allow-missing = false [testng] [2024-12-06 10:13:32,004] [main] user.language = en [testng] [2024-12-06 10:13:32,004] [main] user.country = ${user.country} [testng] [2024-12-06 10:13:32,004] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-06 10:13:32,659] [main] ---------------------------------------- [testng] [2024-12-06 10:13:32,660] [main] Total files: 22 [testng] [2024-12-06 10:13:32,660] [main] Scan time: 0.655 s (29 ms/file) [testng] [2024-12-06 10:13:32,660] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-06 10:16:17,959] [pool-1-thread-1] Initializing /data/samples/sdub.zip: [testng] 10:16:17,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 10:16:17,960 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:17,961 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_10-16-17.log] [testng] 10:16:17,961 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e091fb - End of configuration. [testng] [2024-12-06 10:16:19,001] [pool-1-thread-12] Initializing /data/imagej/mri-stack.zip: [testng] 10:16:19,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 10:16:19,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:19,002 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_10-16-19.log] [testng] 10:16:19,003 |-INFO in ch.qos.logback.core.sift.SiftProcessor@487d428b - End of configuration. [testng] [2024-12-06 10:16:22,269] [pool-1-thread-11] Initializing /data/imagej/hela-cells.zip: [testng] 10:16:22,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 10:16:22,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:22,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_10-16-22.log] [testng] 10:16:22,271 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5745b0c0 - End of configuration. [testng] [2024-12-06 10:16:26,580] [pool-1-thread-10] Initializing /data/imagej/watershed-animation.zip: [testng] 10:16:26,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 10:16:26,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:26,581 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_10-16-26.log] [testng] 10:16:26,581 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b022300 - End of configuration. [testng] [2024-12-06 10:16:29,655] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 10:16:29,655 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 10:16:29,655 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:29,656 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_10-16-29.log] [testng] 10:16:29,656 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a6e916c - End of configuration. [testng] [2024-12-06 10:16:44,067] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 10:16:44,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 10:16:44,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:44,068 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_10-16-44.log] [testng] 10:16:44,068 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69dc5c78 - End of configuration. [testng] [2024-12-06 10:16:48,217] [pool-1-thread-7] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 10:16:48,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 10:16:48,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:48,218 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_10-16-48.log] [testng] 10:16:48,219 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78f2a4f - End of configuration. [testng] [2024-12-06 10:16:52,118] [pool-1-thread-6] Initializing /data/imagej/xrays.zip: [testng] 10:16:52,118 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 10:16:52,118 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:52,119 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_10-16-52.log] [testng] 10:16:52,120 |-INFO in ch.qos.logback.core.sift.SiftProcessor@484e5c02 - End of configuration. [testng] [2024-12-06 10:16:54,386] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] 10:16:54,386 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 10:16:54,386 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:16:54,387 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_10-16-54.log] [testng] 10:16:54,387 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f4b5e98 - End of configuration. [testng] [2024-12-06 10:17:10,615] [pool-1-thread-4] Initializing /data/imagej/FluorescentCells.zip: [testng] 10:17:10,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 10:17:10,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:17:10,622 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_10-17-10.log] [testng] 10:17:10,623 |-INFO in ch.qos.logback.core.sift.SiftProcessor@687ea24e - End of configuration. [testng] [2024-12-06 10:17:14,074] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 10:17:14,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 10:17:14,074 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:17:14,075 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_10-17-14.log] [testng] 10:17:14,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b0a91fa - End of configuration. [testng] [2024-12-06 10:17:19,316] [pool-1-thread-2] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 10:17:19,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 10:17:19,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:17:19,316 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_10-17-19.log] [testng] 10:17:19,317 |-INFO in ch.qos.logback.core.sift.SiftProcessor@141adb1 - End of configuration. [testng] [2024-12-06 10:17:40,286] [pool-1-thread-1] Initializing /data/imagej/se3.zip: [testng] [2024-12-06 10:18:11,852] [pool-1-thread-6] Initializing /data/imagej/RatBrain.zip: [testng] [2024-12-06 10:18:21,313] [pool-1-thread-10] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-12-06 10:18:36,745] [pool-1-thread-12] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-12-06 10:18:47,442] [pool-1-thread-4] Initializing /data/imagej/scala-media.zip: [testng] [2024-12-06 10:18:55,486] [pool-1-thread-7] Initializing /data/imagej/confocal-series.zip: [testng] [2024-12-06 10:19:14,260] [pool-1-thread-11] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-12-06 10:19:22,281] [pool-1-thread-6] Initializing /data/imagej/flybrain.zip: [testng] [2024-12-06 10:19:33,674] [pool-1-thread-2] Initializing /data/imagej/m51.zip: [testng] [2024-12-06 10:19:39,101] [pool-1-thread-8] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1166, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 10 minutes 32 seconds Finished: SUCCESS