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Started by upstream project "BIOFORMATS-test-repo" build number 72 originally caused by: Started by upstream project "Trigger" build number 80 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins16103529506584055442.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_10819_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 01:21:25,264 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:21:25,265 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 01:21:25,265 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:21:25,266 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:21:25,267 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:21:25,267 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:21:25,268 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:21:25,268 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:21:25,268 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:21:25,269 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:21:25,269 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:21:25,270 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:21:25,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:21:25,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:21:25,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:21:25,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:21:25,461 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:21:25,461 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:21:25,461 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:21:25,462 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:21:25,462 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 01:21:25,463 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 01:21:25,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 195 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-23 01:21:25,475] [main] java.version = 21 [testng] 01:21:25,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:21:25,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:25,541 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-23_01-21-25.log] [testng] 01:21:25,543 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-05-23 01:21:25,545] [main] testng.directory = /data [testng] [2024-05-23 01:21:25,546] [main] testng.configDirectory = /config [testng] [2024-05-23 01:21:25,558] [main] testng.multiplier = 1.0 [testng] [2024-05-23 01:21:25,559] [main] testng.in-memory = false [testng] [2024-05-23 01:21:25,559] [main] testng.allow-missing = false [testng] [2024-05-23 01:21:25,560] [main] user.language = en [testng] [2024-05-23 01:21:25,560] [main] user.country = ${user.country} [testng] [2024-05-23 01:21:25,560] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-23 01:21:25,993] [main] ---------------------------------------- [testng] [2024-05-23 01:21:25,993] [main] Total files: 22 [testng] [2024-05-23 01:21:25,993] [main] Scan time: 0.433 s (19 ms/file) [testng] [2024-05-23 01:21:25,994] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-23 01:22:21,679] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:22:21,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:22:21,680 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:21,681 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-23_01-22-21.log] [testng] 01:22:21,681 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37d4339b - End of configuration. [testng] [2024-05-23 01:22:23,215] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:22:23,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:22:23,216 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:23,217 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-23_01-22-23.log] [testng] 01:22:23,217 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c37c7e8 - End of configuration. [testng] [2024-05-23 01:22:23,505] [pool-1-thread-11] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:22:23,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:22:23,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:23,506 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-23_01-22-23.log] [testng] 01:22:23,507 |-INFO in ch.qos.logback.core.sift.SiftProcessor@437ddcf1 - End of configuration. [testng] [2024-05-23 01:22:23,897] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 01:22:23,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:22:23,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:23,898 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-23_01-22-23.log] [testng] 01:22:23,899 |-INFO in ch.qos.logback.core.sift.SiftProcessor@232506f8 - End of configuration. [testng] [2024-05-23 01:22:25,418] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:22:25,418 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:22:25,418 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:25,419 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-23_01-22-25.log] [testng] 01:22:25,419 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fb216bc - End of configuration. [testng] [2024-05-23 01:22:25,710] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 01:22:25,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:22:25,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:25,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-23_01-22-25.log] [testng] 01:22:25,711 |-INFO in ch.qos.logback.core.sift.SiftProcessor@545a6c4b - End of configuration. [testng] [2024-05-23 01:22:27,667] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:22:27,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:22:27,667 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:27,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-23_01-22-27.log] [testng] 01:22:27,668 |-INFO in ch.qos.logback.core.sift.SiftProcessor@724b6f95 - End of configuration. [testng] [2024-05-23 01:22:28,111] [pool-1-thread-6] Initializing /data/imagej/hela-cells.zip: [testng] 01:22:28,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:22:28,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:28,112 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-23_01-22-28.log] [testng] 01:22:28,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5bd4979a - End of configuration. [testng] [2024-05-23 01:22:29,084] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:22:29,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:22:29,084 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:29,085 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-23_01-22-29.log] [testng] 01:22:29,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ea0c1f0 - End of configuration. [testng] [2024-05-23 01:22:29,402] [pool-1-thread-4] Initializing /data/imagej/flybrain.zip: [testng] 01:22:29,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:22:29,402 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:29,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-23_01-22-29.log] [testng] 01:22:29,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b9e0b8a - End of configuration. [testng] [2024-05-23 01:22:35,689] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:22:35,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:22:35,689 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:35,690 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-23_01-22-35.log] [testng] 01:22:35,690 |-INFO in ch.qos.logback.core.sift.SiftProcessor@63e0483 - End of configuration. [testng] [2024-05-23 01:22:43,324] [pool-1-thread-2] Initializing /data/imagej/xrays.zip: [testng] 01:22:43,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:22:43,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:43,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-23_01-22-43.log] [testng] 01:22:43,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6522fb08 - End of configuration. [testng] [2024-05-23 01:22:46,175] [pool-1-thread-2] Initializing /data/imagej/confocal-series.zip: [testng] [2024-05-23 01:22:51,790] [pool-1-thread-11] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-05-23 01:22:54,507] [pool-1-thread-12] Initializing /data/imagej/RatBrain.zip: [testng] [2024-05-23 01:22:55,110] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-05-23 01:23:05,808] [pool-1-thread-9] Initializing /data/imagej/scala-media.zip: [testng] [2024-05-23 01:23:06,951] [pool-1-thread-7] Initializing /data/imagej/m51.zip: [testng] [2024-05-23 01:23:08,104] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-05-23 01:23:15,084] [pool-1-thread-9] Initializing /data/imagej/se3.zip: [testng] [2024-05-23 01:23:21,667] [pool-1-thread-7] Initializing /data/samples/sdub.zip: [testng] [2024-05-23 01:23:28,734] [pool-1-thread-7] 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: 7 minutes 9 seconds Finished: SUCCESS