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Started by upstream project "BIOFORMATS-test-repo" build number 262 originally caused by: Started by upstream project "Trigger" build number 286 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/jenkins148697402551694618.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_41306_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 00:26:28,918 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:26:28,920 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 00:26:28,920 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:28,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:26:28,921 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:26:28,921 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:26:28,922 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:26:28,922 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:28,922 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:26:28,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:26:28,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:26:28,923 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:26:29,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:26:29,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:26:29,105 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:26:29,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:26:29,112 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:26:29,112 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:26:29,112 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:26:29,113 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:26:29,113 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 00:26:29,113 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 00:26:29,113 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 191 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-21 00:26:29,122] [main] java.version = 21 [testng] 00:26:29,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:26:29,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:29,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-21_00-26-29.log] [testng] 00:26:29,167 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-11-21 00:26:29,169] [main] testng.directory = /data [testng] [2024-11-21 00:26:29,169] [main] testng.configDirectory = /config [testng] [2024-11-21 00:26:29,178] [main] testng.multiplier = 1.0 [testng] [2024-11-21 00:26:29,178] [main] testng.in-memory = false [testng] [2024-11-21 00:26:29,178] [main] testng.allow-missing = false [testng] [2024-11-21 00:26:29,178] [main] user.language = en [testng] [2024-11-21 00:26:29,178] [main] user.country = ${user.country} [testng] [2024-11-21 00:26:29,179] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-21 00:26:29,645] [main] ---------------------------------------- [testng] [2024-11-21 00:26:29,646] [main] Total files: 22 [testng] [2024-11-21 00:26:29,646] [main] Scan time: 0.466 s (21 ms/file) [testng] [2024-11-21 00:26:29,646] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-21 00:29:12,024] [pool-1-thread-1] Initializing /data/imagej/m51.zip: [testng] 00:29:12,025 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:29:12,025 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:12,026 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-21_00-29-12.log] [testng] 00:29:12,027 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43dffaba - End of configuration. [testng] [2024-11-21 00:29:14,500] [pool-1-thread-12] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 00:29:14,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:29:14,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:14,501 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-21_00-29-14.log] [testng] 00:29:14,501 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f1167b - End of configuration. [testng] [2024-11-21 00:29:18,569] [pool-1-thread-11] Initializing /data/imagej/watershed-animation.zip: [testng] 00:29:18,569 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:29:18,569 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:18,570 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-21_00-29-18.log] [testng] 00:29:18,570 |-INFO in ch.qos.logback.core.sift.SiftProcessor@790ef9ee - End of configuration. [testng] [2024-11-21 00:29:22,093] [pool-1-thread-10] Initializing /data/imagej/hela-cells.zip: [testng] 00:29:22,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:29:22,094 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:22,094 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-21_00-29-22.log] [testng] 00:29:22,095 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fbf1181 - End of configuration. [testng] [2024-11-21 00:29:26,745] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] 00:29:26,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:29:26,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:26,746 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-21_00-29-26.log] [testng] 00:29:26,746 |-INFO in ch.qos.logback.core.sift.SiftProcessor@756ab44c - End of configuration. [testng] [2024-11-21 00:29:33,990] [pool-1-thread-8] Initializing /data/samples/bat-cochlea-volume.zip: [testng] 00:29:33,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:29:33,990 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:33,990 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-21_00-29-33.log] [testng] 00:29:33,991 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22260f7f - End of configuration. [testng] [2024-11-21 00:29:40,212] [pool-1-thread-7] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 00:29:40,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:29:40,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:40,213 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-21_00-29-40.log] [testng] 00:29:40,213 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78a0342e - End of configuration. [testng] [2024-11-21 00:29:45,181] [pool-1-thread-6] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 00:29:45,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:29:45,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:45,182 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-21_00-29-45.log] [testng] 00:29:45,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24a990a9 - End of configuration. [testng] [2024-11-21 00:29:58,720] [pool-1-thread-5] Initializing /data/imagej/scala-media.zip: [testng] 00:29:58,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:29:58,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:29:58,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-21_00-29-58.log] [testng] 00:29:58,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20df9bd1 - End of configuration. [testng] [2024-11-21 00:30:02,071] [pool-1-thread-4] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 00:30:02,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:30:02,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:02,071 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-21_00-30-02.log] [testng] 00:30:02,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@233264b8 - End of configuration. [testng] [2024-11-21 00:30:14,390] [pool-1-thread-3] Initializing /data/imagej/se3.zip: [testng] 00:30:14,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:30:14,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:14,391 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-21_00-30-14.log] [testng] 00:30:14,391 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6718173a - End of configuration. [testng] [2024-11-21 00:30:24,344] [pool-1-thread-2] Initializing /data/imagej/xrays.zip: [testng] 00:30:24,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:30:24,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:30:24,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-21_00-30-24.log] [testng] 00:30:24,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11afd562 - End of configuration. [testng] [2024-11-21 00:31:05,724] [pool-1-thread-2] Initializing /data/samples/sdub.zip: [testng] [2024-11-21 00:31:06,770] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] [2024-11-21 00:31:15,749] [pool-1-thread-5] Initializing /data/imagej/confocal-series.zip: [testng] [2024-11-21 00:31:26,122] [pool-1-thread-11] Initializing /data/imagej/3D_Chromosome.zip: [testng] [2024-11-21 00:31:35,539] [pool-1-thread-12] Initializing /data/imagej/flybrain.zip: [testng] [2024-11-21 00:31:48,820] [pool-1-thread-2] Initializing /data/imagej/RatBrain.zip: [testng] [2024-11-21 00:32:06,547] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-11-21 00:32:17,061] [pool-1-thread-8] Initializing /data/imagej/mri-stack.zip: [testng] [2024-11-21 00:32:26,884] [pool-1-thread-11] Initializing /data/imagej/FluorescentCells.zip: [testng] [2024-11-21 00:32:31,476] [pool-1-thread-7] Initializing /data/imagej/confocal-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: 12 minutes 45 seconds Finished: SUCCESS