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Started by upstream project "BIOFORMATS-test-repo" build number 313 originally caused by: Started by upstream project "Trigger" build number 335 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/jenkins10535497010854001721.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_49565_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 01:22:00,917 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:22:00,918 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 01:22:00,918 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:00,919 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:22:00,919 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:22:00,920 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:22:00,920 |-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] 01:22:00,920 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:00,921 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:22:00,921 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:22:00,921 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:22:00,922 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:22:01,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:22:01,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:22:01,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:22:01,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:22:01,112 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:22:01,113 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:22:01,113 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:22:01,113 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:22:01,113 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 01:22:01,114 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 01:22:01,114 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 193 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-09 01:22:01,123] [main] java.version = 21 [testng] 01:22:01,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:22:01,127 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:01,168 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-09_01-22-01.log] [testng] 01:22:01,169 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2025-01-09 01:22:01,171] [main] testng.directory = /data [testng] [2025-01-09 01:22:01,171] [main] testng.configDirectory = /config [testng] [2025-01-09 01:22:01,180] [main] testng.multiplier = 1.0 [testng] [2025-01-09 01:22:01,180] [main] testng.in-memory = false [testng] [2025-01-09 01:22:01,180] [main] testng.allow-missing = false [testng] [2025-01-09 01:22:01,180] [main] user.language = en [testng] [2025-01-09 01:22:01,180] [main] user.country = ${user.country} [testng] [2025-01-09 01:22:01,180] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-01-09 01:22:01,783] [main] ---------------------------------------- [testng] [2025-01-09 01:22:01,783] [main] Total files: 22 [testng] [2025-01-09 01:22:01,783] [main] Scan time: 0.602 s (27 ms/file) [testng] [2025-01-09 01:22:01,783] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-09 01:24:08,040] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 01:24:08,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:24:08,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:08,042 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-09_01-24-08.log] [testng] 01:24:08,043 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e0ce540 - End of configuration. [testng] [2025-01-09 01:24:11,945] [pool-1-thread-12] Initializing /data/samples/sdub.zip: [testng] 01:24:11,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:24:11,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:11,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-09_01-24-11.log] [testng] 01:24:11,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fccf415 - End of configuration. [testng] [2025-01-09 01:24:12,778] [pool-1-thread-11] Initializing /data/imagej/confocal-stack.zip: [testng] 01:24:12,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:24:12,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:12,779 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-09_01-24-12.log] [testng] 01:24:12,780 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3929702b - End of configuration. [testng] [2025-01-09 01:24:24,882] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:24:24,883 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:24:24,883 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:24,884 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-09_01-24-24.log] [testng] 01:24:24,884 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a7a40ff - End of configuration. [testng] [2025-01-09 01:24:28,694] [pool-1-thread-9] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:24:28,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:24:28,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:28,695 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-09_01-24-28.log] [testng] 01:24:28,695 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eccac63 - End of configuration. [testng] [2025-01-09 01:24:40,100] [pool-1-thread-8] Initializing /data/imagej/flybrain.zip: [testng] 01:24:40,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:24:40,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:40,101 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-09_01-24-40.log] [testng] 01:24:40,102 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2555b67b - End of configuration. [testng] [2025-01-09 01:24:49,476] [pool-1-thread-7] Initializing /data/imagej/RatBrain.zip: [testng] 01:24:49,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:24:49,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:49,477 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-09_01-24-49.log] [testng] 01:24:49,477 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f035dac - End of configuration. [testng] [2025-01-09 01:24:51,443] [pool-1-thread-6] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:24:51,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:24:51,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:51,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-09_01-24-51.log] [testng] 01:24:51,444 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7af252af - End of configuration. [testng] [2025-01-09 01:24:53,754] [pool-1-thread-5] Initializing /data/imagej/confocal-series.zip: [testng] 01:24:53,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:24:53,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:53,756 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-09_01-24-53.log] [testng] 01:24:53,756 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36338337 - End of configuration. [testng] [2025-01-09 01:25:00,900] [pool-1-thread-4] Initializing /data/samples/bat-cochlea-volume.zip: [testng] 01:25:00,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:25:00,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:00,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-09_01-25-00.log] [testng] 01:25:00,901 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2aeb11bb - End of configuration. [testng] [2025-01-09 01:25:04,471] [pool-1-thread-3] Initializing /data/imagej/fat-cells.zip: [testng] 01:25:04,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:25:04,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:04,472 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-09_01-25-04.log] [testng] 01:25:04,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c015497 - End of configuration. [testng] [2025-01-09 01:25:09,677] [pool-1-thread-2] Initializing /data/imagej/hela-cells.zip: [testng] 01:25:09,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:25:09,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:25:09,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-09_01-25-09.log] [testng] 01:25:09,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77c64ad4 - End of configuration. [testng] [2025-01-09 01:25:24,693] [pool-1-thread-12] Initializing /data/imagej/m51.zip: [testng] [2025-01-09 01:25:42,912] [pool-1-thread-7] Initializing /data/imagej/scala-media.zip: [testng] [2025-01-09 01:25:46,994] [pool-1-thread-6] Initializing /data/imagej/se3.zip: [testng] [2025-01-09 01:26:00,120] [pool-1-thread-12] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2025-01-09 01:26:19,654] [pool-1-thread-2] Initializing /data/imagej/watershed-animation.zip: [testng] [2025-01-09 01:26:22,565] [pool-1-thread-7] Initializing /data/imagej/mri-stack.zip: [testng] [2025-01-09 01:26:28,102] [pool-1-thread-4] Initializing /data/imagej/FluorescentCells.zip: [testng] [2025-01-09 01:26:43,329] [pool-1-thread-10] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2025-01-09 01:26:54,742] [pool-1-thread-1] Initializing /data/imagej/xrays.zip: [testng] [2025-01-09 01:27:02,389] [pool-1-thread-2] Initializing /data/imagej/3D_Chromosome.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 50 seconds Finished: SUCCESS