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Started by upstream project "BIOFORMATS-test-repo" build number 98 originally caused by: Started by upstream project "Trigger" build number 109 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins6688615498915198841.sh + '[' zip = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_15083_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 01:21:56,694 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:21:56,696 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 01:21:56,696 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:21:56,697 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:21:56,697 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:21:56,698 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:21:56,698 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:21:56,698 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:21:56,699 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:21:56,699 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:21:56,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:21:56,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:21:56,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:21:56,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:21:56,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:21:56,916 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:21:56,924 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:21:56,924 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:21:56,924 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:21:56,924 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:21:56,925 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 01:21:56,925 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 01:21:56,925 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 226 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-20 01:21:56,936] [main] java.version = 21 [testng] 01:21:56,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:21:56,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:21:56,987 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-20_01-21-56.log] [testng] 01:21:56,990 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-06-20 01:21:56,992] [main] testng.directory = /data [testng] [2024-06-20 01:21:56,992] [main] testng.configDirectory = /config [testng] [2024-06-20 01:21:57,003] [main] testng.multiplier = 1.0 [testng] [2024-06-20 01:21:57,004] [main] testng.in-memory = false [testng] [2024-06-20 01:21:57,004] [main] testng.allow-missing = false [testng] [2024-06-20 01:21:57,004] [main] user.language = en [testng] [2024-06-20 01:21:57,004] [main] user.country = ${user.country} [testng] [2024-06-20 01:21:57,004] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-20 01:21:57,476] [main] ---------------------------------------- [testng] [2024-06-20 01:21:57,477] [main] Total files: 22 [testng] [2024-06-20 01:21:57,477] [main] Scan time: 0.472 s (21 ms/file) [testng] [2024-06-20 01:21:57,477] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-20 01:22:51,503] [pool-1-thread-1] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:22:51,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:22:51,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:51,505 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-20_01-22-51.log] [testng] 01:22:51,505 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ea712d4 - End of configuration. [testng] [2024-06-20 01:22:52,983] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:22:52,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:22:52,984 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:52,984 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-20_01-22-52.log] [testng] 01:22:52,985 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b196d81 - End of configuration. [testng] [2024-06-20 01:22:53,181] [pool-1-thread-11] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:22:53,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:22:53,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:53,182 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-20_01-22-53.log] [testng] 01:22:53,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b55955f - End of configuration. [testng] [2024-06-20 01:22:53,381] [pool-1-thread-10] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] 01:22:53,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:22:53,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:53,382 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-20_01-22-53.log] [testng] 01:22:53,382 |-INFO in ch.qos.logback.core.sift.SiftProcessor@308ac299 - End of configuration. [testng] [2024-06-20 01:22:54,817] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:22:54,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:22:54,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:54,818 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-20_01-22-54.log] [testng] 01:22:54,818 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d4600b9 - End of configuration. [testng] [2024-06-20 01:22:55,152] [pool-1-thread-8] Initializing /data/imagej/gel-electrophoresis.zip: [testng] 01:22:55,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:22:55,152 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:55,153 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-20_01-22-55.log] [testng] 01:22:55,153 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1690e87e - End of configuration. [testng] [2024-06-20 01:22:57,213] [pool-1-thread-7] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:22:57,213 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:22:57,214 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:57,214 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-20_01-22-57.log] [testng] 01:22:57,215 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a10c7ca - End of configuration. [testng] [2024-06-20 01:22:57,633] [pool-1-thread-6] Initializing /data/imagej/hela-cells.zip: [testng] 01:22:57,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:22:57,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:57,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-20_01-22-57.log] [testng] 01:22:57,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@148c9c87 - End of configuration. [testng] [2024-06-20 01:22:58,610] [pool-1-thread-5] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:22:58,610 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:22:58,610 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:58,611 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-20_01-22-58.log] [testng] 01:22:58,611 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27c23bfe - End of configuration. [testng] [2024-06-20 01:22:58,841] [pool-1-thread-4] Initializing /data/imagej/flybrain.zip: [testng] 01:22:58,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:22:58,841 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:22:58,841 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-20_01-22-58.log] [testng] 01:22:58,842 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3424afd6 - End of configuration. [testng] [2024-06-20 01:23:05,036] [pool-1-thread-3] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:23:05,036 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:23:05,036 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:05,037 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-20_01-23-05.log] [testng] 01:23:05,038 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32f18ab0 - End of configuration. [testng] [2024-06-20 01:23:12,196] [pool-1-thread-2] Initializing /data/imagej/xrays.zip: [testng] 01:23:12,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:23:12,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:12,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-20_01-23-12.log] [testng] 01:23:12,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7932e1ab - End of configuration. [testng] [2024-06-20 01:23:14,846] [pool-1-thread-2] Initializing /data/imagej/confocal-series.zip: [testng] [2024-06-20 01:23:20,011] [pool-1-thread-11] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-06-20 01:23:23,043] [pool-1-thread-12] Initializing /data/imagej/RatBrain.zip: [testng] [2024-06-20 01:23:23,635] [pool-1-thread-5] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-06-20 01:23:33,679] [pool-1-thread-9] Initializing /data/imagej/scala-media.zip: [testng] [2024-06-20 01:23:34,391] [pool-1-thread-7] Initializing /data/imagej/m51.zip: [testng] [2024-06-20 01:23:35,221] [pool-1-thread-12] Initializing /data/imagej/blood-brain-barrier.zip: [testng] [2024-06-20 01:23:43,784] [pool-1-thread-9] Initializing /data/imagej/se3.zip: [testng] [2024-06-20 01:23:49,885] [pool-1-thread-7] Initializing /data/samples/sdub.zip: [testng] [2024-06-20 01:23:57,281] [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: 6 minutes 57 seconds Finished: SUCCESS