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Started by upstream project "BIOFORMATS-test-repo" build number 112 originally caused by: Started by upstream project "Trigger" build number 125 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/jenkins17576346761596570880.sh + '[' zip = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17379_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] 01:23:02,281 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:23:02,283 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:23:02,283 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:02,284 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:23:02,285 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:23:02,285 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:23:02,285 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:23:02,285 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:02,286 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:23:02,286 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:23:02,286 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:23:02,286 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:23:02,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:23:02,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:23:02,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:23:02,554 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:23:02,563 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:23:02,563 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:23:02,563 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:23:02,564 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:23:02,564 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:23:02,565 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:23:02,565 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 279 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-05 01:23:02,576] [main] java.version = 1.8.0_342 [testng] 01:23:02,579 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:23:02,580 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:02,626 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-05_01-23-02.log] [testng] 01:23:02,628 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-05 01:23:02,630] [main] testng.directory = /data [testng] [2024-07-05 01:23:02,630] [main] testng.configDirectory = /config [testng] [2024-07-05 01:23:02,643] [main] testng.multiplier = 1.0 [testng] [2024-07-05 01:23:02,643] [main] testng.in-memory = false [testng] [2024-07-05 01:23:02,643] [main] testng.allow-missing = false [testng] [2024-07-05 01:23:02,643] [main] user.language = en [testng] [2024-07-05 01:23:02,643] [main] user.country = ${user.country} [testng] [2024-07-05 01:23:02,643] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-05 01:23:03,107] [main] ---------------------------------------- [testng] [2024-07-05 01:23:03,107] [main] Total files: 22 [testng] [2024-07-05 01:23:03,107] [main] Scan time: 0.464 s (21 ms/file) [testng] [2024-07-05 01:23:03,107] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 22 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-05 01:23:49,956] [pool-1-thread-1] Initializing /data/imagej/3D_Chromosome.zip: [testng] 01:23:49,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:23:49,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:49,957 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-05_01-23-49.log] [testng] 01:23:49,958 |-INFO in ch.qos.logback.core.sift.SiftProcessor@504cef0e - End of configuration. [testng] [2024-07-05 01:23:50,324] [pool-1-thread-12] Initializing /data/imagej/watershed-animation.zip: [testng] 01:23:50,324 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:23:50,325 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:50,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-05_01-23-50.log] [testng] 01:23:50,326 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77574f08 - End of configuration. [testng] [2024-07-05 01:23:50,454] [pool-1-thread-11] Initializing /data/imagej/scala-media.zip: [testng] 01:23:50,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:23:50,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:50,455 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-05_01-23-50.log] [testng] 01:23:50,456 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f44bb33 - End of configuration. [testng] [2024-07-05 01:23:50,559] [pool-1-thread-10] Initializing /data/imagej/cheetah_256_8.tif.zip: [testng] 01:23:50,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:23:50,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:50,560 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-05_01-23-50.log] [testng] 01:23:50,560 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b0242e3 - End of configuration. [testng] [2024-07-05 01:23:50,718] [pool-1-thread-9] Initializing /data/imagej/mri-stack.zip: [testng] 01:23:50,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:23:50,718 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:50,719 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-05_01-23-50.log] [testng] 01:23:50,719 |-INFO in ch.qos.logback.core.sift.SiftProcessor@b99a4c1 - End of configuration. [testng] [2024-07-05 01:23:51,016] [pool-1-thread-8] Initializing /data/imagej/blood-brain-barrier.zip: [testng] 01:23:51,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:23:51,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:51,017 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-05_01-23-51.log] [testng] 01:23:51,017 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cbc2aec - End of configuration. [testng] [2024-07-05 01:23:56,169] [pool-1-thread-7] Initializing /data/imagej/Rat_Hippocampal_Neuron.zip: [testng] 01:23:56,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:23:56,170 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:56,171 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-05_01-23-56.log] [testng] 01:23:56,171 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c6bd42c - End of configuration. [testng] [2024-07-05 01:23:57,466] [pool-1-thread-6] Initializing /data/imagej/m51.zip: [testng] 01:23:57,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:23:57,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:57,467 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-05_01-23-57.log] [testng] 01:23:57,467 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dee9026 - End of configuration. [testng] [2024-07-05 01:23:57,576] [pool-1-thread-5] Initializing /data/imagej/se3.zip: [testng] 01:23:57,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:23:57,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:23:57,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-05_01-23-57.log] [testng] 01:23:57,578 |-INFO in ch.qos.logback.core.sift.SiftProcessor@434b4bc1 - End of configuration. [testng] [2024-07-05 01:24:01,534] [pool-1-thread-4] Initializing /data/imagej/hela-cells.zip: [testng] 01:24:01,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:24:01,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:01,535 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-05_01-24-01.log] [testng] 01:24:01,535 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4825fcbf - End of configuration. [testng] [2024-07-05 01:24:02,320] [pool-1-thread-3] Initializing /data/imagej/FluorescentCells.zip: [testng] 01:24:02,320 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:24:02,320 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:02,320 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-05_01-24-02.log] [testng] 01:24:02,321 |-INFO in ch.qos.logback.core.sift.SiftProcessor@74720ca5 - End of configuration. [testng] [2024-07-05 01:24:02,491] [pool-1-thread-2] Initializing /data/imagej/4D-Stack(256x256x20x10).zip: [testng] 01:24:02,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:24:02,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:24:02,492 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-05_01-24-02.log] [testng] 01:24:02,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e92f27 - End of configuration. [testng] [2024-07-05 01:24:10,738] [pool-1-thread-11] Initializing /data/samples/sdub.zip: [testng] [2024-07-05 01:24:11,388] [pool-1-thread-6] Initializing /data/imagej/gel-electrophoresis.zip: [testng] [2024-07-05 01:24:13,747] [pool-1-thread-12] Initializing /data/imagej/confocal-stack.zip: [testng] [2024-07-05 01:24:27,578] [pool-1-thread-10] Initializing /data/samples/bat-cochlea-volume.zip: [testng] [2024-07-05 01:24:29,807] [pool-1-thread-3] Initializing /data/imagej/RatBrain.zip: [testng] [2024-07-05 01:24:30,331] [pool-1-thread-9] Initializing /data/imagej/fat-cells.zip: [testng] [2024-07-05 01:24:33,803] [pool-1-thread-1] Initializing /data/imagej/flybrain.zip: [testng] [2024-07-05 01:24:41,192] [pool-1-thread-3] Initializing /data/imagej/xrays.zip: [testng] [2024-07-05 01:24:41,532] [pool-1-thread-11] Initializing /data/imagej/Rat_Hippocampal_Neuron2.zip: [testng] [2024-07-05 01:24:43,840] [pool-1-thread-3] Initializing /data/imagej/confocal-series.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 48 seconds Finished: SUCCESS