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Started by upstream project "BIOFORMATS-test-repo" build number 243 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins14175155193198064855.sh + '[' specs = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_38195_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/merge-ci/curated/specs:/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] 1 warning test-automated: [testng] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 14:05:10,660 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 14:05:10,662 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 14:05:10,662 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:05:10,663 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 14:05:10,663 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 14:05:10,663 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 14:05:10,664 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 14:05:10,664 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:05:10,664 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 14:05:10,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 14:05:10,665 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 14:05:10,666 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 14:05:10,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 14:05:10,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 14:05:10,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 14:05:10,867 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 14:05:10,872 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 14:05:10,873 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 14:05:10,873 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 14:05:10,873 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 14:05:10,873 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 14:05:10,874 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 14:05:10,874 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 210 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-02 14:05:10,884] [main] java.version = 11.0.16 [testng] 14:05:10,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 14:05:10,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:05:10,932 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-02_14-05-10.log] [testng] 14:05:10,934 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-02 14:05:10,936] [main] testng.directory = /data [testng] [2024-11-02 14:05:10,937] [main] testng.configDirectory = /config [testng] [2024-11-02 14:05:10,953] [main] testng.multiplier = 1.0 [testng] [2024-11-02 14:05:10,955] [main] testng.in-memory = false [testng] [2024-11-02 14:05:10,956] [main] testng.allow-missing = false [testng] [2024-11-02 14:05:10,956] [main] user.language = en [testng] [2024-11-02 14:05:10,956] [main] user.country = ${user.country} [testng] [2024-11-02 14:05:10,956] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-02 14:08:36,643] [main] ---------------------------------------- [testng] [2024-11-02 14:08:36,643] [main] Total files: 226 [testng] [2024-11-02 14:08:36,644] [main] Scan time: 205.687 s (910 ms/file) [testng] [2024-11-02 14:08:36,644] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-02 14:11:10,765] [pool-1-thread-1] Initializing /data/fluoview/Sample_XT.tif: [testng] 14:11:10,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 14:11:10,766 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:10,767 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-02_14-11-10.log] [testng] 14:11:10,768 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56bd1b17 - End of configuration. [testng] [2024-11-02 14:11:11,079] [pool-1-thread-12] Initializing /data/iplab/Blend_DIC.IPL: [testng] 14:11:11,079 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 14:11:11,079 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,080 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-02_14-11-11.log] [testng] 14:11:11,081 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b74f060 - End of configuration. [testng] [2024-11-02 14:11:11,132] [pool-1-thread-11] Initializing /data/iplab/Color Histology.IPL: [testng] 14:11:11,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 14:11:11,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,133 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-02_14-11-11.log] [testng] 14:11:11,134 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bce9cdc - End of configuration. [testng] [2024-11-02 14:11:11,180] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 14:11:11,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 14:11:11,181 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,181 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-02_14-11-11.log] [testng] 14:11:11,182 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3fee6804 - End of configuration. [testng] [2024-11-02 14:11:11,236] [pool-1-thread-9] Initializing /data/iplab/Chromosomes.IPL: [testng] 14:11:11,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 14:11:11,236 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,237 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-02_14-11-11.log] [testng] 14:11:11,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@775b20c2 - End of configuration. [testng] [2024-11-02 14:11:11,284] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 14:11:11,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 14:11:11,285 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,285 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-02_14-11-11.log] [testng] 14:11:11,286 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1918466d - End of configuration. [testng] [2024-11-02 14:11:11,351] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 14:11:11,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 14:11:11,351 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,352 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-02_14-11-11.log] [testng] 14:11:11,353 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47d28a68 - End of configuration. [testng] [2024-11-02 14:11:11,653] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL: [testng] 14:11:11,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 14:11:11,653 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-02_14-11-11.log] [testng] 14:11:11,655 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e509863 - End of configuration. [testng] [2024-11-02 14:11:11,702] [pool-1-thread-5] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 14:11:11,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 14:11:11,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,703 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-02_14-11-11.log] [testng] 14:11:11,703 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b486f6 - End of configuration. [testng] [2024-11-02 14:11:11,756] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.tif: [testng] 14:11:11,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 14:11:11,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:11,758 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-02_14-11-11.log] [testng] 14:11:11,773 |-INFO in ch.qos.logback.core.sift.SiftProcessor@160f7ff4 - End of configuration. [testng] [2024-11-02 14:11:12,085] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 14:11:12,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 14:11:12,085 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:12,086 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-02_14-11-12.log] [testng] 14:11:12,086 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1190531a - End of configuration. [testng] [2024-11-02 14:11:12,399] [pool-1-thread-2] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 14:11:12,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 14:11:12,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 14:11:12,400 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-02_14-11-12.log] [testng] 14:11:12,400 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30865f99 - End of configuration. [testng] [2024-11-02 14:11:14,623] [pool-1-thread-11] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-11-02 14:11:14,676] [pool-1-thread-6] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-11-02 14:11:14,926] [pool-1-thread-10] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-11-02 14:11:15,202] [pool-1-thread-9] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-11-02 14:11:15,242] [pool-1-thread-12] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-11-02 14:11:15,592] [pool-1-thread-2] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-11-02 14:11:15,643] [pool-1-thread-5] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-11-02 14:11:15,927] [pool-1-thread-8] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-11-02 14:11:17,097] [pool-1-thread-4] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-11-02 14:11:17,512] [pool-1-thread-7] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-11-02 14:11:17,782] [pool-1-thread-1] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-11-02 14:11:18,149] [pool-1-thread-2] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-11-02 14:11:18,260] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-11-02 14:11:18,725] [pool-1-thread-9] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-11-02 14:11:19,389] [pool-1-thread-2] Initializing /data/iplab/Actin.IPL: [testng] [2024-11-02 14:11:19,912] [pool-1-thread-7] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 6 minutes 17 seconds Finished: SUCCESS