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Started by upstream project "BIOFORMATS-test-repo" build number 132 originally caused by: Started by upstream project "Trigger" build number 152 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins13221286767062980563.sh + '[' specs = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20664_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 11:01:00,671 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 11:01:00,673 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 11:01:00,673 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:01:00,674 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 11:01:00,675 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 11:01:00,675 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 11:01:00,676 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 11:01:00,676 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:01:00,676 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 11:01:00,677 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 11:01:00,678 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 11:01:00,678 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 11:01:00,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 11:01:00,906 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 11:01:00,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 11:01:00,943 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 11:01:00,952 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 11:01:00,953 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 11:01:00,953 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 11:01:00,953 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 11:01:00,953 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 11:01:00,954 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 11:01:00,955 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 279 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-25 11:01:00,968] [main] java.version = 21 [testng] 11:01:00,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 11:01:00,972 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:01,036 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-25_11-01-00.log] [testng] 11:01:01,039 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-07-25 11:01:01,041] [main] testng.directory = /data [testng] [2024-07-25 11:01:01,041] [main] testng.configDirectory = /config [testng] [2024-07-25 11:01:01,055] [main] testng.multiplier = 1.0 [testng] [2024-07-25 11:01:01,056] [main] testng.in-memory = false [testng] [2024-07-25 11:01:01,056] [main] testng.allow-missing = false [testng] [2024-07-25 11:01:01,057] [main] user.language = en [testng] [2024-07-25 11:01:01,057] [main] user.country = ${user.country} [testng] [2024-07-25 11:01:01,057] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-25 11:01:13,466] [main] ---------------------------------------- [testng] [2024-07-25 11:01:13,466] [main] Total files: 226 [testng] [2024-07-25 11:01:13,466] [main] Scan time: 12.409 s (54 ms/file) [testng] [2024-07-25 11:01:13,467] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-25 11:01:20,420] [pool-1-thread-1] Initializing /data/iplab/Blend_Final.IPL: [testng] 11:01:20,420 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 11:01:20,421 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,422 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-25_11-01-20.log] [testng] 11:01:20,423 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b4764b7 - End of configuration. [testng] [2024-07-25 11:01:20,443] [pool-1-thread-12] Initializing /data/iplab/Color Image.IPL: [testng] 11:01:20,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 11:01:20,444 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-25_11-01-20.log] [testng] 11:01:20,445 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2396cf10 - End of configuration. [testng] [2024-07-25 11:01:20,454] [pool-1-thread-11] Initializing /data/iplab/Blend_DIC.IPL: [testng] 11:01:20,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 11:01:20,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,456 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-25_11-01-20.log] [testng] 11:01:20,456 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2dee00 - End of configuration. [testng] [2024-07-25 11:01:20,474] [pool-1-thread-10] Initializing /data/iplab/Actin.IPL: [testng] 11:01:20,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 11:01:20,474 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,475 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-25_11-01-20.log] [testng] 11:01:20,476 |-INFO in ch.qos.logback.core.sift.SiftProcessor@604c69e - End of configuration. [testng] [2024-07-25 11:01:20,485] [pool-1-thread-9] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] 11:01:20,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 11:01:20,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,487 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-25_11-01-20.log] [testng] 11:01:20,487 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f4d841e - End of configuration. [testng] [2024-07-25 11:01:20,630] [pool-1-thread-8] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 11:01:20,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 11:01:20,630 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,631 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-25_11-01-20.log] [testng] 11:01:20,631 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c39d611 - End of configuration. [testng] [2024-07-25 11:01:20,640] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 11:01:20,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 11:01:20,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-25_11-01-20.log] [testng] 11:01:20,642 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e4dfe4 - End of configuration. [testng] [2024-07-25 11:01:20,677] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] 11:01:20,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 11:01:20,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,680 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-25_11-01-20.log] [testng] 11:01:20,680 |-INFO in ch.qos.logback.core.sift.SiftProcessor@420853f9 - End of configuration. [testng] [2024-07-25 11:01:20,702] [pool-1-thread-5] Initializing /data/fluoview/SpineAnimation.tif: [testng] 11:01:20,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 11:01:20,703 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,704 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-25_11-01-20.log] [testng] 11:01:20,704 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20b469fb - End of configuration. [testng] [2024-07-25 11:01:20,751] [pool-1-thread-4] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 11:01:20,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 11:01:20,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,752 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-25_11-01-20.log] [testng] 11:01:20,752 |-INFO in ch.qos.logback.core.sift.SiftProcessor@543ab3f - End of configuration. [testng] [2024-07-25 11:01:20,764] [pool-1-thread-3] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 11:01:20,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 11:01:20,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,766 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-25_11-01-20.log] [testng] 11:01:20,780 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65e110a5 - End of configuration. [testng] [2024-07-25 11:01:20,815] [pool-1-thread-2] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 11:01:20,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 11:01:20,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 11:01:20,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-25_11-01-20.log] [testng] 11:01:20,816 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e21ad8d - End of configuration. [testng] [2024-07-25 11:01:23,375] [pool-1-thread-12] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2024-07-25 11:01:23,388] [pool-1-thread-10] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-07-25 11:01:23,483] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-07-25 11:01:23,494] [pool-1-thread-1] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-07-25 11:01:23,539] [pool-1-thread-4] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-07-25 11:01:23,547] [pool-1-thread-11] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-07-25 11:01:23,592] [pool-1-thread-8] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-07-25 11:01:23,625] [pool-1-thread-3] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-07-25 11:01:23,640] [pool-1-thread-7] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-07-25 11:01:23,654] [pool-1-thread-2] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-07-25 11:01:23,664] [pool-1-thread-5] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-07-25 11:01:23,962] [pool-1-thread-4] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-07-25 11:01:23,985] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] [2024-07-25 11:01:24,115] [pool-1-thread-6] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-07-25 11:01:24,174] [pool-1-thread-12] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-07-25 11:01:24,325] [pool-1-thread-5] Initializing /data/iplab/Color Histology.IPL: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 30 seconds Finished: SUCCESS