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Started by upstream project "BIOFORMATS-test-repo" build number 1 originally caused by: Started by upstream project "Trigger" build number 1 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins9392429678551374063.sh + '[' specs = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_29_merge_ci -v /uod/idr/repos/curated/specs:/data -v /uod/idr-scratch/devspace/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 16:04:55,986 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 16:04:55,988 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 16:04:55,988 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:04:55,989 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:04:55,990 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 16:04:55,990 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 16:04:55,991 |-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] 16:04:55,991 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:04:55,991 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:04:55,992 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 16:04:55,993 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 16:04:55,993 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 16:04:56,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 16:04:56,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 16:04:56,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 16:04:56,225 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 16:04:56,232 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 16:04:56,232 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 16:04:56,232 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 16:04:56,232 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 16:04:56,232 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 16:04:56,233 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 16:04:56,233 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 242 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-14 16:04:56,242] [main] java.version = 21 [testng] 16:04:56,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 16:04:56,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:04:56,288 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-14_16-04-56.log] [testng] 16:04:56,290 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-03-14 16:04:56,291] [main] testng.directory = /data [testng] [2024-03-14 16:04:56,292] [main] testng.configDirectory = /config [testng] [2024-03-14 16:04:56,300] [main] testng.multiplier = 1.0 [testng] [2024-03-14 16:04:56,301] [main] testng.in-memory = false [testng] [2024-03-14 16:04:56,301] [main] testng.allow-missing = false [testng] [2024-03-14 16:04:56,301] [main] user.language = en [testng] [2024-03-14 16:04:56,301] [main] user.country = ${user.country} [testng] [2024-03-14 16:04:56,301] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-14 16:05:41,726] [main] ---------------------------------------- [testng] [2024-03-14 16:05:41,726] [main] Total files: 226 [testng] [2024-03-14 16:05:41,726] [main] Scan time: 45.425 s (200 ms/file) [testng] [2024-03-14 16:05:41,727] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-14 16:06:05,908] [pool-1-thread-1] Initializing /data/iplab/Blend_Final.IPL: [testng] 16:06:05,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 16:06:05,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:05,910 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-14_16-06-05.log] [testng] 16:06:05,911 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56b81514 - End of configuration. [testng] [2024-03-14 16:06:05,954] [pool-1-thread-12] Initializing /data/iplab/Color Image.IPL: [testng] 16:06:05,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 16:06:05,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:05,955 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-14_16-06-05.log] [testng] 16:06:05,956 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18b33c67 - End of configuration. [testng] [2024-03-14 16:06:05,984] [pool-1-thread-11] Initializing /data/iplab/Blend_DIC.IPL: [testng] 16:06:05,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 16:06:05,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:05,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-14_16-06-05.log] [testng] 16:06:05,986 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fefc15a - End of configuration. [testng] [2024-03-14 16:06:06,012] [pool-1-thread-10] Initializing /data/iplab/Actin.IPL: [testng] 16:06:06,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 16:06:06,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-14_16-06-06.log] [testng] 16:06:06,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d90189d - End of configuration. [testng] [2024-03-14 16:06:06,039] [pool-1-thread-9] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] 16:06:06,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 16:06:06,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-14_16-06-06.log] [testng] 16:06:06,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4aa773fa - End of configuration. [testng] [2024-03-14 16:06:06,203] [pool-1-thread-8] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 16:06:06,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 16:06:06,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,205 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-14_16-06-06.log] [testng] 16:06:06,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fa3eb9b - End of configuration. [testng] [2024-03-14 16:06:06,217] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 16:06:06,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 16:06:06,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,219 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-14_16-06-06.log] [testng] 16:06:06,219 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7211b1de - End of configuration. [testng] [2024-03-14 16:06:06,299] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] 16:06:06,299 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 16:06:06,299 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,301 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-14_16-06-06.log] [testng] 16:06:06,301 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61c43608 - End of configuration. [testng] [2024-03-14 16:06:06,339] [pool-1-thread-5] Initializing /data/fluoview/SpineAnimation.tif: [testng] 16:06:06,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 16:06:06,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,340 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-14_16-06-06.log] [testng] 16:06:06,340 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65e110a5 - End of configuration. [testng] [2024-03-14 16:06:06,414] [pool-1-thread-4] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 16:06:06,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 16:06:06,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,415 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-14_16-06-06.log] [testng] 16:06:06,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e21ad8d - End of configuration. [testng] [2024-03-14 16:06:06,434] [pool-1-thread-3] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] 16:06:06,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 16:06:06,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,435 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-14_16-06-06.log] [testng] 16:06:06,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f8e3087 - End of configuration. [testng] [2024-03-14 16:06:06,564] [pool-1-thread-2] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 16:06:06,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 16:06:06,564 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:06:06,565 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-14_16-06-06.log] [testng] 16:06:06,565 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4934f937 - End of configuration. [testng] [2024-03-14 16:06:08,705] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2024-03-14 16:06:08,727] [pool-1-thread-12] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-03-14 16:06:08,825] [pool-1-thread-6] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-03-14 16:06:08,943] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-03-14 16:06:09,001] [pool-1-thread-1] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2024-03-14 16:06:09,031] [pool-1-thread-8] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-03-14 16:06:09,057] [pool-1-thread-11] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-03-14 16:06:09,447] [pool-1-thread-5] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-03-14 16:06:09,503] [pool-1-thread-7] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-03-14 16:06:09,518] [pool-1-thread-2] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-03-14 16:06:09,667] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-03-14 16:06:09,950] [pool-1-thread-8] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2024-03-14 16:06:10,078] [pool-1-thread-10] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] [2024-03-14 16:06:10,209] [pool-1-thread-5] Initializing /data/iplab/Chromosomes.IPL: [testng] [2024-03-14 16:06:10,335] [pool-1-thread-1] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-03-14 16:06:10,593] [pool-1-thread-7] 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: 1 minute 20 seconds Finished: SUCCESS