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Started by upstream project "BIOFORMATS-test-repo" build number 309 originally caused by: Started by upstream project "Trigger" build number 331 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins16450002101815975860.sh + '[' specs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_48910_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] 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] 00:28:34,543 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:28:34,545 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 00:28:34,545 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:28:34,546 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:28:34,546 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:28:34,546 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:28:34,547 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:28:34,547 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:28:34,547 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:28:34,548 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:28:34,548 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:28:34,548 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:28:34,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:28:34,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:28:34,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:28:34,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:28:34,755 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:28:34,755 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:28:34,755 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:28:34,755 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:28:34,755 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 00:28:34,757 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 00:28:34,757 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 210 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-05 00:28:34,767] [main] java.version = 17.0.2 [testng] 00:28:34,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:28:34,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:28:34,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-05_00-28-34.log] [testng] 00:28:34,818 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2025-01-05 00:28:34,820] [main] testng.directory = /data [testng] [2025-01-05 00:28:34,820] [main] testng.configDirectory = /config [testng] [2025-01-05 00:28:34,830] [main] testng.multiplier = 1.0 [testng] [2025-01-05 00:28:34,831] [main] testng.in-memory = false [testng] [2025-01-05 00:28:34,831] [main] testng.allow-missing = false [testng] [2025-01-05 00:28:34,831] [main] user.language = en [testng] [2025-01-05 00:28:34,831] [main] user.country = ${user.country} [testng] [2025-01-05 00:28:34,831] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-01-05 00:31:32,839] [main] ---------------------------------------- [testng] [2025-01-05 00:31:32,839] [main] Total files: 226 [testng] [2025-01-05 00:31:32,839] [main] Scan time: 178.007 s (787 ms/file) [testng] [2025-01-05 00:31:32,839] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-05 00:33:47,466] [pool-1-thread-1] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] 00:33:47,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:33:47,467 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:47,468 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-05_00-33-47.log] [testng] 00:33:47,468 |-INFO in ch.qos.logback.core.sift.SiftProcessor@347b7d6d - End of configuration. [testng] [2025-01-05 00:33:47,681] [pool-1-thread-12] Initializing /data/fluoview/SpineAnimation.tif: [testng] 00:33:47,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:33:47,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:47,682 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-05_00-33-47.log] [testng] 00:33:47,682 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18e0b83d - End of configuration. [testng] [2025-01-05 00:33:47,881] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] 00:33:47,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:33:47,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:47,882 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-05_00-33-47.log] [testng] 00:33:47,882 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41415c89 - End of configuration. [testng] [2025-01-05 00:33:48,109] [pool-1-thread-10] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 00:33:48,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:33:48,109 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:48,110 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-05_00-33-48.log] [testng] 00:33:48,110 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41e01734 - End of configuration. [testng] [2025-01-05 00:33:48,392] [pool-1-thread-9] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 00:33:48,392 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:33:48,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:48,393 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-05_00-33-48.log] [testng] 00:33:48,393 |-INFO in ch.qos.logback.core.sift.SiftProcessor@301fc7f6 - End of configuration. [testng] [2025-01-05 00:33:48,439] [pool-1-thread-8] Initializing /data/iplab/3t3 Cell.IPL: [testng] 00:33:48,440 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:33:48,440 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:48,441 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-05_00-33-48.log] [testng] 00:33:48,441 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ef848f3 - End of configuration. [testng] [2025-01-05 00:33:48,483] [pool-1-thread-7] Initializing /data/iplab/Chromosomes.IPL: [testng] 00:33:48,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:33:48,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:48,484 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-05_00-33-48.log] [testng] 00:33:48,484 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5aadc944 - End of configuration. [testng] [2025-01-05 00:33:48,521] [pool-1-thread-6] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 00:33:48,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:33:48,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:48,522 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-05_00-33-48.log] [testng] 00:33:48,522 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d43ac7f - End of configuration. [testng] [2025-01-05 00:33:48,564] [pool-1-thread-5] Initializing /data/iplab/16Bit XRay.IPL: [testng] 00:33:48,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:33:48,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:48,565 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-05_00-33-48.log] [testng] 00:33:48,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24ae2e86 - End of configuration. [testng] [2025-01-05 00:33:48,620] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] 00:33:48,620 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:33:48,621 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:48,621 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-05_00-33-48.log] [testng] 00:33:48,621 |-INFO in ch.qos.logback.core.sift.SiftProcessor@807cd75 - End of configuration. [testng] [2025-01-05 00:33:49,062] [pool-1-thread-3] Initializing /data/fluoview/Sample_XT.tif: [testng] 00:33:49,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:33:49,062 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:49,063 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-05_00-33-49.log] [testng] 00:33:49,063 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6bb19c95 - End of configuration. [testng] [2025-01-05 00:33:49,910] [pool-1-thread-2] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 00:33:49,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:33:49,910 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:33:49,911 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-05_00-33-49.log] [testng] 00:33:49,911 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53cad95b - End of configuration. [testng] [2025-01-05 00:33:53,928] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2025-01-05 00:33:54,524] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2025-01-05 00:33:54,609] [pool-1-thread-7] Initializing /data/iplab/Color Histology.IPL: [testng] [2025-01-05 00:33:54,641] [pool-1-thread-5] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2025-01-05 00:33:54,860] [pool-1-thread-9] Initializing /data/iplab/Blend_Final.IPL: [testng] [2025-01-05 00:33:54,887] [pool-1-thread-4] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2025-01-05 00:33:55,916] [pool-1-thread-7] Initializing /data/iplab/Blend_Fitc.IPL: [testng] [2025-01-05 00:33:56,000] [pool-1-thread-9] Initializing /data/iplab/Blend_DIC.IPL: [testng] [2025-01-05 00:33:56,065] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2025-01-05 00:33:56,296] [pool-1-thread-8] Initializing /data/iplab/Actin.IPL: [testng] [2025-01-05 00:33:56,396] [pool-1-thread-2] Initializing /data/iplab/Blend_Tritc.IPL: [testng] [2025-01-05 00:33:56,461] [pool-1-thread-12] Initializing /data/iplab/Color Image.IPL: [testng] [2025-01-05 00:33:56,593] [pool-1-thread-3] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2025-01-05 00:33:57,057] [pool-1-thread-1] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2025-01-05 00:33:57,819] [pool-1-thread-7] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2025-01-05 00:33:58,071] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.avi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1484, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 5 minutes 32 seconds Finished: SUCCESS