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Started by upstream project "BIOFORMATS-test-repo" build number 4 originally caused by: Started by upstream project "Trigger" build number 5 originally caused by: Started by timer 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/jenkins4764626108983522831.sh + '[' specs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_489_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] 00:25:03,465 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 00:25:03,466 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 00:25:03,466 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:25:03,467 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 00:25:03,467 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 00:25:03,468 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 00:25:03,468 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 00:25:03,468 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:25:03,468 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 00:25:03,469 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 00:25:03,469 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 00:25:03,469 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 00:25:03,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 00:25:03,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 00:25:03,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 00:25:03,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 00:25:03,657 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 00:25:03,658 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 00:25:03,658 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 00:25:03,658 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 00:25:03,658 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 00:25:03,659 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 00:25:03,659 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 191 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-17 00:25:03,668] [main] java.version = 17.0.2 [testng] 00:25:03,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 00:25:03,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:25:03,711 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-17_00-25-03.log] [testng] 00:25:03,712 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-03-17 00:25:03,715] [main] testng.directory = /data [testng] [2024-03-17 00:25:03,715] [main] testng.configDirectory = /config [testng] [2024-03-17 00:25:03,723] [main] testng.multiplier = 1.0 [testng] [2024-03-17 00:25:03,724] [main] testng.in-memory = false [testng] [2024-03-17 00:25:03,725] [main] testng.allow-missing = false [testng] [2024-03-17 00:25:03,725] [main] user.language = en [testng] [2024-03-17 00:25:03,725] [main] user.country = ${user.country} [testng] [2024-03-17 00:25:03,725] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-17 00:25:51,122] [main] ---------------------------------------- [testng] [2024-03-17 00:25:51,122] [main] Total files: 226 [testng] [2024-03-17 00:25:51,122] [main] Scan time: 47.397 s (209 ms/file) [testng] [2024-03-17 00:25:51,122] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-17 00:26:24,302] [pool-1-thread-1] Initializing /data/iplab/Blend_DIC.IPL: [testng] 00:26:24,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 00:26:24,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:24,304 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-17_00-26-24.log] [testng] 00:26:24,305 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ea5ba2f - End of configuration. [testng] [2024-03-17 00:26:24,356] [pool-1-thread-12] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] 00:26:24,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 00:26:24,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:24,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-17_00-26-24.log] [testng] 00:26:24,358 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e25a766 - End of configuration. [testng] [2024-03-17 00:26:24,535] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] 00:26:24,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 00:26:24,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:24,536 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-17_00-26-24.log] [testng] 00:26:24,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@727a1e7a - End of configuration. [testng] [2024-03-17 00:26:24,740] [pool-1-thread-10] Initializing /data/iplab/3t3 Cell.IPL: [testng] 00:26:24,740 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 00:26:24,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:24,742 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-17_00-26-24.log] [testng] 00:26:24,742 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51ee79a3 - End of configuration. [testng] [2024-03-17 00:26:24,775] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 00:26:24,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 00:26:24,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:24,777 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-17_00-26-24.log] [testng] 00:26:24,777 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7685806e - End of configuration. [testng] [2024-03-17 00:26:25,043] [pool-1-thread-8] Initializing /data/fluoview/SpineAnimation.tif: [testng] 00:26:25,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 00:26:25,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:25,045 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-17_00-26-25.log] [testng] 00:26:25,045 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27f733b0 - End of configuration. [testng] [2024-03-17 00:26:25,304] [pool-1-thread-7] Initializing /data/iplab/Chromosomes.IPL: [testng] 00:26:25,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 00:26:25,305 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:25,305 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-17_00-26-25.log] [testng] 00:26:25,306 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58ca5b26 - End of configuration. [testng] [2024-03-17 00:26:25,338] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 00:26:25,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 00:26:25,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:25,339 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-17_00-26-25.log] [testng] 00:26:25,339 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1469858c - End of configuration. [testng] [2024-03-17 00:26:25,495] [pool-1-thread-5] Initializing /data/fluoview/SpineAnimation.avi: [testng] 00:26:25,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 00:26:25,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:25,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-17_00-26-25.log] [testng] 00:26:25,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52a734d1 - End of configuration. [testng] [2024-03-17 00:26:25,543] [pool-1-thread-4] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] 00:26:25,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 00:26:25,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:25,544 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-17_00-26-25.log] [testng] 00:26:25,545 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ce942fc - End of configuration. [testng] [2024-03-17 00:26:25,582] [pool-1-thread-3] Initializing /data/iplab/Blend_Dapi.IPL: [testng] 00:26:25,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 00:26:25,582 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:25,582 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-17_00-26-25.log] [testng] 00:26:25,583 |-INFO in ch.qos.logback.core.sift.SiftProcessor@736f2edb - End of configuration. [testng] [2024-03-17 00:26:25,605] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 00:26:25,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 00:26:25,606 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 00:26:25,606 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-17_00-26-25.log] [testng] 00:26:25,607 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27761594 - End of configuration. [testng] [2024-03-17 00:26:27,710] [pool-1-thread-10] Initializing /data/iplab/Color Histology.IPL: [testng] [2024-03-17 00:26:27,771] [pool-1-thread-7] Initializing /data/fluoview/Sample_XT.tif: [testng] [2024-03-17 00:26:28,248] [pool-1-thread-3] Initializing /data/iplab/Actin.IPL: [testng] [2024-03-17 00:26:28,292] [pool-1-thread-1] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-03-17 00:26:28,917] [pool-1-thread-5] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-03-17 00:26:29,510] [pool-1-thread-4] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-03-17 00:26:29,782] [pool-1-thread-9] Initializing /data/iplab/16Bit XRay.IPL: [testng] [2024-03-17 00:26:29,814] [pool-1-thread-6] Initializing /data/iplab/Color Image.IPL: [testng] [2024-03-17 00:26:29,859] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-03-17 00:26:29,928] [pool-1-thread-12] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-03-17 00:26:30,387] [pool-1-thread-10] Initializing /data/iplab/Blend_Fitc.IPL: [testng] [2024-03-17 00:26:30,761] [pool-1-thread-3] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-03-17 00:26:31,684] [pool-1-thread-6] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-03-17 00:26:31,794] [pool-1-thread-9] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2024-03-17 00:26:31,886] [pool-1-thread-10] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-03-17 00:26:31,949] [pool-1-thread-8] Initializing /data/iplab/Blend_Tritc.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 35 seconds Finished: SUCCESS