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Started by upstream project "BIOFORMATS-test-repo" build number 213 originally caused by: Started by upstream project "Trigger" build number 240 originally caused by: Started by user devspace 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/jenkins8170240079912507884.sh + '[' specs = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_33791_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] 06:15:44,848 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 06:15:44,849 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 06:15:44,849 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:15:44,850 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:15:44,851 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:15:44,851 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:15:44,851 |-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] 06:15:44,851 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:15:44,852 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:15:44,852 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:15:44,853 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:15:44,853 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:15:45,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:15:45,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:15:45,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:15:45,041 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:15:45,047 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:15:45,047 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:15:45,047 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:15:45,048 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:15:45,048 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 06:15:45,048 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 06:15:45,048 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 196 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-08 06:15:45,057] [main] java.version = 11.0.16 [testng] 06:15:45,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:15:45,060 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:15:45,102 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-08_06-15-45.log] [testng] 06:15:45,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-08 06:15:45,106] [main] testng.directory = /data [testng] [2024-10-08 06:15:45,107] [main] testng.configDirectory = /config [testng] [2024-10-08 06:15:45,117] [main] testng.multiplier = 1.0 [testng] [2024-10-08 06:15:45,118] [main] testng.in-memory = false [testng] [2024-10-08 06:15:45,118] [main] testng.allow-missing = false [testng] [2024-10-08 06:15:45,118] [main] user.language = en [testng] [2024-10-08 06:15:45,118] [main] user.country = ${user.country} [testng] [2024-10-08 06:15:45,118] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-08 06:17:46,167] [main] ---------------------------------------- [testng] [2024-10-08 06:17:46,167] [main] Total files: 226 [testng] [2024-10-08 06:17:46,167] [main] Scan time: 121.049 s (535 ms/file) [testng] [2024-10-08 06:17:46,168] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-08 06:18:49,787] [pool-1-thread-1] Initializing /data/fluoview/Sample_XT.tif: [testng] 06:18:49,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:18:49,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:49,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-08_06-18-49.log] [testng] 06:18:49,790 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27fdac93 - End of configuration. [testng] [2024-10-08 06:18:49,929] [pool-1-thread-12] Initializing /data/iplab/Blend_DIC.IPL: [testng] 06:18:49,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:18:49,930 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:49,931 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-08_06-18-49.log] [testng] 06:18:49,932 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79714da3 - End of configuration. [testng] [2024-10-08 06:18:49,959] [pool-1-thread-11] Initializing /data/iplab/Color Histology.IPL: [testng] 06:18:49,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:18:49,959 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:49,959 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-08_06-18-49.log] [testng] 06:18:49,960 |-INFO in ch.qos.logback.core.sift.SiftProcessor@511e2292 - End of configuration. [testng] [2024-10-08 06:18:49,981] [pool-1-thread-10] Initializing /data/iplab/Color Image.IPL: [testng] 06:18:49,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:18:49,981 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:49,982 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-08_06-18-49.log] [testng] 06:18:49,982 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54bd2649 - End of configuration. [testng] [2024-10-08 06:18:50,007] [pool-1-thread-9] Initializing /data/iplab/Chromosomes.IPL: [testng] 06:18:50,007 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:18:50,007 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,008 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-08_06-18-50.log] [testng] 06:18:50,008 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e7a5c8a - End of configuration. [testng] [2024-10-08 06:18:50,030] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] 06:18:50,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:18:50,030 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,031 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-08_06-18-50.log] [testng] 06:18:50,032 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37e05dad - End of configuration. [testng] [2024-10-08 06:18:50,066] [pool-1-thread-7] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] 06:18:50,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:18:50,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,067 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-08_06-18-50.log] [testng] 06:18:50,068 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e6535fe - End of configuration. [testng] [2024-10-08 06:18:50,209] [pool-1-thread-6] Initializing /data/iplab/16Bit XRay.IPL: [testng] 06:18:50,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:18:50,209 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,210 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-08_06-18-50.log] [testng] 06:18:50,210 |-INFO in ch.qos.logback.core.sift.SiftProcessor@404dde5 - End of configuration. [testng] [2024-10-08 06:18:50,238] [pool-1-thread-5] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 06:18:50,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:18:50,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,239 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-08_06-18-50.log] [testng] 06:18:50,239 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6843944b - End of configuration. [testng] [2024-10-08 06:18:50,265] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.tif: [testng] 06:18:50,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:18:50,265 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,266 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-08_06-18-50.log] [testng] 06:18:50,280 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3755a3dc - End of configuration. [testng] [2024-10-08 06:18:50,450] [pool-1-thread-3] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 06:18:50,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:18:50,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-08_06-18-50.log] [testng] 06:18:50,451 |-INFO in ch.qos.logback.core.sift.SiftProcessor@481ffd45 - End of configuration. [testng] [2024-10-08 06:18:50,660] [pool-1-thread-2] Initializing /data/iplab/Blend_Tritc.IPL: [testng] 06:18:50,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:18:50,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:18:50,661 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-08_06-18-50.log] [testng] 06:18:50,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59dea1af - End of configuration. [testng] [2024-10-08 06:18:52,611] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2024-10-08 06:18:52,642] [pool-1-thread-9] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] [2024-10-08 06:18:52,822] [pool-1-thread-6] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] [2024-10-08 06:18:53,024] [pool-1-thread-11] Initializing /data/iplab/Blend_Final.IPL: [testng] [2024-10-08 06:18:53,058] [pool-1-thread-8] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] [2024-10-08 06:18:53,219] [pool-1-thread-2] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2024-10-08 06:18:53,248] [pool-1-thread-12] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2024-10-08 06:18:53,483] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2024-10-08 06:18:53,769] [pool-1-thread-7] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2024-10-08 06:18:54,148] [pool-1-thread-4] Initializing /data/fluoview/SpineAnimation.avi: [testng] [2024-10-08 06:18:54,273] [pool-1-thread-1] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2024-10-08 06:18:54,814] [pool-1-thread-2] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2024-10-08 06:18:54,964] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2024-10-08 06:18:55,210] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] [2024-10-08 06:18:55,679] [pool-1-thread-2] Initializing /data/iplab/Actin.IPL: [testng] [2024-10-08 06:18:55,942] [pool-1-thread-4] 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: 3 minutes 16 seconds Finished: SUCCESS