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Started by upstream project "BIOFORMATS-test-repo" build number 390 originally caused by: Started by upstream project "Trigger" build number 414 originally caused by: Started by user devspace Restarted from build #413, stage Bio-Formats Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@15 [BIOFORMATS-test-folder@15] $ /bin/bash -xe /tmp/jenkins14371426530619981884.sh + '[' specs = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_61679_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] 01:08:15,904 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 01:08:15,906 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - No custom configurators were discovered as a service. [testng] 01:08:15,906 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:08:15,907 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:08:15,907 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:08:15,908 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:08:15,908 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:08:15,908 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:08:15,909 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:08:15,909 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:08:15,910 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:08:15,910 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:08:16,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:08:16,101 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:08:16,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:08:16,124 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:08:16,130 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:08:16,130 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:08:16,130 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:08:16,130 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:08:16,131 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@65c7a252 - End of configuration. [testng] 01:08:16,131 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@38cee291 - Registering current configuration as safe fallback point [testng] 01:08:16,131 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 222 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-25 01:08:16,141] [main] java.version = 11.0.16 [testng] 01:08:16,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:08:16,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:08:16,191 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-25_01-08-16.log] [testng] 01:08:16,193 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13d73f29 - End of configuration. [testng] [2025-03-25 01:08:16,195] [main] testng.directory = /data [testng] [2025-03-25 01:08:16,195] [main] testng.configDirectory = /config [testng] [2025-03-25 01:08:16,205] [main] testng.multiplier = 1.0 [testng] [2025-03-25 01:08:16,207] [main] testng.in-memory = false [testng] [2025-03-25 01:08:16,207] [main] testng.allow-missing = false [testng] [2025-03-25 01:08:16,207] [main] user.language = en [testng] [2025-03-25 01:08:16,207] [main] user.country = ${user.country} [testng] [2025-03-25 01:08:16,207] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-25 01:24:23,272] [main] ---------------------------------------- [testng] [2025-03-25 01:24:23,272] [main] Total files: 226 [testng] [2025-03-25 01:24:23,272] [main] Scan time: 967.065 s (4279 ms/file) [testng] [2025-03-25 01:24:23,272] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 28 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-25 01:51:23,066] [pool-1-thread-1] Initializing /data/fluoview/Sample_TwoCH.TIF: [testng] 01:51:23,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:51:23,067 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:23,069 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-25_01-51-23.log] [testng] 01:51:23,069 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44f140b0 - End of configuration. [testng] [2025-03-25 01:51:32,416] [pool-1-thread-12] Initializing /data/iplab/Blend_Fitc.IPL: [testng] 01:51:32,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:51:32,417 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:32,418 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-25_01-51-32.log] [testng] 01:51:32,419 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56af8fea - End of configuration. [testng] [2025-03-25 01:51:33,316] [pool-1-thread-11] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile--MultiTrack-1.lsm: [testng] 01:51:33,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:51:33,316 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:33,317 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-25_01-51-33.log] [testng] 01:51:33,317 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f0b629e - End of configuration. [testng] [2025-03-25 01:51:38,828] [pool-1-thread-10] Initializing /data/iplab/Blend_Final.IPL: [testng] 01:51:38,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:51:38,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:38,829 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-25_01-51-38.log] [testng] 01:51:38,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@49e61c4b - End of configuration. [testng] [2025-03-25 01:51:39,674] [pool-1-thread-9] Initializing /data/iplab/Blend_DIC.IPL: [testng] 01:51:39,674 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:51:39,674 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:39,675 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-25_01-51-39.log] [testng] 01:51:39,675 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3486388a - End of configuration. [testng] [2025-03-25 01:51:40,662] [pool-1-thread-8] Initializing /data/fluoview/SpineAnimation.avi: [testng] 01:51:40,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:51:40,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:40,663 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-25_01-51-40.log] [testng] 01:51:40,663 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73a7d506 - End of configuration. [testng] [2025-03-25 01:51:42,628] [pool-1-thread-7] Initializing /data/iplab/Chromosomes.IPL: [testng] 01:51:42,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:51:42,629 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:42,629 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-25_01-51-42.log] [testng] 01:51:42,630 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3641c20 - End of configuration. [testng] [2025-03-25 01:51:43,437] [pool-1-thread-6] Initializing /data/fluoview/sample_labled_XYTCh.tif: [testng] 01:51:43,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:51:43,437 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:43,438 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-25_01-51-43.log] [testng] 01:51:43,438 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fe7b522 - End of configuration. [testng] [2025-03-25 01:51:48,595] [pool-1-thread-5] Initializing /data/iplab/16Bit XRay.IPL: [testng] 01:51:48,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:51:48,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:48,596 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-25_01-51-48.log] [testng] 01:51:48,596 |-INFO in ch.qos.logback.core.sift.SiftProcessor@227cee7b - End of configuration. [testng] [2025-03-25 01:51:49,301] [pool-1-thread-4] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test.dm3: [testng] 01:51:49,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:51:49,301 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:49,302 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-25_01-51-49.log] [testng] 01:51:49,303 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78a31396 - End of configuration. [testng] [2025-03-25 01:51:50,476] [pool-1-thread-3] Initializing /data/fluoview/SpineAnimation.tif: [testng] 01:51:50,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:51:50,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:50,476 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-25_01-51-50.log] [testng] 01:51:50,477 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b1ea9ec - End of configuration. [testng] [2025-03-25 01:51:55,362] [pool-1-thread-2] Initializing /data/fluoview/Sample_XYZ.TIF: [testng] 01:51:55,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:51:55,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:51:55,363 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-25_01-51-55.log] [testng] 01:51:55,364 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42be334b - End of configuration. [testng] [2025-03-25 01:52:12,958] [pool-1-thread-7] Initializing /data/fluoview/Sample_XYT.TIF: [testng] [2025-03-25 01:52:19,014] [pool-1-thread-5] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-2.lsm: [testng] [2025-03-25 01:52:24,632] [pool-1-thread-9] Initializing /data/iplab/3t3 Cell.IPL: [testng] [2025-03-25 01:52:25,514] [pool-1-thread-12] Initializing /data/iplab/Color Histology.IPL: [testng] [2025-03-25 01:52:26,469] [pool-1-thread-10] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/Test2.dm3: [testng] [2025-03-25 01:52:27,611] [pool-1-thread-4] Initializing /data/fluoview/Sample_XT.tif: [testng] [2025-03-25 01:52:34,495] [pool-1-thread-8] Initializing /data/gatan/ImageReader2003/ImageReaderTest/TestFiles/test3.dm3: [testng] [2025-03-25 01:52:43,302] [pool-1-thread-9] Initializing /data/fluoview/sample_labled_XYZTCh.tif: [testng] [2025-03-25 01:52:48,911] [pool-1-thread-12] Initializing /data/fluoview/Sample_ThreeCH.TIF: [testng] [2025-03-25 01:52:53,899] [pool-1-thread-10] Initializing /data/fluoview/sample_labled_XYZCh.tif: [testng] [2025-03-25 01:53:01,892] [pool-1-thread-8] Initializing /data/iplab/10x Blood and Bacteria.IPL: [testng] [2025-03-25 01:53:02,927] [pool-1-thread-1] Initializing /data/iplab/Actin.IPL: [testng] [2025-03-25 01:53:03,851] [pool-1-thread-6] Initializing /data/iplab/Color Image.IPL: [testng] [2025-03-25 01:53:04,774] [pool-1-thread-3] Initializing /data/iplab/Blend_Dapi.IPL: [testng] [2025-03-25 01:53:05,646] [pool-1-thread-2] Initializing /data/zeiss_lsm/X-Y-Z-T-Ch-Tile-1.lsm: [testng] [2025-03-25 01:53:13,774] [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: 45 minutes 59 seconds Finished: SUCCESS