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Started by upstream project "BIOFORMATS-test-repo" build number 265 originally caused by: Started by upstream project "Trigger" build number 288 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins16057814265455167980.sh + '[' ivision = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_41931_merge_ci -v /uod/idr/repos/curated/ivision:/data -v /uod/idr-scratch/merge-ci/curated/ivision:/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] 05:49:16,447 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:49:16,448 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 05:49:16,448 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:49:16,449 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:49:16,450 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:49:16,450 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:49:16,450 |-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] 05:49:16,450 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:49:16,451 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:49:16,451 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:49:16,452 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:49:16,452 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:49:16,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:49:16,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:49:16,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:49:16,636 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:49:16,642 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:49:16,642 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:49:16,642 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:49:16,642 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:49:16,642 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 05:49:16,643 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 05:49:16,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 192 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-23 05:49:16,651] [main] java.version = 11.0.16 [testng] 05:49:16,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:49:16,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:16,695 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-23_05-49-16.log] [testng] 05:49:16,696 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-11-23 05:49:16,698] [main] testng.directory = /data [testng] [2024-11-23 05:49:16,699] [main] testng.configDirectory = /config [testng] [2024-11-23 05:49:16,708] [main] testng.multiplier = 1.0 [testng] [2024-11-23 05:49:16,709] [main] testng.in-memory = false [testng] [2024-11-23 05:49:16,709] [main] testng.allow-missing = false [testng] [2024-11-23 05:49:16,709] [main] user.language = en [testng] [2024-11-23 05:49:16,709] [main] user.country = ${user.country} [testng] [2024-11-23 05:49:16,709] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-23 05:49:21,688] [main] ---------------------------------------- [testng] [2024-11-23 05:49:21,688] [main] Total files: 17 [testng] [2024-11-23 05:49:21,688] [main] Scan time: 4.979 s (292 ms/file) [testng] [2024-11-23 05:49:21,688] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-23 05:49:28,186] [pool-1-thread-1] Initializing /data/christopher/122308_I_MPT_4x-Test1.ipm: [testng] 05:49:28,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:49:28,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:28,188 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-23_05-49-28.log] [testng] 05:49:28,189 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f13008a - End of configuration. [testng] [2024-11-23 05:49:28,594] [pool-1-thread-12] Initializing /data/samples/16-bit 320x256x3.ipm: [testng] 05:49:28,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:49:28,595 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:28,597 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-23_05-49-28.log] [testng] 05:49:28,597 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a2d86d6 - End of configuration. [testng] [2024-11-23 05:49:28,945] [pool-1-thread-11] Initializing /data/jcb/200810162/wt ba no bio.ipm: [testng] 05:49:28,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:49:28,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:28,946 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-23_05-49-28.log] [testng] 05:49:28,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e632453 - End of configuration. [testng] [2024-11-23 05:49:29,279] [pool-1-thread-10] Initializing /data/samples/16bit 320x256x1.ipm: [testng] 05:49:29,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:49:29,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:29,280 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-23_05-49-29.log] [testng] 05:49:29,281 |-INFO in ch.qos.logback.core.sift.SiftProcessor@279bffa3 - End of configuration. [testng] [2024-11-23 05:49:29,618] [pool-1-thread-9] Initializing /data/john/Images for BioFormats/512x512x16x24bit(ARGB).GOOD.ipm: [testng] 05:49:29,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:49:29,618 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:29,619 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-23_05-49-29.log] [testng] 05:49:29,619 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a6cf4c2 - End of configuration. [testng] [2024-11-23 05:49:29,951] [pool-1-thread-8] Initializing /data/jcb/200810162/wt BA plus bio.ipm: [testng] 05:49:29,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:49:29,952 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:29,952 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-23_05-49-29.log] [testng] 05:49:29,953 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f309c6e - End of configuration. [testng] [2024-11-23 05:49:30,270] [pool-1-thread-7] Initializing /data/john/Images for BioFormats/512x512x16x24bit(ARGB).BAD.ipm: [testng] 05:49:30,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:49:30,271 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:30,272 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-23_05-49-30.log] [testng] 05:49:30,273 |-INFO in ch.qos.logback.core.sift.SiftProcessor@590fa094 - End of configuration. [testng] [2024-11-23 05:49:30,600] [pool-1-thread-6] Initializing /data/jcb/200810162/mutBA plus bio.ipm: [testng] 05:49:30,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:49:30,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:30,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-23_05-49-30.log] [testng] 05:49:30,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a398a4d - End of configuration. [testng] [2024-11-23 05:49:30,933] [pool-1-thread-5] Initializing /data/samples/08Bit 320x256xthree.ipm: [testng] 05:49:30,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:49:30,933 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:30,934 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-23_05-49-30.log] [testng] 05:49:30,934 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66996649 - End of configuration. [testng] [2024-11-23 05:49:31,215] [pool-1-thread-4] Initializing /data/samples/08Bit 320x256x1.ipm: [testng] 05:49:31,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:49:31,215 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:31,216 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-23_05-49-31.log] [testng] 05:49:31,216 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d6b1f90 - End of configuration. [testng] [2024-11-23 05:49:31,496] [pool-1-thread-3] Initializing /data/samples/24bit 300x200x3.ipm: [testng] 05:49:31,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:49:31,496 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:31,497 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-23_05-49-31.log] [testng] 05:49:31,497 |-INFO in ch.qos.logback.core.sift.SiftProcessor@680d6be2 - End of configuration. [testng] [2024-11-23 05:49:31,772] [pool-1-thread-2] Initializing /data/christopher/Color48 Copy.ipm: [testng] 05:49:31,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:49:31,772 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:49:31,773 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-23_05-49-31.log] [testng] 05:49:31,773 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d70d25d - End of configuration. [testng] [2024-11-23 05:49:37,142] [pool-1-thread-3] Initializing /data/samples/48bit 150x100x3.ipm: [testng] [2024-11-23 05:49:37,510] [pool-1-thread-5] Initializing /data/nigel/CD48_75_24hrColor.ipm: [testng] [2024-11-23 05:49:37,887] [pool-1-thread-12] Initializing /data/jcb/JCB 200905007 Fig 7B gfp center: [testng] [2024-11-23 05:49:38,246] [pool-1-thread-9] Initializing /data/jcb/200810162/mut BA no bio.ipm: [testng] [2024-11-23 05:49:38,620] [pool-1-thread-7] Initializing /data/christopher/122308_I_MPT_4x-test2.ipm: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 901, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 31 seconds Finished: SUCCESS