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Started by upstream project "BIOFORMATS-test-repo" build number 227 originally caused by: Started by upstream project "Trigger" build number 252 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/jenkins4570056300451844422.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35686_merge_ci -v /uod/idr/repos/curated/leica-tcs:/data -v /uod/idr-scratch/merge-ci/curated/leica-tcs:/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 test-automated: [testng] File leak detector installed [testng] 12:36:06,403 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 12:36:06,404 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 12:36:06,404 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:36:06,405 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:36:06,406 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:36:06,406 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:36:06,406 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 12:36:06,406 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:36:06,406 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:36:06,407 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:36:06,407 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:36:06,407 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:36:06,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:36:06,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:36:06,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:36:06,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:36:06,651 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:36:06,651 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:36:06,651 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:36:06,651 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:36:06,651 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 12:36:06,652 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 12:36:06,652 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 246 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-18 12:36:06,662] [main] java.version = 1.8.0_342 [testng] 12:36:06,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:36:06,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:36:06,708 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-18_12-36-06.log] [testng] 12:36:06,710 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-18 12:36:06,712] [main] testng.directory = /data [testng] [2024-10-18 12:36:06,712] [main] testng.configDirectory = /config [testng] [2024-10-18 12:36:06,723] [main] testng.multiplier = 1.0 [testng] [2024-10-18 12:36:06,723] [main] testng.in-memory = false [testng] [2024-10-18 12:36:06,723] [main] testng.allow-missing = false [testng] [2024-10-18 12:36:06,723] [main] user.language = en [testng] [2024-10-18 12:36:06,724] [main] user.country = ${user.country} [testng] [2024-10-18 12:36:06,724] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-18 12:36:18,514] [main] ---------------------------------------- [testng] [2024-10-18 12:36:18,514] [main] Total files: 944 [testng] [2024-10-18 12:36:18,514] [main] Scan time: 11.79 s (12 ms/file) [testng] [2024-10-18 12:36:18,514] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-18 12:37:40,549] [pool-1-thread-1] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 12:37:40,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:37:40,549 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:40,550 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-18_12-37-40.log] [testng] 12:37:40,551 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e246782 - End of configuration. [testng] [2024-10-18 12:37:41,864] [pool-1-thread-12] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] 12:37:41,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 12:37:41,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:41,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-18_12-37-41.log] [testng] 12:37:41,865 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d367868 - End of configuration. [testng] [2024-10-18 12:37:43,001] [pool-1-thread-11] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] 12:37:43,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:37:43,001 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:43,002 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-18_12-37-43.log] [testng] 12:37:43,002 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4870fac - End of configuration. [testng] [2024-10-18 12:37:44,099] [pool-1-thread-10] Initializing /data/primate/Leica_Image.tif: [testng] 12:37:44,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:37:44,099 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:44,099 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-18_12-37-44.log] [testng] 12:37:44,100 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15c32168 - End of configuration. [testng] [2024-10-18 12:37:45,162] [pool-1-thread-9] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 12:37:45,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:37:45,162 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:45,163 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-18_12-37-45.log] [testng] 12:37:45,163 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35dd7b68 - End of configuration. [testng] [2024-10-18 12:37:46,261] [pool-1-thread-8] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 12:37:46,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:37:46,261 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:46,262 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-18_12-37-46.log] [testng] 12:37:46,262 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c8cc08c - End of configuration. [testng] [2024-10-18 12:37:47,535] [pool-1-thread-7] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 12:37:47,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:37:47,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:47,535 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-18_12-37-47.log] [testng] 12:37:47,536 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bf06de - End of configuration. [testng] [2024-10-18 12:37:48,679] [pool-1-thread-6] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 12:37:48,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:37:48,679 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:48,680 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-18_12-37-48.log] [testng] 12:37:48,680 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ae5a087 - End of configuration. [testng] [2024-10-18 12:37:49,978] [pool-1-thread-5] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 12:37:49,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:37:49,978 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:49,979 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-18_12-37-49.log] [testng] 12:37:49,979 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a2abde1 - End of configuration. [testng] [2024-10-18 12:37:51,220] [pool-1-thread-4] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 12:37:51,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:37:51,220 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:51,221 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-18_12-37-51.log] [testng] 12:37:51,221 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f1e31c - End of configuration. [testng] [2024-10-18 12:38:36,399] [pool-1-thread-3] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 12:38:36,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:38:36,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:38:36,400 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-18_12-38-36.log] [testng] 12:38:36,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f6f16bb - End of configuration. [testng] [2024-10-18 12:38:37,508] [pool-1-thread-2] Initializing /data/brian/Series002_z01.tif: [testng] 12:38:37,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:38:37,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:38:37,509 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-18_12-38-37.log] [testng] 12:38:37,509 |-INFO in ch.qos.logback.core.sift.SiftProcessor@526aeb4e - End of configuration. [testng] [2024-10-18 12:38:46,601] [pool-1-thread-10] Initializing /data/martin/Series028_z00_ch00.tif: [testng] [2024-10-18 12:38:49,575] [pool-1-thread-2] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] [2024-10-18 12:38:51,841] [pool-1-thread-9] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 13:41:00,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:41:00,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:41:00,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-18_13-41-00.log] [testng] 13:41:00,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25aeb5ac - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 64 minutes 56 seconds Finished: SUCCESS