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Started by upstream project "BIOFORMATS-test-repo" build number 211 originally caused by: Started by upstream project "Trigger" build number 237 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins48690849321345341.sh + '[' leica-tcs = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_33579_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 [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] 03:49:25,154 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:49:25,155 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 03:49:25,155 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:49:25,156 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:49:25,156 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:49:25,156 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:49:25,157 |-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] 03:49:25,157 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:49:25,157 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:49:25,158 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:49:25,158 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:49:25,158 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:49:25,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:49:25,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:49:25,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:49:25,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:49:25,344 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:49:25,344 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:49:25,344 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:49:25,345 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:49:25,345 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 03:49:25,346 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 03:49:25,346 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 189 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-06 03:49:25,354] [main] java.version = 17.0.2 [testng] 03:49:25,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:49:25,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:49:25,457 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-06_03-49-25.log] [testng] 03:49:25,458 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-10-06 03:49:25,460] [main] testng.directory = /data [testng] [2024-10-06 03:49:25,460] [main] testng.configDirectory = /config [testng] [2024-10-06 03:49:25,468] [main] testng.multiplier = 1.0 [testng] [2024-10-06 03:49:25,469] [main] testng.in-memory = false [testng] [2024-10-06 03:49:25,469] [main] testng.allow-missing = false [testng] [2024-10-06 03:49:25,469] [main] user.language = en [testng] [2024-10-06 03:49:25,469] [main] user.country = ${user.country} [testng] [2024-10-06 03:49:25,469] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-06 03:49:37,148] [main] ---------------------------------------- [testng] [2024-10-06 03:49:37,148] [main] Total files: 944 [testng] [2024-10-06 03:49:37,148] [main] Scan time: 11.678 s (12 ms/file) [testng] [2024-10-06 03:49:37,148] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-06 03:50:42,523] [pool-1-thread-1] Initializing /data/stjude/Antoday1dblcat2dataGRP.tif: [testng] 03:50:42,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:50:42,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:50:42,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-06_03-50-42.log] [testng] 03:50:42,525 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b93b916 - End of configuration. [testng] [2024-10-06 03:50:43,373] [pool-1-thread-12] Initializing /data/dave/series 35/042911_Series035_t00_z000_ch00.tif: [testng] 03:50:43,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:50:43,373 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:50:43,374 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-06_03-50-43.log] [testng] 03:50:43,375 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c015497 - End of configuration. [testng] [2024-10-06 03:51:16,861] [pool-1-thread-11] Initializing /data/stjude/AntoDay1cy3/c01f0001.TIF: [testng] 03:51:16,861 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:51:16,861 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:16,862 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-06_03-51-16.log] [testng] 03:51:16,862 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77c64ad4 - End of configuration. [testng] [2024-10-06 03:51:17,628] [pool-1-thread-10] Initializing /data/stjude/AntoDayzerocy3GRP.tif: [testng] 03:51:17,628 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:51:17,628 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:17,629 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-06_03-51-17.log] [testng] 03:51:17,629 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56ddfd8e - End of configuration. [testng] [2024-10-06 03:51:18,693] [pool-1-thread-9] Initializing /data/martin/Series028_z00_ch00.tif: [testng] 03:51:18,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:51:18,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:18,693 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-06_03-51-18.log] [testng] 03:51:18,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a1148bb - End of configuration. [testng] [2024-10-06 03:51:19,842] [pool-1-thread-8] Initializing /data/stjude/AntoDay1dblGRP.tif: [testng] 03:51:19,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:51:19,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:19,843 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-06_03-51-19.log] [testng] 03:51:19,844 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ac7fc2e - End of configuration. [testng] [2024-10-06 03:51:20,748] [pool-1-thread-7] Initializing /data/stjude/Antoday1dblcatsglGRP.tif: [testng] 03:51:20,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:51:20,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:20,749 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-06_03-51-20.log] [testng] 03:51:20,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b55955f - End of configuration. [testng] [2024-10-06 03:51:21,624] [pool-1-thread-6] Initializing /data/brian/Series002_z01.tif: [testng] 03:51:21,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:51:21,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:21,625 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-06_03-51-21.log] [testng] 03:51:21,626 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14f2953c - End of configuration. [testng] [2024-10-06 03:51:22,884] [pool-1-thread-5] Initializing /data/brian/Series002_z00_ch00.tif: [testng] 03:51:22,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:51:22,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:22,885 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-06_03-51-22.log] [testng] 03:51:22,885 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f5b0988 - End of configuration. [testng] [2024-10-06 03:51:23,677] [pool-1-thread-4] Initializing /data/stjude/AntoDayzerocy3OVP.tif: [testng] 03:51:23,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:51:23,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:23,678 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-06_03-51-23.log] [testng] 03:51:23,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@308ac299 - End of configuration. [testng] [2024-10-06 03:51:24,706] [pool-1-thread-3] Initializing /data/stjude/AntoDay4dblmy2GRP.tif: [testng] 03:51:24,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:51:24,706 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:24,707 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-06_03-51-24.log] [testng] 03:51:24,707 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4eab00b7 - End of configuration. [testng] [2024-10-06 03:51:25,670] [pool-1-thread-2] Initializing /data/stjude/AntoDay4dblcatdataGRP.tif: [testng] 03:51:25,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:51:25,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:25,671 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-06_03-51-25.log] [testng] 03:51:25,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2bba1926 - End of configuration. [testng] [2024-10-06 03:51:32,176] [pool-1-thread-11] Initializing /data/stjude/AntoDay4dblmyGRP.tif: [testng] [2024-10-06 03:51:35,079] [pool-1-thread-6] Initializing /data/stjude/Antoday1dblmysglGRP.tif: [testng] [2024-10-06 03:51:36,896] [pool-1-thread-5] Initializing /data/primate/Leica_Image.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 50 minutes 38 seconds Finished: SUCCESS