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Started by upstream project "BIOFORMATS-test-repo" build number 368 originally caused by: Started by upstream project "Trigger" build number 394 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins3451746547429034155.sh + '[' amira = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58629_merge_ci -v /uod/idr/repos/curated/amira:/data -v /uod/idr-scratch/merge-ci/curated/amira:/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] 06:19:24,262 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 06:19:24,263 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - No custom configurators were discovered as a service. [testng] 06:19:24,263 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:19:24,264 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 06:19:24,264 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 06:19:24,265 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 06:19:24,265 |-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] 06:19:24,265 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:19:24,265 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 06:19:24,266 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 06:19:24,266 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 06:19:24,266 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 06:19:24,421 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 06:19:24,421 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 06:19:24,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 06:19:24,442 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 06:19:24,447 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 06:19:24,447 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 06:19:24,447 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 06:19:24,448 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 06:19:24,448 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@65c7a252 - End of configuration. [testng] 06:19:24,449 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@38cee291 - Registering current configuration as safe fallback point [testng] 06:19:24,449 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4d910fd6 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 184 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-08 06:19:24,457] [main] java.version = 11.0.16 [testng] 06:19:24,459 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 06:19:24,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:19:24,499 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-08_06-19-24.log] [testng] 06:19:24,501 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13d73f29 - End of configuration. [testng] [2025-03-08 06:19:24,503] [main] testng.directory = /data [testng] [2025-03-08 06:19:24,503] [main] testng.configDirectory = /config [testng] [2025-03-08 06:19:24,512] [main] testng.multiplier = 1.0 [testng] [2025-03-08 06:19:24,513] [main] testng.in-memory = false [testng] [2025-03-08 06:19:24,513] [main] testng.allow-missing = false [testng] [2025-03-08 06:19:24,513] [main] user.language = en [testng] [2025-03-08 06:19:24,513] [main] user.country = ${user.country} [testng] [2025-03-08 06:19:24,513] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-08 06:27:47,067] [main] ---------------------------------------- [testng] [2025-03-08 06:27:47,068] [main] Total files: 15 [testng] [2025-03-08 06:27:47,068] [main] Scan time: 502.554 s (33503 ms/file) [testng] [2025-03-08 06:27:47,068] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 12 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-08 06:47:21,939] [pool-1-thread-1] Initializing /data/johannes/template.labels: [testng] 06:47:21,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 06:47:21,940 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:47:21,942 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-08_06-47-21.log] [testng] 06:47:21,942 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b4a978d - End of configuration. [testng] [2025-03-08 06:48:23,200] [pool-1-thread-12] Initializing /data/samples/emptykey/test.am: [testng] 06:48:23,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 06:48:23,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:48:23,201 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-08_06-48-23.log] [testng] 06:48:23,201 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a62ceef - End of configuration. [testng] [2025-03-08 06:49:09,878] [pool-1-thread-11] Initializing /data/johannes/template.grey: [testng] 06:49:09,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 06:49:09,878 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:49:09,879 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-08_06-49-09.log] [testng] 06:49:09,879 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c793665 - End of configuration. [testng] [2025-03-08 06:49:55,393] [pool-1-thread-10] Initializing /data/ilya/test.am: [testng] 06:49:55,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 06:49:55,393 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:49:55,393 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-08_06-49-55.log] [testng] 06:49:55,394 |-INFO in ch.qos.logback.core.sift.SiftProcessor@123a601f - End of configuration. [testng] [2025-03-08 06:50:54,924] [pool-1-thread-9] Initializing /data/public/ignacio/test.am: [testng] 06:50:54,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 06:50:54,925 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:50:54,925 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-08_06-50-54.log] [testng] 06:50:54,926 |-INFO in ch.qos.logback.core.sift.SiftProcessor@500947e1 - End of configuration. [testng] [2025-03-08 06:52:00,758] [pool-1-thread-8] Initializing /data/public/imagesc-50585/BF_Check.tif: [testng] 06:52:00,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 06:52:00,758 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:52:00,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-08_06-52-00.log] [testng] 06:52:00,759 |-INFO in ch.qos.logback.core.sift.SiftProcessor@581dc0fc - End of configuration. [testng] [2025-03-08 06:54:20,032] [pool-1-thread-7] Initializing /data/public/imagesc-50585/BF_CheckAmira.am: [testng] 06:54:20,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 06:54:20,033 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:54:20,033 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-08_06-54-20.log] [testng] 06:54:20,034 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52e94a03 - End of configuration. [testng] [2025-03-08 06:54:56,854] [pool-1-thread-6] Initializing /data/jeremy/Hiv_spikes.am: [testng] 06:54:56,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 06:54:56,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:54:56,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-08_06-54-56.log] [testng] 06:54:56,856 |-INFO in ch.qos.logback.core.sift.SiftProcessor@46b9a8cf - End of configuration. [testng] [2025-03-08 06:55:54,414] [pool-1-thread-5] Initializing /data/jeremy/Virus_Membrane7.am: [testng] 06:55:54,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 06:55:54,414 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:55:54,415 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-08_06-55-54.log] [testng] 06:55:54,415 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77294ace - End of configuration. [testng] [2025-03-08 06:56:53,523] [pool-1-thread-4] Initializing /data/jeremy/Virus_Membrane7-screenshot.PNG: [testng] 06:56:53,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 06:56:53,524 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:56:53,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-08_06-56-53.log] [testng] 06:56:53,525 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73eeeee3 - End of configuration. [testng] [2025-03-08 06:56:57,803] [pool-1-thread-3] Initializing /data/jcb/201108088/Haberman-Fig4A-original.am: [testng] 06:56:57,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 06:56:57,803 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:56:57,804 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-08_06-56-57.log] [testng] 06:56:57,804 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ca6ae30 - End of configuration. [testng] [2025-03-08 06:58:01,871] [pool-1-thread-2] Initializing /data/public/imagesc-50585/BF_CheckMIB.am: [testng] 06:58:01,872 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 06:58:01,872 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 06:58:01,872 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-08_06-58-01.log] [testng] 06:58:01,873 |-INFO in ch.qos.logback.core.sift.SiftProcessor@232506f8 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 636, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 51 minutes 52 seconds Finished: SUCCESS