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Started by upstream project "BIOFORMATS-test-repo" build number 131 originally caused by: Started by upstream project "Trigger" build number 148 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/jenkins17263097801912761419.sh + '[' ultraview = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_20564_merge_ci -v /uod/idr/repos/curated/ultraview:/data -v /uod/idr-scratch/merge-ci/curated/ultraview:/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] 02:02:26,995 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:02:26,997 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:02:26,997 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:02:26,998 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:02:26,999 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:02:27,000 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:02:27,000 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:02:27,000 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:02:27,001 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:02:27,002 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:02:27,003 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:02:27,003 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:02:27,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:02:27,226 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:02:27,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:02:27,255 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:02:27,262 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:02:27,262 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:02:27,262 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:02:27,263 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:02:27,263 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:02:27,264 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:02:27,264 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 263 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-24 02:02:27,275] [main] java.version = 17.0.2 [testng] 02:02:27,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:02:27,280 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:27,326 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-24_02-02-27.log] [testng] 02:02:27,328 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-24 02:02:27,332] [main] testng.directory = /data [testng] [2024-07-24 02:02:27,332] [main] testng.configDirectory = /config [testng] [2024-07-24 02:02:27,349] [main] testng.multiplier = 1.0 [testng] [2024-07-24 02:02:27,350] [main] testng.in-memory = false [testng] [2024-07-24 02:02:27,350] [main] testng.allow-missing = false [testng] [2024-07-24 02:02:27,350] [main] user.language = en [testng] [2024-07-24 02:02:27,351] [main] user.country = ${user.country} [testng] [2024-07-24 02:02:27,351] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-24 02:02:31,980] [main] ---------------------------------------- [testng] [2024-07-24 02:02:31,980] [main] Total files: 19 [testng] [2024-07-24 02:02:31,981] [main] Scan time: 4.629 s (243 ms/file) [testng] [2024-07-24 02:02:31,981] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-24 02:02:34,072] [pool-1-thread-1] Initializing /data/kate/GreenOnlyNoZnoT/GreenOnlyNoZnoT.htm: [testng] 02:02:34,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:02:34,073 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,074 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-24_02-02-34.log] [testng] 02:02:34,075 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a25a91b - End of configuration. [testng] [2024-07-24 02:02:34,107] [pool-1-thread-12] Initializing /data/todd/movement-1.htm: [testng] 02:02:34,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:02:34,107 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,112 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-24_02-02-34.log] [testng] 02:02:34,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59d487fe - End of configuration. [testng] [2024-07-24 02:02:34,189] [pool-1-thread-11] Initializing /data/chad/20080107130850/IREN200820080107130850.HTM: [testng] 02:02:34,190 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:02:34,190 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-24_02-02-34.log] [testng] 02:02:34,192 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765013f - End of configuration. [testng] [2024-07-24 02:02:34,241] [pool-1-thread-10] Initializing /data/chad/UltraViewExamples/DIC_200820080724115245/CHAD200820080724115245.HTM: [testng] 02:02:34,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:02:34,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-24_02-02-34.log] [testng] 02:02:34,244 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5cb7ab37 - End of configuration. [testng] [2024-07-24 02:02:34,270] [pool-1-thread-9] Initializing /data/chad/DIC_IREN200820080107120042/IREN200820080107120042.HTM: [testng] 02:02:34,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:02:34,270 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,271 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-24_02-02-34.log] [testng] 02:02:34,272 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72d5b82e - End of configuration. [testng] [2024-07-24 02:02:34,289] [pool-1-thread-8] Initializing /data/chad/UltraViewSamples/series 3/RAJE200820080619090142.HTM: [testng] 02:02:34,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:02:34,289 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,290 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-24_02-02-34.log] [testng] 02:02:34,291 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23bdc043 - End of configuration. [testng] [2024-07-24 02:02:34,313] [pool-1-thread-7] Initializing /data/chad/DIC/EZRA200820080626102637.HTM: [testng] 02:02:34,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:02:34,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,316 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-24_02-02-34.log] [testng] 02:02:34,316 |-INFO in ch.qos.logback.core.sift.SiftProcessor@44478d5b - End of configuration. [testng] [2024-07-24 02:02:34,340] [pool-1-thread-6] Initializing /data/kate/GreenRed6ZnoT/GreenRed5ZNoT.htm: [testng] 02:02:34,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:02:34,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,343 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-24_02-02-34.log] [testng] 02:02:34,344 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4208c2b6 - End of configuration. [testng] [2024-07-24 02:02:34,370] [pool-1-thread-5] Initializing /data/chad/UltraViewExample/works/CHAD200920090331181355.HTM: [testng] 02:02:34,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:02:34,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,372 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-24_02-02-34.log] [testng] 02:02:34,372 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2e17e546 - End of configuration. [testng] [2024-07-24 02:02:34,400] [pool-1-thread-4] Initializing /data/helio/2 copy Cnn g-tubGFP 111221#20/2 copy Cnn g-tubGFP 111221#20.htm: [testng] 02:02:34,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:02:34,401 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,403 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-24_02-02-34.log] [testng] 02:02:34,404 |-INFO in ch.qos.logback.core.sift.SiftProcessor@322e28f9 - End of configuration. [testng] [2024-07-24 02:02:34,434] [pool-1-thread-3] Initializing /data/kate/Neutrophils#18/tiffs/Neutrophils#18.htm: [testng] 02:02:34,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:02:34,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,435 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-24_02-02-34.log] [testng] 02:02:34,436 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b058591 - End of configuration. [testng] [2024-07-24 02:02:34,492] [pool-1-thread-2] Initializing /data/kate/Neutrophils#18/Neutrophils#18.htm: [testng] 02:02:34,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:02:34,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,494 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-24_02-02-34.log] [testng] 02:02:34,495 |-INFO in ch.qos.logback.core.sift.SiftProcessor@93c487d - End of configuration. [testng] [2024-07-24 02:02:37,620] [pool-1-thread-7] Initializing /data/chad/UltraViewExamples/Bug/CHAD200820080724120123.HTM: [testng] [2024-07-24 02:02:37,661] [pool-1-thread-12] Initializing /data/kate/GreenRed6Z3T/GreenRed5Z5T.htm: [testng] [2024-07-24 02:02:37,687] [pool-1-thread-9] Initializing /data/kate/GreenRedNoZ3T/GreenRedNoZ5T.htm: [testng] [2024-07-24 02:02:37,712] [pool-1-thread-1] Initializing /data/chad/UltraViewExample/doesNot/CHAD200920090331181253.HTM: [testng] [2024-07-24 02:02:37,743] [pool-1-thread-10] Initializing /data/chad/UltraViewExamples/Works/CHAD200820080724121453.HTM: [testng] [2024-07-24 02:02:39,573] [pool-1-thread-6] Initializing /data/kate/GreenRedNoZnoT/GreenRedNoZNoT.htm: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 1 second Finished: SUCCESS