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Started by upstream project "BIOFORMATS-test-repo" build number 299 originally caused by: Started by upstream project "Trigger" build number 321 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/jenkins411140814502730971.sh + '[' cellomics = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47337_merge_ci -v /uod/idr/repos/curated/cellomics:/data -v /uod/idr-scratch/merge-ci/curated/cellomics:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 03:51:02,325 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:51:02,326 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 03:51:02,326 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:51:02,327 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:51:02,327 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:51:02,328 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:51:02,328 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:51:02,328 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:51:02,328 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:51:02,329 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:51:02,329 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:51:02,329 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:51:02,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:51:02,479 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:51:02,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:51:02,503 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:51:02,509 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:51:02,510 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:51:02,510 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:51:02,510 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:51:02,510 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 03:51:02,511 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 03:51:02,511 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 183 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-26 03:51:02,520] [main] java.version = 21 [testng] 03:51:02,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:51:02,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:02,562 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-26_03-51-02.log] [testng] 03:51:02,563 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2024-12-26 03:51:02,564] [main] testng.directory = /data [testng] [2024-12-26 03:51:02,565] [main] testng.configDirectory = /config [testng] [2024-12-26 03:51:02,573] [main] testng.multiplier = 1.0 [testng] [2024-12-26 03:51:02,573] [main] testng.in-memory = false [testng] [2024-12-26 03:51:02,573] [main] testng.allow-missing = false [testng] [2024-12-26 03:51:02,573] [main] user.language = en [testng] [2024-12-26 03:51:02,573] [main] user.country = ${user.country} [testng] [2024-12-26 03:51:02,574] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-26 03:51:32,833] [main] ---------------------------------------- [testng] [2024-12-26 03:51:32,833] [main] Total files: 2539 [testng] [2024-12-26 03:51:32,833] [main] Scan time: 30.259 s (11 ms/file) [testng] [2024-12-26 03:51:32,833] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-26 03:51:59,536] [pool-1-thread-1] Initializing /data/omar/FB03f00d1.C01: [testng] 03:51:59,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:51:59,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:59,538 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-26_03-51-59.log] [testng] 03:51:59,538 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15229ddd - End of configuration. [testng] [2024-12-26 03:51:59,924] [pool-1-thread-12] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01: [testng] 03:51:59,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:51:59,924 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:51:59,925 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-26_03-51-59.log] [testng] 03:51:59,926 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58f75cd7 - End of configuration. [testng] [2024-12-26 03:52:00,389] [pool-1-thread-11] Initializing /data/omar/FB03f00o1.C01: [testng] 03:52:00,389 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:52:00,390 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:00,390 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-26_03-52-00.log] [testng] 03:52:00,391 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34492fa9 - End of configuration. [testng] [2024-12-26 03:52:00,753] [pool-1-thread-10] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01: [testng] 03:52:00,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:52:00,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:00,754 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-26_03-52-00.log] [testng] 03:52:00,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cd55691 - End of configuration. [testng] [2024-12-26 03:52:01,103] [pool-1-thread-9] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01: [testng] 03:52:01,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:52:01,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:01,104 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-26_03-52-01.log] [testng] 03:52:01,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@125b4a2a - End of configuration. [testng] [2024-12-26 03:52:01,539] [pool-1-thread-8] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB: [testng] 03:52:01,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:52:01,539 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:01,540 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-26_03-52-01.log] [testng] 03:52:01,540 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51ae88a8 - End of configuration. [testng] [2024-12-26 03:52:01,870] [pool-1-thread-7] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB: [testng] 03:52:01,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:52:01,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:01,871 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-26_03-52-01.log] [testng] 03:52:01,872 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75a6c039 - End of configuration. [testng] [2024-12-26 03:52:02,191] [pool-1-thread-6] Initializing /data/omar/FB03f03o2.DIB: [testng] 03:52:02,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:52:02,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:02,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-26_03-52-02.log] [testng] 03:52:02,192 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b0f2a78 - End of configuration. [testng] [2024-12-26 03:52:02,534] [pool-1-thread-5] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01: [testng] 03:52:02,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:52:02,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:02,536 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-26_03-52-02.log] [testng] 03:52:02,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43459c43 - End of configuration. [testng] [2024-12-26 03:52:02,885] [pool-1-thread-4] Initializing /data/omar/FB03f00o2.C01: [testng] 03:52:02,885 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:52:02,885 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:02,885 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-26_03-52-02.log] [testng] 03:52:02,886 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59d487fe - End of configuration. [testng] [2024-12-26 03:52:03,237] [pool-1-thread-3] Initializing /data/samples/plate-size/plate_B03f00d0.C01: [testng] 03:52:03,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:52:03,238 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:03,238 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-26_03-52-03.log] [testng] 03:52:03,238 |-INFO in ch.qos.logback.core.sift.SiftProcessor@765013f - End of configuration. [testng] [2024-12-26 03:52:03,761] [pool-1-thread-2] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01: [testng] 03:52:03,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:52:03,761 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:52:03,762 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-26_03-52-03.log] [testng] 03:52:03,762 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5cb7ab37 - End of configuration. [testng] [2024-12-26 03:52:08,434] [pool-1-thread-7] Initializing /data/omar/FB03f00d0.C01: [testng] [2024-12-26 03:52:08,984] [pool-1-thread-6] Initializing /data/samples/different-field-count/plate_B03f00d0.C01: [testng] [2024-12-26 03:52:12,178] [pool-1-thread-10] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01: [testng] [2024-12-26 03:52:12,636] [pool-1-thread-9] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01: [testng] [2024-12-26 03:52:13,194] [pool-1-thread-1] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 901, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 38 minutes 31 seconds Finished: SUCCESS