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Started by upstream project "BIOFORMATS-test-repo" build number 366 originally caused by: Started by upstream project "Trigger" build number 392 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins9452105968167922548.sh + '[' cellomics = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_58397_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 03:13:00,413 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 03:13:00,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 03:13:00,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:13:00,415 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:13:00,416 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:13:00,416 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:13:00,417 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:13:00,417 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:13:00,417 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:13:00,418 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:13:00,418 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:13:00,419 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:13:00,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:13:00,584 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:13:00,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:13:00,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:13:00,613 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:13:00,613 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:13:00,613 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:13:00,614 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:13:00,614 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 03:13:00,615 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 03:13:00,615 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-06 03:13:00,623] [main] java.version = 21 [testng] 03:13:00,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:13:00,626 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:13:00,668 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-06_03-13-00.log] [testng] 03:13:00,669 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-06 03:13:00,671] [main] testng.directory = /data [testng] [2025-03-06 03:13:00,671] [main] testng.configDirectory = /config [testng] [2025-03-06 03:13:00,679] [main] testng.multiplier = 1.0 [testng] [2025-03-06 03:13:00,680] [main] testng.in-memory = false [testng] [2025-03-06 03:13:00,680] [main] testng.allow-missing = false [testng] [2025-03-06 03:13:00,680] [main] user.language = en [testng] [2025-03-06 03:13:00,680] [main] user.country = ${user.country} [testng] [2025-03-06 03:13:00,680] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-06 03:13:53,415] [main] ---------------------------------------- [testng] [2025-03-06 03:13:53,415] [main] Total files: 2539 [testng] [2025-03-06 03:13:53,415] [main] Scan time: 52.735 s (20 ms/file) [testng] [2025-03-06 03:13:53,416] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-06 03:14:53,153] [pool-1-thread-1] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01: [testng] 03:14:53,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:14:53,154 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:14:53,155 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-06_03-14-53.log] [testng] 03:14:53,156 |-INFO in ch.qos.logback.core.sift.SiftProcessor@299d1692 - End of configuration. [testng] [2025-03-06 03:14:54,151] [pool-1-thread-12] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01: [testng] 03:14:54,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:14:54,151 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:14:54,152 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-06_03-14-54.log] [testng] 03:14:54,152 |-INFO in ch.qos.logback.core.sift.SiftProcessor@764c4dc4 - End of configuration. [testng] [2025-03-06 03:14:55,252] [pool-1-thread-11] Initializing /data/samples/plate-size/plate_B03f00d0.C01: [testng] 03:14:55,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:14:55,253 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:14:55,253 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-06_03-14-55.log] [testng] 03:14:55,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79cd3161 - End of configuration. [testng] [2025-03-06 03:14:56,357] [pool-1-thread-10] Initializing /data/omar/FB03f00o2.C01: [testng] 03:14:56,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:14:56,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:14:56,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-06_03-14-56.log] [testng] 03:14:56,358 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fb9b4eb - End of configuration. [testng] [2025-03-06 03:14:57,490] [pool-1-thread-9] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01: [testng] 03:14:57,490 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:14:57,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:14:57,491 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-06_03-14-57.log] [testng] 03:14:57,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@696201b5 - End of configuration. [testng] [2025-03-06 03:14:58,468] [pool-1-thread-8] Initializing /data/omar/FB03f00d1.C01: [testng] 03:14:58,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:14:58,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:14:58,469 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-06_03-14-58.log] [testng] 03:14:58,470 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12ff2bdf - End of configuration. [testng] [2025-03-06 03:14:59,567] [pool-1-thread-7] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01: [testng] 03:14:59,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:14:59,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:14:59,567 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-06_03-14-59.log] [testng] 03:14:59,568 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7cc554bb - End of configuration. [testng] [2025-03-06 03:15:00,480] [pool-1-thread-6] Initializing /data/samples/different-field-count/plate_B03f00d0.C01: [testng] 03:15:00,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:15:00,480 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:15:00,481 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-06_03-15-00.log] [testng] 03:15:00,481 |-INFO in ch.qos.logback.core.sift.SiftProcessor@363263f1 - End of configuration. [testng] [2025-03-06 03:15:01,400] [pool-1-thread-5] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB: [testng] 03:15:01,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:15:01,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:15:01,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-06_03-15-01.log] [testng] 03:15:01,401 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7772c0c7 - End of configuration. [testng] [2025-03-06 03:15:02,240] [pool-1-thread-4] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB: [testng] 03:15:02,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:15:02,241 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:15:02,241 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-06_03-15-02.log] [testng] 03:15:02,242 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a6957cd - End of configuration. [testng] [2025-03-06 03:15:03,212] [pool-1-thread-3] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB: [testng] 03:15:03,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:15:03,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:15:03,213 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-06_03-15-03.log] [testng] 03:15:03,213 |-INFO in ch.qos.logback.core.sift.SiftProcessor@182cb748 - End of configuration. [testng] [2025-03-06 03:15:04,143] [pool-1-thread-2] Initializing /data/omar/FB03f00o1.C01: [testng] 03:15:04,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:15:04,144 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:15:04,144 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-06_03-15-04.log] [testng] 03:15:04,145 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7df068b9 - End of configuration. [testng] [2025-03-06 03:15:13,547] [pool-1-thread-4] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01: [testng] [2025-03-06 03:15:19,594] [pool-1-thread-9] Initializing /data/omar/FB03f03o2.DIB: [testng] [2025-03-06 03:15:20,233] [pool-1-thread-7] Initializing /data/omar/FB03f00d0.C01: [testng] [2025-03-06 03:15:20,916] [pool-1-thread-1] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01: [testng] [2025-03-06 03:15:21,769] [pool-1-thread-2] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 901, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 59 minutes 50 seconds Finished: SUCCESS