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Started by upstream project "BIOFORMATS-test-repo" build number 1 originally caused by: Started by upstream project "Trigger" build number 1 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins12461835508127621287.sh + '[' cellomics = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_106_merge_ci -v /uod/idr/repos/curated/cellomics:/data -v /uod/idr-scratch/devspace/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 16:59:34,723 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 16:59:34,725 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 16:59:34,725 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:59:34,727 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 16:59:34,728 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 16:59:34,728 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 16:59:34,728 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 16:59:34,728 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:59:34,729 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 16:59:34,730 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 16:59:34,730 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 16:59:34,730 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 16:59:34,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 16:59:34,927 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 16:59:34,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 16:59:34,956 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 16:59:34,964 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 16:59:34,964 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 16:59:34,964 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 16:59:34,964 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 16:59:34,965 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 16:59:34,965 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 16:59:34,966 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 237 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-14 16:59:34,976] [main] java.version = 21 [testng] 16:59:34,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 16:59:34,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 16:59:35,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-14_16-59-34.log] [testng] 16:59:35,029 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-03-14 16:59:35,031] [main] testng.directory = /data [testng] [2024-03-14 16:59:35,032] [main] testng.configDirectory = /config [testng] [2024-03-14 16:59:35,042] [main] testng.multiplier = 1.0 [testng] [2024-03-14 16:59:35,043] [main] testng.in-memory = false [testng] [2024-03-14 16:59:35,043] [main] testng.allow-missing = false [testng] [2024-03-14 16:59:35,043] [main] user.language = en [testng] [2024-03-14 16:59:35,043] [main] user.country = ${user.country} [testng] [2024-03-14 16:59:35,043] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-14 16:59:56,001] [main] ---------------------------------------- [testng] [2024-03-14 16:59:56,002] [main] Total files: 2539 [testng] [2024-03-14 16:59:56,002] [main] Scan time: 20.958 s (8 ms/file) [testng] [2024-03-14 16:59:56,002] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 17 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-14 17:00:10,499] [pool-1-thread-1] Initializing /data/johannes/MFGTMP_081128200001_A02f239d1.C01: [testng] 17:00:10,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 17:00:10,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:10,502 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-14_17-00-10.log] [testng] 17:00:10,502 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f5f485 - End of configuration. [testng] [2024-03-14 17:00:10,779] [pool-1-thread-12] Initializing /data/samples/sparse-plate/plate_E03f00d0.C01: [testng] 17:00:10,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 17:00:10,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:10,781 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-14_17-00-10.log] [testng] 17:00:10,781 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1eaed20 - End of configuration. [testng] [2024-03-14 17:00:11,082] [pool-1-thread-11] Initializing /data/samples/plate-size/plate_B03f00d0.C01: [testng] 17:00:11,082 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 17:00:11,083 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:11,084 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-14_17-00-11.log] [testng] 17:00:11,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1989ef7c - End of configuration. [testng] [2024-03-14 17:00:11,323] [pool-1-thread-10] Initializing /data/omar/FB03f00o2.C01: [testng] 17:00:11,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 17:00:11,323 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:11,325 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-14_17-00-11.log] [testng] 17:00:11,325 |-INFO in ch.qos.logback.core.sift.SiftProcessor@709556e1 - End of configuration. [testng] [2024-03-14 17:00:11,570] [pool-1-thread-9] Initializing /data/johannes/MFGTMP_081222130005_E07f00d0.C01: [testng] 17:00:11,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 17:00:11,570 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:11,571 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-14_17-00-11.log] [testng] 17:00:11,572 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2790bfe7 - End of configuration. [testng] [2024-03-14 17:00:11,796] [pool-1-thread-8] Initializing /data/omar/FB03f00d1.C01: [testng] 17:00:11,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 17:00:11,796 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:11,797 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-14_17-00-11.log] [testng] 17:00:11,798 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3e54d4a2 - End of configuration. [testng] [2024-03-14 17:00:12,060] [pool-1-thread-7] Initializing /data/lee/icd002235_090127090001_a01f00d1.c01: [testng] 17:00:12,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 17:00:12,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:12,062 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-14_17-00-12.log] [testng] 17:00:12,062 |-INFO in ch.qos.logback.core.sift.SiftProcessor@303ad8a6 - End of configuration. [testng] [2024-03-14 17:00:12,349] [pool-1-thread-6] Initializing /data/samples/different-field-count/plate_B03f00d0.C01: [testng] 17:00:12,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 17:00:12,350 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:12,351 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-14_17-00-12.log] [testng] 17:00:12,351 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2355373 - End of configuration. [testng] [2024-03-14 17:00:12,682] [pool-1-thread-5] Initializing /data/qa-21720/AS_09125_050117190001_A14f00d0.DIB: [testng] 17:00:12,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 17:00:12,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:12,684 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-14_17-00-12.log] [testng] 17:00:12,684 |-INFO in ch.qos.logback.core.sift.SiftProcessor@562447f0 - End of configuration. [testng] [2024-03-14 17:00:12,951] [pool-1-thread-4] Initializing /data/lee/AS_09125_050116030001_D03f00d0.DIB: [testng] 17:00:12,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 17:00:12,951 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:12,952 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-14_17-00-12.log] [testng] 17:00:12,953 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b2cb0c6 - End of configuration. [testng] [2024-03-14 17:00:13,191] [pool-1-thread-3] Initializing /data/public/BBBC001/AS_09125_050118150001_A03f00d0.DIB: [testng] 17:00:13,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 17:00:13,192 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:13,193 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-14_17-00-13.log] [testng] 17:00:13,193 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6e1d3580 - End of configuration. [testng] [2024-03-14 17:00:13,460] [pool-1-thread-2] Initializing /data/omar/FB03f00o1.C01: [testng] 17:00:13,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 17:00:13,460 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 17:00:13,462 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-14_17-00-13.log] [testng] 17:00:13,462 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d6d4151 - End of configuration. [testng] [2024-03-14 17:00:16,573] [pool-1-thread-4] Initializing /data/harri/MFGTMP-PC_111018140003/MFGTMP-PC_111018140003_E04f00d0.C01: [testng] [2024-03-14 17:00:18,189] [pool-1-thread-10] Initializing /data/omar/FB03f03o2.DIB: [testng] [2024-03-14 17:00:18,484] [pool-1-thread-2] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00o1.C01: [testng] [2024-03-14 17:00:18,818] [pool-1-thread-9] Initializing /data/qa-7352/test/MFGTMP-PC_130509120002_B02f00d0.C01: [testng] [2024-03-14 17:00:19,251] [pool-1-thread-7] Initializing /data/omar/FB03f00d0.C01: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 901, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 14 minutes 3 seconds Finished: SUCCESS