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Started by upstream project "BIOFORMATS-test-repo" build number 65 originally caused by: Started by upstream project "Trigger" build number 72 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/jenkins1271618739624220366.sh + '[' minc = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_9721_merge_ci -v /uod/idr/repos/curated/minc:/data -v /uod/idr-scratch/merge-ci/curated/minc:/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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 01:44:20,486 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:44:20,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - No custom configurators were discovered as a service. [testng] 01:44:20,488 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:44:20,489 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:44:20,489 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:44:20,489 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:44:20,490 |-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] 01:44:20,490 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:44:20,490 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:44:20,491 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:44:20,491 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:44:20,491 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:44:20,656 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:44:20,657 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:44:20,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:44:20,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:44:20,691 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:44:20,691 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:44:20,691 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:44:20,691 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:44:20,692 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@d9345cd - End of configuration. [testng] 01:44:20,692 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@48aca48b - Registering current configuration as safe fallback point [testng] 01:44:20,692 |-INFO in ch.qos.logback.classic.util.ContextInitializer@46fa7c39 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 202 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-16 01:44:20,701] [main] java.version = 21 [testng] 01:44:20,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:44:20,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:20,746 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-16_01-44-20.log] [testng] 01:44:20,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71687585 - End of configuration. [testng] [2024-05-16 01:44:20,760] [main] testng.directory = /data [testng] [2024-05-16 01:44:20,760] [main] testng.configDirectory = /config [testng] [2024-05-16 01:44:20,769] [main] testng.multiplier = 1.0 [testng] [2024-05-16 01:44:20,769] [main] testng.in-memory = false [testng] [2024-05-16 01:44:20,769] [main] testng.allow-missing = false [testng] [2024-05-16 01:44:20,769] [main] user.language = en [testng] [2024-05-16 01:44:20,770] [main] user.country = ${user.country} [testng] [2024-05-16 01:44:20,770] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-05-16 01:44:21,132] [main] ---------------------------------------- [testng] [2024-05-16 01:44:21,132] [main] Total files: 15 [testng] [2024-05-16 01:44:21,132] [main] Scan time: 0.362 s (24 ms/file) [testng] [2024-05-16 01:44:21,133] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-16 01:44:29,306] [pool-1-thread-1] Initializing /data/samples/ICBM/icbm_template_3.00mm.mnc: [testng] 01:44:29,306 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:44:29,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:29,308 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-16_01-44-29.log] [testng] 01:44:29,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ede6c59 - End of configuration. [testng] [2024-05-16 01:44:29,331] [pool-1-thread-12] Initializing /data/samples/ICBM/icbm_template_6.00mm.mnc: [testng] 01:44:29,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:44:29,332 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:29,333 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-16_01-44-29.log] [testng] 01:44:29,334 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a47dd50 - End of configuration. [testng] [2024-05-16 01:44:29,355] [pool-1-thread-11] Initializing /data/bigbrain/pm6479o.mnc: [testng] 01:44:29,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:44:29,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:29,356 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-16_01-44-29.log] [testng] 01:44:29,357 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dff50d4 - End of configuration. [testng] [2024-05-16 01:44:29,898] [pool-1-thread-10] Initializing /data/samples/N3/average_305_mask_1mm.mnc: [testng] 01:44:29,899 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:44:29,899 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:29,899 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-16_01-44-29.log] [testng] 01:44:29,900 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c3651a5 - End of configuration. [testng] [2024-05-16 01:44:29,938] [pool-1-thread-9] Initializing /data/qa-17215/IBSR01.mnc: [testng] 01:44:29,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:44:29,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:29,940 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-16_01-44-29.log] [testng] 01:44:29,940 |-INFO in ch.qos.logback.core.sift.SiftProcessor@79987026 - End of configuration. [testng] [2024-05-16 01:44:30,044] [pool-1-thread-8] Initializing /data/samples/ICBM/icbm_template_2.00mm.mnc: [testng] 01:44:30,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:44:30,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:30,045 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-16_01-44-30.log] [testng] 01:44:30,046 |-INFO in ch.qos.logback.core.sift.SiftProcessor@520ad7ea - End of configuration. [testng] [2024-05-16 01:44:30,069] [pool-1-thread-7] Initializing /data/bigbrain/full16_400um_2009b_sym.mnc: [testng] 01:44:30,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:44:30,069 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:30,070 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-16_01-44-30.log] [testng] 01:44:30,071 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5793ebe5 - End of configuration. [testng] [2024-05-16 01:44:32,203] [pool-1-thread-6] Initializing /data/samples/ICBM/icbm_template_one.00mm.mnc: [testng] 01:44:32,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:44:32,204 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:32,205 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-16_01-44-32.log] [testng] 01:44:32,205 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21db6e1d - End of configuration. [testng] [2024-05-16 01:44:32,239] [pool-1-thread-5] Initializing /data/samples/ICBM/icbm_template_zero.50mm.mnc: [testng] 01:44:32,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:44:32,240 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:32,240 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-16_01-44-32.log] [testng] 01:44:32,241 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d6f31de - End of configuration. [testng] [2024-05-16 01:44:32,341] [pool-1-thread-4] Initializing /data/samples/ICBM/icbm_template_4.00mm.mnc: [testng] 01:44:32,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:44:32,342 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:32,343 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-16_01-44-32.log] [testng] 01:44:32,343 |-INFO in ch.qos.logback.core.sift.SiftProcessor@488940c - End of configuration. [testng] [2024-05-16 01:44:32,357] [pool-1-thread-3] Initializing /data/samples/ICBM/icbm_atlas_cerebellum_avg_53_mask_1mm.mnc: [testng] 01:44:32,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:44:32,357 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:32,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-16_01-44-32.log] [testng] 01:44:32,358 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8752ccd - End of configuration. [testng] [2024-05-16 01:44:32,397] [pool-1-thread-2] Initializing /data/samples/ICBM/icbm_template_zero.75mm.mnc: [testng] 01:44:32,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:44:32,397 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:44:32,398 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-16_01-44-32.log] [testng] 01:44:32,398 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10368886 - End of configuration. BUILD SUCCESSFUL Total time: 29 seconds Finished: SUCCESS