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Started by upstream project "BIOFORMATS-test-repo" build number 6 originally caused by: Started by upstream project "Trigger" build number 9 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins2043695601936686049.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_907_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 10:55:53,026 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 10:55:53,027 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 10:55:53,027 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:55:53,028 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:55:53,028 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 10:55:53,028 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 10:55:53,029 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 10:55:53,029 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:55:53,029 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:55:53,030 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 10:55:53,030 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 10:55:53,030 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 10:55:53,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 10:55:53,190 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 10:55:53,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 10:55:53,212 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 10:55:53,221 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 10:55:53,221 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 10:55:53,222 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 10:55:53,222 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 10:55:53,222 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 10:55:53,223 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 10:55:53,223 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-20 10:55:53,231] [main] java.version = 17.0.2 [testng] 10:55:53,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:55:53,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:55:53,273 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-20_10-55-53.log] [testng] 10:55:53,274 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-03-20 10:55:53,276] [main] testng.directory = /data [testng] [2024-03-20 10:55:53,276] [main] testng.configDirectory = /config [testng] [2024-03-20 10:55:53,285] [main] testng.multiplier = 1.0 [testng] [2024-03-20 10:55:53,285] [main] testng.in-memory = false [testng] [2024-03-20 10:55:53,286] [main] testng.allow-missing = false [testng] [2024-03-20 10:55:53,286] [main] user.language = en [testng] [2024-03-20 10:55:53,286] [main] user.country = ${user.country} [testng] [2024-03-20 10:55:53,286] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-20 10:56:12,568] [main] ---------------------------------------- [testng] [2024-03-20 10:56:12,568] [main] Total files: 67 [testng] [2024-03-20 10:56:12,568] [main] Scan time: 19.282 s (287 ms/file) [testng] [2024-03-20 10:56:12,568] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-20 10:56:48,913] [pool-1-thread-1] Initializing /data/generated/mri-stack-original.ims: [testng] 10:56:48,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 10:56:48,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:48,915 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-20_10-56-48.log] [testng] 10:56:48,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3bb52dd - End of configuration. [testng] [2024-03-20 10:56:49,013] [pool-1-thread-12] Initializing /data/jason/imaris_5_5_demoimages/HeLaCell.ims: [testng] 10:56:49,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 10:56:49,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:49,015 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-20_10-56-49.log] [testng] 10:56:49,015 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40c718fc - End of configuration. [testng] [2024-03-20 10:56:49,243] [pool-1-thread-11] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims: [testng] 10:56:49,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 10:56:49,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:49,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-20_10-56-49.log] [testng] 10:56:49,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@538ffda - End of configuration. [testng] [2024-03-20 10:56:49,461] [pool-1-thread-10] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal.ims: [testng] 10:56:49,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 10:56:49,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:49,462 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-20_10-56-49.log] [testng] 10:56:49,463 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d6977e7 - End of configuration. [testng] [2024-03-20 10:56:49,700] [pool-1-thread-9] Initializing /data/jason/imaris_5_5_demoimages/R18Demo.ims: [testng] 10:56:49,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 10:56:49,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:49,701 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-20_10-56-49.log] [testng] 10:56:49,702 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16c40cec - End of configuration. [testng] [2024-03-20 10:56:49,919] [pool-1-thread-8] Initializing /data/public/davemason/TransFactors_2C_SRRF.ims: [testng] 10:56:49,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 10:56:49,919 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:49,920 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-20_10-56-49.log] [testng] 10:56:49,920 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52d900e3 - End of configuration. [testng] [2024-03-20 10:56:50,161] [pool-1-thread-7] Initializing /data/generated/10-31_E_t0013.ims: [testng] 10:56:50,161 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 10:56:50,161 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:50,162 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-20_10-56-50.log] [testng] 10:56:50,162 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20c43d65 - End of configuration. [testng] [2024-03-20 10:56:53,704] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0000.ims: [testng] 10:56:53,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 10:56:53,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:53,705 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-20_10-56-53.log] [testng] 10:56:53,705 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1643f997 - End of configuration. [testng] [2024-03-20 10:56:53,775] [pool-1-thread-5] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal_IMS3.ims: [testng] 10:56:53,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 10:56:53,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:53,776 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-20_10-56-53.log] [testng] 10:56:53,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@454f1806 - End of configuration. [testng] [2024-03-20 10:56:53,986] [pool-1-thread-4] Initializing /data/kay/Imaris503_test_Kay.ims: [testng] 10:56:53,987 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 10:56:53,987 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:53,988 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-20_10-56-53.log] [testng] 10:56:53,988 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a76276 - End of configuration. [testng] [2024-03-20 10:56:54,243] [pool-1-thread-3] Initializing /data/generated/10-31_E_t0009.ims: [testng] 10:56:54,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 10:56:54,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:54,244 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-20_10-56-54.log] [testng] 10:56:54,245 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dcdabef - End of configuration. [testng] [2024-03-20 10:56:54,337] [pool-1-thread-2] Initializing /data/generated/10-31_E_t0007.ims: [testng] 10:56:54,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 10:56:54,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:56:54,338 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-20_10-56-54.log] [testng] 10:56:54,338 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2277da2 - End of configuration. BUILD SUCCESSFUL Total time: 9 minutes 15 seconds Finished: SUCCESS