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Started by upstream project "BIOFORMATS-test-repo" build number 31 originally caused by: Started by upstream project "Trigger" build number 35 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins14826068178474703977.sh + '[' imaris = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_4189_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 test-automated: [testng] File leak detector installed [testng] 08:10:11,173 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 08:10:11,175 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 08:10:11,175 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:10:11,176 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 08:10:11,176 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 08:10:11,176 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 08:10:11,176 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 08:10:11,176 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:10:11,177 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 08:10:11,177 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 08:10:11,177 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 08:10:11,178 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 08:10:11,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 08:10:11,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 08:10:11,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 08:10:11,462 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 08:10:11,470 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 08:10:11,470 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 08:10:11,470 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 08:10:11,471 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 08:10:11,471 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 08:10:11,472 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 08:10:11,472 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 295 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-12 08:10:11,482] [main] java.version = 1.8.0_342 [testng] 08:10:11,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 08:10:11,486 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:11,533 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-12_08-10-11.log] [testng] 08:10:11,534 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-12 08:10:11,536] [main] testng.directory = /data [testng] [2024-04-12 08:10:11,537] [main] testng.configDirectory = /config [testng] [2024-04-12 08:10:11,550] [main] testng.multiplier = 1.0 [testng] [2024-04-12 08:10:11,551] [main] testng.in-memory = false [testng] [2024-04-12 08:10:11,551] [main] testng.allow-missing = false [testng] [2024-04-12 08:10:11,551] [main] user.language = en [testng] [2024-04-12 08:10:11,551] [main] user.country = ${user.country} [testng] [2024-04-12 08:10:11,551] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-12 08:10:20,652] [main] ---------------------------------------- [testng] [2024-04-12 08:10:20,652] [main] Total files: 67 [testng] [2024-04-12 08:10:20,652] [main] Scan time: 9.1 s (135 ms/file) [testng] [2024-04-12 08:10:20,652] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 59 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-12 08:10:49,645] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0004.ims: [testng] 08:10:49,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 08:10:49,646 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,648 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-12_08-10-49.log] [testng] 08:10:49,649 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d67834b - End of configuration. [testng] [2024-04-12 08:10:49,685] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0014.ims: [testng] 08:10:49,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 08:10:49,685 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,686 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-12_08-10-49.log] [testng] 08:10:49,686 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54be93a6 - End of configuration. [testng] [2024-04-12 08:10:49,704] [pool-1-thread-11] Initializing /data/james/apoEcherry_IL10GFP_tfn647_1_R3D_D3D-Display Adjustment-Save-2011-7-5-1.ims: [testng] 08:10:49,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 08:10:49,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,706 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-12_08-10-49.log] [testng] 08:10:49,706 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a9a438e - End of configuration. [testng] [2024-04-12 08:10:49,762] [pool-1-thread-10] Initializing /data/generated/mri-stack-original.ims: [testng] 08:10:49,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 08:10:49,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,763 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-12_08-10-49.log] [testng] 08:10:49,764 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e36484b - End of configuration. [testng] [2024-04-12 08:10:49,780] [pool-1-thread-9] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal.ims: [testng] 08:10:49,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 08:10:49,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,781 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-12_08-10-49.log] [testng] 08:10:49,782 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e5ba74f - End of configuration. [testng] [2024-04-12 08:10:49,829] [pool-1-thread-8] Initializing /data/oliver/Stack2_float32Bit.ims: [testng] 08:10:49,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 08:10:49,829 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,830 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-12_08-10-49.log] [testng] 08:10:49,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@fac3480 - End of configuration. [testng] [2024-04-12 08:10:49,900] [pool-1-thread-7] Initializing /data/niko/imaris-testfile_5x5x5.ims: [testng] 08:10:49,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 08:10:49,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-12_08-10-49.log] [testng] 08:10:49,901 |-INFO in ch.qos.logback.core.sift.SiftProcessor@16c6eff3 - End of configuration. [testng] [2024-04-12 08:10:49,914] [pool-1-thread-6] Initializing /data/chris/supMovie3.ims: [testng] 08:10:49,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 08:10:49,914 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,915 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-12_08-10-49.log] [testng] 08:10:49,915 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8d91c99 - End of configuration. [testng] [2024-04-12 08:10:49,948] [pool-1-thread-5] Initializing /data/jason/imaris_5_5_demoimages/PyramidalCell.ims: [testng] 08:10:49,948 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 08:10:49,949 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:49,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-12_08-10-49.log] [testng] 08:10:49,950 |-INFO in ch.qos.logback.core.sift.SiftProcessor@719a1a2f - End of configuration. [testng] [2024-04-12 08:10:50,006] [pool-1-thread-4] Initializing /data/public/davemason/Convallaria_3C_3T_35Z_confocal_IMS3.ims: [testng] 08:10:50,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 08:10:50,006 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:50,007 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-12_08-10-50.log] [testng] 08:10:50,007 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b587b3a - End of configuration. [testng] [2024-04-12 08:10:50,043] [pool-1-thread-3] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF_IMS3.ims: [testng] 08:10:50,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 08:10:50,043 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:50,044 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-12_08-10-50.log] [testng] 08:10:50,045 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55d0afce - End of configuration. [testng] [2024-04-12 08:10:50,095] [pool-1-thread-2] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims: [testng] 08:10:50,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 08:10:50,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 08:10:50,097 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-12_08-10-50.log] [testng] 08:10:50,097 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53bc7ed7 - End of configuration. [testng] [2024-04-12 08:10:52,220] [pool-1-thread-7] Initializing /data/jason/imaris_5_5_demoimages/retina.ims: [testng] [2024-04-12 08:10:52,263] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0000.ims: [testng] [2024-04-12 08:10:52,279] [pool-1-thread-1] Initializing /data/oliver/Stack2_u16Bit.ims: [testng] [2024-04-12 08:10:52,332] [pool-1-thread-12] Initializing /data/jason/imaris_5_5_demoimages/R18Demo.ims: [testng] [2024-04-12 08:10:52,392] [pool-1-thread-5] Initializing /data/jason/imaris_5_5_demoimages/HeLaCell.ims: BUILD SUCCESSFUL Total time: 2 minutes 9 seconds Finished: SUCCESS