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Started by upstream project "BIOFORMATS-test-repo" build number 273 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins145408698623530498.sh + '[' mrw = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_43054_merge_ci -v /uod/idr/repos/curated/mrw:/data -v /uod/idr-scratch/merge-ci/curated/mrw:/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] 09:22:02,017 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 09:22:02,019 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 09:22:02,019 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 09:22:02,020 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 09:22:02,020 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 09:22:02,020 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 09:22:02,020 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 09:22:02,020 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 09:22:02,021 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 09:22:02,021 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 09:22:02,021 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 09:22:02,021 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 09:22:02,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 09:22:02,237 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 09:22:02,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 09:22:02,264 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 09:22:02,271 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 09:22:02,271 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 09:22:02,271 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 09:22:02,272 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 09:22:02,272 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 09:22:02,273 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 09:22:02,273 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 252 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-29 09:22:02,282] [main] java.version = 1.8.0_342 [testng] 09:22:02,286 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 09:22:02,286 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:02,329 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-29_09-22-02.log] [testng] 09:22:02,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-11-29 09:22:02,332] [main] testng.directory = /data [testng] [2024-11-29 09:22:02,332] [main] testng.configDirectory = /config [testng] [2024-11-29 09:22:02,344] [main] testng.multiplier = 1.0 [testng] [2024-11-29 09:22:02,344] [main] testng.in-memory = false [testng] [2024-11-29 09:22:02,344] [main] testng.allow-missing = false [testng] [2024-11-29 09:22:02,344] [main] user.language = en [testng] [2024-11-29 09:22:02,344] [main] user.country = ${user.country} [testng] [2024-11-29 09:22:02,344] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-11-29 09:22:02,808] [main] ---------------------------------------- [testng] [2024-11-29 09:22:02,808] [main] Total files: 19 [testng] [2024-11-29 09:22:02,808] [main] Scan time: 0.464 s (24 ms/file) [testng] [2024-11-29 09:22:02,808] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 19 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-29 09:22:16,062] [pool-1-thread-1] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw: [testng] 09:22:16,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 09:22:16,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:16,064 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-29_09-22-16.log] [testng] 09:22:16,064 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18f19595 - End of configuration. [testng] [2024-11-29 09:22:16,668] [pool-1-thread-12] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw: [testng] 09:22:16,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 09:22:16,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:16,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-29_09-22-16.log] [testng] 09:22:16,670 |-INFO in ch.qos.logback.core.sift.SiftProcessor@105b377b - End of configuration. [testng] [2024-11-29 09:22:17,319] [pool-1-thread-11] Initializing /data/samples/05-Sep-07_nyc_0531.mrw: [testng] 09:22:17,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 09:22:17,320 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:17,320 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-29_09-22-17.log] [testng] 09:22:17,321 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ca22c3f - End of configuration. [testng] [2024-11-29 09:22:17,928] [pool-1-thread-10] Initializing /data/samples/400R PICT0003.MRW: [testng] 09:22:17,929 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 09:22:17,929 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:17,930 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-29_09-22-17.log] [testng] 09:22:17,930 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34f43095 - End of configuration. [testng] [2024-11-29 09:22:18,764] [pool-1-thread-9] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw: [testng] 09:22:18,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 09:22:18,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:18,765 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-29_09-22-18.log] [testng] 09:22:18,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@450312c5 - End of configuration. [testng] [2024-11-29 09:22:19,432] [pool-1-thread-8] Initializing /data/samples/05-Sep-03_duperele_0472.mrw: [testng] 09:22:19,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 09:22:19,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:19,433 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-29_09-22-19.log] [testng] 09:22:19,433 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5a04fee5 - End of configuration. [testng] [2024-11-29 09:22:20,088] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0818.mrw: [testng] 09:22:20,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 09:22:20,088 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:20,089 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-29_09-22-20.log] [testng] 09:22:20,090 |-INFO in ch.qos.logback.core.sift.SiftProcessor@70ee5381 - End of configuration. [testng] [2024-11-29 09:22:20,715] [pool-1-thread-6] Initializing /data/samples/05-Sep-14_sigma_0698.mrw: [testng] 09:22:20,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 09:22:20,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:20,716 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-29_09-22-20.log] [testng] 09:22:20,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6fa8684c - End of configuration. [testng] [2024-11-29 09:22:21,337] [pool-1-thread-5] Initializing /data/samples/05-Sep-22_statua_0800.mrw: [testng] 09:22:21,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 09:22:21,337 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:21,338 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-29_09-22-21.log] [testng] 09:22:21,338 |-INFO in ch.qos.logback.core.sift.SiftProcessor@43c32ecb - End of configuration. [testng] [2024-11-29 09:22:22,000] [pool-1-thread-4] Initializing /data/samples/05-Aug-21_duperele_0353.mrw: [testng] 09:22:22,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 09:22:22,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:22,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-29_09-22-22.log] [testng] 09:22:22,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@41a5e011 - End of configuration. [testng] [2024-11-29 09:22:22,708] [pool-1-thread-3] Initializing /data/samples/100R PICT0001.MRW: [testng] 09:22:22,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 09:22:22,708 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:22,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-29_09-22-22.log] [testng] 09:22:22,709 |-INFO in ch.qos.logback.core.sift.SiftProcessor@709a9e28 - End of configuration. [testng] [2024-11-29 09:22:23,281] [pool-1-thread-2] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw: [testng] 09:22:23,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 09:22:23,282 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 09:22:23,283 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-29_09-22-23.log] [testng] 09:22:23,283 |-INFO in ch.qos.logback.core.sift.SiftProcessor@739ac704 - End of configuration. [testng] [2024-11-29 09:22:35,744] [pool-1-thread-7] Initializing /data/samples/1600R PICT0005.MRW: [testng] [2024-11-29 09:22:36,436] [pool-1-thread-4] Initializing /data/samples/800R PICT0010.MRW: [testng] [2024-11-29 09:22:37,119] [pool-1-thread-6] Initializing /data/samples/05-Sep-22_statua_0837.mrw: [testng] [2024-11-29 09:22:37,831] [pool-1-thread-9] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw: [testng] [2024-11-29 09:22:38,569] [pool-1-thread-10] Initializing /data/samples/200R PICT0002.MRW: [testng] [2024-11-29 09:22:39,417] [pool-1-thread-11] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw: [testng] [2024-11-29 09:22:40,330] [pool-1-thread-2] Initializing /data/samples/3200R PICT0006.MRW: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1007, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 53 seconds Finished: SUCCESS