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Started by upstream project "BIOFORMATS-test-repo" build number 116 originally caused by: Started by upstream project "Trigger" build number 133 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins676351498644461536.sh + '[' mrw = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_18108_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 [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] 02:04:47,346 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:04:47,347 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:04:47,347 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:04:47,349 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:04:47,349 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:04:47,350 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:04:47,350 |-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] 02:04:47,350 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:04:47,350 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:04:47,351 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:04:47,351 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:04:47,352 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:04:47,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:04:47,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:04:47,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:04:47,583 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:04:47,589 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:04:47,589 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:04:47,589 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:04:47,590 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:04:47,590 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:04:47,591 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:04:47,591 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 241 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-10 02:04:47,605] [main] java.version = 17.0.2 [testng] 02:04:47,609 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:04:47,610 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:47,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-10_02-04-47.log] [testng] 02:04:47,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-10 02:04:47,675] [main] testng.directory = /data [testng] [2024-07-10 02:04:47,675] [main] testng.configDirectory = /config [testng] [2024-07-10 02:04:47,685] [main] testng.multiplier = 1.0 [testng] [2024-07-10 02:04:47,686] [main] testng.in-memory = false [testng] [2024-07-10 02:04:47,687] [main] testng.allow-missing = false [testng] [2024-07-10 02:04:47,687] [main] user.language = en [testng] [2024-07-10 02:04:47,687] [main] user.country = ${user.country} [testng] [2024-07-10 02:04:47,687] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-10 02:04:48,347] [main] ---------------------------------------- [testng] [2024-07-10 02:04:48,347] [main] Total files: 19 [testng] [2024-07-10 02:04:48,347] [main] Scan time: 0.66 s (34 ms/file) [testng] [2024-07-10 02:04:48,347] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 19 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-10 02:04:50,352] [pool-1-thread-1] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw: [testng] 02:04:50,354 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:04:50,354 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:50,358 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-10_02-04-50.log] [testng] 02:04:50,359 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6465fefc - End of configuration. [testng] [2024-07-10 02:04:50,452] [pool-1-thread-12] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw: [testng] 02:04:50,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:04:50,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:50,454 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-10_02-04-50.log] [testng] 02:04:50,455 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b790ac5 - End of configuration. [testng] [2024-07-10 02:04:50,616] [pool-1-thread-11] Initializing /data/samples/400R PICT0003.MRW: [testng] 02:04:50,616 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:04:50,617 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:50,619 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-10_02-04-50.log] [testng] 02:04:50,621 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b90871c - End of configuration. [testng] [2024-07-10 02:04:50,688] [pool-1-thread-10] Initializing /data/samples/05-Sep-03_duperele_0472.mrw: [testng] 02:04:50,688 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:04:50,688 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:50,690 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-10_02-04-50.log] [testng] 02:04:50,691 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d87562f - End of configuration. [testng] [2024-07-10 02:04:50,782] [pool-1-thread-9] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw: [testng] 02:04:50,784 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:04:50,785 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:50,802 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-10_02-04-50.log] [testng] 02:04:50,805 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7c4f73d2 - End of configuration. [testng] [2024-07-10 02:04:50,884] [pool-1-thread-8] Initializing /data/samples/05-Sep-22_statua_0818.mrw: [testng] 02:04:50,885 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:04:50,886 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:50,891 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-10_02-04-50.log] [testng] 02:04:50,892 |-INFO in ch.qos.logback.core.sift.SiftProcessor@534d808f - End of configuration. [testng] [2024-07-10 02:04:50,998] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0837.mrw: [testng] 02:04:50,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:04:50,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:51,001 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-10_02-04-51.log] [testng] 02:04:51,001 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2524dc4c - End of configuration. [testng] [2024-07-10 02:04:51,044] [pool-1-thread-6] Initializing /data/samples/05-Sep-07_nyc_0531.mrw: [testng] 02:04:51,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:04:51,045 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:51,047 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-10_02-04-51.log] [testng] 02:04:51,047 |-INFO in ch.qos.logback.core.sift.SiftProcessor@189732ca - End of configuration. [testng] [2024-07-10 02:04:51,130] [pool-1-thread-5] Initializing /data/samples/05-Aug-21_duperele_0353.mrw: [testng] 02:04:51,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:04:51,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:51,133 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-10_02-04-51.log] [testng] 02:04:51,133 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a9b81df - End of configuration. [testng] [2024-07-10 02:04:51,195] [pool-1-thread-4] Initializing /data/samples/1600R PICT0005.MRW: [testng] 02:04:51,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:04:51,196 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:51,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-10_02-04-51.log] [testng] 02:04:51,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42789452 - End of configuration. [testng] [2024-07-10 02:04:51,244] [pool-1-thread-3] Initializing /data/samples/3200R PICT0006.MRW: [testng] 02:04:51,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:04:51,244 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:51,245 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-10_02-04-51.log] [testng] 02:04:51,246 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6111b044 - End of configuration. [testng] [2024-07-10 02:04:51,307] [pool-1-thread-2] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw: [testng] 02:04:51,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:04:51,308 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:04:51,310 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-10_02-04-51.log] [testng] 02:04:51,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66d7f9de - End of configuration. [testng] [2024-07-10 02:04:59,680] [pool-1-thread-11] Initializing /data/samples/100R PICT0001.MRW: [testng] [2024-07-10 02:04:59,708] [pool-1-thread-10] Initializing /data/samples/05-Sep-14_sigma_0698.mrw: [testng] [2024-07-10 02:04:59,748] [pool-1-thread-5] Initializing /data/samples/800R PICT0010.MRW: [testng] [2024-07-10 02:04:59,810] [pool-1-thread-8] Initializing /data/samples/05-Sep-22_statua_0800.mrw: [testng] [2024-07-10 02:04:59,841] [pool-1-thread-3] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw: [testng] [2024-07-10 02:05:00,064] [pool-1-thread-1] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw: [testng] [2024-07-10 02:05:00,102] [pool-1-thread-2] Initializing /data/samples/200R PICT0002.MRW: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1007, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 23 seconds Finished: SUCCESS