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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@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins7307829838371154283.sh + '[' mrw = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_885_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] 10:38:23,203 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 10:38:23,204 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 10:38:23,204 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:38:23,205 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 10:38:23,206 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 10:38:23,206 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 10:38:23,206 |-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] 10:38:23,206 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:38:23,207 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 10:38:23,208 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 10:38:23,208 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 10:38:23,209 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 10:38:23,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 10:38:23,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 10:38:23,432 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 10:38:23,433 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 10:38:23,438 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 10:38:23,438 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 10:38:23,438 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 10:38:23,439 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 10:38:23,439 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 10:38:23,439 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 10:38:23,440 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 233 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-20 10:38:23,449] [main] java.version = 17.0.2 [testng] 10:38:23,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 10:38:23,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:23,491 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-20_10-38-23.log] [testng] 10:38:23,493 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-03-20 10:38:23,495] [main] testng.directory = /data [testng] [2024-03-20 10:38:23,495] [main] testng.configDirectory = /config [testng] [2024-03-20 10:38:23,503] [main] testng.multiplier = 1.0 [testng] [2024-03-20 10:38:23,504] [main] testng.in-memory = false [testng] [2024-03-20 10:38:23,504] [main] testng.allow-missing = false [testng] [2024-03-20 10:38:23,504] [main] user.language = en [testng] [2024-03-20 10:38:23,504] [main] user.country = ${user.country} [testng] [2024-03-20 10:38:23,504] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-20 10:38:23,833] [main] ---------------------------------------- [testng] [2024-03-20 10:38:23,833] [main] Total files: 19 [testng] [2024-03-20 10:38:23,833] [main] Scan time: 0.329 s (17 ms/file) [testng] [2024-03-20 10:38:23,833] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 19 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-20 10:38:30,217] [pool-1-thread-1] Initializing /data/samples/05-Aug-17_bokeh_0215_400.mrw: [testng] 10:38:30,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 10:38:30,219 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:30,221 |-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_10-38-30.log] [testng] 10:38:30,222 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3377455d - End of configuration. [testng] [2024-03-20 10:38:30,325] [pool-1-thread-12] Initializing /data/samples/05-Sep-11_nyc_swiatla_0612.mrw: [testng] 10:38:30,326 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 10:38:30,327 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:30,328 |-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_10-38-30.log] [testng] 10:38:30,329 |-INFO in ch.qos.logback.core.sift.SiftProcessor@207ef590 - End of configuration. [testng] [2024-03-20 10:38:30,508] [pool-1-thread-11] Initializing /data/samples/400R PICT0003.MRW: [testng] 10:38:30,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 10:38:30,509 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:30,510 |-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_10-38-30.log] [testng] 10:38:30,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3367df05 - End of configuration. [testng] [2024-03-20 10:38:30,633] [pool-1-thread-10] Initializing /data/samples/05-Sep-03_duperele_0472.mrw: [testng] 10:38:30,633 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 10:38:30,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:30,635 |-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_10-38-30.log] [testng] 10:38:30,635 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d259ec5 - End of configuration. [testng] [2024-03-20 10:38:30,745] [pool-1-thread-9] Initializing /data/samples/05-Aug-17_manhatan_0321.mrw: [testng] 10:38:30,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 10:38:30,745 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:30,746 |-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_10-38-30.log] [testng] 10:38:30,746 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ae53be5 - End of configuration. [testng] [2024-03-20 10:38:30,876] [pool-1-thread-8] Initializing /data/samples/05-Sep-22_statua_0818.mrw: [testng] 10:38:30,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 10:38:30,876 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:30,886 |-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_10-38-30.log] [testng] 10:38:30,887 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2059693a - End of configuration. [testng] [2024-03-20 10:38:30,994] [pool-1-thread-7] Initializing /data/samples/05-Sep-22_statua_0837.mrw: [testng] 10:38:30,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 10:38:30,994 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:30,995 |-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_10-38-30.log] [testng] 10:38:30,995 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24f9e9b4 - End of configuration. [testng] [2024-03-20 10:38:31,262] [pool-1-thread-6] Initializing /data/samples/05-Sep-07_nyc_0531.mrw: [testng] 10:38:31,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 10:38:31,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:31,263 |-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_10-38-31.log] [testng] 10:38:31,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@289bd3ff - End of configuration. [testng] [2024-03-20 10:38:31,380] [pool-1-thread-5] Initializing /data/samples/05-Aug-21_duperele_0353.mrw: [testng] 10:38:31,380 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 10:38:31,381 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:31,381 |-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_10-38-31.log] [testng] 10:38:31,382 |-INFO in ch.qos.logback.core.sift.SiftProcessor@346d6747 - End of configuration. [testng] [2024-03-20 10:38:31,471] [pool-1-thread-4] Initializing /data/samples/1600R PICT0005.MRW: [testng] 10:38:31,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 10:38:31,471 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:31,472 |-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_10-38-31.log] [testng] 10:38:31,472 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ebea8a2 - End of configuration. [testng] [2024-03-20 10:38:31,567] [pool-1-thread-3] Initializing /data/samples/3200R PICT0006.MRW: [testng] 10:38:31,567 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 10:38:31,568 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:31,569 |-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_10-38-31.log] [testng] 10:38:31,570 |-INFO in ch.qos.logback.core.sift.SiftProcessor@269aac17 - End of configuration. [testng] [2024-03-20 10:38:31,767] [pool-1-thread-2] Initializing /data/samples/05-Sep-10_nyc_swiatla_0584.mrw: [testng] 10:38:31,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 10:38:31,768 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 10:38:31,768 |-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_10-38-31.log] [testng] 10:38:31,769 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4288c468 - End of configuration. [testng] [2024-03-20 10:38:37,811] [pool-1-thread-9] Initializing /data/samples/100R PICT0001.MRW: [testng] [2024-03-20 10:38:37,905] [pool-1-thread-1] Initializing /data/samples/200R PICT0002.MRW: [testng] [2024-03-20 10:38:37,986] [pool-1-thread-5] Initializing /data/samples/05-Sep-14_sigma_0698.mrw: [testng] [2024-03-20 10:38:38,072] [pool-1-thread-7] Initializing /data/samples/800R PICT0010.MRW: [testng] [2024-03-20 10:38:38,168] [pool-1-thread-2] Initializing /data/samples/05-Sep-22_statua_0800.mrw: [testng] [2024-03-20 10:38:38,271] [pool-1-thread-11] Initializing /data/samples/05-Aug-17_bokeh_0214_400.mrw: [testng] [2024-03-20 10:38:38,360] [pool-1-thread-10] Initializing /data/samples/05-Sep-11_nyc_swiatla_0619.mrw: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1007, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 24 seconds Finished: SUCCESS