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Started by upstream project "BIOFORMATS-test-repo" build number 282 originally caused by: Started by user devspace 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/jenkins2494429715207694273.sh + '[' obf = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44589_merge_ci -v /uod/idr/repos/curated/obf:/data -v /uod/idr-scratch/merge-ci/curated/obf:/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] 13:52:25,786 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:52:25,788 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 13:52:25,788 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:52:25,789 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:52:25,790 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:52:25,790 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:52:25,790 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 13:52:25,790 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:52:25,791 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:52:25,791 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:52:25,791 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:52:25,791 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:52:26,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:52:26,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:52:26,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:52:26,063 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:52:26,071 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:52:26,071 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:52:26,071 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:52:26,072 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:52:26,072 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 13:52:26,073 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 13:52:26,073 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 282 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-06 13:52:26,083] [main] java.version = 1.8.0_342 [testng] 13:52:26,086 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:52:26,086 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:52:26,132 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_13-52-26.log] [testng] 13:52:26,134 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-06 13:52:26,136] [main] testng.directory = /data [testng] [2024-12-06 13:52:26,136] [main] testng.configDirectory = /config [testng] [2024-12-06 13:52:26,149] [main] testng.multiplier = 1.0 [testng] [2024-12-06 13:52:26,149] [main] testng.in-memory = false [testng] [2024-12-06 13:52:26,149] [main] testng.allow-missing = false [testng] [2024-12-06 13:52:26,149] [main] user.language = en [testng] [2024-12-06 13:52:26,150] [main] user.country = ${user.country} [testng] [2024-12-06 13:52:26,150] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-06 13:52:53,392] [main] ---------------------------------------- [testng] [2024-12-06 13:52:53,392] [main] Total files: 12 [testng] [2024-12-06 13:52:53,392] [main] Scan time: 27.242 s (2270 ms/file) [testng] [2024-12-06 13:52:53,392] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-06 13:53:17,329] [pool-1-thread-1] Initializing /data/qa-16895/Measurement1.msr: [testng] 13:53:17,330 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:53:17,330 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:17,330 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_13-53-17.log] [testng] 13:53:17,331 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23554c5e - End of configuration. [testng] [2024-12-06 13:53:19,816] [pool-1-thread-11] Initializing /data/qa-17111/before 1.msr: [testng] 13:53:19,816 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:53:19,817 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:19,817 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_13-53-19.log] [testng] 13:53:19,818 |-INFO in ch.qos.logback.core.sift.SiftProcessor@78b84631 - End of configuration. [testng] [2024-12-06 13:53:22,361] [pool-1-thread-10] Initializing /data/public/ngladitz/v4/test-v4.obf: [testng] 13:53:22,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:53:22,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:22,362 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_13-53-22.log] [testng] 13:53:22,363 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ab471c3 - End of configuration. [testng] [2024-12-06 13:53:24,092] [pool-1-thread-9] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf: [testng] 13:53:24,092 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:53:24,092 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:24,093 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_13-53-24.log] [testng] 13:53:24,093 |-INFO in ch.qos.logback.core.sift.SiftProcessor@675ccd20 - End of configuration. [testng] [2024-12-06 13:53:26,126] [pool-1-thread-8] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf: [testng] 13:53:26,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:53:26,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:26,127 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_13-53-26.log] [testng] 13:53:26,128 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3822f8a8 - End of configuration. [testng] [2024-12-06 13:53:27,671] [pool-1-thread-7] Initializing /data/bjoernthiel/20191106__zstack.msr: [testng] 13:53:27,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:53:27,671 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:27,672 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_13-53-27.log] [testng] 13:53:27,672 |-INFO in ch.qos.logback.core.sift.SiftProcessor@700cd068 - End of configuration. [testng] [2024-12-06 13:53:29,376] [pool-1-thread-6] Initializing /data/qa-27923/test.obf: [testng] 13:53:29,377 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:53:29,377 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:29,377 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_13-53-29.log] [testng] 13:53:29,378 |-INFO in ch.qos.logback.core.sift.SiftProcessor@53572b84 - End of configuration. [testng] [2024-12-06 13:53:31,368] [pool-1-thread-5] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf: [testng] 13:53:31,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:53:31,368 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:31,369 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_13-53-31.log] [testng] 13:53:31,369 |-INFO in ch.qos.logback.core.sift.SiftProcessor@654d5b90 - End of configuration. [testng] [2024-12-06 13:53:33,353] [pool-1-thread-4] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr: [testng] 13:53:33,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:53:33,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:33,354 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_13-53-33.log] [testng] 13:53:33,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d063605 - End of configuration. [testng] [2024-12-06 13:53:35,008] [pool-1-thread-3] Initializing /data/public/ngladitz/v6/test-v6.obf: [testng] 13:53:35,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:53:35,008 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:35,009 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_13-53-35.log] [testng] 13:53:35,009 |-INFO in ch.qos.logback.core.sift.SiftProcessor@849393 - End of configuration. [testng] [2024-12-06 13:53:36,805] [pool-1-thread-2] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr: [testng] 13:53:36,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:53:36,805 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:53:36,806 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_13-53-36.log] [testng] 13:53:36,806 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76d2b63 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 583, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 51 seconds Finished: SUCCESS