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Started by upstream project "BIOFORMATS-test-repo" build number 94 originally caused by: Started by upstream project "Trigger" build number 105 originally caused by: Started by timer 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/jenkins11575049909851961215.sh + '[' obf = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_14557_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 [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] 02:40:19,818 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:40:19,820 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 02:40:19,820 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:40:19,821 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:40:19,821 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:40:19,821 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:40:19,822 |-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] 02:40:19,822 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:40:19,822 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:40:19,823 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:40:19,823 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:40:19,823 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:40:19,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:40:19,985 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:40:20,007 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:40:20,007 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:40:20,012 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:40:20,013 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:40:20,013 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:40:20,013 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:40:20,013 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 02:40:20,014 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 02:40:20,014 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 192 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-16 02:40:20,023] [main] java.version = 17.0.2 [testng] 02:40:20,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:40:20,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:20,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-16_02-40-20.log] [testng] 02:40:20,074 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-06-16 02:40:20,083] [main] testng.directory = /data [testng] [2024-06-16 02:40:20,083] [main] testng.configDirectory = /config [testng] [2024-06-16 02:40:20,097] [main] testng.multiplier = 1.0 [testng] [2024-06-16 02:40:20,098] [main] testng.in-memory = false [testng] [2024-06-16 02:40:20,098] [main] testng.allow-missing = false [testng] [2024-06-16 02:40:20,099] [main] user.language = en [testng] [2024-06-16 02:40:20,099] [main] user.country = ${user.country} [testng] [2024-06-16 02:40:20,099] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-16 02:40:21,605] [main] ---------------------------------------- [testng] [2024-06-16 02:40:21,605] [main] Total files: 12 [testng] [2024-06-16 02:40:21,605] [main] Scan time: 1.506 s (125 ms/file) [testng] [2024-06-16 02:40:21,605] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-16 02:40:26,400] [pool-1-thread-1] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr: [testng] 02:40:26,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:40:26,400 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:26,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-16_02-40-26.log] [testng] 02:40:26,402 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5fb75bd2 - End of configuration. [testng] [2024-06-16 02:40:26,447] [pool-1-thread-11] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr: [testng] 02:40:26,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:40:26,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:26,448 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-16_02-40-26.log] [testng] 02:40:26,448 |-INFO in ch.qos.logback.core.sift.SiftProcessor@775dbe67 - End of configuration. [testng] [2024-06-16 02:40:26,491] [pool-1-thread-10] Initializing /data/qa-27923/test.obf: [testng] 02:40:26,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:40:26,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:26,492 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-16_02-40-26.log] [testng] 02:40:26,493 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28df3392 - End of configuration. [testng] [2024-06-16 02:40:26,564] [pool-1-thread-9] Initializing /data/public/ngladitz/v6/test-v6.obf: [testng] 02:40:26,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:40:26,565 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:26,565 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-16_02-40-26.log] [testng] 02:40:26,566 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22e2bdef - End of configuration. [testng] [2024-06-16 02:40:26,903] [pool-1-thread-8] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf: [testng] 02:40:26,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:40:26,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:26,903 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-16_02-40-26.log] [testng] 02:40:26,904 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27d62cc - End of configuration. [testng] [2024-06-16 02:40:26,987] [pool-1-thread-7] Initializing /data/qa-16895/Measurement1.msr: [testng] 02:40:26,987 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:40:26,987 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:26,988 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-16_02-40-26.log] [testng] 02:40:26,988 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f20a9da - End of configuration. [testng] [2024-06-16 02:40:27,053] [pool-1-thread-6] Initializing /data/public/ngladitz/v4/test-v4.obf: [testng] 02:40:27,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:40:27,053 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:27,054 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-16_02-40-27.log] [testng] 02:40:27,054 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d7ab064 - End of configuration. [testng] [2024-06-16 02:40:27,197] [pool-1-thread-5] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf: [testng] 02:40:27,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:40:27,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:27,198 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-16_02-40-27.log] [testng] 02:40:27,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@26cadb1f - End of configuration. [testng] [2024-06-16 02:40:27,790] [pool-1-thread-4] Initializing /data/qa-17111/before 1.msr: [testng] 02:40:27,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:40:27,790 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:27,791 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-16_02-40-27.log] [testng] 02:40:27,791 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11d5d19e - End of configuration. [testng] [2024-06-16 02:40:28,736] [pool-1-thread-3] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf: [testng] 02:40:28,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:40:28,736 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:28,738 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-16_02-40-28.log] [testng] 02:40:28,738 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61aa0b5e - End of configuration. [testng] [2024-06-16 02:40:28,986] [pool-1-thread-2] Initializing /data/bjoernthiel/20191106__zstack.msr: [testng] 02:40:28,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:40:28,986 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:40:28,987 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-16_02-40-28.log] [testng] 02:40:28,988 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32c45c4e - 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: 38 seconds Finished: SUCCESS