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Started by upstream project "BIOFORMATS-test-repo" build number 266 originally caused by: Started by upstream project "Trigger" build number 289 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/jenkins11342087887169917266.sh + '[' obf = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_42092_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] 05:32:58,693 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:32:58,695 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 05:32:58,695 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:32:58,696 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:32:58,697 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:32:58,697 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:32:58,697 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:32:58,697 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:32:58,698 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:32:58,699 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:32:58,699 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:32:58,700 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:32:58,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:32:58,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:32:58,895 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:32:58,896 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:32:58,901 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:32:58,901 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:32:58,901 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:32:58,901 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:32:58,901 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 05:32:58,902 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 05:32:58,902 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 204 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-24 05:32:58,910] [main] java.version = 17.0.2 [testng] 05:32:58,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:32:58,913 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:32:58,950 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-24_05-32-58.log] [testng] 05:32:58,952 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-24 05:32:58,953] [main] testng.directory = /data [testng] [2024-11-24 05:32:58,954] [main] testng.configDirectory = /config [testng] [2024-11-24 05:32:58,962] [main] testng.multiplier = 1.0 [testng] [2024-11-24 05:32:58,962] [main] testng.in-memory = false [testng] [2024-11-24 05:32:58,962] [main] testng.allow-missing = false [testng] [2024-11-24 05:32:58,962] [main] user.language = en [testng] [2024-11-24 05:32:58,962] [main] user.country = ${user.country} [testng] [2024-11-24 05:32:58,962] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-24 05:33:44,158] [main] ---------------------------------------- [testng] [2024-11-24 05:33:44,158] [main] Total files: 12 [testng] [2024-11-24 05:33:44,158] [main] Scan time: 45.195 s (3766 ms/file) [testng] [2024-11-24 05:33:44,158] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 11 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-24 05:34:27,144] [pool-1-thread-1] Initializing /data/qa-16895/Measurement1.msr: [testng] 05:34:27,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:34:27,145 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:27,146 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-24_05-34-27.log] [testng] 05:34:27,146 |-INFO in ch.qos.logback.core.sift.SiftProcessor@a5c170a - End of configuration. [testng] [2024-11-24 05:34:30,419] [pool-1-thread-11] Initializing /data/bjoernthiel/20191106__zstack.msr: [testng] 05:34:30,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:34:30,419 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:30,420 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-24_05-34-30.log] [testng] 05:34:30,420 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31da75db - End of configuration. [testng] [2024-11-24 05:34:33,762] [pool-1-thread-10] Initializing /data/zoltan/3D-CONFOCAL-PSF-235nm.msr: [testng] 05:34:33,762 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:34:33,763 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:33,763 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-24_05-34-33.log] [testng] 05:34:33,764 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fb6a720 - End of configuration. [testng] [2024-11-24 05:34:37,102] [pool-1-thread-9] Initializing /data/tristan/Example_Chrimson_Beads_40nm.msr: [testng] 05:34:37,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:34:37,103 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:37,103 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-24_05-34-37.log] [testng] 05:34:37,104 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6edab9d9 - End of configuration. [testng] [2024-11-24 05:34:40,355] [pool-1-thread-8] Initializing /data/qa-17111/before 1.msr: [testng] 05:34:40,355 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:34:40,356 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:40,356 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-24_05-34-40.log] [testng] 05:34:40,356 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60c59b03 - End of configuration. [testng] [2024-11-24 05:34:44,559] [pool-1-thread-7] Initializing /data/public/ngladitz/v6/test-v6.obf: [testng] 05:34:44,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:34:44,559 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:44,560 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-24_05-34-44.log] [testng] 05:34:44,560 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55e0d216 - End of configuration. [testng] [2024-11-24 05:34:48,056] [pool-1-thread-6] Initializing /data/public/ngladitz/v6/test-v6-short-write.obf: [testng] 05:34:48,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:34:48,056 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:48,057 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-24_05-34-48.log] [testng] 05:34:48,057 |-INFO in ch.qos.logback.core.sift.SiftProcessor@461484e1 - End of configuration. [testng] [2024-11-24 05:34:51,359] [pool-1-thread-5] Initializing /data/qa-27923/test.obf: [testng] 05:34:51,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:34:51,359 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:51,360 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-24_05-34-51.log] [testng] 05:34:51,360 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c4ae28a - End of configuration. [testng] [2024-11-24 05:34:54,598] [pool-1-thread-4] Initializing /data/public/ngladitz/v4/test-v4-uncompressed.obf: [testng] 05:34:54,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:34:54,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:54,599 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-24_05-34-54.log] [testng] 05:34:54,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3398babb - End of configuration. [testng] [2024-11-24 05:34:57,896] [pool-1-thread-3] Initializing /data/public/ngladitz/v6/test-v6-uncompressed.obf: [testng] 05:34:57,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:34:57,897 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:34:57,897 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-24_05-34-57.log] [testng] 05:34:57,898 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f3ac814 - End of configuration. [testng] [2024-11-24 05:35:01,448] [pool-1-thread-2] Initializing /data/public/ngladitz/v4/test-v4.obf: [testng] 05:35:01,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:35:01,448 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:35:01,449 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-24_05-35-01.log] [testng] 05:35:01,449 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e9548e3 - 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: 2 minutes 50 seconds Finished: SUCCESS