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Started by upstream project "BIOFORMATS-test-repo" build number 215 originally caused by: Started by upstream project "Trigger" build number 242 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins1087658506154935757.sh + '[' afi = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34120_merge_ci -v /uod/idr/repos/curated/afi:/data -v /uod/idr-scratch/merge-ci/curated/afi:/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] 02:47:17,361 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:47:17,362 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 02:47:17,362 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:47:17,363 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:47:17,364 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:47:17,364 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:47:17,364 |-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] 02:47:17,364 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:47:17,365 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:47:17,365 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:47:17,366 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:47:17,366 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:47:17,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:47:17,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:47:17,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:47:17,543 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:47:17,548 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:47:17,548 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:47:17,548 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:47:17,549 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:47:17,549 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 02:47:17,549 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 02:47:17,550 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-09 02:47:17,558] [main] java.version = 17.0.2 [testng] 02:47:17,560 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:47:17,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:17,607 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-09_02-47-17.log] [testng] 02:47:17,609 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-10-09 02:47:17,611] [main] testng.directory = /data [testng] [2024-10-09 02:47:17,611] [main] testng.configDirectory = /config [testng] [2024-10-09 02:47:17,623] [main] testng.multiplier = 1.0 [testng] [2024-10-09 02:47:17,624] [main] testng.in-memory = false [testng] [2024-10-09 02:47:17,625] [main] testng.allow-missing = false [testng] [2024-10-09 02:47:17,625] [main] user.language = en [testng] [2024-10-09 02:47:17,625] [main] user.country = ${user.country} [testng] [2024-10-09 02:47:17,625] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-09 02:47:22,561] [main] ---------------------------------------- [testng] [2024-10-09 02:47:22,561] [main] Total files: 16 [testng] [2024-10-09 02:47:22,561] [main] Scan time: 4.936 s (308 ms/file) [testng] [2024-10-09 02:47:22,561] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 15 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-09 02:47:49,523] [pool-1-thread-1] Initializing /data/samples/5440.afi: [testng] 02:47:49,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:47:49,523 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:49,524 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-09_02-47-49.log] [testng] 02:47:49,525 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e243699 - End of configuration. [testng] [2024-10-09 02:47:50,576] [pool-1-thread-12] Initializing /data/samples/5339.afi: [testng] 02:47:50,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:47:50,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:50,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-09_02-47-50.log] [testng] 02:47:50,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33e332d5 - End of configuration. [testng] [2024-10-09 02:47:51,577] [pool-1-thread-11] Initializing /data/samples/5383.afi: [testng] 02:47:51,577 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:47:51,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:51,578 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-09_02-47-51.log] [testng] 02:47:51,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d0a3ab8 - End of configuration. [testng] [2024-10-09 02:47:52,535] [pool-1-thread-10] Initializing /data/samples/5306.afi: [testng] 02:47:52,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:47:52,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:52,536 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-09_02-47-52.log] [testng] 02:47:52,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@54d53ac9 - End of configuration. [testng] [2024-10-09 02:47:53,519] [pool-1-thread-9] Initializing /data/samples/5351.afi: [testng] 02:47:53,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:47:53,519 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:53,520 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-09_02-47-53.log] [testng] 02:47:53,520 |-INFO in ch.qos.logback.core.sift.SiftProcessor@323d77ff - End of configuration. [testng] [2024-10-09 02:47:54,519] [pool-1-thread-8] Initializing /data/samples/5400.afi: [testng] 02:47:54,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:47:54,520 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:54,521 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-09_02-47-54.log] [testng] 02:47:54,521 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bd3d33b - End of configuration. [testng] [2024-10-09 02:47:55,575] [pool-1-thread-7] Initializing /data/samples/5387.afi: [testng] 02:47:55,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:47:55,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:55,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-09_02-47-55.log] [testng] 02:47:55,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24a3ecfe - End of configuration. [testng] [2024-10-09 02:47:56,713] [pool-1-thread-6] Initializing /data/samples/5365.afi: [testng] 02:47:56,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:47:56,714 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:56,715 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-09_02-47-56.log] [testng] 02:47:56,715 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f3da597 - End of configuration. [testng] [2024-10-09 02:47:57,715] [pool-1-thread-5] Initializing /data/samples/5407.afi: [testng] 02:47:57,715 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:47:57,715 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:57,716 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-09_02-47-57.log] [testng] 02:47:57,716 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66df49f2 - End of configuration. [testng] [2024-10-09 02:47:58,926] [pool-1-thread-4] Initializing /data/samples/5343.afi: [testng] 02:47:58,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:47:58,926 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:58,927 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-09_02-47-58.log] [testng] 02:47:58,927 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15476813 - End of configuration. [testng] [2024-10-09 02:47:59,893] [pool-1-thread-3] Initializing /data/samples/5371.afi: [testng] 02:47:59,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:47:59,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:59,894 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-09_02-47-59.log] [testng] 02:47:59,895 |-INFO in ch.qos.logback.core.sift.SiftProcessor@458de70b - End of configuration. [testng] [2024-10-09 02:48:00,901] [pool-1-thread-2] Initializing /data/samples/5347.afi: [testng] 02:48:00,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:48:00,901 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:48:00,902 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-09_02-48-00.log] [testng] 02:48:00,902 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5706ea00 - End of configuration. [testng] [2024-10-09 02:48:52,021] [pool-1-thread-10] Initializing /data/samples/5358.afi: [testng] [2024-10-09 02:48:54,696] [pool-1-thread-2] Initializing /data/samples/5446.afi: [testng] [2024-10-09 02:48:59,864] [pool-1-thread-1] Initializing /data/samples/5414.afi: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 795, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 40 seconds Finished: SUCCESS