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Started by upstream project "BIOFORMATS-test-repo" build number 204 originally caused by: Started by upstream project "Trigger" build number 230 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/jenkins17209289068737325569.sh + '[' fuji = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_32390_merge_ci -v /uod/idr/repos/curated/fuji:/data -v /uod/idr-scratch/merge-ci/curated/fuji:/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] 03:08:44,268 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:08:44,270 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 03:08:44,270 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:08:44,271 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:08:44,271 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:08:44,271 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:08:44,272 |-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] 03:08:44,272 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:08:44,272 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:08:44,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:08:44,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:08:44,273 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:08:44,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:08:44,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:08:44,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:08:44,473 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:08:44,478 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:08:44,479 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:08:44,479 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:08:44,479 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:08:44,479 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 03:08:44,480 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 03:08:44,480 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 208 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-09-29 03:08:44,490] [main] java.version = 17.0.2 [testng] 03:08:44,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:08:44,493 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:08:44,535 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-09-29_03-08-44.log] [testng] 03:08:44,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-09-29 03:08:44,539] [main] testng.directory = /data [testng] [2024-09-29 03:08:44,539] [main] testng.configDirectory = /config [testng] [2024-09-29 03:08:44,548] [main] testng.multiplier = 1.0 [testng] [2024-09-29 03:08:44,549] [main] testng.in-memory = false [testng] [2024-09-29 03:08:44,549] [main] testng.allow-missing = false [testng] [2024-09-29 03:08:44,549] [main] user.language = en [testng] [2024-09-29 03:08:44,549] [main] user.country = ${user.country} [testng] [2024-09-29 03:08:44,549] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-09-29 03:09:04,067] [main] ---------------------------------------- [testng] [2024-09-29 03:09:04,067] [main] Total files: 24 [testng] [2024-09-29 03:09:04,067] [main] Scan time: 19.518 s (813 ms/file) [testng] [2024-09-29 03:09:04,067] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 9 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-09-29 03:09:34,671] [pool-1-thread-1] Initializing /data/bernie/070810_20hours/070810_20hours.tif: [testng] 03:09:34,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:09:34,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:34,673 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-09-29_03-09-34.log] [testng] 03:09:34,674 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42188321 - End of configuration. [testng] [2024-09-29 03:09:36,050] [pool-1-thread-9] Initializing /data/bernie/101110_Oligos_16hour/101110_Oligos_16hour.tif: [testng] 03:09:36,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:09:36,050 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:36,051 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-09-29_03-09-36.log] [testng] 03:09:36,051 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5336bbb3 - End of configuration. [testng] [2024-09-29 03:09:37,429] [pool-1-thread-8] Initializing /data/bernie/120411_18hrs/120411_18hrs.tif: [testng] 03:09:37,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:09:37,429 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:37,430 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-09-29_03-09-37.log] [testng] 03:09:37,431 |-INFO in ch.qos.logback.core.sift.SiftProcessor@73486367 - End of configuration. [testng] [2024-09-29 03:09:38,874] [pool-1-thread-7] Initializing /data/bernie/101210_SubstrateTest/101210_SubstrateTest.tif: [testng] 03:09:38,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:09:38,875 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:38,876 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-09-29_03-09-38.log] [testng] 03:09:38,876 |-INFO in ch.qos.logback.core.sift.SiftProcessor@420853f9 - End of configuration. [testng] [2024-09-29 03:09:40,123] [pool-1-thread-6] Initializing /data/bernie/101110_Oligos_10min/101110_Oligos_10min.tif: [testng] 03:09:40,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:09:40,123 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:40,124 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-09-29_03-09-40.log] [testng] 03:09:40,124 |-INFO in ch.qos.logback.core.sift.SiftProcessor@543ab3f - End of configuration. [testng] [2024-09-29 03:09:41,562] [pool-1-thread-5] Initializing /data/bernie/090810_18hours/090810_18hours.tif: [testng] 03:09:41,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:09:41,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:41,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-09-29_03-09-41.log] [testng] 03:09:41,564 |-INFO in ch.qos.logback.core.sift.SiftProcessor@65e110a5 - End of configuration. [testng] [2024-09-29 03:09:42,822] [pool-1-thread-4] Initializing /data/venu/TPN_membraneC_1sec.img: [testng] 03:09:42,822 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:09:42,822 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:42,823 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-09-29_03-09-42.log] [testng] 03:09:42,823 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e21ad8d - End of configuration. [testng] [2024-09-29 03:09:43,376] [pool-1-thread-3] Initializing /data/bernie/080211_Exo_3hours/080211_Exo_3hours.tif: [testng] 03:09:43,377 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:09:43,377 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:43,377 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-09-29_03-09-43.log] [testng] 03:09:43,378 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f8e3087 - End of configuration. [testng] [2024-09-29 03:09:44,576] [pool-1-thread-2] Initializing /data/bernie/101210_Substrate10mi/101210_Substrate10mi.tif: [testng] 03:09:44,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:09:44,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:44,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-09-29_03-09-44.log] [testng] 03:09:44,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4934f937 - End of configuration. [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 477, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 17 seconds Finished: SUCCESS