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Started by upstream project "BIOFORMATS-test-repo" build number 234 originally caused by: Started by upstream project "Trigger" build number 259 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins2250498653581896147.sh + '[' imagepro = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_36850_merge_ci -v /uod/idr/repos/curated/imagepro:/data -v /uod/idr-scratch/merge-ci/curated/imagepro:/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] 05:00:24,177 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:00:24,179 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 05:00:24,179 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:00:24,180 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:00:24,180 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:00:24,180 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:00:24,180 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:00:24,180 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:00:24,181 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:00:24,181 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:00:24,181 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:00:24,181 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:00:24,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:00:24,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:00:24,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:00:24,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:00:24,439 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:00:24,439 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:00:24,439 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:00:24,440 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:00:24,440 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 05:00:24,441 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 05:00:24,441 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 260 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-25 05:00:24,450] [main] java.version = 1.8.0_342 [testng] 05:00:24,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:00:24,453 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:24,498 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-25_05-00-24.log] [testng] 05:00:24,499 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-10-25 05:00:24,501] [main] testng.directory = /data [testng] [2024-10-25 05:00:24,501] [main] testng.configDirectory = /config [testng] [2024-10-25 05:00:24,512] [main] testng.multiplier = 1.0 [testng] [2024-10-25 05:00:24,512] [main] testng.in-memory = false [testng] [2024-10-25 05:00:24,513] [main] testng.allow-missing = false [testng] [2024-10-25 05:00:24,513] [main] user.language = en [testng] [2024-10-25 05:00:24,513] [main] user.country = ${user.country} [testng] [2024-10-25 05:00:24,513] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-25 05:00:28,166] [main] ---------------------------------------- [testng] [2024-10-25 05:00:28,166] [main] Total files: 22 [testng] [2024-10-25 05:00:28,166] [main] Scan time: 3.653 s (166 ms/file) [testng] [2024-10-25 05:00:28,166] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 21 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-25 05:00:41,165] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.seq: [testng] 05:00:41,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:00:41,165 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:41,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-25_05-00-41.log] [testng] 05:00:41,167 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14a24771 - End of configuration. [testng] [2024-10-25 05:00:41,456] [pool-1-thread-12] Initializing /data/converted/clown8c.tif: [testng] 05:00:41,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:00:41,456 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:41,457 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-25_05-00-41.log] [testng] 05:00:41,457 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a72b76b - End of configuration. [testng] [2024-10-25 05:00:42,404] [pool-1-thread-11] Initializing /data/samples/TISSUE.TIF: [testng] 05:00:42,404 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:00:42,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:42,405 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-25_05-00-42.log] [testng] 05:00:42,406 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c17539f - End of configuration. [testng] [2024-10-25 05:00:43,071] [pool-1-thread-10] Initializing /data/converted/dub01.seq: [testng] 05:00:43,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:00:43,072 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:43,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-25_05-00-43.log] [testng] 05:00:43,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40ce7006 - End of configuration. [testng] [2024-10-25 05:00:43,915] [pool-1-thread-9] Initializing /data/xiuwen/head2.seq: [testng] 05:00:43,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:00:43,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:43,916 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-25_05-00-43.log] [testng] 05:00:43,916 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4dec1dea - End of configuration. [testng] [2024-10-25 05:00:44,263] [pool-1-thread-8] Initializing /data/samples/PROBE.TIF: [testng] 05:00:44,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:00:44,263 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:44,264 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-25_05-00-44.log] [testng] 05:00:44,264 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e4a4800 - End of configuration. [testng] [2024-10-25 05:00:44,576] [pool-1-thread-7] Initializing /data/converted/clown.ipw: [testng] 05:00:44,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:00:44,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:44,577 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-25_05-00-44.log] [testng] 05:00:44,577 |-INFO in ch.qos.logback.core.sift.SiftProcessor@229214a7 - End of configuration. [testng] [2024-10-25 05:00:44,871] [pool-1-thread-6] Initializing /data/samples/HEART.SEQ: [testng] 05:00:44,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:00:44,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:44,872 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-25_05-00-44.log] [testng] 05:00:44,872 |-INFO in ch.qos.logback.core.sift.SiftProcessor@33f40026 - End of configuration. [testng] [2024-10-25 05:00:45,189] [pool-1-thread-5] Initializing /data/converted/mitosis-test.seq: [testng] 05:00:45,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:00:45,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:45,190 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-25_05-00-45.log] [testng] 05:00:45,190 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d4e3c63 - End of configuration. [testng] [2024-10-25 05:00:45,490] [pool-1-thread-4] Initializing /data/converted/NESb_C2_TP7.ipw: [testng] 05:00:45,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:00:45,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:45,491 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-25_05-00-45.log] [testng] 05:00:45,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2abc1f4f - End of configuration. [testng] [2024-10-25 05:00:45,753] [pool-1-thread-3] Initializing /data/converted/mitosis-test.tif: [testng] 05:00:45,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:00:45,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:45,753 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-25_05-00-45.log] [testng] 05:00:45,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6dbd52ba - End of configuration. [testng] [2024-10-25 05:00:46,466] [pool-1-thread-2] Initializing /data/converted/clown.tif: [testng] 05:00:46,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:00:46,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:00:46,467 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-25_05-00-46.log] [testng] 05:00:46,467 |-INFO in ch.qos.logback.core.sift.SiftProcessor@606d2c0d - End of configuration. [testng] [2024-10-25 05:00:50,404] [pool-1-thread-7] Initializing /data/converted/clown.seq: [testng] [2024-10-25 05:00:50,713] [pool-1-thread-2] Initializing /data/converted/clown8c.seq: [testng] [2024-10-25 05:00:51,012] [pool-1-thread-5] Initializing /data/converted/dub01.ipw: [testng] [2024-10-25 05:00:51,305] [pool-1-thread-8] Initializing /data/alex/AFAset0003.ips: [testng] [2024-10-25 05:00:51,592] [pool-1-thread-6] Initializing /data/converted/dub01.pic: [testng] [2024-10-25 05:00:51,884] [pool-1-thread-10] Initializing /data/converted/clown8c.ipw: [testng] [2024-10-25 05:00:52,159] [pool-1-thread-1] Initializing /data/converted/NESb_C2_TP7.tiff: [testng] [2024-10-25 05:00:52,832] [pool-1-thread-4] Initializing /data/converted/mitosis-test.ipw: [testng] [2024-10-25 05:00:53,751] [pool-1-thread-12] Initializing /data/samples/FLDUAL.TIF: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1113, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 3 seconds Finished: SUCCESS