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Started by upstream project "BIOFORMATS-test-repo" build number 281 originally caused by: Started by upstream project "Trigger" build number 301 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10 [BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins3764625250314250373.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 5 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_44407_merge_ci -v /uod/idr/repos/curated/biorad-gel:/data -v /uod/idr-scratch/merge-ci/curated/biorad-gel:/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] 04:10:32,453 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:10:32,455 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 04:10:32,455 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:10:32,456 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:10:32,456 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:10:32,456 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:10:32,457 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:10:32,457 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:10:32,457 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:10:32,457 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:10:32,457 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:10:32,458 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:10:32,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:10:32,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:10:32,695 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:10:32,695 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:10:32,702 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:10:32,702 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:10:32,702 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:10:32,703 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:10:32,703 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 04:10:32,704 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 04:10:32,704 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 247 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-06 04:10:32,713] [main] java.version = 1.8.0_342 [testng] 04:10:32,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:10:32,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:10:32,759 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-06_04-10-32.log] [testng] 04:10:32,760 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-06 04:10:32,762] [main] testng.directory = /data [testng] [2024-12-06 04:10:32,762] [main] testng.configDirectory = /config [testng] [2024-12-06 04:10:32,774] [main] testng.multiplier = 1.0 [testng] [2024-12-06 04:10:32,774] [main] testng.in-memory = false [testng] [2024-12-06 04:10:32,774] [main] testng.allow-missing = false [testng] [2024-12-06 04:10:32,774] [main] user.language = en [testng] [2024-12-06 04:10:32,774] [main] user.country = ${user.country} [testng] [2024-12-06 04:10:32,774] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-06 04:10:37,930] [main] ---------------------------------------- [testng] [2024-12-06 04:10:37,930] [main] Total files: 32 [testng] [2024-12-06 04:10:37,930] [main] Scan time: 5.156 s (161 ms/file) [testng] [2024-12-06 04:10:37,930] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-06 04:11:14,622] [pool-1-thread-1] Initializing /data/geert/good example1.1sc.jpg: [testng] 04:11:14,623 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:11:14,623 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:14,624 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-06_04-11-14.log] [testng] 04:11:14,624 |-INFO in ch.qos.logback.core.sift.SiftProcessor@419d4f6b - End of configuration. [testng] [2024-12-06 04:11:14,890] [pool-1-thread-12] Initializing /data/geert/good example1.1sc: [testng] 04:11:14,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:11:14,890 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:14,891 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-06_04-11-14.log] [testng] 04:11:14,891 |-INFO in ch.qos.logback.core.sift.SiftProcessor@547078df - End of configuration. [testng] [2024-12-06 04:11:15,665] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 04:11:15,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:11:15,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:15,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-06_04-11-15.log] [testng] 04:11:15,667 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fe3ed37 - End of configuration. [testng] [2024-12-06 04:11:16,309] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg: [testng] 04:11:16,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:11:16,310 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:16,310 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-06_04-11-16.log] [testng] 04:11:16,310 |-INFO in ch.qos.logback.core.sift.SiftProcessor@708c2d1e - End of configuration. [testng] [2024-12-06 04:11:16,528] [pool-1-thread-9] Initializing /data/qa-29469/bad2.1sc: [testng] 04:11:16,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:11:16,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:16,529 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-06_04-11-16.log] [testng] 04:11:16,530 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50355f40 - End of configuration. [testng] [2024-12-06 04:11:17,147] [pool-1-thread-8] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] 04:11:17,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:11:17,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:17,148 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-06_04-11-17.log] [testng] 04:11:17,148 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39663161 - End of configuration. [testng] [2024-12-06 04:11:19,057] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] 04:11:19,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:11:19,057 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:19,058 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-06_04-11-19.log] [testng] 04:11:19,058 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4df71a96 - End of configuration. [testng] [2024-12-06 04:11:19,607] [pool-1-thread-6] Initializing /data/keith/test2.1sc: [testng] 04:11:19,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:11:19,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:19,608 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-06_04-11-19.log] [testng] 04:11:19,608 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62df3c9c - End of configuration. [testng] [2024-12-06 04:11:20,112] [pool-1-thread-5] Initializing /data/keith/test.1sc: [testng] 04:11:20,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:11:20,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:20,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-06_04-11-20.log] [testng] 04:11:20,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58977d27 - End of configuration. [testng] [2024-12-06 04:11:20,677] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] 04:11:20,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:11:20,677 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:20,677 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-06_04-11-20.log] [testng] 04:11:20,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5decb9ba - End of configuration. [testng] [2024-12-06 04:11:23,125] [pool-1-thread-3] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 04:11:23,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:11:23,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:23,126 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-06_04-11-23.log] [testng] 04:11:23,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7df533a7 - End of configuration. [testng] [2024-12-06 04:11:23,884] [pool-1-thread-2] Initializing /data/keith/pg020410saur3.1sc: [testng] 04:11:23,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:11:23,884 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:11:23,885 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-06_04-11-23.log] [testng] 04:11:23,885 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66dbf6c - End of configuration. [testng] [2024-12-06 04:11:30,053] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-12-06 04:11:32,420] [pool-1-thread-5] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-12-06 04:11:34,923] [pool-1-thread-6] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-12-06 04:11:35,594] [pool-1-thread-3] Initializing /data/adrian/test_img.1sc: [testng] [2024-12-06 04:11:36,691] [pool-1-thread-1] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-12-06 04:11:37,466] [pool-1-thread-9] Initializing /data/qa-29459/bad.1sc: [testng] [2024-12-06 04:11:38,083] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-12-06 04:11:38,668] [pool-1-thread-7] Initializing /data/qa-29469/good.1sc: [testng] [2024-12-06 04:11:39,223] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-12-06 04:11:39,851] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-12-06 04:11:48,141] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-12-06 04:11:49,212] [pool-1-thread-6] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-12-06 04:11:49,594] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] [2024-12-06 04:11:50,444] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg: [testng] [2024-12-06 04:11:50,691] [pool-1-thread-11] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-12-06 04:11:51,349] [pool-1-thread-12] Initializing /data/geert/bad example1.1sc: [testng] [2024-12-06 04:11:51,984] [pool-1-thread-3] Initializing /data/samples/imagesEight.1sc: [testng] [2024-12-06 04:11:52,932] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-12-06 04:11:55,266] [pool-1-thread-4] Initializing /data/david/Opened in imageJ.tiff: [testng] [2024-12-06 04:11:58,969] [pool-1-thread-7] Initializing /data/keith/PF020328saur v3.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 42 seconds Finished: SUCCESS