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Started by upstream project "BIOFORMATS-test-repo" build number 88 originally caused by: Started by upstream project "Trigger" build number 99 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins15374306148253070898.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 1 -le 1 ']' + DOCKER_ARGS='-Dtestng.memory=15g -Dtestng.threadCount=12 -Duser.language=fr -Duser.country=FR' + sudo docker run --rm --name BIOFORMATS-test-folder_13555_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 -Duser.language=fr -Duser.country=FR 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] 02:33:35,859 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:33:35,861 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:33:35,862 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:33:35,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:33:35,863 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:33:35,863 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:33:35,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:33:35,863 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:33:35,864 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:33:35,864 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:33:35,864 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:33:35,864 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:33:36,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:33:36,177 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:33:36,206 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:33:36,206 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:33:36,216 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:33:36,216 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:33:36,216 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:33:36,216 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:33:36,216 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:33:36,217 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:33:36,217 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 353 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-10 02:33:36,228] [main] java.version = 1.8.0_342 [testng] 02:33:36,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:33:36,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:36,281 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-10_02-33-36.log] [testng] 02:33:36,284 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-06-10 02:33:36,286] [main] testng.directory = /data [testng] [2024-06-10 02:33:36,286] [main] testng.configDirectory = /config [testng] [2024-06-10 02:33:36,300] [main] testng.multiplier = 1.0 [testng] [2024-06-10 02:33:36,300] [main] testng.in-memory = false [testng] [2024-06-10 02:33:36,301] [main] testng.allow-missing = false [testng] [2024-06-10 02:33:36,301] [main] user.language = fr [testng] [2024-06-10 02:33:36,301] [main] user.country = FR [testng] [2024-06-10 02:33:36,301] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-06-10 02:33:37,141] [main] ---------------------------------------- [testng] [2024-06-10 02:33:37,142] [main] Total files: 32 [testng] [2024-06-10 02:33:37,142] [main] Scan time: 0.84 s (26 ms/file) [testng] [2024-06-10 02:33:37,142] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-10 02:33:40,373] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:33:40,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:33:40,374 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,376 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-10_02-33-40.log] [testng] 02:33:40,376 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67f0b58c - End of configuration. [testng] [2024-06-10 02:33:40,431] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:33:40,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:33:40,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,432 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-10_02-33-40.log] [testng] 02:33:40,432 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45906c04 - End of configuration. [testng] [2024-06-10 02:33:40,499] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] 02:33:40,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:33:40,500 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,501 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-10_02-33-40.log] [testng] 02:33:40,502 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55c646c0 - End of configuration. [testng] [2024-06-10 02:33:40,517] [pool-1-thread-10] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:33:40,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:33:40,518 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,519 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-10_02-33-40.log] [testng] 02:33:40,519 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34bd4c20 - End of configuration. [testng] [2024-06-10 02:33:40,529] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] 02:33:40,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:33:40,530 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,530 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-10_02-33-40.log] [testng] 02:33:40,531 |-INFO in ch.qos.logback.core.sift.SiftProcessor@492f208 - End of configuration. [testng] [2024-06-10 02:33:40,561] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] 02:33:40,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:33:40,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-10_02-33-40.log] [testng] 02:33:40,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75567d3c - End of configuration. [testng] [2024-06-10 02:33:40,597] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] 02:33:40,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:33:40,598 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,598 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-10_02-33-40.log] [testng] 02:33:40,599 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36ef025e - End of configuration. [testng] [2024-06-10 02:33:40,632] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] 02:33:40,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:33:40,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,633 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-10_02-33-40.log] [testng] 02:33:40,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5207094f - End of configuration. [testng] [2024-06-10 02:33:40,669] [pool-1-thread-5] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:33:40,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:33:40,669 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,670 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-10_02-33-40.log] [testng] 02:33:40,671 |-INFO in ch.qos.logback.core.sift.SiftProcessor@294b678a - End of configuration. [testng] [2024-06-10 02:33:40,702] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:33:40,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:33:40,702 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,703 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-10_02-33-40.log] [testng] 02:33:40,703 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11b332d9 - End of configuration. [testng] [2024-06-10 02:33:40,727] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 02:33:40,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:33:40,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,728 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-10_02-33-40.log] [testng] 02:33:40,729 |-INFO in ch.qos.logback.core.sift.SiftProcessor@101a9eba - End of configuration. [testng] [2024-06-10 02:33:40,752] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] 02:33:40,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:33:40,753 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:33:40,754 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-10_02-33-40.log] [testng] 02:33:40,754 |-INFO in ch.qos.logback.core.sift.SiftProcessor@dfffc8d - End of configuration. [testng] [2024-06-10 02:33:42,142] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-06-10 02:33:42,200] [pool-1-thread-11] Initializing /data/geert/bad example1.jpg: [testng] [2024-06-10 02:33:42,238] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-06-10 02:33:42,310] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-06-10 02:33:42,401] [pool-1-thread-9] Initializing /data/qa-29459/bad.1sc: [testng] [2024-06-10 02:33:42,455] [pool-1-thread-8] Initializing /data/samples/imagesEight.1sc: [testng] [2024-06-10 02:33:42,511] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-06-10 02:33:42,633] [pool-1-thread-12] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-06-10 02:33:42,665] [pool-1-thread-1] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-06-10 02:33:43,046] [pool-1-thread-7] Initializing /data/geert/good example1.1sc: [testng] [2024-06-10 02:33:43,094] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-06-10 02:33:43,145] [pool-1-thread-6] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-06-10 02:33:43,295] [pool-1-thread-12] Initializing /data/keith/test.1sc: [testng] [2024-06-10 02:33:43,331] [pool-1-thread-8] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-06-10 02:33:43,608] [pool-1-thread-12] Initializing /data/keith/test2.1sc: [testng] [2024-06-10 02:33:43,785] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-06-10 02:33:43,843] [pool-1-thread-6] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-06-10 02:33:43,882] [pool-1-thread-3] Initializing /data/qa-29469/good.1sc: [testng] [2024-06-10 02:33:43,913] [pool-1-thread-9] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-06-10 02:33:43,981] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 11 seconds Finished: SUCCESS