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Started by upstream project "BIOFORMATS-test-repo" build number 35 originally caused by: Started by upstream project "Trigger" build number 39 originally caused by: Started by user devspace Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins7611411993667010050.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_4862_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] 13:17:01,459 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 13:17:01,461 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 13:17:01,461 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:17:01,462 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 13:17:01,462 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 13:17:01,462 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 13:17:01,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 13:17:01,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:17:01,463 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 13:17:01,463 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 13:17:01,464 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 13:17:01,464 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 13:17:01,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 13:17:01,730 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 13:17:01,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 13:17:01,759 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 13:17:01,767 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 13:17:01,767 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 13:17:01,768 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 13:17:01,768 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 13:17:01,768 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 13:17:01,769 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 13:17:01,769 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 306 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-04-15 13:17:01,779] [main] java.version = 1.8.0_342 [testng] 13:17:01,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 13:17:01,783 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:01,831 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-04-15_13-17-01.log] [testng] 13:17:01,832 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-04-15 13:17:01,834] [main] testng.directory = /data [testng] [2024-04-15 13:17:01,835] [main] testng.configDirectory = /config [testng] [2024-04-15 13:17:01,846] [main] testng.multiplier = 1.0 [testng] [2024-04-15 13:17:01,847] [main] testng.in-memory = false [testng] [2024-04-15 13:17:01,847] [main] testng.allow-missing = false [testng] [2024-04-15 13:17:01,847] [main] user.language = fr [testng] [2024-04-15 13:17:01,847] [main] user.country = FR [testng] [2024-04-15 13:17:01,847] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-04-15 13:17:02,652] [main] ---------------------------------------- [testng] [2024-04-15 13:17:02,653] [main] Total files: 32 [testng] [2024-04-15 13:17:02,653] [main] Scan time: 0.805 s (25 ms/file) [testng] [2024-04-15 13:17:02,653] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-04-15 13:17:05,475] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 13:17:05,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 13:17:05,476 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,477 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-04-15_13-17-05.log] [testng] 13:17:05,477 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24ec0ee7 - End of configuration. [testng] [2024-04-15 13:17:05,533] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 13:17:05,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 13:17:05,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,534 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-04-15_13-17-05.log] [testng] 13:17:05,535 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a6da18b - End of configuration. [testng] [2024-04-15 13:17:05,600] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] 13:17:05,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 13:17:05,601 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,601 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-04-15_13-17-05.log] [testng] 13:17:05,602 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8d3bb28 - End of configuration. [testng] [2024-04-15 13:17:05,615] [pool-1-thread-10] Initializing /data/keith/PF020328saur v3.1sc: [testng] 13:17:05,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 13:17:05,615 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,616 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-04-15_13-17-05.log] [testng] 13:17:05,616 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62cd991a - End of configuration. [testng] [2024-04-15 13:17:05,626] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] 13:17:05,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 13:17:05,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,627 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-04-15_13-17-05.log] [testng] 13:17:05,628 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8976c6f - End of configuration. [testng] [2024-04-15 13:17:05,653] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] 13:17:05,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 13:17:05,654 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,654 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-04-15_13-17-05.log] [testng] 13:17:05,655 |-INFO in ch.qos.logback.core.sift.SiftProcessor@cdcdcfa - End of configuration. [testng] [2024-04-15 13:17:05,693] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] 13:17:05,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 13:17:05,694 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-04-15_13-17-05.log] [testng] 13:17:05,695 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38b86200 - End of configuration. [testng] [2024-04-15 13:17:05,726] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] 13:17:05,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 13:17:05,727 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-04-15_13-17-05.log] [testng] 13:17:05,728 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75c4c077 - End of configuration. [testng] [2024-04-15 13:17:05,764] [pool-1-thread-5] Initializing /data/david/Opened in imageJ.tiff: [testng] 13:17:05,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 13:17:05,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,766 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-04-15_13-17-05.log] [testng] 13:17:05,766 |-INFO in ch.qos.logback.core.sift.SiftProcessor@337e3994 - End of configuration. [testng] [2024-04-15 13:17:05,802] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 13:17:05,802 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 13:17:05,802 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,803 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-04-15_13-17-05.log] [testng] 13:17:05,803 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4334d507 - End of configuration. [testng] [2024-04-15 13:17:05,825] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 13:17:05,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 13:17:05,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,826 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-04-15_13-17-05.log] [testng] 13:17:05,827 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c2732d2 - End of configuration. [testng] [2024-04-15 13:17:05,846] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] 13:17:05,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 13:17:05,846 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 13:17:05,847 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-04-15_13-17-05.log] [testng] 13:17:05,847 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6c0002c9 - End of configuration. [testng] [2024-04-15 13:17:07,159] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-04-15 13:17:07,201] [pool-1-thread-10] Initializing /data/qa-29459/bad.1sc: [testng] [2024-04-15 13:17:07,235] [pool-1-thread-3] Initializing /data/geert/bad example1.jpg: [testng] [2024-04-15 13:17:07,268] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-04-15 13:17:07,328] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-04-15 13:17:07,433] [pool-1-thread-6] Initializing /data/samples/imagesEight.1sc: [testng] [2024-04-15 13:17:07,456] [pool-1-thread-9] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-04-15 13:17:07,568] [pool-1-thread-4] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-04-15 13:17:07,682] [pool-1-thread-12] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-04-15 13:17:07,725] [pool-1-thread-1] Initializing /data/geert/good example1.1sc: [testng] [2024-04-15 13:17:08,213] [pool-1-thread-4] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-04-15 13:17:08,335] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-04-15 13:17:08,480] [pool-1-thread-3] Initializing /data/keith/test.1sc: [testng] [2024-04-15 13:17:08,500] [pool-1-thread-7] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-04-15 13:17:08,527] [pool-1-thread-6] Initializing /data/keith/test2.1sc: [testng] [2024-04-15 13:17:08,635] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-04-15 13:17:08,714] [pool-1-thread-8] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-04-15 13:17:08,781] [pool-1-thread-11] Initializing /data/qa-29469/good.1sc: [testng] [2024-04-15 13:17:08,857] [pool-1-thread-5] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-04-15 13:17:08,889] [pool-1-thread-10] 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: 14 seconds Finished: SUCCESS