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Started by upstream project "BIOFORMATS-test-repo" build number 128 originally caused by: Started by upstream project "Trigger" build number 145 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins6111044699958841795.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_20115_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] 02:37:43,892 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:37:43,894 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:37:43,894 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:37:43,896 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:37:43,896 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:37:43,896 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:37:43,896 |-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] 02:37:43,896 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:37:43,897 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:37:43,897 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:37:43,897 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:37:43,898 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:37:44,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:37:44,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:37:44,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:37:44,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:37:44,199 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:37:44,200 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:37:44,200 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:37:44,200 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:37:44,200 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:37:44,201 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:37:44,202 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 305 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-22 02:37:44,213] [main] java.version = 1.8.0_342 [testng] 02:37:44,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:37:44,218 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:44,270 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-22_02-37-44.log] [testng] 02:37:44,275 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-07-22 02:37:44,278] [main] testng.directory = /data [testng] [2024-07-22 02:37:44,278] [main] testng.configDirectory = /config [testng] [2024-07-22 02:37:44,297] [main] testng.multiplier = 1.0 [testng] [2024-07-22 02:37:44,298] [main] testng.in-memory = false [testng] [2024-07-22 02:37:44,298] [main] testng.allow-missing = false [testng] [2024-07-22 02:37:44,298] [main] user.language = fr [testng] [2024-07-22 02:37:44,298] [main] user.country = FR [testng] [2024-07-22 02:37:44,298] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-07-22 02:37:45,121] [main] ---------------------------------------- [testng] [2024-07-22 02:37:45,121] [main] Total files: 32 [testng] [2024-07-22 02:37:45,121] [main] Scan time: 0.821 s (25 ms/file) [testng] [2024-07-22 02:37:45,121] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-22 02:37:48,312] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:37:48,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:37:48,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-22_02-37-48.log] [testng] 02:37:48,314 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a068e53 - End of configuration. [testng] [2024-07-22 02:37:48,370] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:37:48,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:37:48,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,371 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-22_02-37-48.log] [testng] 02:37:48,372 |-INFO in ch.qos.logback.core.sift.SiftProcessor@9b6ee60 - End of configuration. [testng] [2024-07-22 02:37:48,435] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] 02:37:48,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:37:48,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,436 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-22_02-37-48.log] [testng] 02:37:48,436 |-INFO in ch.qos.logback.core.sift.SiftProcessor@47ed4942 - End of configuration. [testng] [2024-07-22 02:37:48,446] [pool-1-thread-10] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:37:48,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:37:48,447 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,447 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-22_02-37-48.log] [testng] 02:37:48,448 |-INFO in ch.qos.logback.core.sift.SiftProcessor@623e664f - End of configuration. [testng] [2024-07-22 02:37:48,458] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] 02:37:48,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:37:48,458 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,459 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-22_02-37-48.log] [testng] 02:37:48,459 |-INFO in ch.qos.logback.core.sift.SiftProcessor@17fb82c - End of configuration. [testng] [2024-07-22 02:37:48,485] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] 02:37:48,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:37:48,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,486 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-22_02-37-48.log] [testng] 02:37:48,486 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36b30169 - End of configuration. [testng] [2024-07-22 02:37:48,521] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] 02:37:48,521 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:37:48,522 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,522 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-22_02-37-48.log] [testng] 02:37:48,523 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38b86200 - End of configuration. [testng] [2024-07-22 02:37:48,556] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] 02:37:48,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:37:48,556 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,557 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-22_02-37-48.log] [testng] 02:37:48,557 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75c4c077 - End of configuration. [testng] [2024-07-22 02:37:48,593] [pool-1-thread-5] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:37:48,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:37:48,593 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,594 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-22_02-37-48.log] [testng] 02:37:48,594 |-INFO in ch.qos.logback.core.sift.SiftProcessor@337e3994 - End of configuration. [testng] [2024-07-22 02:37:48,632] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:37:48,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:37:48,632 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,632 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-22_02-37-48.log] [testng] 02:37:48,633 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4334d507 - End of configuration. [testng] [2024-07-22 02:37:48,651] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 02:37:48,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:37:48,652 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,653 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-22_02-37-48.log] [testng] 02:37:48,653 |-INFO in ch.qos.logback.core.sift.SiftProcessor@50ff625f - End of configuration. [testng] [2024-07-22 02:37:48,672] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] 02:37:48,672 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:37:48,673 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:37:48,673 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-22_02-37-48.log] [testng] 02:37:48,673 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2c2732d2 - End of configuration. [testng] [2024-07-22 02:37:51,040] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-07-22 02:37:51,090] [pool-1-thread-10] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-07-22 02:37:51,102] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-07-22 02:37:51,121] [pool-1-thread-5] Initializing /data/samples/imagesEight.1sc: [testng] [2024-07-22 02:37:51,135] [pool-1-thread-8] Initializing /data/qa-29459/bad.1sc: [testng] [2024-07-22 02:37:51,169] [pool-1-thread-4] Initializing /data/geert/bad example1.jpg: [testng] [2024-07-22 02:37:51,201] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-07-22 02:37:51,242] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-07-22 02:37:51,323] [pool-1-thread-9] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-07-22 02:37:51,552] [pool-1-thread-6] Initializing /data/geert/good example1.1sc: [testng] [2024-07-22 02:37:51,612] [pool-1-thread-2] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-07-22 02:37:51,695] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-07-22 02:37:51,930] [pool-1-thread-10] Initializing /data/keith/test.1sc: [testng] [2024-07-22 02:37:51,952] [pool-1-thread-5] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-07-22 02:37:52,393] [pool-1-thread-2] Initializing /data/keith/test2.1sc: [testng] [2024-07-22 02:37:52,412] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-07-22 02:37:52,497] [pool-1-thread-3] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-07-22 02:37:52,527] [pool-1-thread-10] Initializing /data/qa-29469/good.1sc: [testng] [2024-07-22 02:37:52,592] [pool-1-thread-4] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-07-22 02:37:52,706] [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: 12 seconds Finished: SUCCESS