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Started by upstream project "BIOFORMATS-test-repo" build number 9 originally caused by: Started by upstream project "Trigger" build number 12 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/jenkins4899591178921849044.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_1416_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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 02:00:20,240 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:00:20,242 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:00:20,242 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:00:20,243 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:00:20,243 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:00:20,244 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:00:20,244 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:00:20,244 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:00:20,244 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:00:20,245 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:00:20,245 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:00:20,246 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:00:20,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:00:20,410 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:00:20,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:00:20,435 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:00:20,442 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:00:20,442 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:00:20,442 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:00:20,442 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:00:20,443 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:00:20,443 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:00:20,443 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 199 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-23 02:00:20,452] [main] java.version = 11.0.16 [testng] 02:00:20,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:00:20,455 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:20,496 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-23_02-00-20.log] [testng] 02:00:20,498 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-03-23 02:00:20,500] [main] testng.directory = /data [testng] [2024-03-23 02:00:20,500] [main] testng.configDirectory = /config [testng] [2024-03-23 02:00:20,510] [main] testng.multiplier = 1.0 [testng] [2024-03-23 02:00:20,511] [main] testng.in-memory = false [testng] [2024-03-23 02:00:20,511] [main] testng.allow-missing = false [testng] [2024-03-23 02:00:20,511] [main] user.language = en [testng] [2024-03-23 02:00:20,511] [main] user.country = ${user.country} [testng] [2024-03-23 02:00:20,511] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-03-23 02:00:22,275] [main] ---------------------------------------- [testng] [2024-03-23 02:00:22,276] [main] Total files: 32 [testng] [2024-03-23 02:00:22,276] [main] Scan time: 1.763 s (55 ms/file) [testng] [2024-03-23 02:00:22,276] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-23 02:00:35,709] [pool-1-thread-1] Initializing /data/keith/test.1sc: [testng] 02:00:35,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:00:35,710 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:35,713 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-23_02-00-35.log] [testng] 02:00:35,713 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a9e5e11 - End of configuration. [testng] [2024-03-23 02:00:35,933] [pool-1-thread-12] Initializing /data/geert/bad example1.1sc: [testng] 02:00:35,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:00:35,934 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:35,935 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-23_02-00-35.log] [testng] 02:00:35,935 |-INFO in ch.qos.logback.core.sift.SiftProcessor@796e5942 - End of configuration. [testng] [2024-03-23 02:00:36,189] [pool-1-thread-11] Initializing /data/samples/imagesEight.1sc: [testng] 02:00:36,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:00:36,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:36,190 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-23_02-00-36.log] [testng] 02:00:36,190 |-INFO in ch.qos.logback.core.sift.SiftProcessor@593b5913 - End of configuration. [testng] [2024-03-23 02:00:36,426] [pool-1-thread-10] Initializing /data/qa-29469/bad3.1sc: [testng] 02:00:36,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:00:36,426 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:36,427 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-23_02-00-36.log] [testng] 02:00:36,427 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21472e47 - End of configuration. [testng] [2024-03-23 02:00:36,684] [pool-1-thread-9] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:00:36,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:00:36,684 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:36,685 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-23_02-00-36.log] [testng] 02:00:36,686 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c742d4a - End of configuration. [testng] [2024-03-23 02:00:37,506] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:00:37,506 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:00:37,507 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:37,507 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-23_02-00-37.log] [testng] 02:00:37,508 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3edeac82 - End of configuration. [testng] [2024-03-23 02:00:38,259] [pool-1-thread-7] Initializing /data/qa-16880/c-src v7.1sc: [testng] 02:00:38,259 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:00:38,260 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:38,260 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-23_02-00-38.log] [testng] 02:00:38,261 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40c6de66 - End of configuration. [testng] [2024-03-23 02:00:38,465] [pool-1-thread-6] Initializing /data/keith/test2.1sc: [testng] 02:00:38,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:00:38,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:38,466 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-23_02-00-38.log] [testng] 02:00:38,466 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4eebd90f - End of configuration. [testng] [2024-03-23 02:00:38,659] [pool-1-thread-5] Initializing /data/keith/pg020410saur3.1sc: [testng] 02:00:38,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:00:38,660 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:38,660 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-23_02-00-38.log] [testng] 02:00:38,661 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b430255 - End of configuration. [testng] [2024-03-23 02:00:38,973] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] 02:00:38,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:00:38,973 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:38,974 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-23_02-00-38.log] [testng] 02:00:38,974 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ff1f438 - End of configuration. [testng] [2024-03-23 02:00:39,233] [pool-1-thread-3] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:00:39,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:00:39,233 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:39,234 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-23_02-00-39.log] [testng] 02:00:39,234 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2da8690e - End of configuration. [testng] [2024-03-23 02:00:39,996] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 02:00:39,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:00:39,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:39,997 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-23_02-00-39.log] [testng] 02:00:39,998 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cc5ec68 - End of configuration. [testng] [2024-03-23 02:00:43,066] [pool-1-thread-5] Initializing /data/geert/good example1.1sc: [testng] [2024-03-23 02:00:43,311] [pool-1-thread-11] Initializing /data/geert/bad example1.jpg: [testng] [2024-03-23 02:00:43,414] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-03-23 02:00:44,125] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-03-23 02:00:44,353] [pool-1-thread-7] Initializing /data/qa-29459/bad.1sc: [testng] [2024-03-23 02:00:44,571] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-03-23 02:00:45,324] [pool-1-thread-12] Initializing /data/samples/Criterion.1sc: [testng] [2024-03-23 02:00:45,521] [pool-1-thread-4] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-03-23 02:00:45,717] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-03-23 02:00:47,180] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2024-03-23 02:00:48,756] [pool-1-thread-4] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-03-23 02:00:49,033] [pool-1-thread-8] Initializing /data/qa-29469/good.1sc: [testng] [2024-03-23 02:00:49,303] [pool-1-thread-9] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-03-23 02:00:50,130] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg: [testng] [2024-03-23 02:00:50,199] [pool-1-thread-12] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-03-23 02:00:50,397] [pool-1-thread-11] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-03-23 02:00:50,679] [pool-1-thread-5] Initializing /data/keith/PF020328saur v3.1sc: [testng] [2024-03-23 02:00:51,010] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-03-23 02:00:51,704] [pool-1-thread-3] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-03-23 02:00:52,285] [pool-1-thread-7] Initializing /data/adrian/test_img.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 37 seconds Finished: SUCCESS