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Started by upstream project "BIOFORMATS-test-repo" build number 106 originally caused by: Started by upstream project "Trigger" build number 118 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3 [BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins2256626893198970608.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_16507_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] 02:36:02,637 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:36:02,640 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:36:02,640 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:36:02,641 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:36:02,642 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:36:02,642 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:36:02,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:36:02,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:36:02,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:36:02,644 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:36:02,645 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:36:02,645 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:36:02,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:36:02,825 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:36:02,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:36:02,847 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:36:02,853 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:36:02,853 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:36:02,853 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:36:02,853 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:36:02,853 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:36:02,854 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:36:02,854 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 211 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-06-29 02:36:02,863] [main] java.version = 11.0.16 [testng] 02:36:02,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:36:02,866 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:02,909 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-06-29_02-36-02.log] [testng] 02:36:02,910 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-06-29 02:36:02,912] [main] testng.directory = /data [testng] [2024-06-29 02:36:02,912] [main] testng.configDirectory = /config [testng] [2024-06-29 02:36:02,922] [main] testng.multiplier = 1.0 [testng] [2024-06-29 02:36:02,924] [main] testng.in-memory = false [testng] [2024-06-29 02:36:02,924] [main] testng.allow-missing = false [testng] [2024-06-29 02:36:02,924] [main] user.language = en [testng] [2024-06-29 02:36:02,924] [main] user.country = ${user.country} [testng] [2024-06-29 02:36:02,924] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-06-29 02:36:03,651] [main] ---------------------------------------- [testng] [2024-06-29 02:36:03,652] [main] Total files: 32 [testng] [2024-06-29 02:36:03,652] [main] Scan time: 0.727 s (22 ms/file) [testng] [2024-06-29 02:36:03,652] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-06-29 02:36:06,181] [pool-1-thread-1] Initializing /data/keith/test.1sc: [testng] 02:36:06,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:36:06,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,184 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-06-29_02-36-06.log] [testng] 02:36:06,185 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10b053dd - End of configuration. [testng] [2024-06-29 02:36:06,210] [pool-1-thread-12] Initializing /data/geert/bad example1.1sc: [testng] 02:36:06,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:36:06,210 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,211 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-06-29_02-36-06.log] [testng] 02:36:06,211 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a35e22b - End of configuration. [testng] [2024-06-29 02:36:06,246] [pool-1-thread-11] Initializing /data/samples/imagesEight.1sc: [testng] 02:36:06,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:36:06,247 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,247 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-06-29_02-36-06.log] [testng] 02:36:06,248 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b182aeb - End of configuration. [testng] [2024-06-29 02:36:06,262] [pool-1-thread-10] Initializing /data/qa-29469/bad3.1sc: [testng] 02:36:06,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:36:06,262 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,263 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-06-29_02-36-06.log] [testng] 02:36:06,263 |-INFO in ch.qos.logback.core.sift.SiftProcessor@8ecebf8 - End of configuration. [testng] [2024-06-29 02:36:06,294] [pool-1-thread-9] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:36:06,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:36:06,294 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-06-29_02-36-06.log] [testng] 02:36:06,295 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42f750e6 - End of configuration. [testng] [2024-06-29 02:36:06,344] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:36:06,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:36:06,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,345 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-06-29_02-36-06.log] [testng] 02:36:06,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40c6de66 - End of configuration. [testng] [2024-06-29 02:36:06,404] [pool-1-thread-7] Initializing /data/qa-16880/c-src v7.1sc: [testng] 02:36:06,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:36:06,405 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,405 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-06-29_02-36-06.log] [testng] 02:36:06,406 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5cd05d6f - End of configuration. [testng] [2024-06-29 02:36:06,428] [pool-1-thread-6] Initializing /data/keith/test2.1sc: [testng] 02:36:06,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:36:06,428 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,429 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-06-29_02-36-06.log] [testng] 02:36:06,430 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ff885c4 - End of configuration. [testng] [2024-06-29 02:36:06,452] [pool-1-thread-5] Initializing /data/keith/pg020410saur3.1sc: [testng] 02:36:06,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:36:06,452 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,453 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-06-29_02-36-06.log] [testng] 02:36:06,454 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2228e4d1 - End of configuration. [testng] [2024-06-29 02:36:06,466] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] 02:36:06,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:36:06,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,467 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-06-29_02-36-06.log] [testng] 02:36:06,467 |-INFO in ch.qos.logback.core.sift.SiftProcessor@153243e - End of configuration. [testng] [2024-06-29 02:36:06,492] [pool-1-thread-3] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:36:06,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:36:06,492 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,493 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-06-29_02-36-06.log] [testng] 02:36:06,493 |-INFO in ch.qos.logback.core.sift.SiftProcessor@56b175f - End of configuration. [testng] [2024-06-29 02:36:06,528] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 02:36:06,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:36:06,529 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:36:06,529 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-06-29_02-36-06.log] [testng] 02:36:06,529 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2da8690e - End of configuration. [testng] [2024-06-29 02:36:07,946] [pool-1-thread-6] Initializing /data/geert/good example1.1sc: [testng] [2024-06-29 02:36:07,982] [pool-1-thread-1] Initializing /data/samples/Criterion.1sc: [testng] [2024-06-29 02:36:08,010] [pool-1-thread-11] Initializing /data/geert/bad example1.jpg: [testng] [2024-06-29 02:36:08,046] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-06-29 02:36:08,093] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-06-29 02:36:08,124] [pool-1-thread-10] Initializing /data/qa-29459/bad.1sc: [testng] [2024-06-29 02:36:08,153] [pool-1-thread-7] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-06-29 02:36:08,376] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-06-29 02:36:08,429] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2024-06-29 02:36:08,462] [pool-1-thread-4] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-06-29 02:36:08,495] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2024-06-29 02:36:08,611] [pool-1-thread-8] Initializing /data/qa-29469/good.1sc: [testng] [2024-06-29 02:36:08,793] [pool-1-thread-10] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-06-29 02:36:08,868] [pool-1-thread-4] Initializing /data/qa-29459/bad.jpg: [testng] [2024-06-29 02:36:08,983] [pool-1-thread-1] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-06-29 02:36:09,117] [pool-1-thread-3] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-06-29 02:36:09,174] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-06-29 02:36:09,252] [pool-1-thread-4] Initializing /data/keith/PF020328saur v3.1sc: [testng] [2024-06-29 02:36:09,372] [pool-1-thread-8] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-06-29 02:36:09,389] [pool-1-thread-1] 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: 10 seconds Finished: SUCCESS