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Started by upstream project "BIOFORMATS-test-repo" build number 69 originally caused by: Started by upstream project "Trigger" build number 77 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins12291268856925183243.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_10439_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] 02:41:08,853 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:41:08,855 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:41:08,855 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:41:08,857 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:41:08,857 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:41:08,857 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:41:08,857 |-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] 02:41:08,857 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:41:08,858 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:41:08,858 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:41:08,858 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:41:08,858 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:41:09,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:41:09,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:41:09,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:41:09,134 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:41:09,143 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:41:09,143 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:41:09,143 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:41:09,144 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:41:09,144 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:41:09,145 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:41:09,145 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 287 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-05-20 02:41:09,156] [main] java.version = 1.8.0_342 [testng] 02:41:09,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:41:09,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:09,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-20_02-41-09.log] [testng] 02:41:09,209 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-05-20 02:41:09,212] [main] testng.directory = /data [testng] [2024-05-20 02:41:09,212] [main] testng.configDirectory = /config [testng] [2024-05-20 02:41:09,225] [main] testng.multiplier = 1.0 [testng] [2024-05-20 02:41:09,225] [main] testng.in-memory = false [testng] [2024-05-20 02:41:09,225] [main] testng.allow-missing = false [testng] [2024-05-20 02:41:09,225] [main] user.language = fr [testng] [2024-05-20 02:41:09,226] [main] user.country = FR [testng] [2024-05-20 02:41:09,226] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-05-20 02:41:10,037] [main] ---------------------------------------- [testng] [2024-05-20 02:41:10,037] [main] Total files: 32 [testng] [2024-05-20 02:41:10,037] [main] Scan time: 0.811 s (25 ms/file) [testng] [2024-05-20 02:41:10,037] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-05-20 02:41:13,164] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:41:13,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:41:13,164 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,165 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-20_02-41-13.log] [testng] 02:41:13,165 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52ff68c6 - End of configuration. [testng] [2024-05-20 02:41:13,223] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:41:13,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:41:13,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,224 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-20_02-41-13.log] [testng] 02:41:13,224 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ea1dac3 - End of configuration. [testng] [2024-05-20 02:41:13,294] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] 02:41:13,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:41:13,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,296 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-20_02-41-13.log] [testng] 02:41:13,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@151fa901 - End of configuration. [testng] [2024-05-20 02:41:13,306] [pool-1-thread-10] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:41:13,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:41:13,307 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,307 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-20_02-41-13.log] [testng] 02:41:13,308 |-INFO in ch.qos.logback.core.sift.SiftProcessor@92288ad - End of configuration. [testng] [2024-05-20 02:41:13,318] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] 02:41:13,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:41:13,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,319 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-20_02-41-13.log] [testng] 02:41:13,319 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7ed58f8a - End of configuration. [testng] [2024-05-20 02:41:13,345] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] 02:41:13,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:41:13,346 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-20_02-41-13.log] [testng] 02:41:13,347 |-INFO in ch.qos.logback.core.sift.SiftProcessor@174b4a36 - End of configuration. [testng] [2024-05-20 02:41:13,388] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] 02:41:13,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:41:13,388 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-20_02-41-13.log] [testng] 02:41:13,389 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b36d3a - End of configuration. [testng] [2024-05-20 02:41:13,423] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] 02:41:13,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:41:13,423 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,424 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-20_02-41-13.log] [testng] 02:41:13,424 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d0c830c - End of configuration. [testng] [2024-05-20 02:41:13,461] [pool-1-thread-5] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:41:13,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:41:13,461 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,461 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-20_02-41-13.log] [testng] 02:41:13,462 |-INFO in ch.qos.logback.core.sift.SiftProcessor@24ba60c2 - End of configuration. [testng] [2024-05-20 02:41:13,494] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:41:13,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:41:13,495 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,495 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-20_02-41-13.log] [testng] 02:41:13,496 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1ed5ed8c - End of configuration. [testng] [2024-05-20 02:41:13,514] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 02:41:13,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:41:13,515 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,515 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-20_02-41-13.log] [testng] 02:41:13,516 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52dbc1ff - End of configuration. [testng] [2024-05-20 02:41:13,535] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] 02:41:13,535 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:41:13,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:41:13,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-20_02-41-13.log] [testng] 02:41:13,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10c4dabc - End of configuration. [testng] [2024-05-20 02:41:15,088] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-05-20 02:41:15,135] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-05-20 02:41:15,155] [pool-1-thread-3] Initializing /data/samples/imagesEight.1sc: [testng] [2024-05-20 02:41:15,174] [pool-1-thread-5] Initializing /data/qa-29459/bad.1sc: [testng] [2024-05-20 02:41:15,220] [pool-1-thread-9] Initializing /data/geert/bad example1.jpg: [testng] [2024-05-20 02:41:15,256] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-05-20 02:41:15,319] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-05-20 02:41:15,520] [pool-1-thread-1] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-05-20 02:41:15,624] [pool-1-thread-12] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-05-20 02:41:15,952] [pool-1-thread-6] Initializing /data/geert/good example1.1sc: [testng] [2024-05-20 02:41:16,153] [pool-1-thread-2] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-05-20 02:41:16,233] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-05-20 02:41:16,397] [pool-1-thread-7] Initializing /data/keith/test.1sc: [testng] [2024-05-20 02:41:16,476] [pool-1-thread-3] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-05-20 02:41:16,688] [pool-1-thread-9] Initializing /data/keith/test2.1sc: [testng] [2024-05-20 02:41:16,708] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-05-20 02:41:16,767] [pool-1-thread-8] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-05-20 02:41:16,848] [pool-1-thread-7] Initializing /data/qa-29469/good.1sc: [testng] [2024-05-20 02:41:16,886] [pool-1-thread-4] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-05-20 02:41:16,941] [pool-1-thread-11] 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