Started by upstream project "BIOFORMATS-test-repo" build number 292 originally caused by: Started by upstream project "Trigger" build number 311 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/jenkins11210851261411624757.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_46211_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] 07:31:02,347 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 07:31:02,349 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - No custom configurators were discovered as a service. [testng] 07:31:02,349 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:31:02,350 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 07:31:02,350 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 07:31:02,350 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 07:31:02,351 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 07:31:02,351 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:31:02,351 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 07:31:02,351 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 07:31:02,351 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 07:31:02,352 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 07:31:02,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 07:31:02,576 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 07:31:02,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 07:31:02,604 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 07:31:02,612 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 07:31:02,612 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 07:31:02,612 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 07:31:02,613 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 07:31:02,613 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@7a69b07 - End of configuration. [testng] 07:31:02,613 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@636be97c - Registering current configuration as safe fallback point [testng] 07:31:02,614 |-INFO in ch.qos.logback.classic.util.ContextInitializer@79ad8b2f - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 263 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-16 07:31:02,623] [main] java.version = 1.8.0_342 [testng] 07:31:02,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 07:31:02,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:31:02,672 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-16_07-31-02.log] [testng] 07:31:02,674 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13c9d689 - End of configuration. [testng] [2024-12-16 07:31:02,675] [main] testng.directory = /data [testng] [2024-12-16 07:31:02,676] [main] testng.configDirectory = /config [testng] [2024-12-16 07:31:02,688] [main] testng.multiplier = 1.0 [testng] [2024-12-16 07:31:02,689] [main] testng.in-memory = false [testng] [2024-12-16 07:31:02,689] [main] testng.allow-missing = false [testng] [2024-12-16 07:31:02,689] [main] user.language = fr [testng] [2024-12-16 07:31:02,689] [main] user.country = FR [testng] [2024-12-16 07:31:02,689] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-12-16 07:31:11,705] [main] ---------------------------------------- [testng] [2024-12-16 07:31:11,705] [main] Total files: 32 [testng] [2024-12-16 07:31:11,705] [main] Scan time: 9.016 s (281 ms/file) [testng] [2024-12-16 07:31:11,705] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-16 07:32:31,446] [pool-1-thread-1] Initializing /data/samples/Criterion.1sc: [testng] 07:32:31,446 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 07:32:31,446 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:31,447 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-16_07-32-31.log] [testng] 07:32:31,448 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b0b1c87 - End of configuration. [testng] [2024-12-16 07:32:33,207] [pool-1-thread-12] Initializing /data/keith/test.1sc: [testng] 07:32:33,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 07:32:33,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:33,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-16_07-32-33.log] [testng] 07:32:33,208 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14af3365 - End of configuration. [testng] [2024-12-16 07:32:35,450] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] 07:32:35,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 07:32:35,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:35,451 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-16_07-32-35.log] [testng] 07:32:35,452 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22399380 - End of configuration. [testng] [2024-12-16 07:32:41,747] [pool-1-thread-10] Initializing /data/geert/bad example1.1sc.jpg: [testng] 07:32:41,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 07:32:41,748 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:41,748 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-16_07-32-41.log] [testng] 07:32:41,749 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7f7a7f15 - End of configuration. [testng] [2024-12-16 07:32:42,146] [pool-1-thread-9] Initializing /data/samples/imagesEight.1sc: [testng] 07:32:42,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 07:32:42,146 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:42,147 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-16_07-32-42.log] [testng] 07:32:42,147 |-INFO in ch.qos.logback.core.sift.SiftProcessor@485ab2bf - End of configuration. [testng] [2024-12-16 07:32:43,637] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] 07:32:43,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 07:32:43,637 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:43,638 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-16_07-32-43.log] [testng] 07:32:43,638 |-INFO in ch.qos.logback.core.sift.SiftProcessor@38047a45 - End of configuration. [testng] [2024-12-16 07:32:46,137] [pool-1-thread-7] Initializing /data/keith/PF020328saur v3.1sc: [testng] 07:32:46,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 07:32:46,137 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:46,137 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-16_07-32-46.log] [testng] 07:32:46,138 |-INFO in ch.qos.logback.core.sift.SiftProcessor@663bb6a7 - End of configuration. [testng] [2024-12-16 07:32:47,591] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] 07:32:47,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 07:32:47,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:47,592 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-16_07-32-47.log] [testng] 07:32:47,592 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5787bc5a - End of configuration. [testng] [2024-12-16 07:32:49,313] [pool-1-thread-5] Initializing /data/geert/bad example1.jpg: [testng] 07:32:49,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 07:32:49,313 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:49,314 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-16_07-32-49.log] [testng] 07:32:49,314 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25c6a7b1 - End of configuration. [testng] [2024-12-16 07:32:49,859] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] 07:32:49,859 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 07:32:49,860 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:49,860 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-16_07-32-49.log] [testng] 07:32:49,860 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5f65dc95 - End of configuration. [testng] [2024-12-16 07:32:51,434] [pool-1-thread-3] Initializing /data/keith/test2.1sc: [testng] 07:32:51,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 07:32:51,434 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:51,434 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-16_07-32-51.log] [testng] 07:32:51,435 |-INFO in ch.qos.logback.core.sift.SiftProcessor@510df405 - End of configuration. [testng] [2024-12-16 07:32:53,275] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] 07:32:53,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 07:32:53,275 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 07:32:53,276 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-16_07-32-53.log] [testng] 07:32:53,276 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40dbf523 - End of configuration. [testng] [2024-12-16 07:33:13,284] [pool-1-thread-9] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-12-16 07:33:16,612] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-12-16 07:33:21,781] [pool-1-thread-12] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-12-16 07:33:23,271] [pool-1-thread-3] Initializing /data/qa-29469/good.1sc: [testng] [2024-12-16 07:33:24,856] [pool-1-thread-8] Initializing /data/geert/good example1.1sc: [testng] [2024-12-16 07:33:26,101] [pool-1-thread-10] Initializing /data/adrian/test_img.1sc: [testng] [2024-12-16 07:33:27,427] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-12-16 07:33:28,700] [pool-1-thread-4] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-12-16 07:33:30,154] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc: [testng] [2024-12-16 07:33:31,209] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-12-16 07:33:47,880] [pool-1-thread-6] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2024-12-16 07:33:50,498] [pool-1-thread-12] Initializing /data/qa-29459/bad.jpg: [testng] [2024-12-16 07:33:51,075] [pool-1-thread-4] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-12-16 07:33:51,498] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-12-16 07:33:53,215] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-12-16 07:33:59,758] [pool-1-thread-8] Initializing /data/qa-29469/bad2.1sc: [testng] [2024-12-16 07:34:01,918] [pool-1-thread-10] Initializing /data/david/Opened in imageJ.tiff: [testng] [2024-12-16 07:34:07,620] [pool-1-thread-5] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-12-16 07:34:13,864] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2024-12-16 07:34:16,115] [pool-1-thread-2] Initializing /data/qa-29459/bad.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 44 seconds Finished: SUCCESS