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Started by upstream project "BIOFORMATS-test-repo" build number 212 originally caused by: Started by upstream project "Trigger" build number 238 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/jenkins9888521905068277063.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_33734_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] 03:34:15,705 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:34:15,707 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 03:34:15,707 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:34:15,709 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:34:15,709 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:34:15,709 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:34:15,709 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:34:15,709 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:34:15,710 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:34:15,710 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:34:15,710 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:34:15,710 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:34:15,967 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:34:15,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:34:15,999 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:34:16,000 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:34:16,010 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:34:16,010 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:34:16,010 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:34:16,011 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:34:16,011 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 03:34:16,012 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 03:34:16,012 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 302 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-07 03:34:16,023] [main] java.version = 1.8.0_342 [testng] 03:34:16,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:34:16,027 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:16,093 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-07_03-34-16.log] [testng] 03:34:16,096 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-10-07 03:34:16,099] [main] testng.directory = /data [testng] [2024-10-07 03:34:16,099] [main] testng.configDirectory = /config [testng] [2024-10-07 03:34:16,123] [main] testng.multiplier = 1.0 [testng] [2024-10-07 03:34:16,125] [main] testng.in-memory = false [testng] [2024-10-07 03:34:16,125] [main] testng.allow-missing = false [testng] [2024-10-07 03:34:16,125] [main] user.language = fr [testng] [2024-10-07 03:34:16,125] [main] user.country = FR [testng] [2024-10-07 03:34:16,125] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-10-07 03:34:18,739] [main] ---------------------------------------- [testng] [2024-10-07 03:34:18,739] [main] Total files: 32 [testng] [2024-10-07 03:34:18,740] [main] Scan time: 2.614 s (81 ms/file) [testng] [2024-10-07 03:34:18,740] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-07 03:34:37,230] [pool-1-thread-1] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] 03:34:37,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:34:37,231 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:37,232 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-07_03-34-37.log] [testng] 03:34:37,232 |-INFO in ch.qos.logback.core.sift.SiftProcessor@585617a8 - End of configuration. [testng] [2024-10-07 03:34:38,361] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 03:34:38,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:34:38,361 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:38,362 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-07_03-34-38.log] [testng] 03:34:38,362 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6d649dbf - End of configuration. [testng] [2024-10-07 03:34:38,676] [pool-1-thread-11] Initializing /data/adrian/test_img.1sc: [testng] 03:34:38,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:34:38,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:38,677 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-07_03-34-38.log] [testng] 03:34:38,678 |-INFO in ch.qos.logback.core.sift.SiftProcessor@140f7040 - End of configuration. [testng] [2024-10-07 03:34:39,031] [pool-1-thread-10] Initializing /data/qa-29469/bad2.1sc: [testng] 03:34:39,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:34:39,031 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:39,031 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-07_03-34-39.log] [testng] 03:34:39,032 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f9d0650 - End of configuration. [testng] [2024-10-07 03:34:39,352] [pool-1-thread-9] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 03:34:39,352 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:34:39,353 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:39,353 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-07_03-34-39.log] [testng] 03:34:39,354 |-INFO in ch.qos.logback.core.sift.SiftProcessor@391c79c5 - End of configuration. [testng] [2024-10-07 03:34:39,687] [pool-1-thread-8] Initializing /data/samples/imagesEight.1sc: [testng] 03:34:39,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:34:39,687 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:39,688 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-07_03-34-39.log] [testng] 03:34:39,688 |-INFO in ch.qos.logback.core.sift.SiftProcessor@68ecc19c - End of configuration. [testng] [2024-10-07 03:34:40,017] [pool-1-thread-7] Initializing /data/geert/bad example1.jpg: [testng] 03:34:40,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:34:40,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:40,018 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-07_03-34-40.log] [testng] 03:34:40,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@435fd268 - End of configuration. [testng] [2024-10-07 03:34:40,160] [pool-1-thread-6] Initializing /data/geert/bad example1.1sc.jpg: [testng] 03:34:40,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:34:40,160 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:40,161 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-07_03-34-40.log] [testng] 03:34:40,161 |-INFO in ch.qos.logback.core.sift.SiftProcessor@e31b0e3 - End of configuration. [testng] [2024-10-07 03:34:40,295] [pool-1-thread-5] Initializing /data/qa-29469/bad3.1sc: [testng] 03:34:40,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:34:40,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:40,295 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-07_03-34-40.log] [testng] 03:34:40,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7d4ce197 - End of configuration. [testng] [2024-10-07 03:34:40,624] [pool-1-thread-4] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 03:34:40,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:34:40,625 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:40,625 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-07_03-34-40.log] [testng] 03:34:40,626 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23a39483 - End of configuration. [testng] [2024-10-07 03:34:40,946] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] 03:34:40,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:34:40,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:40,947 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-07_03-34-40.log] [testng] 03:34:40,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6dfd3f1c - End of configuration. [testng] [2024-10-07 03:34:42,104] [pool-1-thread-2] Initializing /data/geert/bad example1.1sc: [testng] 03:34:42,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:34:42,104 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:34:42,105 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-07_03-34-42.log] [testng] 03:34:42,105 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fab45db - End of configuration. [testng] [2024-10-07 03:34:45,621] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-10-07 03:34:45,927] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-10-07 03:34:46,245] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2024-10-07 03:34:47,379] [pool-1-thread-6] Initializing /data/geert/good example1.1sc: [testng] [2024-10-07 03:34:47,759] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-10-07 03:34:48,081] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg: [testng] [2024-10-07 03:34:48,181] [pool-1-thread-11] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-10-07 03:34:48,295] [pool-1-thread-2] Initializing /data/qa-29469/good.1sc: [testng] [2024-10-07 03:34:48,592] [pool-1-thread-10] Initializing /data/keith/test.1sc: [testng] [2024-10-07 03:34:48,865] [pool-1-thread-5] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2024-10-07 03:34:51,886] [pool-1-thread-9] Initializing /data/qa-29459/bad.1sc: [testng] [2024-10-07 03:34:52,329] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-10-07 03:34:53,028] [pool-1-thread-10] Initializing /data/keith/test2.1sc: [testng] [2024-10-07 03:34:53,460] [pool-1-thread-3] Initializing /data/keith/PF020328saur v3.1sc: [testng] [2024-10-07 03:34:53,816] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-10-07 03:34:54,891] [pool-1-thread-1] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-10-07 03:34:55,177] [pool-1-thread-6] Initializing /data/samples/Criterion.1sc: [testng] [2024-10-07 03:34:55,500] [pool-1-thread-2] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-10-07 03:34:55,827] [pool-1-thread-7] Initializing /data/david/Opened in imageJ.tiff: [testng] [2024-10-07 03:34:57,013] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 53 seconds Finished: SUCCESS