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Started by upstream project "BIOFORMATS-test-repo" build number 5 originally caused by: Started by upstream project "Trigger" build number 6 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@4 [BIOFORMATS-test-folder@4] $ /bin/bash -xe /tmp/jenkins1112409121262197022.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_760_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] 02:02:33,745 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:02:33,748 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 02:02:33,748 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:02:33,750 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:02:33,750 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:02:33,750 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:02:33,750 |-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] 02:02:33,750 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:02:33,751 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:02:33,751 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:02:33,752 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:02:33,752 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:02:33,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:02:33,983 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:02:34,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:02:34,012 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:02:34,020 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:02:34,020 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:02:34,020 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:02:34,020 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:02:34,021 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 02:02:34,021 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 02:02:34,021 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 270 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-18 02:02:34,031] [main] java.version = 1.8.0_342 [testng] 02:02:34,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:02:34,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:34,083 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-18_02-02-34.log] [testng] 02:02:34,085 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-18 02:02:34,087] [main] testng.directory = /data [testng] [2024-03-18 02:02:34,087] [main] testng.configDirectory = /config [testng] [2024-03-18 02:02:34,099] [main] testng.multiplier = 1.0 [testng] [2024-03-18 02:02:34,099] [main] testng.in-memory = false [testng] [2024-03-18 02:02:34,099] [main] testng.allow-missing = false [testng] [2024-03-18 02:02:34,099] [main] user.language = fr [testng] [2024-03-18 02:02:34,099] [main] user.country = FR [testng] [2024-03-18 02:02:34,099] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-18 02:02:35,963] [main] ---------------------------------------- [testng] [2024-03-18 02:02:35,963] [main] Total files: 32 [testng] [2024-03-18 02:02:35,963] [main] Scan time: 1.864 s (58 ms/file) [testng] [2024-03-18 02:02:35,963] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-18 02:02:49,546] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 02:02:49,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:02:49,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:49,547 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-18_02-02-49.log] [testng] 02:02:49,548 |-INFO in ch.qos.logback.core.sift.SiftProcessor@581d155 - End of configuration. [testng] [2024-03-18 02:02:50,361] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 02:02:50,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:02:50,362 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:50,362 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-18_02-02-50.log] [testng] 02:02:50,363 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22cd2f8 - End of configuration. [testng] [2024-03-18 02:02:51,292] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] 02:02:51,292 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:02:51,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:51,293 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-18_02-02-51.log] [testng] 02:02:51,294 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66ed2219 - End of configuration. [testng] [2024-03-18 02:02:51,365] [pool-1-thread-10] Initializing /data/keith/PF020328saur v3.1sc: [testng] 02:02:51,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:02:51,365 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:51,366 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-18_02-02-51.log] [testng] 02:02:51,366 |-INFO in ch.qos.logback.core.sift.SiftProcessor@52ac78f8 - End of configuration. [testng] [2024-03-18 02:02:51,560] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] 02:02:51,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:02:51,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:51,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-18_02-02-51.log] [testng] 02:02:51,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a0bdcf6 - End of configuration. [testng] [2024-03-18 02:02:51,813] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] 02:02:51,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:02:51,813 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:51,814 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-18_02-02-51.log] [testng] 02:02:51,814 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30a8d52a - End of configuration. [testng] [2024-03-18 02:02:51,944] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] 02:02:51,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:02:51,944 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:51,945 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-18_02-02-51.log] [testng] 02:02:51,945 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72aa6e4c - End of configuration. [testng] [2024-03-18 02:02:52,223] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] 02:02:52,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:02:52,223 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:52,224 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-18_02-02-52.log] [testng] 02:02:52,224 |-INFO in ch.qos.logback.core.sift.SiftProcessor@560a232e - End of configuration. [testng] [2024-03-18 02:02:52,465] [pool-1-thread-5] Initializing /data/david/Opened in imageJ.tiff: [testng] 02:02:52,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:02:52,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:52,466 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-18_02-02-52.log] [testng] 02:02:52,467 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3dfd1905 - End of configuration. [testng] [2024-03-18 02:02:53,295] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 02:02:53,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:02:53,295 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:53,296 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-18_02-02-53.log] [testng] 02:02:53,296 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e6aff28 - End of configuration. [testng] [2024-03-18 02:02:53,536] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 02:02:53,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:02:53,536 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:53,537 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-18_02-02-53.log] [testng] 02:02:53,537 |-INFO in ch.qos.logback.core.sift.SiftProcessor@268ba223 - End of configuration. [testng] [2024-03-18 02:02:53,733] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] 02:02:53,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:02:53,733 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:02:53,734 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-18_02-02-53.log] [testng] 02:02:53,734 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36b30169 - End of configuration. [testng] [2024-03-18 02:02:56,546] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-03-18 02:02:57,363] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-03-18 02:02:58,143] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-03-18 02:02:58,502] [pool-1-thread-8] Initializing /data/geert/bad example1.jpg: [testng] [2024-03-18 02:02:58,605] [pool-1-thread-6] Initializing /data/samples/imagesEight.1sc: [testng] [2024-03-18 02:02:58,874] [pool-1-thread-4] Initializing /data/qa-29459/bad.1sc: [testng] [2024-03-18 02:02:59,093] [pool-1-thread-2] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-03-18 02:02:59,332] [pool-1-thread-9] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-03-18 02:02:59,623] [pool-1-thread-7] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-03-18 02:03:01,344] [pool-1-thread-2] Initializing /data/geert/good example1.1sc: [testng] [2024-03-18 02:03:01,672] [pool-1-thread-6] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-03-18 02:03:02,021] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-03-18 02:03:02,865] [pool-1-thread-5] Initializing /data/keith/test2.1sc: [testng] [2024-03-18 02:03:03,127] [pool-1-thread-4] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-03-18 02:03:03,209] [pool-1-thread-12] Initializing /data/keith/test.1sc: [testng] [2024-03-18 02:03:03,442] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-03-18 02:03:03,954] [pool-1-thread-8] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-03-18 02:03:04,215] [pool-1-thread-9] Initializing /data/qa-29469/good.1sc: [testng] [2024-03-18 02:03:04,477] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2024-03-18 02:03:04,730] [pool-1-thread-10] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 38 seconds Finished: SUCCESS