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Started by upstream project "BIOFORMATS-test-repo" build number 11 originally caused by: Started by upstream project "Trigger" build number 14 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/jenkins9178334718193082542.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_1744_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] 01:59:23,905 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:59:23,907 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service. [testng] 01:59:23,907 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:59:23,908 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:59:23,908 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:59:23,908 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:59:23,908 |-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] 01:59:23,908 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:59:23,909 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:59:23,909 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:59:23,910 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:59:23,910 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:59:24,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:59:24,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:59:24,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:59:24,171 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:59:24,180 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:59:24,180 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:59:24,181 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:59:24,181 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:59:24,181 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration. [testng] 01:59:24,182 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point [testng] 01:59:24,182 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 273 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-03-25 01:59:24,193] [main] java.version = 1.8.0_342 [testng] 01:59:24,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:59:24,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:24,252 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-03-25_01-59-24.log] [testng] 01:59:24,254 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration. [testng] [2024-03-25 01:59:24,257] [main] testng.directory = /data [testng] [2024-03-25 01:59:24,257] [main] testng.configDirectory = /config [testng] [2024-03-25 01:59:24,277] [main] testng.multiplier = 1.0 [testng] [2024-03-25 01:59:24,277] [main] testng.in-memory = false [testng] [2024-03-25 01:59:24,278] [main] testng.allow-missing = false [testng] [2024-03-25 01:59:24,278] [main] user.language = fr [testng] [2024-03-25 01:59:24,278] [main] user.country = FR [testng] [2024-03-25 01:59:24,278] [main] Maximum heap size = 13653 MB [testng] Scanning for files... [testng] [2024-03-25 01:59:26,255] [main] ---------------------------------------- [testng] [2024-03-25 01:59:26,255] [main] Total files: 32 [testng] [2024-03-25 01:59:26,255] [main] Scan time: 1.977 s (61 ms/file) [testng] [2024-03-25 01:59:26,255] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-03-25 01:59:40,954] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] 01:59:40,954 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:59:40,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:40,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-03-25_01-59-40.log] [testng] 01:59:40,957 |-INFO in ch.qos.logback.core.sift.SiftProcessor@217133cf - End of configuration. [testng] [2024-03-25 01:59:41,822] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 01:59:41,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:59:41,823 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:41,824 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-03-25_01-59-41.log] [testng] 01:59:41,825 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c4ccb36 - End of configuration. [testng] [2024-03-25 01:59:42,699] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] 01:59:42,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:59:42,700 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:42,701 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-03-25_01-59-42.log] [testng] 01:59:42,701 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3bc6236 - End of configuration. [testng] [2024-03-25 01:59:42,779] [pool-1-thread-10] Initializing /data/keith/PF020328saur v3.1sc: [testng] 01:59:42,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:59:42,779 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:42,780 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-03-25_01-59-42.log] [testng] 01:59:42,780 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57eb7556 - End of configuration. [testng] [2024-03-25 01:59:43,023] [pool-1-thread-9] Initializing /data/samples/Criterion.1sc: [testng] 01:59:43,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:59:43,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:43,024 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-03-25_01-59-43.log] [testng] 01:59:43,024 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1d0e060b - End of configuration. [testng] [2024-03-25 01:59:43,359] [pool-1-thread-8] Initializing /data/geert/bad example1.1sc.jpg: [testng] 01:59:43,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:59:43,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:43,360 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-03-25_01-59-43.log] [testng] 01:59:43,361 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4004581a - End of configuration. [testng] [2024-03-25 01:59:43,481] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc: [testng] 01:59:43,481 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:59:43,482 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:43,482 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-03-25_01-59-43.log] [testng] 01:59:43,483 |-INFO in ch.qos.logback.core.sift.SiftProcessor@39c2d434 - End of configuration. [testng] [2024-03-25 01:59:43,754] [pool-1-thread-6] Initializing /data/qa-29469/bad2.1sc: [testng] 01:59:43,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:59:43,754 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:43,755 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-03-25_01-59-43.log] [testng] 01:59:43,756 |-INFO in ch.qos.logback.core.sift.SiftProcessor@82bf8a8 - End of configuration. [testng] [2024-03-25 01:59:44,019] [pool-1-thread-5] Initializing /data/david/Opened in imageJ.tiff: [testng] 01:59:44,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:59:44,019 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:44,020 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-03-25_01-59-44.log] [testng] 01:59:44,020 |-INFO in ch.qos.logback.core.sift.SiftProcessor@442931f9 - End of configuration. [testng] [2024-03-25 01:59:44,908] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 01:59:44,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:59:44,909 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:44,909 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-03-25_01-59-44.log] [testng] 01:59:44,910 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3cc1bfe8 - End of configuration. [testng] [2024-03-25 01:59:45,189] [pool-1-thread-3] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 01:59:45,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:59:45,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:45,190 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-03-25_01-59-45.log] [testng] 01:59:45,190 |-INFO in ch.qos.logback.core.sift.SiftProcessor@514eeb34 - End of configuration. [testng] [2024-03-25 01:59:45,443] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] 01:59:45,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:59:45,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:59:45,444 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-03-25_01-59-45.log] [testng] 01:59:45,444 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6f5b09a4 - End of configuration. [testng] [2024-03-25 01:59:48,225] [pool-1-thread-11] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2024-03-25 01:59:49,104] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2024-03-25 01:59:49,954] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2024-03-25 01:59:50,205] [pool-1-thread-8] Initializing /data/geert/bad example1.jpg: [testng] [2024-03-25 01:59:50,397] [pool-1-thread-7] Initializing /data/qa-29459/bad.1sc: [testng] [2024-03-25 01:59:50,707] [pool-1-thread-4] Initializing /data/samples/imagesEight.1sc: [testng] [2024-03-25 01:59:51,009] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2024-03-25 01:59:51,312] [pool-1-thread-9] Initializing /data/keith/pg020410saur3.1sc: [testng] [2024-03-25 01:59:51,535] [pool-1-thread-2] Initializing /data/qa-29469/bad3.1sc: [testng] [2024-03-25 01:59:52,695] [pool-1-thread-5] Initializing /data/geert/good example1.1sc: [testng] [2024-03-25 01:59:53,794] [pool-1-thread-3] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2024-03-25 01:59:54,274] [pool-1-thread-9] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2024-03-25 01:59:55,164] [pool-1-thread-4] Initializing /data/keith/test.1sc: [testng] [2024-03-25 01:59:55,448] [pool-1-thread-1] Initializing /data/keith/test2.1sc: [testng] [2024-03-25 01:59:55,728] [pool-1-thread-12] Initializing /data/geert/good example1.1sc.jpg: [testng] [2024-03-25 01:59:55,812] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2024-03-25 01:59:56,074] [pool-1-thread-2] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2024-03-25 01:59:56,900] [pool-1-thread-6] Initializing /data/qa-29469/good.1sc: [testng] [2024-03-25 01:59:57,143] [pool-1-thread-8] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] [2024-03-25 01:59:57,416] [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: 42 seconds Finished: SUCCESS