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Started by upstream project "BIOFORMATS-test-repo" build number 362 originally caused by: Started by upstream project "Trigger" build number 388 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@9 [BIOFORMATS-test-folder@9] $ /bin/bash -xe /tmp/jenkins16666580839401952082.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 7 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_57767_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 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 [javac] warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] 1 warning test-automated: [testng] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket [testng] File leak detector installed [testng] 03:35:08,541 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 03:35:08,542 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service. [testng] 03:35:08,542 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:35:08,543 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:35:08,544 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:35:08,544 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:35:08,544 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 03:35:08,544 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:35:08,545 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:35:08,545 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:35:08,545 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:35:08,546 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:35:08,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:35:08,704 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:35:08,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:35:08,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:35:08,730 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:35:08,730 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:35:08,730 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:35:08,731 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:35:08,731 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration. [testng] 03:35:08,732 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point [testng] 03:35:08,732 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 187 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-02 03:35:08,740] [main] java.version = 17.0.2 [testng] 03:35:08,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:35:08,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:08,803 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-02_03-35-08.log] [testng] 03:35:08,805 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration. [testng] [2025-03-02 03:35:08,808] [main] testng.directory = /data [testng] [2025-03-02 03:35:08,808] [main] testng.configDirectory = /config [testng] [2025-03-02 03:35:08,822] [main] testng.multiplier = 1.0 [testng] [2025-03-02 03:35:08,823] [main] testng.in-memory = false [testng] [2025-03-02 03:35:08,824] [main] testng.allow-missing = false [testng] [2025-03-02 03:35:08,824] [main] user.language = en [testng] [2025-03-02 03:35:08,824] [main] user.country = ${user.country} [testng] [2025-03-02 03:35:08,824] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-02 03:35:11,274] [main] ---------------------------------------- [testng] [2025-03-02 03:35:11,275] [main] Total files: 32 [testng] [2025-03-02 03:35:11,275] [main] Scan time: 2.45 s (76 ms/file) [testng] [2025-03-02 03:35:11,275] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-02 03:35:31,387] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] 03:35:31,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:35:31,387 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:31,389 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-02_03-35-31.log] [testng] 03:35:31,389 |-INFO in ch.qos.logback.core.sift.SiftProcessor@10b8819f - End of configuration. [testng] [2025-03-02 03:35:31,800] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 03:35:31,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:35:31,800 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:31,801 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-02_03-35-31.log] [testng] 03:35:31,802 |-INFO in ch.qos.logback.core.sift.SiftProcessor@602468e6 - End of configuration. [testng] [2025-03-02 03:35:32,081] [pool-1-thread-11] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 03:35:32,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:35:32,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:32,082 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-02_03-35-32.log] [testng] 03:35:32,082 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ad2f723 - End of configuration. [testng] [2025-03-02 03:35:32,844] [pool-1-thread-10] Initializing /data/geert/bad example1.jpg: [testng] 03:35:32,844 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:35:32,845 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:32,845 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-02_03-35-32.log] [testng] 03:35:32,846 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dc48a5 - End of configuration. [testng] [2025-03-02 03:35:32,946] [pool-1-thread-9] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 03:35:32,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:35:32,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:32,947 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-02_03-35-32.log] [testng] 03:35:32,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ca02fd7 - End of configuration. [testng] [2025-03-02 03:35:33,217] [pool-1-thread-8] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] 03:35:33,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:35:33,217 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:33,218 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-02_03-35-33.log] [testng] 03:35:33,218 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5035f461 - End of configuration. [testng] [2025-03-02 03:35:34,130] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] 03:35:34,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:35:34,131 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:34,131 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-02_03-35-34.log] [testng] 03:35:34,132 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e1080e5 - End of configuration. [testng] [2025-03-02 03:35:35,140] [pool-1-thread-6] Initializing /data/geert/bad example1.1sc: [testng] 03:35:35,140 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:35:35,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:35,141 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-02_03-35-35.log] [testng] 03:35:35,142 |-INFO in ch.qos.logback.core.sift.SiftProcessor@40302b1 - End of configuration. [testng] [2025-03-02 03:35:35,486] [pool-1-thread-5] Initializing /data/samples/imagesEight.1sc: [testng] 03:35:35,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:35:35,487 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:35,487 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-02_03-35-35.log] [testng] 03:35:35,488 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e34d543 - End of configuration. [testng] [2025-03-02 03:35:35,799] [pool-1-thread-4] Initializing /data/keith/pg020410saur3.1sc: [testng] 03:35:35,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:35:35,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:35,800 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-02_03-35-35.log] [testng] 03:35:35,800 |-INFO in ch.qos.logback.core.sift.SiftProcessor@505034f0 - End of configuration. [testng] [2025-03-02 03:35:36,093] [pool-1-thread-3] Initializing /data/keith/PF020328saur v3.1sc: [testng] 03:35:36,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:35:36,093 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:36,094 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-02_03-35-36.log] [testng] 03:35:36,094 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60bac8d9 - End of configuration. [testng] [2025-03-02 03:35:36,488] [pool-1-thread-2] Initializing /data/keith/test.1sc: [testng] 03:35:36,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:35:36,488 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:35:36,489 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-02_03-35-36.log] [testng] 03:35:36,489 |-INFO in ch.qos.logback.core.sift.SiftProcessor@184fd4b0 - End of configuration. [testng] [2025-03-02 03:35:41,336] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2025-03-02 03:35:41,461] [pool-1-thread-3] Initializing /data/david/Opened in imageJ.tiff: [testng] [2025-03-02 03:35:43,979] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] [2025-03-02 03:35:44,982] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2025-03-02 03:35:45,274] [pool-1-thread-9] Initializing /data/geert/good example1.1sc: [testng] [2025-03-02 03:35:45,564] [pool-1-thread-2] Initializing /data/adrian/test_img.1sc: [testng] [2025-03-02 03:35:45,818] [pool-1-thread-10] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2025-03-02 03:35:46,874] [pool-1-thread-1] Initializing /data/keith/test2.1sc: [testng] [2025-03-02 03:35:47,171] [pool-1-thread-12] Initializing /data/geert/good example1.1sc.jpg: [testng] [2025-03-02 03:35:47,838] [pool-1-thread-6] Initializing /data/qa-29469/good.1sc: [testng] [2025-03-02 03:35:53,919] [pool-1-thread-1] Initializing /data/qa-29469/bad3.1sc: [testng] [2025-03-02 03:35:54,719] [pool-1-thread-8] Initializing /data/qa-29469/bad2.1sc: [testng] [2025-03-02 03:35:55,205] [pool-1-thread-2] Initializing /data/samples/Criterion.1sc: [testng] [2025-03-02 03:35:55,690] [pool-1-thread-9] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2025-03-02 03:35:56,142] [pool-1-thread-11] Initializing /data/qa-29459/bad.jpg: [testng] [2025-03-02 03:35:56,243] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2025-03-02 03:35:56,509] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2025-03-02 03:35:56,784] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2025-03-02 03:35:58,011] [pool-1-thread-6] Initializing /data/qa-29459/bad.1sc: [testng] [2025-03-02 03:36:02,662] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 12 seconds Finished: SUCCESS