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Started by upstream project "BIOFORMATS-test-repo" build number 385 originally caused by: Started by upstream project "Trigger" build number 406 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@8 [BIOFORMATS-test-folder@8] $ /bin/bash -xe /tmp/jenkins13988368721464168685.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_60981_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options. [javac] 4 warnings 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] 12:37:43,921 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 12:37:43,923 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 12:37:43,923 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:37:43,924 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 12:37:43,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 12:37:43,924 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 12:37:43,925 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 12:37:43,925 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:37:43,925 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 12:37:43,926 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 12:37:43,926 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 12:37:43,926 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 12:37:44,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 12:37:44,100 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 12:37:44,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 12:37:44,126 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 12:37:44,132 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 12:37:44,133 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 12:37:44,133 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 12:37:44,133 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 12:37:44,133 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 12:37:44,134 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 12:37:44,134 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 209 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-20 12:37:44,144] [main] java.version = 21 [testng] 12:37:44,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 12:37:44,147 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:37:44,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-20_12-37-44.log] [testng] 12:37:44,194 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-20 12:37:44,196] [main] testng.directory = /data [testng] [2025-03-20 12:37:44,196] [main] testng.configDirectory = /config [testng] [2025-03-20 12:37:44,205] [main] testng.multiplier = 1.0 [testng] [2025-03-20 12:37:44,205] [main] testng.in-memory = false [testng] [2025-03-20 12:37:44,205] [main] testng.allow-missing = false [testng] [2025-03-20 12:37:44,205] [main] user.language = en [testng] [2025-03-20 12:37:44,205] [main] user.country = ${user.country} [testng] [2025-03-20 12:37:44,205] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-20 12:37:53,866] [main] ---------------------------------------- [testng] [2025-03-20 12:37:53,867] [main] Total files: 32 [testng] [2025-03-20 12:37:53,867] [main] Scan time: 9.66 s (301 ms/file) [testng] [2025-03-20 12:37:53,867] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-20 12:39:19,234] [pool-1-thread-1] Initializing /data/geert/bad example1.jpg: [testng] 12:39:19,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 12:39:19,235 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:19,236 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-20_12-39-19.log] [testng] 12:39:19,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a050ed4 - End of configuration. [testng] [2025-03-20 12:39:19,815] [pool-1-thread-12] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 12:39:19,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 12:39:19,815 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:19,816 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-20_12-39-19.log] [testng] 12:39:19,816 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51b32593 - End of configuration. [testng] [2025-03-20 12:39:21,799] [pool-1-thread-11] Initializing /data/adrian/test_img.1sc: [testng] 12:39:21,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 12:39:21,799 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:21,800 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-20_12-39-21.log] [testng] 12:39:21,800 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4074a5cf - End of configuration. [testng] [2025-03-20 12:39:23,662] [pool-1-thread-10] Initializing /data/geert/good example1.1sc: [testng] 12:39:23,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 12:39:23,662 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:23,663 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-20_12-39-23.log] [testng] 12:39:23,663 |-INFO in ch.qos.logback.core.sift.SiftProcessor@146c8041 - End of configuration. [testng] [2025-03-20 12:39:25,411] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc.jpg: [testng] 12:39:25,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 12:39:25,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:25,412 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-20_12-39-25.log] [testng] 12:39:25,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a4caa2e - End of configuration. [testng] [2025-03-20 12:39:25,955] [pool-1-thread-8] Initializing /data/qa-29469/bad3.1sc: [testng] 12:39:25,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 12:39:25,955 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:25,956 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-20_12-39-25.log] [testng] 12:39:25,956 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d056546 - End of configuration. [testng] [2025-03-20 12:39:27,682] [pool-1-thread-7] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 12:39:27,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 12:39:27,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:27,683 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-20_12-39-27.log] [testng] 12:39:27,684 |-INFO in ch.qos.logback.core.sift.SiftProcessor@177b6011 - End of configuration. [testng] [2025-03-20 12:39:29,424] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc: [testng] 12:39:29,425 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 12:39:29,425 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:29,427 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-20_12-39-29.log] [testng] 12:39:29,427 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25553984 - End of configuration. [testng] [2025-03-20 12:39:31,176] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc: [testng] 12:39:31,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 12:39:31,176 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:31,177 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-20_12-39-31.log] [testng] 12:39:31,177 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2080915 - End of configuration. [testng] [2025-03-20 12:39:33,023] [pool-1-thread-4] Initializing /data/keith/PF020328saur v3.1sc: [testng] 12:39:33,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 12:39:33,023 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:33,024 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-20_12-39-33.log] [testng] 12:39:33,024 |-INFO in ch.qos.logback.core.sift.SiftProcessor@456b741a - End of configuration. [testng] [2025-03-20 12:39:34,854] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 12:39:34,854 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 12:39:34,855 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:34,855 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-20_12-39-34.log] [testng] 12:39:34,855 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7eaa8ab - End of configuration. [testng] [2025-03-20 12:39:41,183] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 12:39:41,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 12:39:41,183 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 12:39:41,184 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-20_12-39-41.log] [testng] 12:39:41,184 |-INFO in ch.qos.logback.core.sift.SiftProcessor@679e52d4 - End of configuration. [testng] [2025-03-20 12:39:55,987] [pool-1-thread-6] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2025-03-20 12:40:02,227] [pool-1-thread-8] Initializing /data/qa-29469/bad2.1sc: [testng] [2025-03-20 12:40:03,941] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2025-03-20 12:40:09,975] [pool-1-thread-12] Initializing /data/samples/imagesEight.1sc: [testng] [2025-03-20 12:40:11,756] [pool-1-thread-7] Initializing /data/samples/Criterion.1sc: [testng] [2025-03-20 12:40:13,487] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2025-03-20 12:40:19,552] [pool-1-thread-10] Initializing /data/qa-29459/bad.jpg: [testng] [2025-03-20 12:40:20,092] [pool-1-thread-11] Initializing /data/keith/test2.1sc: [testng] [2025-03-20 12:40:21,730] [pool-1-thread-9] Initializing /data/keith/test.1sc: [testng] [2025-03-20 12:40:23,440] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2025-03-20 12:40:25,158] [pool-1-thread-1] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2025-03-20 12:40:39,534] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2025-03-20 12:40:40,813] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2025-03-20 12:40:47,529] [pool-1-thread-9] Initializing /data/qa-29459/bad.1sc: [testng] [2025-03-20 12:40:49,674] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2025-03-20 12:40:52,022] [pool-1-thread-2] Initializing /data/qa-16880/c-src v7.1sc: [testng] [2025-03-20 12:40:54,095] [pool-1-thread-7] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2025-03-20 12:41:01,227] [pool-1-thread-1] Initializing /data/qa-29469/good.1sc: [testng] [2025-03-20 12:41:02,980] [pool-1-thread-10] Initializing /data/david/Opened in imageJ.tiff: [testng] [2025-03-20 12:41:10,579] [pool-1-thread-3] Initializing /data/geert/good example1.1sc.jpg: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 4 minutes 4 seconds Finished: SUCCESS