Started by upstream project "BIOFORMATS-test-repo" build number 376 originally caused by: Started by upstream project "Trigger" build number 399 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/jenkins7026205418980788435.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_59602_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 05:24:06,566 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15 [testng] 05:24:06,567 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - No custom configurators were discovered as a service. [testng] 05:24:06,567 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:24:06,568 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:24:06,569 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:24:06,569 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:24:06,569 |-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] 05:24:06,569 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:24:06,570 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:24:06,570 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:24:06,571 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:24:06,571 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:24:06,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:24:06,725 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:24:06,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:24:06,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:24:06,755 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:24:06,755 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:24:06,755 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:24:06,756 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:24:06,756 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@4310d43 - End of configuration. [testng] 05:24:06,757 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@1b11171f - Registering current configuration as safe fallback point [testng] 05:24:06,757 |-INFO in ch.qos.logback.classic.util.ContextInitializer@36d585c - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 187 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-03-13 05:24:06,766] [main] java.version = 21 [testng] 05:24:06,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:24:06,770 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:06,811 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-13_05-24-06.log] [testng] 05:24:06,813 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69504ae9 - End of configuration. [testng] [2025-03-13 05:24:06,814] [main] testng.directory = /data [testng] [2025-03-13 05:24:06,814] [main] testng.configDirectory = /config [testng] [2025-03-13 05:24:06,823] [main] testng.multiplier = 1.0 [testng] [2025-03-13 05:24:06,823] [main] testng.in-memory = false [testng] [2025-03-13 05:24:06,823] [main] testng.allow-missing = false [testng] [2025-03-13 05:24:06,824] [main] user.language = en [testng] [2025-03-13 05:24:06,824] [main] user.country = ${user.country} [testng] [2025-03-13 05:24:06,824] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-03-13 05:24:13,298] [main] ---------------------------------------- [testng] [2025-03-13 05:24:13,299] [main] Total files: 32 [testng] [2025-03-13 05:24:13,299] [main] Scan time: 6.474 s (202 ms/file) [testng] [2025-03-13 05:24:13,299] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-03-13 05:24:53,976] [pool-1-thread-1] Initializing /data/geert/bad example1.jpg: [testng] 05:24:53,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:24:53,977 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:53,978 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-13_05-24-53.log] [testng] 05:24:53,979 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c6176be - End of configuration. [testng] [2025-03-13 05:24:54,292] [pool-1-thread-12] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 05:24:54,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:24:54,293 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:54,294 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-03-13_05-24-54.log] [testng] 05:24:54,294 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6ab2c37e - End of configuration. [testng] [2025-03-13 05:24:55,172] [pool-1-thread-11] Initializing /data/adrian/test_img.1sc: [testng] 05:24:55,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:24:55,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:55,173 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-03-13_05-24-55.log] [testng] 05:24:55,174 |-INFO in ch.qos.logback.core.sift.SiftProcessor@571274db - End of configuration. [testng] [2025-03-13 05:24:56,081] [pool-1-thread-10] Initializing /data/geert/good example1.1sc: [testng] 05:24:56,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:24:56,081 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:56,081 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-13_05-24-56.log] [testng] 05:24:56,082 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d056546 - End of configuration. [testng] [2025-03-13 05:24:56,980] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc.jpg: [testng] 05:24:56,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:24:56,980 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:56,981 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-13_05-24-56.log] [testng] 05:24:56,982 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7eaa8ab - End of configuration. [testng] [2025-03-13 05:24:57,257] [pool-1-thread-8] Initializing /data/qa-29469/bad3.1sc: [testng] 05:24:57,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:24:57,258 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:57,259 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-13_05-24-57.log] [testng] 05:24:57,259 |-INFO in ch.qos.logback.core.sift.SiftProcessor@679e52d4 - End of configuration. [testng] [2025-03-13 05:24:58,044] [pool-1-thread-7] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] 05:24:58,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:24:58,044 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:58,045 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-13_05-24-58.log] [testng] 05:24:58,045 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4cd3686b - End of configuration. [testng] [2025-03-13 05:24:58,839] [pool-1-thread-6] Initializing /data/keith/pg020410saur3.1sc: [testng] 05:24:58,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:24:58,839 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:58,840 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-13_05-24-58.log] [testng] 05:24:58,840 |-INFO in ch.qos.logback.core.sift.SiftProcessor@327d1670 - End of configuration. [testng] [2025-03-13 05:24:59,757] [pool-1-thread-5] Initializing /data/geert/bad example1.1sc: [testng] 05:24:59,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:24:59,757 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:24:59,758 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-13_05-24-59.log] [testng] 05:24:59,758 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f818e47 - End of configuration. [testng] [2025-03-13 05:25:00,734] [pool-1-thread-4] Initializing /data/keith/PF020328saur v3.1sc: [testng] 05:25:00,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:25:00,734 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:25:00,735 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-13_05-25-00.log] [testng] 05:25:00,735 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7b55ba8c - End of configuration. [testng] [2025-03-13 05:25:01,612] [pool-1-thread-3] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 05:25:01,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:25:01,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:25:01,613 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-13_05-25-01.log] [testng] 05:25:01,613 |-INFO in ch.qos.logback.core.sift.SiftProcessor@530fbc6c - End of configuration. [testng] [2025-03-13 05:25:04,715] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] 05:25:04,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:25:04,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:25:04,716 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-13_05-25-04.log] [testng] 05:25:04,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@ea58e5b - End of configuration. [testng] [2025-03-13 05:25:12,409] [pool-1-thread-4] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2025-03-13 05:25:15,289] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2025-03-13 05:25:18,533] [pool-1-thread-12] Initializing /data/samples/imagesEight.1sc: [testng] [2025-03-13 05:25:19,453] [pool-1-thread-7] Initializing /data/samples/Criterion.1sc: [testng] [2025-03-13 05:25:20,276] [pool-1-thread-1] Initializing /data/qa-29459/bad.jpg: [testng] [2025-03-13 05:25:20,553] [pool-1-thread-9] Initializing /data/keith/test2.1sc: [testng] [2025-03-13 05:25:21,617] [pool-1-thread-5] Initializing /data/keith/test.1sc: [testng] [2025-03-13 05:25:22,516] [pool-1-thread-11] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] [2025-03-13 05:25:23,518] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2025-03-13 05:25:24,418] [pool-1-thread-10] Initializing /data/qa-29469/bad2.1sc: [testng] [2025-03-13 05:25:25,354] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] [2025-03-13 05:25:35,011] [pool-1-thread-12] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2025-03-13 05:25:35,898] [pool-1-thread-9] Initializing /data/qa-29459/bad.1sc: [testng] [2025-03-13 05:25:36,698] [pool-1-thread-10] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2025-03-13 05:25:39,319] [pool-1-thread-5] Initializing /data/qa-29469/good.1sc: [testng] [2025-03-13 05:25:39,988] [pool-1-thread-7] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2025-03-13 05:25:42,713] [pool-1-thread-11] Initializing /data/geert/good example1.1sc.jpg: [testng] [2025-03-13 05:25:42,978] [pool-1-thread-3] Initializing /data/david/Opened in imageJ.tiff: [testng] [2025-03-13 05:25:45,974] [pool-1-thread-2] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2025-03-13 05:25:46,585] [pool-1-thread-1] Initializing /data/qa-16880/c-src v7.1sc: [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 56 seconds Finished: SUCCESS