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Started by upstream project "BIOFORMATS-test-repo" build number 313 originally caused by: Started by upstream project "Trigger" build number 335 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2 [BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins2742104204063981156.sh + '[' biorad-gel = slidebook ']' ++ date +%u + '[' 4 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_49677_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warning: [options] bootstrap class path not set in conjunction with -source 8 [javac] warning: [options] source value 8 is obsolete and will be removed in a future release [javac] warning: [options] target value 8 is obsolete and will be removed in a future release [javac] warning: [options] To suppress warnings about obsolete options, use -Xlint:-options.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] 04:34:35,442 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 04:34:35,444 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - No custom configurators were discovered as a service. [testng] 04:34:35,444 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:34:35,445 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 04:34:35,445 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 04:34:35,445 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 04:34:35,446 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 04:34:35,446 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:34:35,446 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 04:34:35,447 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 04:34:35,447 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 04:34:35,447 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 04:34:35,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 04:34:35,608 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 04:34:35,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 04:34:35,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 04:34:35,641 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 04:34:35,642 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 04:34:35,642 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 04:34:35,642 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 04:34:35,642 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@29215f06 - End of configuration. [testng] 04:34:35,643 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@b9b00e0 - Registering current configuration as safe fallback point [testng] 04:34:35,643 |-INFO in ch.qos.logback.classic.util.ContextInitializer@4f67eb2a - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 197 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2025-01-09 04:34:35,652] [main] java.version = 21 [testng] 04:34:35,655 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 04:34:35,655 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:34:35,701 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-01-09_04-34-35.log] [testng] 04:34:35,702 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b919693 - End of configuration. [testng] [2025-01-09 04:34:35,703] [main] testng.directory = /data [testng] [2025-01-09 04:34:35,704] [main] testng.configDirectory = /config [testng] [2025-01-09 04:34:35,712] [main] testng.multiplier = 1.0 [testng] [2025-01-09 04:34:35,713] [main] testng.in-memory = false [testng] [2025-01-09 04:34:35,713] [main] testng.allow-missing = false [testng] [2025-01-09 04:34:35,713] [main] user.language = en [testng] [2025-01-09 04:34:35,713] [main] user.country = ${user.country} [testng] [2025-01-09 04:34:35,713] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2025-01-09 04:34:39,253] [main] ---------------------------------------- [testng] [2025-01-09 04:34:39,253] [main] Total files: 32 [testng] [2025-01-09 04:34:39,253] [main] Scan time: 3.54 s (110 ms/file) [testng] [2025-01-09 04:34:39,253] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 32 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2025-01-09 04:35:27,277] [pool-1-thread-1] Initializing /data/keith/pg020410saur3.1sc: [testng] 04:35:27,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 04:35:27,277 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:27,278 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-01-09_04-35-27.log] [testng] 04:35:27,279 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b9b7960 - End of configuration. [testng] [2025-01-09 04:35:28,338] [pool-1-thread-12] Initializing /data/keith/test.1sc: [testng] 04:35:28,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 04:35:28,339 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:28,339 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2025-01-09_04-35-28.log] [testng] 04:35:28,340 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e01c700 - End of configuration. [testng] [2025-01-09 04:35:30,066] [pool-1-thread-11] Initializing /data/keith/PF020426MRSA v2.1sc: [testng] 04:35:30,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 04:35:30,066 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:30,067 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2025-01-09_04-35-30.log] [testng] 04:35:30,068 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36934622 - End of configuration. [testng] [2025-01-09 04:35:30,932] [pool-1-thread-10] Initializing /data/sylvain/2009-10-23 12hr 18min.tif: [testng] 04:35:30,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 04:35:30,932 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:30,935 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-01-09_04-35-30.log] [testng] 04:35:30,935 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4c769e5a - End of configuration. [testng] [2025-01-09 04:35:34,371] [pool-1-thread-9] Initializing /data/geert/bad example1.1sc: [testng] 04:35:34,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 04:35:34,371 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:34,372 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-01-09_04-35-34.log] [testng] 04:35:34,372 |-INFO in ch.qos.logback.core.sift.SiftProcessor@522d8a85 - End of configuration. [testng] [2025-01-09 04:35:35,345] [pool-1-thread-8] Initializing /data/geert/good example1.1sc.jpg: [testng] 04:35:35,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 04:35:35,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:35,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-01-09_04-35-35.log] [testng] 04:35:35,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@431c7eea - End of configuration. [testng] [2025-01-09 04:35:35,754] [pool-1-thread-7] Initializing /data/qa-29459/bad.jpg: [testng] 04:35:35,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 04:35:35,755 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:35,755 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-01-09_04-35-35.log] [testng] 04:35:35,756 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1deae2ff - End of configuration. [testng] [2025-01-09 04:35:36,627] [pool-1-thread-6] Initializing /data/keith/PF020328saur v3.1sc: [testng] 04:35:36,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 04:35:36,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:36,628 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-01-09_04-35-36.log] [testng] 04:35:36,628 |-INFO in ch.qos.logback.core.sift.SiftProcessor@661e17a9 - End of configuration. [testng] [2025-01-09 04:35:38,864] [pool-1-thread-5] Initializing /data/qa-16880/c-src v7.1sc: [testng] 04:35:38,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 04:35:38,864 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:38,865 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-01-09_04-35-38.log] [testng] 04:35:38,865 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2ebb5512 - End of configuration. [testng] [2025-01-09 04:35:40,039] [pool-1-thread-4] Initializing /data/sylvain/2009-10-26 14hr 57min: [testng] 04:35:40,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 04:35:40,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:40,040 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-01-09_04-35-40.log] [testng] 04:35:40,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@451ad255 - End of configuration. [testng] [2025-01-09 04:35:42,129] [pool-1-thread-3] Initializing /data/david/Opened in imageJ.tiff: [testng] 04:35:42,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 04:35:42,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:42,129 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-01-09_04-35-42.log] [testng] 04:35:42,130 |-INFO in ch.qos.logback.core.sift.SiftProcessor@61216c0b - End of configuration. [testng] [2025-01-09 04:35:45,112] [pool-1-thread-2] Initializing /data/sylvain/2009-10-26 14hr 57min.tif: [testng] 04:35:45,112 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 04:35:45,113 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 04:35:45,113 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-01-09_04-35-45.log] [testng] 04:35:45,113 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6334bbd8 - End of configuration. [testng] [2025-01-09 04:35:57,863] [pool-1-thread-7] Initializing /data/geert/bad example1.1sc.jpg: [testng] [2025-01-09 04:35:58,144] [pool-1-thread-1] Initializing /data/sylvain/2009-10-23 12hr 18min: [testng] [2025-01-09 04:35:58,871] [pool-1-thread-6] Initializing /data/sylvain/2009-10-26 14hr 56min: [testng] [2025-01-09 04:36:00,165] [pool-1-thread-12] Initializing /data/sylvain/2009-10-23 12hr 19min.tif: [testng] [2025-01-09 04:36:03,620] [pool-1-thread-8] Initializing /data/sylvain/2009-10-26 14hr 59min: [testng] [2025-01-09 04:36:04,417] [pool-1-thread-11] Initializing /data/qa-29459/bad.1sc: [testng] [2025-01-09 04:36:05,226] [pool-1-thread-5] Initializing /data/qa-29469/bad3.1sc: [testng] [2025-01-09 04:36:05,830] [pool-1-thread-4] Initializing /data/qa-29469/bad2.1sc: [testng] [2025-01-09 04:36:06,803] [pool-1-thread-9] Initializing /data/david/Converted in Quantity One (Biorad).tiff: [testng] [2025-01-09 04:36:16,080] [pool-1-thread-11] Initializing /data/samples/imagesEight.1sc: [testng] [2025-01-09 04:36:16,999] [pool-1-thread-4] Initializing /data/samples/Criterion.1sc: [testng] [2025-01-09 04:36:18,416] [pool-1-thread-5] Initializing /data/sylvain/2009-10-26 14hr 59min.tif: [testng] [2025-01-09 04:36:20,637] [pool-1-thread-1] Initializing /data/geert/bad example1.jpg: [testng] [2025-01-09 04:36:20,854] [pool-1-thread-8] Initializing /data/sylvain/2009-10-23 12hr 19min: [testng] [2025-01-09 04:36:21,906] [pool-1-thread-6] Initializing /data/david/Original Biorad Gel format file.1sc: [testng] [2025-01-09 04:36:24,572] [pool-1-thread-3] Initializing /data/sylvain/2009-10-26 14hr 56min.tif: [testng] [2025-01-09 04:36:28,551] [pool-1-thread-7] Initializing /data/qa-29469/good.1sc: [testng] [2025-01-09 04:36:30,187] [pool-1-thread-2] Initializing /data/keith/test2.1sc: [testng] [2025-01-09 04:36:31,097] [pool-1-thread-10] Initializing /data/geert/good example1.1sc: [testng] [2025-01-09 04:36:46,049] [pool-1-thread-11] Initializing /data/adrian/test_img.1sc: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 1696, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 2 minutes 24 seconds Finished: SUCCESS