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Started by upstream project "BIOFORMATS-test-repo" build number 110 originally caused by: Started by upstream project "Trigger" build number 123 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/jenkins17804122694605061005.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_17096_merge_ci -v /uod/idr/repos/curated/gatan-dm2:/data -v /uod/idr-scratch/merge-ci/curated/gatan-dm2:/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] 01:41:47,266 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:41:47,267 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - No custom configurators were discovered as a service. [testng] 01:41:47,267 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:41:47,268 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:41:47,268 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:41:47,269 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:41:47,269 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:41:47,269 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:41:47,269 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:41:47,270 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:41:47,270 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:41:47,271 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:41:47,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:41:47,454 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:41:47,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:41:47,483 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:41:47,490 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:41:47,491 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:41:47,491 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:41:47,491 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:41:47,491 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@576d5deb - End of configuration. [testng] 01:41:47,492 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6fdbe764 - Registering current configuration as safe fallback point [testng] 01:41:47,492 |-INFO in ch.qos.logback.classic.util.ContextInitializer@d6e7bab - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 223 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-03 01:41:47,504] [main] java.version = 17.0.2 [testng] 01:41:47,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:41:47,508 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:47,556 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-03_01-41-47.log] [testng] 01:41:47,559 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37313c65 - End of configuration. [testng] [2024-07-03 01:41:47,562] [main] testng.directory = /data [testng] [2024-07-03 01:41:47,562] [main] testng.configDirectory = /config [testng] [2024-07-03 01:41:47,573] [main] testng.multiplier = 1.0 [testng] [2024-07-03 01:41:47,574] [main] testng.in-memory = false [testng] [2024-07-03 01:41:47,574] [main] testng.allow-missing = false [testng] [2024-07-03 01:41:47,575] [main] user.language = en [testng] [2024-07-03 01:41:47,575] [main] user.country = ${user.country} [testng] [2024-07-03 01:41:47,575] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-03 01:41:48,454] [main] ---------------------------------------- [testng] [2024-07-03 01:41:48,454] [main] Total files: 25 [testng] [2024-07-03 01:41:48,454] [main] Scan time: 0.879 s (35 ms/file) [testng] [2024-07-03 01:41:48,454] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-03 01:41:49,590] [pool-1-thread-1] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 01:41:49,591 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:41:49,592 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,594 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-03_01-41-49.log] [testng] 01:41:49,594 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4705d244 - End of configuration. [testng] [2024-07-03 01:41:49,611] [pool-1-thread-12] Initializing /data/imagic/13008.dm2: [testng] 01:41:49,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:41:49,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,613 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-03_01-41-49.log] [testng] 01:41:49,613 |-INFO in ch.qos.logback.core.sift.SiftProcessor@555b28a0 - End of configuration. [testng] [2024-07-03 01:41:49,635] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:41:49,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:41:49,635 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,636 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-03_01-41-49.log] [testng] 01:41:49,637 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2193ddb7 - End of configuration. [testng] [2024-07-03 01:41:49,642] [pool-1-thread-10] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 01:41:49,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:41:49,643 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,644 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-03_01-41-49.log] [testng] 01:41:49,645 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2dc1bf0f - End of configuration. [testng] [2024-07-03 01:41:49,650] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 01:41:49,650 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:41:49,651 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,651 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-03_01-41-49.log] [testng] 01:41:49,652 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1bc51c46 - End of configuration. [testng] [2024-07-03 01:41:49,664] [pool-1-thread-8] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 01:41:49,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:41:49,665 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,666 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-03_01-41-49.log] [testng] 01:41:49,666 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2b50f8 - End of configuration. [testng] [2024-07-03 01:41:49,683] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 01:41:49,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:41:49,683 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,684 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-03_01-41-49.log] [testng] 01:41:49,685 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51ac6e13 - End of configuration. [testng] [2024-07-03 01:41:49,690] [pool-1-thread-6] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 01:41:49,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:41:49,691 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,692 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-03_01-41-49.log] [testng] 01:41:49,692 |-INFO in ch.qos.logback.core.sift.SiftProcessor@669da3cf - End of configuration. [testng] [2024-07-03 01:41:49,698] [pool-1-thread-5] Initializing /data/imagic/1-1.dm2: [testng] 01:41:49,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:41:49,698 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,707 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-03_01-41-49.log] [testng] 01:41:49,708 |-INFO in ch.qos.logback.core.sift.SiftProcessor@451660c3 - End of configuration. [testng] [2024-07-03 01:41:49,726] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 01:41:49,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:41:49,726 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,727 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-03_01-41-49.log] [testng] 01:41:49,727 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f47ff21 - End of configuration. [testng] [2024-07-03 01:41:49,741] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 01:41:49,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:41:49,741 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,743 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-03_01-41-49.log] [testng] 01:41:49,743 |-INFO in ch.qos.logback.core.sift.SiftProcessor@754aed5d - End of configuration. [testng] [2024-07-03 01:41:49,749] [pool-1-thread-2] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 01:41:49,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:41:49,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:41:49,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-03_01-41-49.log] [testng] 01:41:49,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7a78ea3f - End of configuration. [testng] [2024-07-03 01:41:50,853] [pool-1-thread-2] Initializing /data/pang/10500x-o4: [testng] [2024-07-03 01:41:51,297] [pool-1-thread-11] Initializing /data/imagic/TEM 10118.dm2: [testng] [2024-07-03 01:41:51,309] [pool-1-thread-6] Initializing /data/pang/signed: [testng] [2024-07-03 01:41:51,319] [pool-1-thread-10] Initializing /data/pang/grating025k.dm2: [testng] [2024-07-03 01:41:51,327] [pool-1-thread-7] Initializing /data/pang/unproc-auto: [testng] [2024-07-03 01:41:51,342] [pool-1-thread-9] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 7 seconds Finished: SUCCESS