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Started by upstream project "BIOFORMATS-test-repo" build number 254 originally caused by: Started by upstream project "Trigger" build number 278 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@6 [BIOFORMATS-test-folder@6] $ /bin/bash -xe /tmp/jenkins17071684571596689356.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_40039_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] 01:12:38,546 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:12:38,547 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 01:12:38,547 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:12:38,548 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:12:38,549 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:12:38,549 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:12:38,549 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 01:12:38,549 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:12:38,550 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:12:38,551 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:12:38,551 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:12:38,551 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:12:38,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:12:38,732 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:12:38,756 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:12:38,756 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:12:38,762 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:12:38,763 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:12:38,763 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:12:38,763 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:12:38,763 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 01:12:38,764 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 01:12:38,764 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 214 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-11-13 01:12:38,774] [main] java.version = 17.0.2 [testng] 01:12:38,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:12:38,778 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:12:38,828 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-13_01-12-38.log] [testng] 01:12:38,830 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-11-13 01:12:38,832] [main] testng.directory = /data [testng] [2024-11-13 01:12:38,833] [main] testng.configDirectory = /config [testng] [2024-11-13 01:12:38,843] [main] testng.multiplier = 1.0 [testng] [2024-11-13 01:12:38,844] [main] testng.in-memory = false [testng] [2024-11-13 01:12:38,844] [main] testng.allow-missing = false [testng] [2024-11-13 01:12:38,844] [main] user.language = en [testng] [2024-11-13 01:12:38,844] [main] user.country = ${user.country} [testng] [2024-11-13 01:12:38,844] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-11-13 01:12:51,528] [main] ---------------------------------------- [testng] [2024-11-13 01:12:51,528] [main] Total files: 25 [testng] [2024-11-13 01:12:51,528] [main] Scan time: 12.684 s (507 ms/file) [testng] [2024-11-13 01:12:51,528] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-11-13 01:13:04,533] [pool-1-thread-1] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 01:13:04,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:13:04,534 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:04,535 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-13_01-13-04.log] [testng] 01:13:04,536 |-INFO in ch.qos.logback.core.sift.SiftProcessor@31afd0df - End of configuration. [testng] [2024-11-13 01:13:04,719] [pool-1-thread-12] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:13:04,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:13:04,720 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:04,721 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-13_01-13-04.log] [testng] 01:13:04,721 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2f3ad316 - End of configuration. [testng] [2024-11-13 01:13:04,751] [pool-1-thread-11] Initializing /data/pang/unproc-auto: [testng] 01:13:04,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:13:04,751 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:04,752 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-13_01-13-04.log] [testng] 01:13:04,752 |-INFO in ch.qos.logback.core.sift.SiftProcessor@77ebe3f8 - End of configuration. [testng] [2024-11-13 01:13:04,969] [pool-1-thread-10] Initializing /data/imagic/13008.dm2: [testng] 01:13:04,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:13:04,970 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:04,971 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-13_01-13-04.log] [testng] 01:13:04,971 |-INFO in ch.qos.logback.core.sift.SiftProcessor@299cde37 - End of configuration. [testng] [2024-11-13 01:13:05,163] [pool-1-thread-9] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 01:13:05,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:13:05,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:05,164 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-13_01-13-05.log] [testng] 01:13:05,165 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2db92c0f - End of configuration. [testng] [2024-11-13 01:13:05,199] [pool-1-thread-8] Initializing /data/pang/10500x-o4: [testng] 01:13:05,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:13:05,199 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:05,200 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-13_01-13-05.log] [testng] 01:13:05,200 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1c285275 - End of configuration. [testng] [2024-11-13 01:13:05,409] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 01:13:05,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:13:05,409 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:05,410 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-13_01-13-05.log] [testng] 01:13:05,410 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b2cb0c6 - End of configuration. [testng] [2024-11-13 01:13:05,444] [pool-1-thread-6] Initializing /data/imagic/1-1.dm2: [testng] 01:13:05,445 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:13:05,445 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:05,446 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-13_01-13-05.log] [testng] 01:13:05,446 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3d6d4151 - End of configuration. [testng] [2024-11-13 01:13:05,657] [pool-1-thread-5] Initializing /data/imagic/TEM 10118.dm2: [testng] 01:13:05,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:13:05,658 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:05,658 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-13_01-13-05.log] [testng] 01:13:05,659 |-INFO in ch.qos.logback.core.sift.SiftProcessor@727841a1 - End of configuration. [testng] [2024-11-13 01:13:05,857] [pool-1-thread-4] Initializing /data/pang/grating025k.dm2: [testng] 01:13:05,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:13:05,858 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:05,859 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-13_01-13-05.log] [testng] 01:13:05,859 |-INFO in ch.qos.logback.core.sift.SiftProcessor@55cfa29 - End of configuration. [testng] [2024-11-13 01:13:06,040] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 01:13:06,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:13:06,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:06,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-13_01-13-06.log] [testng] 01:13:06,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30b42796 - End of configuration. [testng] [2024-11-13 01:13:06,230] [pool-1-thread-2] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 01:13:06,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:13:06,230 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:13:06,231 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-13_01-13-06.log] [testng] 01:13:06,231 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4710547f - End of configuration. [testng] [2024-11-13 01:13:08,891] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] [2024-11-13 01:13:08,930] [pool-1-thread-12] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [2024-11-13 01:13:08,964] [pool-1-thread-9] Initializing /data/pang/signed: [testng] [2024-11-13 01:13:09,181] [pool-1-thread-11] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] [2024-11-13 01:13:09,401] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [2024-11-13 01:13:09,630] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 38 seconds Finished: SUCCESS