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Started by upstream project "BIOFORMATS-test-repo" build number 298 originally caused by: Started by upstream project "Trigger" build number 320 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder [BIOFORMATS-test-folder] $ /bin/bash -xe /tmp/jenkins3542789840106955556.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 3 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47135_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] 01:48:55,368 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 01:48:55,370 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - No custom configurators were discovered as a service. [testng] 01:48:55,370 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:48:55,371 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 01:48:55,371 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 01:48:55,372 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 01:48:55,372 |-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] 01:48:55,372 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:48:55,372 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 01:48:55,373 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 01:48:55,373 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 01:48:55,374 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 01:48:55,544 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 01:48:55,545 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 01:48:55,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 01:48:55,572 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 01:48:55,578 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 01:48:55,579 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 01:48:55,579 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 01:48:55,579 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 01:48:55,580 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2e3967ea - End of configuration. [testng] 01:48:55,581 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@2e6a8155 - Registering current configuration as safe fallback point [testng] 01:48:55,581 |-INFO in ch.qos.logback.classic.util.ContextInitializer@55b53d44 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 209 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-25 01:48:55,590] [main] java.version = 17.0.2 [testng] 01:48:55,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 01:48:55,594 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:48:55,633 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-25_01-48-55.log] [testng] 01:48:55,634 |-INFO in ch.qos.logback.core.sift.SiftProcessor@798162bc - End of configuration. [testng] [2024-12-25 01:48:55,637] [main] testng.directory = /data [testng] [2024-12-25 01:48:55,637] [main] testng.configDirectory = /config [testng] [2024-12-25 01:48:55,645] [main] testng.multiplier = 1.0 [testng] [2024-12-25 01:48:55,646] [main] testng.in-memory = false [testng] [2024-12-25 01:48:55,646] [main] testng.allow-missing = false [testng] [2024-12-25 01:48:55,646] [main] user.language = en [testng] [2024-12-25 01:48:55,646] [main] user.country = ${user.country} [testng] [2024-12-25 01:48:55,646] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-25 01:49:17,626] [main] ---------------------------------------- [testng] [2024-12-25 01:49:17,626] [main] Total files: 25 [testng] [2024-12-25 01:49:17,627] [main] Scan time: 21.98 s (879 ms/file) [testng] [2024-12-25 01:49:17,627] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-25 01:49:39,206] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 01:49:39,206 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 01:49:39,207 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:39,208 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-25_01-49-39.log] [testng] 01:49:39,208 |-INFO in ch.qos.logback.core.sift.SiftProcessor@19b0f8ac - End of configuration. [testng] [2024-12-25 01:49:39,555] [pool-1-thread-12] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 01:49:39,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 01:49:39,555 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:39,556 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-25_01-49-39.log] [testng] 01:49:39,557 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e44b014 - End of configuration. [testng] [2024-12-25 01:49:39,957] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 01:49:39,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 01:49:39,957 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:39,958 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-25_01-49-39.log] [testng] 01:49:39,958 |-INFO in ch.qos.logback.core.sift.SiftProcessor@764f71eb - End of configuration. [testng] [2024-12-25 01:49:40,031] [pool-1-thread-10] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 01:49:40,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 01:49:40,032 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:40,033 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-25_01-49-40.log] [testng] 01:49:40,033 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4fed7aa2 - End of configuration. [testng] [2024-12-25 01:49:40,105] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 01:49:40,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 01:49:40,106 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:40,107 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-25_01-49-40.log] [testng] 01:49:40,107 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b822223 - End of configuration. [testng] [2024-12-25 01:49:40,171] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] 01:49:40,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 01:49:40,172 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:40,172 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-25_01-49-40.log] [testng] 01:49:40,173 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1dffaa71 - End of configuration. [testng] [2024-12-25 01:49:40,242] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] 01:49:40,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 01:49:40,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:40,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-25_01-49-40.log] [testng] 01:49:40,243 |-INFO in ch.qos.logback.core.sift.SiftProcessor@778fe85d - End of configuration. [testng] [2024-12-25 01:49:40,314] [pool-1-thread-6] Initializing /data/imagic/1-1.dm2: [testng] 01:49:40,314 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 01:49:40,315 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:40,315 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-25_01-49-40.log] [testng] 01:49:40,316 |-INFO in ch.qos.logback.core.sift.SiftProcessor@322e28f9 - End of configuration. [testng] [2024-12-25 01:49:40,723] [pool-1-thread-5] Initializing /data/pang/signed: [testng] 01:49:40,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 01:49:40,723 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:40,724 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-25_01-49-40.log] [testng] 01:49:40,724 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1e6a99be - End of configuration. [testng] [2024-12-25 01:49:41,167] [pool-1-thread-4] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 01:49:41,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 01:49:41,167 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:41,168 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-25_01-49-41.log] [testng] 01:49:41,169 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b058591 - End of configuration. [testng] [2024-12-25 01:49:41,245] [pool-1-thread-3] Initializing /data/imagic/13008.dm2: [testng] 01:49:41,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 01:49:41,246 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:41,247 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-25_01-49-41.log] [testng] 01:49:41,247 |-INFO in ch.qos.logback.core.sift.SiftProcessor@93c487d - End of configuration. [testng] [2024-12-25 01:49:41,675] [pool-1-thread-2] Initializing /data/pang/unproc-auto: [testng] 01:49:41,675 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 01:49:41,676 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 01:49:41,676 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-25_01-49-41.log] [testng] 01:49:41,677 |-INFO in ch.qos.logback.core.sift.SiftProcessor@729ac800 - End of configuration. [testng] [2024-12-25 01:49:46,068] [pool-1-thread-9] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] [2024-12-25 01:49:46,476] [pool-1-thread-10] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] [2024-12-25 01:49:46,860] [pool-1-thread-8] Initializing /data/pang/grating025k.dm2: [testng] [2024-12-25 01:49:47,241] [pool-1-thread-11] Initializing /data/imagic/TEM 10118.dm2: [testng] [2024-12-25 01:49:47,626] [pool-1-thread-7] Initializing /data/pang/10500x-o4: [testng] [2024-12-25 01:49:48,053] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 1 minute 1 second Finished: SUCCESS