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Started by upstream project "BIOFORMATS-test-repo" build number 304 originally caused by: Started by upstream project "Trigger" build number 326 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/jenkins4042509069466226764.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_48125_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] WARNING: An illegal reflective access operation has occurred [testng] WARNING: Illegal reflective access by org.kohsuke.file_leak_detector.Listener (file:/home/build/.m2/repository/org/kohsuke/file-leak-detector/1.18/file-leak-detector-1.18-jar-with-dependencies.jar) to field java.net.SocketImpl.socket [testng] WARNING: Please consider reporting this to the maintainers of org.kohsuke.file_leak_detector.Listener [testng] WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations [testng] WARNING: All illegal access operations will be denied in a future release [testng] File leak detector installed [testng] 02:00:39,968 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:00:39,969 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 02:00:39,969 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:00:39,970 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:00:39,971 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:00:39,971 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:00:39,972 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:00:39,972 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:00:39,972 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:00:39,973 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:00:39,973 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:00:39,973 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:00:40,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:00:40,141 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:00:40,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:00:40,163 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:00:40,168 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:00:40,168 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:00:40,169 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:00:40,169 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:00:40,169 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 02:00:40,170 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 02:00:40,170 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 198 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-31 02:00:40,179] [main] java.version = 11.0.16 [testng] 02:00:40,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:00:40,182 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:00:40,224 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-31_02-00-40.log] [testng] 02:00:40,226 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-31 02:00:40,228] [main] testng.directory = /data [testng] [2024-12-31 02:00:40,228] [main] testng.configDirectory = /config [testng] [2024-12-31 02:00:40,238] [main] testng.multiplier = 1.0 [testng] [2024-12-31 02:00:40,240] [main] testng.in-memory = false [testng] [2024-12-31 02:00:40,240] [main] testng.allow-missing = false [testng] [2024-12-31 02:00:40,240] [main] user.language = en [testng] [2024-12-31 02:00:40,240] [main] user.country = ${user.country} [testng] [2024-12-31 02:00:40,240] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-31 02:01:00,873] [main] ---------------------------------------- [testng] [2024-12-31 02:01:00,873] [main] Total files: 25 [testng] [2024-12-31 02:01:00,874] [main] Scan time: 20.633 s (825 ms/file) [testng] [2024-12-31 02:01:00,874] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-31 02:01:24,560] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 02:01:24,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:01:24,562 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:24,563 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-31_02-01-24.log] [testng] 02:01:24,564 |-INFO in ch.qos.logback.core.sift.SiftProcessor@326f86fc - End of configuration. [testng] [2024-12-31 02:01:24,852] [pool-1-thread-12] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 02:01:24,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:01:24,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:24,854 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-31_02-01-24.log] [testng] 02:01:24,854 |-INFO in ch.qos.logback.core.sift.SiftProcessor@310ebc6e - End of configuration. [testng] [2024-12-31 02:01:24,912] [pool-1-thread-11] Initializing /data/imagic/13008.dm2: [testng] 02:01:24,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:01:24,912 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:24,912 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-31_02-01-24.log] [testng] 02:01:24,913 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6808874 - End of configuration. [testng] [2024-12-31 02:01:25,228] [pool-1-thread-10] Initializing /data/pang/unproc-auto: [testng] 02:01:25,228 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:01:25,229 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:25,229 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-31_02-01-25.log] [testng] 02:01:25,230 |-INFO in ch.qos.logback.core.sift.SiftProcessor@467e88c - End of configuration. [testng] [2024-12-31 02:01:25,588] [pool-1-thread-9] Initializing /data/pang/grating025k.dm2: [testng] 02:01:25,588 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:01:25,588 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:25,589 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-31_02-01-25.log] [testng] 02:01:25,589 |-INFO in ch.qos.logback.core.sift.SiftProcessor@259dffe8 - End of configuration. [testng] [2024-12-31 02:01:25,887] [pool-1-thread-8] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 02:01:25,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:01:25,887 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:25,888 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-31_02-01-25.log] [testng] 02:01:25,889 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3265e8c6 - End of configuration. [testng] [2024-12-31 02:01:25,953] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 02:01:25,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:01:25,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:25,954 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-31_02-01-25.log] [testng] 02:01:25,954 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3efd12c2 - End of configuration. [testng] [2024-12-31 02:01:26,011] [pool-1-thread-6] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 02:01:26,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:01:26,011 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:26,012 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-31_02-01-26.log] [testng] 02:01:26,012 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51a24530 - End of configuration. [testng] [2024-12-31 02:01:26,337] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 02:01:26,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:01:26,338 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:26,338 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-31_02-01-26.log] [testng] 02:01:26,338 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2f44a4 - End of configuration. [testng] [2024-12-31 02:01:26,398] [pool-1-thread-4] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 02:01:26,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:01:26,399 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:26,399 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-31_02-01-26.log] [testng] 02:01:26,400 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5557bc09 - End of configuration. [testng] [2024-12-31 02:01:26,738] [pool-1-thread-3] Initializing /data/imagic/TEM 10118.dm2: [testng] 02:01:26,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:01:26,738 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:26,739 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-31_02-01-26.log] [testng] 02:01:26,739 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22c68232 - End of configuration. [testng] [2024-12-31 02:01:27,076] [pool-1-thread-2] Initializing /data/imagic/1-1.dm2: [testng] 02:01:27,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:01:27,076 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:01:27,077 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-31_02-01-27.log] [testng] 02:01:27,077 |-INFO in ch.qos.logback.core.sift.SiftProcessor@719a1e83 - End of configuration. [testng] [2024-12-31 02:01:31,532] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [2024-12-31 02:01:31,587] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [2024-12-31 02:01:31,650] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] [2024-12-31 02:01:32,003] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] [2024-12-31 02:01:32,745] [pool-1-thread-9] Initializing /data/pang/10500x-o4: [testng] [2024-12-31 02:01:33,202] [pool-1-thread-10] Initializing /data/pang/signed: [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 2 seconds Finished: SUCCESS