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Started by upstream project "BIOFORMATS-test-repo" build number 301 originally caused by: Started by upstream project "Trigger" build number 323 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@7 [BIOFORMATS-test-folder@7] $ /bin/bash -xe /tmp/jenkins16850095325475224531.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_47630_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] 02:46:33,034 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:46:33,035 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 02:46:33,036 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:46:33,036 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:46:33,037 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:46:33,037 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:46:33,038 |-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] 02:46:33,038 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:46:33,038 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:46:33,039 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:46:33,039 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:46:33,039 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:46:33,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:46:33,200 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:46:33,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:46:33,221 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:46:33,226 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:46:33,226 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:46:33,226 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:46:33,227 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:46:33,227 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 02:46:33,227 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 02:46:33,228 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 189 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-12-28 02:46:33,236] [main] java.version = 11.0.16 [testng] 02:46:33,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:46:33,239 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:46:33,282 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-28_02-46-33.log] [testng] 02:46:33,284 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-12-28 02:46:33,286] [main] testng.directory = /data [testng] [2024-12-28 02:46:33,286] [main] testng.configDirectory = /config [testng] [2024-12-28 02:46:33,296] [main] testng.multiplier = 1.0 [testng] [2024-12-28 02:46:33,297] [main] testng.in-memory = false [testng] [2024-12-28 02:46:33,298] [main] testng.allow-missing = false [testng] [2024-12-28 02:46:33,298] [main] user.language = en [testng] [2024-12-28 02:46:33,298] [main] user.country = ${user.country} [testng] [2024-12-28 02:46:33,298] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-12-28 02:46:52,830] [main] ---------------------------------------- [testng] [2024-12-28 02:46:52,830] [main] Total files: 25 [testng] [2024-12-28 02:46:52,831] [main] Scan time: 19.532 s (781 ms/file) [testng] [2024-12-28 02:46:52,831] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-12-28 02:47:21,317] [pool-1-thread-1] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 02:47:21,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:47:21,318 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:21,320 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-28_02-47-21.log] [testng] 02:47:21,321 |-INFO in ch.qos.logback.core.sift.SiftProcessor@13018c33 - End of configuration. [testng] [2024-12-28 02:47:21,743] [pool-1-thread-12] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] 02:47:21,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:47:21,743 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:21,744 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-28_02-47-21.log] [testng] 02:47:21,745 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e610e82 - End of configuration. [testng] [2024-12-28 02:47:21,889] [pool-1-thread-11] Initializing /data/imagic/13008.dm2: [testng] 02:47:21,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:47:21,889 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:21,890 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-28_02-47-21.log] [testng] 02:47:21,890 |-INFO in ch.qos.logback.core.sift.SiftProcessor@bacff6e - End of configuration. [testng] [2024-12-28 02:47:22,375] [pool-1-thread-10] Initializing /data/pang/unproc-auto: [testng] 02:47:22,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:47:22,375 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:22,376 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-28_02-47-22.log] [testng] 02:47:22,377 |-INFO in ch.qos.logback.core.sift.SiftProcessor@405e5b72 - End of configuration. [testng] [2024-12-28 02:47:22,775] [pool-1-thread-9] Initializing /data/pang/grating025k.dm2: [testng] 02:47:22,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:47:22,776 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:22,776 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-28_02-47-22.log] [testng] 02:47:22,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5645272d - End of configuration. [testng] [2024-12-28 02:47:23,191] [pool-1-thread-8] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 02:47:23,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:47:23,191 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:23,192 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-28_02-47-23.log] [testng] 02:47:23,193 |-INFO in ch.qos.logback.core.sift.SiftProcessor@23d601dc - End of configuration. [testng] [2024-12-28 02:47:23,345] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] 02:47:23,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:47:23,345 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:23,346 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-28_02-47-23.log] [testng] 02:47:23,346 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6a07f6ad - End of configuration. [testng] [2024-12-28 02:47:23,442] [pool-1-thread-6] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 02:47:23,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:47:23,451 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:23,452 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-28_02-47-23.log] [testng] 02:47:23,452 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2fb92bee - End of configuration. [testng] [2024-12-28 02:47:23,788] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 02:47:23,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:47:23,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:23,789 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-28_02-47-23.log] [testng] 02:47:23,790 |-INFO in ch.qos.logback.core.sift.SiftProcessor@22c68232 - End of configuration. [testng] [2024-12-28 02:47:23,871] [pool-1-thread-4] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 02:47:23,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:47:23,871 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:23,872 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-28_02-47-23.log] [testng] 02:47:23,872 |-INFO in ch.qos.logback.core.sift.SiftProcessor@528347c3 - End of configuration. [testng] [2024-12-28 02:47:24,504] [pool-1-thread-3] Initializing /data/imagic/TEM 10118.dm2: [testng] 02:47:24,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:47:24,504 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:24,505 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-28_02-47-24.log] [testng] 02:47:24,505 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6781dc87 - End of configuration. [testng] [2024-12-28 02:47:25,016] [pool-1-thread-2] Initializing /data/imagic/1-1.dm2: [testng] 02:47:25,016 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:47:25,017 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:47:25,017 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-28_02-47-25.log] [testng] 02:47:25,018 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2b9e3935 - End of configuration. [testng] [2024-12-28 02:47:30,972] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [2024-12-28 02:47:31,501] [pool-1-thread-5] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [2024-12-28 02:47:31,793] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] [2024-12-28 02:47:32,355] [pool-1-thread-12] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] [2024-12-28 02:47:33,809] [pool-1-thread-9] Initializing /data/pang/10500x-o4: [testng] [2024-12-28 02:47:34,290] [pool-1-thread-1] 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 8 seconds Finished: SUCCESS