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Started by upstream project "BIOFORMATS-test-repo" build number 221 originally caused by: Started by upstream project "Trigger" build number 248 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/jenkins11159775896387882752.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 2 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_35091_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] 05:02:09,264 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 05:02:09,265 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 05:02:09,265 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:02:09,266 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 05:02:09,267 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 05:02:09,267 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 05:02:09,267 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 05:02:09,267 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:02:09,268 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 05:02:09,269 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 05:02:09,269 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 05:02:09,269 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 05:02:09,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 05:02:09,443 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 05:02:09,465 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 05:02:09,466 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 05:02:09,471 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 05:02:09,472 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 05:02:09,472 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 05:02:09,472 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 05:02:09,472 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 05:02:09,473 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 05:02:09,473 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 205 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-15 05:02:09,482] [main] java.version = 11.0.16 [testng] 05:02:09,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 05:02:09,485 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:02:09,529 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-15_05-02-09.log] [testng] 05:02:09,531 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-15 05:02:09,533] [main] testng.directory = /data [testng] [2024-10-15 05:02:09,534] [main] testng.configDirectory = /config [testng] [2024-10-15 05:02:09,544] [main] testng.multiplier = 1.0 [testng] [2024-10-15 05:02:09,545] [main] testng.in-memory = false [testng] [2024-10-15 05:02:09,546] [main] testng.allow-missing = false [testng] [2024-10-15 05:02:09,546] [main] user.language = en [testng] [2024-10-15 05:02:09,546] [main] user.country = ${user.country} [testng] [2024-10-15 05:02:09,546] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-15 05:02:34,476] [main] ---------------------------------------- [testng] [2024-10-15 05:02:34,476] [main] Total files: 25 [testng] [2024-10-15 05:02:34,477] [main] Scan time: 24.93 s (997 ms/file) [testng] [2024-10-15 05:02:34,477] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-15 05:03:02,880] [pool-1-thread-1] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 05:03:02,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 05:03:02,881 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:02,883 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-15_05-03-02.log] [testng] 05:03:02,883 |-INFO in ch.qos.logback.core.sift.SiftProcessor@460f17d2 - End of configuration. [testng] [2024-10-15 05:03:03,328] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 05:03:03,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 05:03:03,328 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:03,329 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-15_05-03-03.log] [testng] 05:03:03,330 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6781dc87 - End of configuration. [testng] [2024-10-15 05:03:03,772] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 05:03:03,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 05:03:03,773 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:03,773 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-15_05-03-03.log] [testng] 05:03:03,774 |-INFO in ch.qos.logback.core.sift.SiftProcessor@76110ba6 - End of configuration. [testng] [2024-10-15 05:03:03,853] [pool-1-thread-10] Initializing /data/pang/10500x-o4: [testng] 05:03:03,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 05:03:03,853 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:03,854 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-15_05-03-03.log] [testng] 05:03:03,854 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f564c66 - End of configuration. [testng] [2024-10-15 05:03:04,322] [pool-1-thread-9] Initializing /data/imagic/13008.dm2: [testng] 05:03:04,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 05:03:04,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:04,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-15_05-03-04.log] [testng] 05:03:04,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@72e702ea - End of configuration. [testng] [2024-10-15 05:03:04,769] [pool-1-thread-8] Initializing /data/pang/grating025k.dm2: [testng] 05:03:04,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 05:03:04,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:04,770 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-15_05-03-04.log] [testng] 05:03:04,770 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6292a096 - End of configuration. [testng] [2024-10-15 05:03:05,128] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 05:03:05,128 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 05:03:05,128 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:05,129 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-15_05-03-05.log] [testng] 05:03:05,129 |-INFO in ch.qos.logback.core.sift.SiftProcessor@27442a3b - End of configuration. [testng] [2024-10-15 05:03:05,180] [pool-1-thread-6] Initializing /data/pang/signed: [testng] 05:03:05,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 05:03:05,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:05,180 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-15_05-03-05.log] [testng] 05:03:05,181 |-INFO in ch.qos.logback.core.sift.SiftProcessor@678253fa - End of configuration. [testng] [2024-10-15 05:03:05,469] [pool-1-thread-5] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 05:03:05,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 05:03:05,469 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:05,469 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-15_05-03-05.log] [testng] 05:03:05,470 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4d693e11 - End of configuration. [testng] [2024-10-15 05:03:05,780] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 05:03:05,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 05:03:05,780 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:05,781 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-15_05-03-05.log] [testng] 05:03:05,781 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5671daa9 - End of configuration. [testng] [2024-10-15 05:03:05,838] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 05:03:05,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 05:03:05,838 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:05,839 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-15_05-03-05.log] [testng] 05:03:05,839 |-INFO in ch.qos.logback.core.sift.SiftProcessor@34aaa8c2 - End of configuration. [testng] [2024-10-15 05:03:06,165] [pool-1-thread-2] Initializing /data/imagic/TEM 10118.dm2: [testng] 05:03:06,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 05:03:06,166 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 05:03:06,166 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-15_05-03-06.log] [testng] 05:03:06,167 |-INFO in ch.qos.logback.core.sift.SiftProcessor@333a499c - End of configuration. [testng] [2024-10-15 05:03:10,324] [pool-1-thread-11] Initializing /data/pang/unproc-auto: [testng] [2024-10-15 05:03:10,808] [pool-1-thread-7] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [2024-10-15 05:03:10,876] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] [2024-10-15 05:03:12,040] [pool-1-thread-5] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] [2024-10-15 05:03:12,286] [pool-1-thread-6] Initializing /data/imagic/1-1.dm2: [testng] [2024-10-15 05:03:12,792] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_general_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 12 seconds Finished: SUCCESS