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Started by upstream project "BIOFORMATS-test-repo" build number 218 originally caused by: Started by upstream project "Trigger" build number 245 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/jenkins13100953415833299122.sh + '[' gatan-dm2 = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_34599_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] 03:07:45,950 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 03:07:45,952 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service. [testng] 03:07:45,952 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:07:45,953 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 03:07:45,953 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 03:07:45,954 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 03:07:45,954 |-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] 03:07:45,954 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:07:45,955 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 03:07:45,955 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 03:07:45,955 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 03:07:45,956 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 03:07:46,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 03:07:46,129 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 03:07:46,156 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 03:07:46,157 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 03:07:46,165 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 03:07:46,166 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 03:07:46,166 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 03:07:46,166 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 03:07:46,167 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration. [testng] 03:07:46,168 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point [testng] 03:07:46,168 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 213 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-10-12 03:07:46,183] [main] java.version = 11.0.16 [testng] 03:07:46,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 03:07:46,189 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:07:46,235 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-12_03-07-46.log] [testng] 03:07:46,237 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration. [testng] [2024-10-12 03:07:46,239] [main] testng.directory = /data [testng] [2024-10-12 03:07:46,239] [main] testng.configDirectory = /config [testng] [2024-10-12 03:07:46,250] [main] testng.multiplier = 1.0 [testng] [2024-10-12 03:07:46,251] [main] testng.in-memory = false [testng] [2024-10-12 03:07:46,251] [main] testng.allow-missing = false [testng] [2024-10-12 03:07:46,251] [main] user.language = en [testng] [2024-10-12 03:07:46,251] [main] user.country = ${user.country} [testng] [2024-10-12 03:07:46,252] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-10-12 03:08:51,489] [main] ---------------------------------------- [testng] [2024-10-12 03:08:51,489] [main] Total files: 25 [testng] [2024-10-12 03:08:51,489] [main] Scan time: 65.237 s (2609 ms/file) [testng] [2024-10-12 03:08:51,490] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-10-12 03:09:54,172] [pool-1-thread-1] Initializing /data/pang/DLMeD2E1_010500x03.dm2: [testng] 03:09:54,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 03:09:54,173 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:54,175 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-12_03-09-54.log] [testng] 03:09:54,175 |-INFO in ch.qos.logback.core.sift.SiftProcessor@66696aad - End of configuration. [testng] [2024-10-12 03:09:56,538] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Abeta Moon.dm2: [testng] 03:09:56,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 03:09:56,538 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:56,539 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-12_03-09-56.log] [testng] 03:09:56,540 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1b30bc04 - End of configuration. [testng] [2024-10-12 03:09:57,774] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_microscope_info.png: [testng] 03:09:57,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 03:09:57,775 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:57,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-12_03-09-57.log] [testng] 03:09:57,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@742330f8 - End of configuration. [testng] [2024-10-12 03:09:57,795] [pool-1-thread-10] Initializing /data/pang/10500x-o4: [testng] 03:09:57,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 03:09:57,795 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:57,796 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-12_03-09-57.log] [testng] 03:09:57,796 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5b756b92 - End of configuration. [testng] [2024-10-12 03:09:59,096] [pool-1-thread-9] Initializing /data/imagic/13008.dm2: [testng] 03:09:59,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 03:09:59,097 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:59,097 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-12_03-09-59.log] [testng] 03:09:59,098 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2333dd87 - End of configuration. [testng] [2024-10-12 03:09:59,475] [pool-1-thread-8] Initializing /data/pang/grating025k.dm2: [testng] 03:09:59,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 03:09:59,475 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:09:59,476 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-12_03-09-59.log] [testng] 03:09:59,476 |-INFO in ch.qos.logback.core.sift.SiftProcessor@62449036 - End of configuration. [testng] [2024-10-12 03:10:01,320] [pool-1-thread-7] Initializing /data/imagic/not read correctly/Abeta Moon_preview.png: [testng] 03:10:01,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 03:10:01,321 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:10:01,321 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-12_03-10-01.log] [testng] 03:10:01,322 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6350de90 - End of configuration. [testng] [2024-10-12 03:10:01,578] [pool-1-thread-6] Initializing /data/pang/signed: [testng] 03:10:01,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 03:10:01,578 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:10:01,579 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-12_03-10-01.log] [testng] 03:10:01,579 |-INFO in ch.qos.logback.core.sift.SiftProcessor@6b2f44a4 - End of configuration. [testng] [2024-10-12 03:10:03,880] [pool-1-thread-5] Initializing /data/imagic/Histiocyte in Skin Dermis.dm2: [testng] 03:10:03,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 03:10:03,880 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:10:03,881 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-12_03-10-03.log] [testng] 03:10:03,881 |-INFO in ch.qos.logback.core.sift.SiftProcessor@285059ab - End of configuration. [testng] [2024-10-12 03:10:05,693] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_keywords_info.png: [testng] 03:10:05,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 03:10:05,693 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:10:05,694 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-12_03-10-05.log] [testng] 03:10:05,694 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1a409a69 - End of configuration. [testng] [2024-10-12 03:10:05,708] [pool-1-thread-3] Initializing /data/imagic/not read correctly/Zucchini.dm2: [testng] 03:10:05,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 03:10:05,709 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:10:05,709 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-12_03-10-05.log] [testng] 03:10:05,710 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3922676e - End of configuration. [testng] [2024-10-12 03:10:07,055] [pool-1-thread-2] Initializing /data/imagic/TEM 10118.dm2: [testng] 03:10:07,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 03:10:07,055 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 03:10:07,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-12_03-10-07.log] [testng] 03:10:07,056 |-INFO in ch.qos.logback.core.sift.SiftProcessor@528347c3 - End of configuration. [testng] [2024-10-12 03:10:27,345] [pool-1-thread-7] Initializing /data/pang/unproc-auto: [testng] [2024-10-12 03:10:32,730] [pool-1-thread-11] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info2.png: [testng] [2024-10-12 03:10:32,759] [pool-1-thread-4] Initializing /data/pang/screen capture of metadata/tem_dm_tags_info1.png: [testng] [2024-10-12 03:10:44,731] [pool-1-thread-12] Initializing /data/imagic/not read correctly/Zucchini_preview.png: [testng] [2024-10-12 03:10:46,410] [pool-1-thread-8] Initializing /data/pang/screen capture of metadata/tem_dm_general_info.png: [testng] [2024-10-12 03:10:47,184] [pool-1-thread-3] Initializing /data/imagic/1-1.dm2: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 3 minutes 12 seconds Finished: SUCCESS