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Started by upstream project "BIOFORMATS-test-repo" build number 126 originally caused by: Started by upstream project "Trigger" build number 143 originally caused by: Started by timer Running as SYSTEM Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@5 [BIOFORMATS-test-folder@5] $ /bin/bash -xe /tmp/jenkins10620027062176895973.sh + '[' ultraview = slidebook ']' ++ date +%u + '[' 6 -le 1 ']' + sudo docker run --rm --name BIOFORMATS-test-folder_19744_merge_ci -v /uod/idr/repos/curated/ultraview:/data -v /uod/idr-scratch/merge-ci/curated/ultraview:/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] 02:05:03,739 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14 [testng] 02:05:03,740 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - No custom configurators were discovered as a service. [testng] 02:05:03,740 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:05:03,741 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator [testng] 02:05:03,742 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo] [testng] 02:05:03,742 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo] [testng] 02:05:03,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 2 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY [testng] 02:05:03,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:05:03,743 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator [testng] 02:05:03,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}] [testng] 02:05:03,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml] [testng] 02:05:03,744 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml] [testng] 02:05:03,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout] [testng] 02:05:03,921 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender] [testng] 02:05:03,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT] [testng] 02:05:03,945 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender] [testng] 02:05:03,951 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG [testng] 02:05:03,951 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO [testng] 02:05:03,951 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT] [testng] 02:05:03,952 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng] [testng] 02:05:03,952 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@2794eab6 - End of configuration. [testng] 02:05:03,953 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@6c1a5b54 - Registering current configuration as safe fallback point [testng] 02:05:03,953 |-INFO in ch.qos.logback.classic.util.ContextInitializer@3a6bb9bf - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 210 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY [testng] [2024-07-20 02:05:03,962] [main] java.version = 11.0.16 [testng] 02:05:03,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main] [testng] 02:05:03,966 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:04,010 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-07-20_02-05-03.log] [testng] 02:05:04,012 |-INFO in ch.qos.logback.core.sift.SiftProcessor@642a7222 - End of configuration. [testng] [2024-07-20 02:05:04,014] [main] testng.directory = /data [testng] [2024-07-20 02:05:04,014] [main] testng.configDirectory = /config [testng] [2024-07-20 02:05:04,025] [main] testng.multiplier = 1.0 [testng] [2024-07-20 02:05:04,026] [main] testng.in-memory = false [testng] [2024-07-20 02:05:04,026] [main] testng.allow-missing = false [testng] [2024-07-20 02:05:04,026] [main] user.language = en [testng] [2024-07-20 02:05:04,026] [main] user.country = ${user.country} [testng] [2024-07-20 02:05:04,026] [main] Maximum heap size = 15360 MB [testng] Scanning for files... [testng] [2024-07-20 02:05:06,343] [main] ---------------------------------------- [testng] [2024-07-20 02:05:06,343] [main] Total files: 19 [testng] [2024-07-20 02:05:06,343] [main] Scan time: 2.317 s (121 ms/file) [testng] [2024-07-20 02:05:06,343] [main] ---------------------------------------- [testng] Building list of tests... [testng] Ready to test 18 files [testng] [TestNG] Running: [testng] Bio-Formats software test suite [testng] [testng] [2024-07-20 02:05:08,938] [pool-1-thread-1] Initializing /data/kate/Neutrophils#18/tiffs/Neutrophils#18.htm: [testng] 02:05:08,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1] [testng] 02:05:08,939 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:08,940 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-07-20_02-05-08.log] [testng] 02:05:08,941 |-INFO in ch.qos.logback.core.sift.SiftProcessor@432860ad - End of configuration. [testng] [2024-07-20 02:05:08,992] [pool-1-thread-12] Initializing /data/kate/GreenRed6ZnoT/GreenRed5ZNoT.htm: [testng] 02:05:08,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12] [testng] 02:05:08,993 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:08,994 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-07-20_02-05-08.log] [testng] 02:05:08,994 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32b97dff - End of configuration. [testng] [2024-07-20 02:05:09,010] [pool-1-thread-11] Initializing /data/chad/UltraViewExamples/DIC_200820080724115245/CHAD200820080724115245.HTM: [testng] 02:05:09,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11] [testng] 02:05:09,010 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,011 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-07-20_02-05-09.log] [testng] 02:05:09,012 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2d784dd - End of configuration. [testng] [2024-07-20 02:05:09,026] [pool-1-thread-10] Initializing /data/chad/UltraViewExample/works/CHAD200920090331181355.HTM: [testng] 02:05:09,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10] [testng] 02:05:09,026 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,027 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-07-20_02-05-09.log] [testng] 02:05:09,027 |-INFO in ch.qos.logback.core.sift.SiftProcessor@75421e38 - End of configuration. [testng] [2024-07-20 02:05:09,040] [pool-1-thread-9] Initializing /data/kate/GreenRedNoZnoT/GreenRedNoZNoT.htm: [testng] 02:05:09,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9] [testng] 02:05:09,040 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,041 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-07-20_02-05-09.log] [testng] 02:05:09,041 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5ee1059b - End of configuration. [testng] [2024-07-20 02:05:09,054] [pool-1-thread-8] Initializing /data/chad/DIC_IREN200820080107120042/IREN200820080107120042.HTM: [testng] 02:05:09,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8] [testng] 02:05:09,054 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,055 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-07-20_02-05-09.log] [testng] 02:05:09,055 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2eaec444 - End of configuration. [testng] [2024-07-20 02:05:09,070] [pool-1-thread-7] Initializing /data/chad/20080107130850/IREN200820080107130850.HTM: [testng] 02:05:09,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7] [testng] 02:05:09,071 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,072 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-07-20_02-05-09.log] [testng] 02:05:09,072 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fdba07f - End of configuration. [testng] [2024-07-20 02:05:09,087] [pool-1-thread-6] Initializing /data/todd/movement-1.htm: [testng] 02:05:09,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6] [testng] 02:05:09,087 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,088 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-07-20_02-05-09.log] [testng] 02:05:09,089 |-INFO in ch.qos.logback.core.sift.SiftProcessor@57af4386 - End of configuration. [testng] [2024-07-20 02:05:09,124] [pool-1-thread-5] Initializing /data/kate/GreenRed6Z3T/GreenRed5Z5T.htm: [testng] 02:05:09,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5] [testng] 02:05:09,125 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,126 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-07-20_02-05-09.log] [testng] 02:05:09,126 |-INFO in ch.qos.logback.core.sift.SiftProcessor@15196867 - End of configuration. [testng] [2024-07-20 02:05:09,143] [pool-1-thread-4] Initializing /data/chad/UltraViewExamples/Works/CHAD200820080724121453.HTM: [testng] 02:05:09,143 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4] [testng] 02:05:09,143 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,144 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-07-20_02-05-09.log] [testng] 02:05:09,144 |-INFO in ch.qos.logback.core.sift.SiftProcessor@799a9114 - End of configuration. [testng] [2024-07-20 02:05:09,161] [pool-1-thread-3] Initializing /data/chad/UltraViewExamples/Bug/CHAD200820080724120123.HTM: [testng] 02:05:09,161 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3] [testng] 02:05:09,161 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,162 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-07-20_02-05-09.log] [testng] 02:05:09,163 |-INFO in ch.qos.logback.core.sift.SiftProcessor@84d2071 - End of configuration. [testng] [2024-07-20 02:05:09,179] [pool-1-thread-2] Initializing /data/chad/UltraViewSamples/series 3/RAJE200820080619090142.HTM: [testng] 02:05:09,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2] [testng] 02:05:09,180 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender] [testng] 02:05:09,180 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-07-20_02-05-09.log] [testng] 02:05:09,181 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2cfa6ef2 - End of configuration. [testng] [2024-07-20 02:05:10,908] [pool-1-thread-11] Initializing /data/chad/UltraViewExample/doesNot/CHAD200920090331181253.HTM: [testng] [2024-07-20 02:05:10,921] [pool-1-thread-9] Initializing /data/helio/2 copy Cnn g-tubGFP 111221#20/2 copy Cnn g-tubGFP 111221#20.htm: [testng] [2024-07-20 02:05:10,933] [pool-1-thread-8] Initializing /data/chad/DIC/EZRA200820080626102637.HTM: [testng] [2024-07-20 02:05:10,945] [pool-1-thread-6] Initializing /data/kate/GreenOnlyNoZnoT/GreenOnlyNoZnoT.htm: [testng] [2024-07-20 02:05:11,628] [pool-1-thread-8] Initializing /data/kate/Neutrophils#18/Neutrophils#18.htm: [testng] [2024-07-20 02:05:11,826] [pool-1-thread-12] Initializing /data/kate/GreenRedNoZ3T/GreenRedNoZ5T.htm: [testng] [testng] =============================================== [testng] Bio-Formats software test suite [testng] Total tests run: 954, Failures: 0, Skips: 0 [testng] =============================================== [testng] BUILD SUCCESSFUL Total time: 43 seconds Finished: SUCCESS