Started by upstream project "BIOFORMATS-test-repo" build number 260
originally caused by:
Started by upstream project "Trigger" build number 284
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/jenkins2385409827948839446.sh
+ '[' imaris = slidebook ']'
++ date +%u
+ '[' 2 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_41073_merge_ci -v /uod/idr/repos/curated/imaris:/data -v /uod/idr-scratch/merge-ci/curated/imaris:/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] 02:48:45,580 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 02:48:45,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 02:48:45,582 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:48:45,584 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 02:48:45,584 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 02:48:45,585 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 02:48:45,586 |-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] 02:48:45,586 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:48:45,586 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 02:48:45,587 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 02:48:45,587 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 02:48:45,588 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 02:48:45,764 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 02:48:45,765 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 02:48:45,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 02:48:45,788 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 02:48:45,794 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 02:48:45,794 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 02:48:45,794 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 02:48:45,795 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 02:48:45,795 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 02:48:45,795 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 02:48:45,796 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 210 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-11-19 02:48:45,805] [main] java.version = 11.0.16
[testng] 02:48:45,808 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 02:48:45,809 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:48:45,861 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-19_02-48-45.log]
[testng] 02:48:45,863 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-11-19 02:48:45,865] [main] testng.directory = /data
[testng] [2024-11-19 02:48:45,865] [main] testng.configDirectory = /config
[testng] [2024-11-19 02:48:45,875] [main] testng.multiplier = 1.0
[testng] [2024-11-19 02:48:45,876] [main] testng.in-memory = false
[testng] [2024-11-19 02:48:45,877] [main] testng.allow-missing = false
[testng] [2024-11-19 02:48:45,877] [main] user.language = en
[testng] [2024-11-19 02:48:45,877] [main] user.country = ${user.country}
[testng] [2024-11-19 02:48:45,877] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-11-19 02:49:16,290] [main] ----------------------------------------
[testng] [2024-11-19 02:49:16,290] [main] Total files: 68
[testng] [2024-11-19 02:49:16,290] [main] Scan time: 30.413 s (447 ms/file)
[testng] [2024-11-19 02:49:16,291] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 60 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-11-19 02:49:54,634] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0015.ims:
[testng] 02:49:54,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 02:49:54,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:54,636 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-19_02-49-54.log]
[testng] 02:49:54,637 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2385c777 - End of configuration.
[testng] [2024-11-19 02:49:54,750] [pool-1-thread-12] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims:
[testng] 02:49:54,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 02:49:54,750 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:54,751 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-19_02-49-54.log]
[testng] 02:49:54,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@64ca27c3 - End of configuration.
[testng] [2024-11-19 02:49:54,946] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0004.ims:
[testng] 02:49:54,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 02:49:54,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:54,947 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-19_02-49-54.log]
[testng] 02:49:54,947 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3c8ff381 - End of configuration.
[testng] [2024-11-19 02:49:55,014] [pool-1-thread-10] Initializing /data/public/davemason/Convallaria_3C_1T_confocal_IMS3.ims:
[testng] 02:49:55,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 02:49:55,014 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:55,015 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-19_02-49-55.log]
[testng] 02:49:55,015 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3a446ea - End of configuration.
[testng] [2024-11-19 02:49:55,430] [pool-1-thread-9] Initializing /data/jason/imaris_5_5_demoimages/retina.ims:
[testng] 02:49:55,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 02:49:55,431 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:55,431 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-19_02-49-55.log]
[testng] 02:49:55,432 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7eaa890 - End of configuration.
[testng] [2024-11-19 02:49:55,869] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0006.ims:
[testng] 02:49:55,869 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 02:49:55,870 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:55,870 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-19_02-49-55.log]
[testng] 02:49:55,870 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4ede5805 - End of configuration.
[testng] [2024-11-19 02:49:56,013] [pool-1-thread-7] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims:
[testng] 02:49:56,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 02:49:56,013 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:56,014 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-19_02-49-56.log]
[testng] 02:49:56,014 |-INFO in ch.qos.logback.core.sift.SiftProcessor@60ea0b18 - End of configuration.
[testng] [2024-11-19 02:49:56,197] [pool-1-thread-6] Initializing /data/qa-17839/Fusion _Stack.ims:
[testng] 02:49:56,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 02:49:56,197 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:56,197 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-19_02-49-56.log]
[testng] 02:49:56,198 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45fc582f - End of configuration.
[testng] [2024-11-19 02:49:56,634] [pool-1-thread-5] Initializing /data/oliver/Stack2_float32Bit.ims:
[testng] 02:49:56,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 02:49:56,634 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:56,635 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-19_02-49-56.log]
[testng] 02:49:56,636 |-INFO in ch.qos.logback.core.sift.SiftProcessor@37581c07 - End of configuration.
[testng] [2024-11-19 02:49:56,968] [pool-1-thread-4] Initializing /data/qa-4898/o383_1_457_CS_r1.ims:
[testng] 02:49:56,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 02:49:56,968 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:56,969 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-19_02-49-56.log]
[testng] 02:49:56,969 |-INFO in ch.qos.logback.core.sift.SiftProcessor@641d6105 - End of configuration.
[testng] [2024-11-19 02:49:57,254] [pool-1-thread-3] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal.ims:
[testng] 02:49:57,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 02:49:57,254 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:57,255 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-19_02-49-57.log]
[testng] 02:49:57,255 |-INFO in ch.qos.logback.core.sift.SiftProcessor@28cbe358 - End of configuration.
[testng] [2024-11-19 02:49:57,561] [pool-1-thread-2] Initializing /data/generated/MF-2CH-Z-T.ims:
[testng] 02:49:57,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 02:49:57,561 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 02:49:57,561 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-19_02-49-57.log]
[testng] 02:49:57,562 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4e80d0fa - End of configuration.
BUILD SUCCESSFUL
Total time: 2 minutes 28 seconds
Finished: SUCCESS