Started by upstream project "BIOFORMATS-test-repo" build number 235
originally caused by:
Started by upstream project "Trigger" build number 260
originally caused by:
Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@2
[BIOFORMATS-test-folder@2] $ /bin/bash -xe /tmp/jenkins13909280317172925983.sh
+ '[' imaris = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_36973_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] 04:05:14,150 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 04:05:14,152 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 04:05:14,152 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:05:14,152 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 04:05:14,153 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 04:05:14,153 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 04:05:14,153 |-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] 04:05:14,153 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:05:14,154 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 04:05:14,155 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 04:05:14,155 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 04:05:14,155 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 04:05:14,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 04:05:14,319 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 04:05:14,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 04:05:14,341 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 04:05:14,346 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 04:05:14,347 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 04:05:14,347 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 04:05:14,347 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 04:05:14,347 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 04:05:14,348 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 04:05:14,348 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 194 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
[testng] [2024-10-26 04:05:14,357] [main] java.version = 11.0.16
[testng] 04:05:14,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 04:05:14,360 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:05:14,401 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-10-26_04-05-14.log]
[testng] 04:05:14,403 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-10-26 04:05:14,404] [main] testng.directory = /data
[testng] [2024-10-26 04:05:14,405] [main] testng.configDirectory = /config
[testng] [2024-10-26 04:05:14,414] [main] testng.multiplier = 1.0
[testng] [2024-10-26 04:05:14,415] [main] testng.in-memory = false
[testng] [2024-10-26 04:05:14,415] [main] testng.allow-missing = false
[testng] [2024-10-26 04:05:14,415] [main] user.language = en
[testng] [2024-10-26 04:05:14,415] [main] user.country = ${user.country}
[testng] [2024-10-26 04:05:14,416] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-10-26 04:05:28,204] [main] ----------------------------------------
[testng] [2024-10-26 04:05:28,204] [main] Total files: 68
[testng] [2024-10-26 04:05:28,204] [main] Scan time: 13.788 s (202 ms/file)
[testng] [2024-10-26 04:05:28,204] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 60 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-10-26 04:05:59,233] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0015.ims:
[testng] 04:05:59,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 04:05:59,234 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:05:59,235 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-10-26_04-05-59.log]
[testng] 04:05:59,236 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5afa5a49 - End of configuration.
[testng] [2024-10-26 04:05:59,321] [pool-1-thread-12] Initializing /data/public/davemason/TransFactors_2C_34Z_SRRF.ims:
[testng] 04:05:59,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 04:05:59,322 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:05:59,323 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-10-26_04-05-59.log]
[testng] 04:05:59,323 |-INFO in ch.qos.logback.core.sift.SiftProcessor@69acb1b6 - End of configuration.
[testng] [2024-10-26 04:05:59,666] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0004.ims:
[testng] 04:05:59,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 04:05:59,666 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:05:59,667 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-10-26_04-05-59.log]
[testng] 04:05:59,667 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59541270 - End of configuration.
[testng] [2024-10-26 04:05:59,865] [pool-1-thread-10] Initializing /data/public/davemason/Convallaria_3C_1T_confocal_IMS3.ims:
[testng] 04:05:59,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 04:05:59,865 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:05:59,866 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-10-26_04-05-59.log]
[testng] 04:05:59,866 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7499ddd - End of configuration.
[testng] [2024-10-26 04:06:00,096] [pool-1-thread-9] Initializing /data/jason/imaris_5_5_demoimages/retina.ims:
[testng] 04:06:00,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 04:06:00,096 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:00,096 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-10-26_04-06-00.log]
[testng] 04:06:00,097 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e75a6a9 - End of configuration.
[testng] [2024-10-26 04:06:00,302] [pool-1-thread-8] Initializing /data/generated/10-31_E_t0006.ims:
[testng] 04:06:00,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 04:06:00,302 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:00,303 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-10-26_04-06-00.log]
[testng] 04:06:00,304 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b05860 - End of configuration.
[testng] [2024-10-26 04:06:00,468] [pool-1-thread-7] Initializing /data/public/eliana/2016-07-26_17.11.03_Sample Prefix_5P298C2_Protocol.ims:
[testng] 04:06:00,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 04:06:00,468 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:00,469 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-10-26_04-06-00.log]
[testng] 04:06:00,469 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d846d5a - End of configuration.
[testng] [2024-10-26 04:06:00,777] [pool-1-thread-6] Initializing /data/qa-17839/Fusion _Stack.ims:
[testng] 04:06:00,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 04:06:00,777 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:00,778 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-10-26_04-06-00.log]
[testng] 04:06:00,778 |-INFO in ch.qos.logback.core.sift.SiftProcessor@58baf1af - End of configuration.
[testng] [2024-10-26 04:06:00,998] [pool-1-thread-5] Initializing /data/oliver/Stack2_float32Bit.ims:
[testng] 04:06:00,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 04:06:00,998 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:00,999 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-10-26_04-06-00.log]
[testng] 04:06:00,999 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30a2850c - End of configuration.
[testng] [2024-10-26 04:06:01,242] [pool-1-thread-4] Initializing /data/qa-4898/o383_1_457_CS_r1.ims:
[testng] 04:06:01,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 04:06:01,242 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:01,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-10-26_04-06-01.log]
[testng] 04:06:01,243 |-INFO in ch.qos.logback.core.sift.SiftProcessor@410a44c8 - End of configuration.
[testng] [2024-10-26 04:06:01,511] [pool-1-thread-3] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal.ims:
[testng] 04:06:01,511 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 04:06:01,511 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:01,512 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-10-26_04-06-01.log]
[testng] 04:06:01,512 |-INFO in ch.qos.logback.core.sift.SiftProcessor@255c33e0 - End of configuration.
[testng] [2024-10-26 04:06:01,893] [pool-1-thread-2] Initializing /data/generated/MF-2CH-Z-T.ims:
[testng] 04:06:01,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 04:06:01,893 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 04:06:01,894 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-10-26_04-06-01.log]
[testng] 04:06:01,894 |-INFO in ch.qos.logback.core.sift.SiftProcessor@437c9634 - End of configuration.
BUILD SUCCESSFUL
Total time: 2 minutes 49 seconds
Finished: SUCCESS