Started by upstream project "BIOFORMATS-test-repo" build number 290
originally caused by:
Started by upstream project "Trigger" build number 309
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/jenkins3149102857389050088.sh
+ '[' imaris = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_45866_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] 05:21:02,326 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
[testng] 05:21:02,328 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
[testng] 05:21:02,328 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:21:02,329 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
[testng] 05:21:02,330 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
[testng] 05:21:02,330 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
[testng] 05:21:02,330 |-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] 05:21:02,330 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:21:02,331 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
[testng] 05:21:02,331 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
[testng] 05:21:02,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
[testng] 05:21:02,332 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
[testng] 05:21:02,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
[testng] 05:21:02,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
[testng] 05:21:02,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
[testng] 05:21:02,537 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
[testng] 05:21:02,543 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
[testng] 05:21:02,543 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
[testng] 05:21:02,543 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
[testng] 05:21:02,543 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
[testng] 05:21:02,544 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
[testng] 05:21:02,544 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
[testng] 05:21:02,544 |-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] [2024-12-14 05:21:02,554] [main] java.version = 11.0.16
[testng] 05:21:02,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
[testng] 05:21:02,557 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:21:02,602 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-12-14_05-21-02.log]
[testng] 05:21:02,604 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
[testng] [2024-12-14 05:21:02,606] [main] testng.directory = /data
[testng] [2024-12-14 05:21:02,606] [main] testng.configDirectory = /config
[testng] [2024-12-14 05:21:02,616] [main] testng.multiplier = 1.0
[testng] [2024-12-14 05:21:02,617] [main] testng.in-memory = false
[testng] [2024-12-14 05:21:02,617] [main] testng.allow-missing = false
[testng] [2024-12-14 05:21:02,618] [main] user.language = en
[testng] [2024-12-14 05:21:02,618] [main] user.country = ${user.country}
[testng] [2024-12-14 05:21:02,618] [main] Maximum heap size = 15360 MB
[testng] Scanning for files...
[testng] [2024-12-14 05:22:30,547] [main] ----------------------------------------
[testng] [2024-12-14 05:22:30,547] [main] Total files: 73
[testng] [2024-12-14 05:22:30,547] [main] Scan time: 87.929 s (1204 ms/file)
[testng] [2024-12-14 05:22:30,547] [main] ----------------------------------------
[testng] Building list of tests...
[testng] Ready to test 63 files
[testng] [TestNG] Running:
[testng] Bio-Formats software test suite
[testng]
[testng] [2024-12-14 05:24:14,186] [pool-1-thread-1] Initializing /data/generated/10-31_E_t0000.ims:
[testng] 05:24:14,186 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
[testng] 05:24:14,187 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:14,189 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-12-14_05-24-14.log]
[testng] 05:24:14,189 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3b2a68bc - End of configuration.
[testng] [2024-12-14 05:24:14,716] [pool-1-thread-12] Initializing /data/generated/10-31_E_t0006.ims:
[testng] 05:24:14,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
[testng] 05:24:14,716 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:14,717 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-12-14_05-24-14.log]
[testng] 05:24:14,718 |-INFO in ch.qos.logback.core.sift.SiftProcessor@32755000 - End of configuration.
[testng] [2024-12-14 05:24:15,139] [pool-1-thread-11] Initializing /data/generated/10-31_E_t0009.ims:
[testng] 05:24:15,139 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
[testng] 05:24:15,139 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:15,140 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-12-14_05-24-15.log]
[testng] 05:24:15,140 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7eaa890 - End of configuration.
[testng] [2024-12-14 05:24:15,546] [pool-1-thread-10] Initializing /data/generated/10-31_E_t0005.ims:
[testng] 05:24:15,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
[testng] 05:24:15,546 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:15,547 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-12-14_05-24-15.log]
[testng] 05:24:15,547 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5c96c312 - End of configuration.
[testng] [2024-12-14 05:24:15,898] [pool-1-thread-9] Initializing /data/generated/10-31_E_t0002.ims:
[testng] 05:24:15,899 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
[testng] 05:24:15,899 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:15,899 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-12-14_05-24-15.log]
[testng] 05:24:15,900 |-INFO in ch.qos.logback.core.sift.SiftProcessor@308eea37 - End of configuration.
[testng] [2024-12-14 05:24:16,347] [pool-1-thread-8] Initializing /data/public/davemason/TransFactors_2C_SRRF_IMS3.ims:
[testng] 05:24:16,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
[testng] 05:24:16,347 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:16,348 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-12-14_05-24-16.log]
[testng] 05:24:16,348 |-INFO in ch.qos.logback.core.sift.SiftProcessor@30ec084e - End of configuration.
[testng] [2024-12-14 05:24:17,596] [pool-1-thread-7] Initializing /data/public/davemason/Convallaria_3C_1T_2x2grid_confocal_IMS3.ims:
[testng] 05:24:17,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
[testng] 05:24:17,596 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:17,597 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-12-14_05-24-17.log]
[testng] 05:24:17,597 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7fca91e8 - End of configuration.
[testng] [2024-12-14 05:24:18,873] [pool-1-thread-6] Initializing /data/generated/10-31_E_t0013.ims:
[testng] 05:24:18,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
[testng] 05:24:18,873 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:18,874 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-12-14_05-24-18.log]
[testng] 05:24:18,874 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5fa528c3 - End of configuration.
[testng] [2024-12-14 05:24:19,369] [pool-1-thread-5] Initializing /data/jason/imaris_5_5_demoimages/SwimmingAlgae.ims:
[testng] 05:24:19,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
[testng] 05:24:19,370 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:19,370 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-12-14_05-24-19.log]
[testng] 05:24:19,371 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5e75a6a9 - End of configuration.
[testng] [2024-12-14 05:24:20,449] [pool-1-thread-4] Initializing /data/oliver/Stack2_8Bit.ims:
[testng] 05:24:20,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
[testng] 05:24:20,450 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:20,450 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-12-14_05-24-20.log]
[testng] 05:24:20,450 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b05860 - End of configuration.
[testng] [2024-12-14 05:24:21,541] [pool-1-thread-3] Initializing /data/public/davemason/Convallaria_3C_10T_confocal.ims:
[testng] 05:24:21,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
[testng] 05:24:21,541 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:21,542 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-12-14_05-24-21.log]
[testng] 05:24:21,542 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3f5c327e - End of configuration.
[testng] [2024-12-14 05:24:22,607] [pool-1-thread-2] Initializing /data/public/bitplane/lz4/croppedCDM3DLz4.ims:
[testng] 05:24:22,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
[testng] 05:24:22,607 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
[testng] 05:24:22,608 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-12-14_05-24-22.log]
[testng] 05:24:22,608 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5478a320 - End of configuration.
BUILD SUCCESSFUL
Total time: 5 minutes 39 seconds
Finished: SUCCESS