Skip to content
[Jenkins]Jenkins
log in

Console Output

Started by upstream project "BIOFORMATS-test-repo" build number 257
originally caused by:
 Started by upstream project "Trigger" build number 281
 originally caused by:
  Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@10
[BIOFORMATS-test-folder@10] $ /bin/bash -xe /tmp/jenkins7800284100537617734.sh
+ '[' jpeg2000 = slidebook ']'
++ date +%u
+ '[' 6 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_40620_merge_ci -v /uod/idr/repos/curated/jpeg2000:/data -v /uod/idr-scratch/merge-ci/curated/jpeg2000:/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] 04:12:11,753 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 04:12:11,755 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - No custom configurators were discovered as a service.
   [testng] 04:12:11,755 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 04:12:11,756 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 04:12:11,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 04:12:11,756 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 04:12:11,757 |-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] 04:12:11,757 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 04:12:11,757 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 04:12:11,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 04:12:11,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 04:12:11,758 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 04:12:11,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 04:12:11,915 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 04:12:11,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 04:12:11,935 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 04:12:11,940 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 04:12:11,941 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 04:12:11,941 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 04:12:11,941 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 04:12:11,941 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@45099dd3 - End of configuration.
   [testng] 04:12:11,942 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@60099951 - Registering current configuration as safe fallback point
   [testng] 04:12:11,942 |-INFO in ch.qos.logback.classic.util.ContextInitializer@65f095f8 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 185 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-11-16 04:12:11,950] [main] java.version = 11.0.16
   [testng] 04:12:11,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 04:12:11,953 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:11,992 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-11-16_04-12-11.log]
   [testng] 04:12:11,994 |-INFO in ch.qos.logback.core.sift.SiftProcessor@21be3395 - End of configuration.
   [testng] [2024-11-16 04:12:11,995] [main] testng.directory = /data
   [testng] [2024-11-16 04:12:11,996] [main] testng.configDirectory = /config
   [testng] [2024-11-16 04:12:12,005] [main] testng.multiplier = 1.0
   [testng] [2024-11-16 04:12:12,006] [main] testng.in-memory = false
   [testng] [2024-11-16 04:12:12,006] [main] testng.allow-missing = false
   [testng] [2024-11-16 04:12:12,006] [main] user.language = en
   [testng] [2024-11-16 04:12:12,006] [main] user.country = ${user.country}
   [testng] [2024-11-16 04:12:12,006] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2024-11-16 04:12:30,400] [main] ----------------------------------------
   [testng] [2024-11-16 04:12:30,400] [main] Total files: 31
   [testng] [2024-11-16 04:12:30,400] [main] Scan time: 18.394 s (593 ms/file)
   [testng] [2024-11-16 04:12:30,400] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 30 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-11-16 04:12:51,715] [pool-1-thread-1] Initializing /data/venu/Multichannel 3a.jpg: 
   [testng] 04:12:51,715 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 04:12:51,715 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:51,717 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-11-16_04-12-51.log]
   [testng] 04:12:51,717 |-INFO in ch.qos.logback.core.sift.SiftProcessor@12cd947c - End of configuration.
   [testng] [2024-11-16 04:12:51,887] [pool-1-thread-12] Initializing /data/mike/LCM-4-3-color-cleaned.jp2: 
   [testng] 04:12:51,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 04:12:51,888 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:51,890 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-11-16_04-12-51.log]
   [testng] 04:12:51,890 |-INFO in ch.qos.logback.core.sift.SiftProcessor@178b86a1 - End of configuration.
   [testng] [2024-11-16 04:12:52,410] [pool-1-thread-11] Initializing /data/david/multichannel-2d test-non MBF-type.jp2: 
   [testng] 04:12:52,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 04:12:52,411 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:52,411 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-11-16_04-12-52.log]
   [testng] 04:12:52,412 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3619195c - End of configuration.
   [testng] [2024-11-16 04:12:52,937] [pool-1-thread-10] Initializing /data/angel/002_L050071_32_01_09_x2.jp2: 
   [testng] 04:12:52,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 04:12:52,938 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:52,938 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-11-16_04-12-52.log]
   [testng] 04:12:52,939 |-INFO in ch.qos.logback.core.sift.SiftProcessor@124a7ba3 - End of configuration.
   [testng] [2024-11-16 04:12:53,490] [pool-1-thread-9] Initializing /data/david/C1R1_FOS.jp2: 
   [testng] 04:12:53,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 04:12:53,491 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:53,492 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-11-16_04-12-53.log]
   [testng] 04:12:53,492 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3685d855 - End of configuration.
   [testng] [2024-11-16 04:12:53,997] [pool-1-thread-8] Initializing /data/vikram/Captured 3.jp2: 
   [testng] 04:12:53,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 04:12:53,997 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:53,997 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-11-16_04-12-53.log]
   [testng] 04:12:53,998 |-INFO in ch.qos.logback.core.sift.SiftProcessor@71c2870b - End of configuration.
   [testng] [2024-11-16 04:12:54,627] [pool-1-thread-7] Initializing /data/vikram/Captured 2.jp2: 
   [testng] 04:12:54,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 04:12:54,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:54,627 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-11-16_04-12-54.log]
   [testng] 04:12:54,628 |-INFO in ch.qos.logback.core.sift.SiftProcessor@1f950655 - End of configuration.
   [testng] [2024-11-16 04:12:55,159] [pool-1-thread-6] Initializing /data/venu/Multichannel 3.jp2: 
   [testng] 04:12:55,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 04:12:55,159 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:55,160 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-11-16_04-12-55.log]
   [testng] 04:12:55,160 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4a2077e7 - End of configuration.
   [testng] [2024-11-16 04:12:55,774] [pool-1-thread-5] Initializing /data/angel/052_L050071_56_x2hv.jp2: 
   [testng] 04:12:55,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 04:12:55,774 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:55,775 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-11-16_04-12-55.log]
   [testng] 04:12:55,776 |-INFO in ch.qos.logback.core.sift.SiftProcessor@c880a37 - End of configuration.
   [testng] [2024-11-16 04:12:56,349] [pool-1-thread-4] Initializing /data/misc/clown-rgb.jpc: 
   [testng] 04:12:56,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 04:12:56,349 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:56,350 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-11-16_04-12-56.log]
   [testng] 04:12:56,350 |-INFO in ch.qos.logback.core.sift.SiftProcessor@2a647f16 - End of configuration.
   [testng] [2024-11-16 04:12:56,811] [pool-1-thread-3] Initializing /data/frans/flower.jp2: 
   [testng] 04:12:56,811 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 04:12:56,811 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:56,812 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-11-16_04-12-56.log]
   [testng] 04:12:56,812 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4b91cbca - End of configuration.
   [testng] [2024-11-16 04:12:57,242] [pool-1-thread-2] Initializing /data/david/000000_000001.jpx: 
   [testng] 04:12:57,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 04:12:57,243 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 04:12:57,243 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-11-16_04-12-57.log]
   [testng] 04:12:57,244 |-INFO in ch.qos.logback.core.sift.SiftProcessor@612a7b30 - End of configuration.
   [testng] [2024-11-16 04:13:01,944] [pool-1-thread-1] Initializing /data/mike/LCM4-1-cr10-cleaned.jp2: 
   [testng] [2024-11-16 04:13:02,553] [pool-1-thread-4] Initializing /data/david/multichannel-2d test.jp2: 
   [testng] [2024-11-16 04:13:03,221] [pool-1-thread-7] Initializing /data/david/multichannel-3d-non-MBF-trial-2.jpx: 
   [testng] [2024-11-16 04:13:03,874] [pool-1-thread-8] Initializing /data/misc/clown-rgb.jp2: 
   [testng] [2024-11-16 04:13:07,728] [pool-1-thread-8] Initializing /data/big-images/2kx2k.jpf: 
   [testng] [2024-11-16 04:13:08,621] [pool-1-thread-2] Initializing /data/big-images/4kx4k.jpf: 
   [testng] [2024-11-16 04:13:12,824] [pool-1-thread-1] Initializing /data/david/cy5-tph.jp2: 
   [testng] [2024-11-16 04:13:13,723] [pool-1-thread-10] Initializing /data/mike/LCM-4-3-color-cleaned.tiff: 
   [testng] [2024-11-16 04:13:15,039] [pool-1-thread-6] Initializing /data/david/multichannel-3d-MBF-type.jpx: 
   [testng] [2024-11-16 04:13:15,837] [pool-1-thread-12] Initializing /data/vikram/Captured 4.jp2: 
   [testng] [2024-11-16 04:13:16,452] [pool-1-thread-5] Initializing /data/vikram/Captured 5.jp2: 
   [testng] [2024-11-16 04:13:19,345] [pool-1-thread-3] Initializing /data/mike/LCM-4-3-color-cleaned-LOCI.tiff: 
   [testng] [2024-11-16 04:13:23,199] [pool-1-thread-12] Initializing /data/kraig/head.jp2: 
   [testng] [2024-11-16 04:13:23,958] [pool-1-thread-5] Initializing /data/aryeh/flour 12.jp2: 
   [testng] [2024-11-16 04:13:26,426] [pool-1-thread-8] Initializing /data/big-images/8kx8k.jpf: 
   [testng] [2024-11-16 04:13:27,145] [pool-1-thread-10] Initializing /data/misc/clown-rgb.jbig: 
   [testng] [2024-11-16 04:13:31,137] [pool-1-thread-12] Initializing /data/vikram/Captured 1.jp2: 
   [testng] [2024-11-16 04:13:31,660] [pool-1-thread-3] Initializing /data/mario/b0bCDME-0007_wB05_s1_z1_t1_cGFP_u001.jp2: 
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 1590, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 7 minutes 27 seconds
Finished: SUCCESS