Skip to content

Console Output

Started by upstream project "BIOFORMATS-test-repo" build number 362
originally caused by:
 Started by upstream project "Trigger" build number 388
 originally caused by:
  Started by timer
Running as SYSTEM
Building remotely on docker (swarm) in workspace /home/omero/workspace/BIOFORMATS-test-folder@3
[BIOFORMATS-test-folder@3] $ /bin/bash -xe /tmp/jenkins9945004688998838178.sh
+ '[' ventana = slidebook ']'
++ date +%u
+ '[' 7 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_57734_merge_ci -v /uod/idr/repos/curated/ventana:/data -v /uod/idr-scratch/merge-ci/curated/ventana:/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] Could not load field socket from SocketImpl: java.lang.NoSuchFieldException: socket
   [testng] Could not load field serverSocket from SocketImpl: java.lang.NoSuchFieldException: serverSocket
   [testng] File leak detector installed
   [testng] 02:42:45,748 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.15
   [testng] 02:42:45,749 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - No custom configurators were discovered as a service.
   [testng] 02:42:45,749 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 02:42:45,750 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 02:42:45,750 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 02:42:45,750 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 02:42:45,751 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 1 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 02:42:45,751 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 02:42:45,751 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 02:42:45,752 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 02:42:45,752 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 02:42:45,752 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 02:42:45,907 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 02:42:45,908 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 02:42:45,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 02:42:45,928 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 02:42:45,933 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 02:42:45,934 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 02:42:45,934 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 02:42:45,934 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 02:42:45,934 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@3f6f6701 - End of configuration.
   [testng] 02:42:45,935 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@4f80542f - Registering current configuration as safe fallback point
   [testng] 02:42:45,935 |-INFO in ch.qos.logback.classic.util.ContextInitializer@2beee7ff - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 184 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2025-03-02 02:42:45,943] [main] java.version = 17.0.2
   [testng] 02:42:45,946 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 02:42:45,947 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:45,986 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2025-03-02_02-42-45.log]
   [testng] 02:42:45,987 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14bdbc74 - End of configuration.
   [testng] [2025-03-02 02:42:45,989] [main] testng.directory = /data
   [testng] [2025-03-02 02:42:45,990] [main] testng.configDirectory = /config
   [testng] [2025-03-02 02:42:45,998] [main] testng.multiplier = 1.0
   [testng] [2025-03-02 02:42:45,999] [main] testng.in-memory = false
   [testng] [2025-03-02 02:42:45,999] [main] testng.allow-missing = false
   [testng] [2025-03-02 02:42:45,999] [main] user.language = en
   [testng] [2025-03-02 02:42:45,999] [main] user.country = ${user.country}
   [testng] [2025-03-02 02:42:45,999] [main] Maximum heap size = 15360 MB
   [testng] Scanning for files...
   [testng] [2025-03-02 02:42:46,760] [main] ----------------------------------------
   [testng] [2025-03-02 02:42:46,760] [main] Total files: 10
   [testng] [2025-03-02 02:42:46,760] [main] Scan time: 0.761 s (76 ms/file)
   [testng] [2025-03-02 02:42:46,761] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 10 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2025-03-02 02:42:55,918] [pool-1-thread-1] Initializing /data/qa-11086/2.bif: 
   [testng] 02:42:55,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 02:42:55,918 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:55,919 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2025-03-02_02-42-55.log]
   [testng] 02:42:55,920 |-INFO in ch.qos.logback.core.sift.SiftProcessor@42096a - End of configuration.
   [testng] [2025-03-02 02:42:56,511] [pool-1-thread-10] Initializing /data/public/openslide/OS-2.bif: 
   [testng] 02:42:56,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 02:42:56,512 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:56,513 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2025-03-02_02-42-56.log]
   [testng] 02:42:56,513 |-INFO in ch.qos.logback.core.sift.SiftProcessor@35d74b05 - End of configuration.
   [testng] [2025-03-02 02:42:57,132] [pool-1-thread-9] Initializing /data/gh-3927/imagesc-75002/ome-bioformats-bug.bif: 
   [testng] 02:42:57,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 02:42:57,132 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:57,133 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2025-03-02_02-42-57.log]
   [testng] 02:42:57,133 |-INFO in ch.qos.logback.core.sift.SiftProcessor@636d764c - End of configuration.
   [testng] [2025-03-02 02:42:57,641] [pool-1-thread-8] Initializing /data/qa-11086/CASO_2_20X_HD_4_16.bif: 
   [testng] 02:42:57,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 02:42:57,641 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:57,642 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2025-03-02_02-42-57.log]
   [testng] 02:42:57,643 |-INFO in ch.qos.logback.core.sift.SiftProcessor@18ecaa62 - End of configuration.
   [testng] [2025-03-02 02:42:58,231] [pool-1-thread-7] Initializing /data/public/openslide/OS-1.bif: 
   [testng] 02:42:58,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 02:42:58,232 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:58,233 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2025-03-02_02-42-58.log]
   [testng] 02:42:58,233 |-INFO in ch.qos.logback.core.sift.SiftProcessor@45569f3 - End of configuration.
   [testng] [2025-03-02 02:42:58,902] [pool-1-thread-6] Initializing /data/gh-3927/imagesc-75221/A-180000004-01-M-001.bif: 
   [testng] 02:42:58,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 02:42:58,903 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:58,904 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2025-03-02_02-42-58.log]
   [testng] 02:42:58,904 |-INFO in ch.qos.logback.core.sift.SiftProcessor@11a22be4 - End of configuration.
   [testng] [2025-03-02 02:42:59,505] [pool-1-thread-5] Initializing /data/gh-3927/imagesc-75221/B-210004684-01-A-001.bif: 
   [testng] 02:42:59,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 02:42:59,505 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:42:59,506 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2025-03-02_02-42-59.log]
   [testng] 02:42:59,507 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4745ac65 - End of configuration.
   [testng] [2025-03-02 02:43:00,098] [pool-1-thread-4] Initializing /data/qa-11086/3.bif: 
   [testng] 02:43:00,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 02:43:00,098 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:43:00,099 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2025-03-02_02-43-00.log]
   [testng] 02:43:00,099 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4f24f1c7 - End of configuration.
   [testng] [2025-03-02 02:43:00,626] [pool-1-thread-3] Initializing /data/qa-27763/QuPath Bio-Formats sample file.tif: 
   [testng] 02:43:00,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 02:43:00,627 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:43:00,627 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2025-03-02_02-43-00.log]
   [testng] 02:43:00,628 |-INFO in ch.qos.logback.core.sift.SiftProcessor@825e653 - End of configuration.
   [testng] [2025-03-02 02:43:01,203] [pool-1-thread-2] Initializing /data/gh3570/UMFZ-_175_06142018091319AM.bif: 
   [testng] 02:43:01,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 02:43:01,203 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 02:43:01,204 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2025-03-02_02-43-01.log]
   [testng] 02:43:01,204 |-INFO in ch.qos.logback.core.sift.SiftProcessor@288b20a - End of configuration.
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 530, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 57 seconds
Finished: SUCCESS