Skip to content

Console Output

Started by upstream project "BIOFORMATS-test-repo" build number 66
originally caused by:
 Started by upstream project "Trigger" build number 74
 originally caused by:
  Started by user devspace
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/jenkins3211710521265306334.sh
+ '[' ultraview = slidebook ']'
++ date +%u
+ '[' 5 -le 1 ']'
+ sudo docker run --rm --name BIOFORMATS-test-folder_9904_merge_ci -v /uod/idr/repos/curated/ultraview:/data -v /uod/idr-scratch/merge-ci/curated/ultraview:/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

test-automated:
   [testng] File leak detector installed
   [testng] 08:44:00,726 |-INFO in ch.qos.logback.classic.LoggerContext[default] - This is logback-classic version 1.3.14
   [testng] 08:44:00,728 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - No custom configurators were discovered as a service.
   [testng] 08:44:00,728 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 08:44:00,730 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.joran.SerializedModelConfigurator
   [testng] 08:44:00,730 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.scmo]
   [testng] 08:44:00,730 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback.scmo]
   [testng] 08:44:00,730 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.joran.SerializedModelConfigurator.configure() call lasted 0 milliseconds. ExecutionStatus=INVOKE_NEXT_IF_ANY
   [testng] 08:44:00,730 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Trying to configure with ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 08:44:00,731 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - Constructed configurator of type class ch.qos.logback.classic.util.DefaultJoranConfigurator
   [testng] 08:44:00,731 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [${logback.configurationFile}]
   [testng] 08:44:00,731 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Could NOT find resource [logback-test.xml]
   [testng] 08:44:00,731 |-INFO in ch.qos.logback.classic.LoggerContext[default] - Found resource [logback.xml] at [file:/bio-formats-build/bioformats/components/test-suite/logback.xml]
   [testng] 08:44:01,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [stdout]
   [testng] 08:44:01,004 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.core.ConsoleAppender]
   [testng] 08:44:01,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [SIFT]
   [testng] 08:44:01,035 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [ch.qos.logback.classic.sift.SiftingAppender]
   [testng] 08:44:01,044 |-INFO in ch.qos.logback.classic.model.processor.LoggerModelHandler - Setting level of logger [loci.tests.testng] to DEBUG
   [testng] 08:44:01,044 |-INFO in ch.qos.logback.classic.model.processor.RootLoggerModelHandler - Setting level of ROOT logger to INFO
   [testng] 08:44:01,044 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [SIFT] to Logger[ROOT]
   [testng] 08:44:01,044 |-INFO in ch.qos.logback.core.model.processor.AppenderRefModelHandler - Attaching appender named [stdout] to Logger[loci.tests.testng]
   [testng] 08:44:01,044 |-INFO in ch.qos.logback.core.model.processor.DefaultProcessor@1ddf84b8 - End of configuration.
   [testng] 08:44:01,045 |-INFO in ch.qos.logback.classic.joran.JoranConfigurator@5e82df6a - Registering current configuration as safe fallback point
   [testng] 08:44:01,045 |-INFO in ch.qos.logback.classic.util.ContextInitializer@197d671 - ch.qos.logback.classic.util.DefaultJoranConfigurator.configure() call lasted 314 milliseconds. ExecutionStatus=DO_NOT_INVOKE_NEXT_IF_ANY
   [testng] [2024-05-17 08:44:01,057] [main] java.version = 1.8.0_342
   [testng] 08:44:01,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-main]
   [testng] 08:44:01,061 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:01,110 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-main] - File property is set to [target/bio-formats-test-main-2024-05-17_08-44-01.log]
   [testng] 08:44:01,112 |-INFO in ch.qos.logback.core.sift.SiftProcessor@36fc695d - End of configuration.
   [testng] [2024-05-17 08:44:01,114] [main] testng.directory = /data
   [testng] [2024-05-17 08:44:01,114] [main] testng.configDirectory = /config
   [testng] [2024-05-17 08:44:01,127] [main] testng.multiplier = 1.0
   [testng] [2024-05-17 08:44:01,128] [main] testng.in-memory = false
   [testng] [2024-05-17 08:44:01,128] [main] testng.allow-missing = false
   [testng] [2024-05-17 08:44:01,128] [main] user.language = en
   [testng] [2024-05-17 08:44:01,128] [main] user.country = ${user.country}
   [testng] [2024-05-17 08:44:01,128] [main] Maximum heap size = 13653 MB
   [testng] Scanning for files...
   [testng] [2024-05-17 08:44:03,991] [main] ----------------------------------------
   [testng] [2024-05-17 08:44:03,992] [main] Total files: 19
   [testng] [2024-05-17 08:44:03,992] [main] Scan time: 2.863 s (150 ms/file)
   [testng] [2024-05-17 08:44:03,992] [main] ----------------------------------------
   [testng] Building list of tests...
   [testng] Ready to test 18 files
   [testng] [TestNG] Running:
   [testng]   Bio-Formats software test suite
   [testng] 
   [testng] [2024-05-17 08:44:05,532] [pool-1-thread-1] Initializing /data/kate/Neutrophils#18/Neutrophils#18.htm: 
   [testng] 08:44:05,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-1]
   [testng] 08:44:05,533 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,534 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-1] - File property is set to [target/bio-formats-test-pool-1-thread-1-2024-05-17_08-44-05.log]
   [testng] 08:44:05,534 |-INFO in ch.qos.logback.core.sift.SiftProcessor@59aeb1f1 - End of configuration.
   [testng] [2024-05-17 08:44:05,612] [pool-1-thread-12] Initializing /data/chad/DIC/EZRA200820080626102637.HTM: 
   [testng] 08:44:05,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-12]
   [testng] 08:44:05,612 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,614 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-12] - File property is set to [target/bio-formats-test-pool-1-thread-12-2024-05-17_08-44-05.log]
   [testng] 08:44:05,615 |-INFO in ch.qos.logback.core.sift.SiftProcessor@14ec3f25 - End of configuration.
   [testng] [2024-05-17 08:44:05,680] [pool-1-thread-11] Initializing /data/chad/UltraViewExample/works/CHAD200920090331181355.HTM: 
   [testng] 08:44:05,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-11]
   [testng] 08:44:05,681 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,682 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-11] - File property is set to [target/bio-formats-test-pool-1-thread-11-2024-05-17_08-44-05.log]
   [testng] 08:44:05,682 |-INFO in ch.qos.logback.core.sift.SiftProcessor@67f78624 - End of configuration.
   [testng] [2024-05-17 08:44:05,749] [pool-1-thread-10] Initializing /data/kate/GreenRed6ZnoT/GreenRed5ZNoT.htm: 
   [testng] 08:44:05,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-10]
   [testng] 08:44:05,749 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,750 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-10] - File property is set to [target/bio-formats-test-pool-1-thread-10-2024-05-17_08-44-05.log]
   [testng] 08:44:05,751 |-INFO in ch.qos.logback.core.sift.SiftProcessor@3ad7c655 - End of configuration.
   [testng] [2024-05-17 08:44:05,769] [pool-1-thread-9] Initializing /data/chad/UltraViewExamples/Works/CHAD200820080724121453.HTM: 
   [testng] 08:44:05,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-9]
   [testng] 08:44:05,769 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,770 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-9] - File property is set to [target/bio-formats-test-pool-1-thread-9-2024-05-17_08-44-05.log]
   [testng] 08:44:05,770 |-INFO in ch.qos.logback.core.sift.SiftProcessor@51dcbfca - End of configuration.
   [testng] [2024-05-17 08:44:05,810] [pool-1-thread-8] Initializing /data/kate/GreenRedNoZ3T/GreenRedNoZ5T.htm: 
   [testng] 08:44:05,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-8]
   [testng] 08:44:05,810 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,812 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-8] - File property is set to [target/bio-formats-test-pool-1-thread-8-2024-05-17_08-44-05.log]
   [testng] 08:44:05,812 |-INFO in ch.qos.logback.core.sift.SiftProcessor@20b03cdd - End of configuration.
   [testng] [2024-05-17 08:44:05,842] [pool-1-thread-7] Initializing /data/chad/UltraViewSamples/series 3/RAJE200820080619090142.HTM: 
   [testng] 08:44:05,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-7]
   [testng] 08:44:05,842 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,844 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-7] - File property is set to [target/bio-formats-test-pool-1-thread-7-2024-05-17_08-44-05.log]
   [testng] 08:44:05,844 |-INFO in ch.qos.logback.core.sift.SiftProcessor@7e2624f - End of configuration.
   [testng] [2024-05-17 08:44:05,868] [pool-1-thread-6] Initializing /data/chad/20080107130850/IREN200820080107130850.HTM: 
   [testng] 08:44:05,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-6]
   [testng] 08:44:05,868 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,869 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-6] - File property is set to [target/bio-formats-test-pool-1-thread-6-2024-05-17_08-44-05.log]
   [testng] 08:44:05,870 |-INFO in ch.qos.logback.core.sift.SiftProcessor@25dfb2b5 - End of configuration.
   [testng] [2024-05-17 08:44:05,899] [pool-1-thread-5] Initializing /data/kate/GreenRed6Z3T/GreenRed5Z5T.htm: 
   [testng] 08:44:05,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-5]
   [testng] 08:44:05,900 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,901 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-5] - File property is set to [target/bio-formats-test-pool-1-thread-5-2024-05-17_08-44-05.log]
   [testng] 08:44:05,901 |-INFO in ch.qos.logback.core.sift.SiftProcessor@4863c78e - End of configuration.
   [testng] [2024-05-17 08:44:05,922] [pool-1-thread-4] Initializing /data/kate/Neutrophils#18/tiffs/Neutrophils#18.htm: 
   [testng] 08:44:05,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-4]
   [testng] 08:44:05,922 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,923 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-4] - File property is set to [target/bio-formats-test-pool-1-thread-4-2024-05-17_08-44-05.log]
   [testng] 08:44:05,924 |-INFO in ch.qos.logback.core.sift.SiftProcessor@d03f635 - End of configuration.
   [testng] [2024-05-17 08:44:05,992] [pool-1-thread-3] Initializing /data/chad/UltraViewExample/doesNot/CHAD200920090331181253.HTM: 
   [testng] 08:44:05,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-3]
   [testng] 08:44:05,992 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:05,993 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-3] - File property is set to [target/bio-formats-test-pool-1-thread-3-2024-05-17_08-44-05.log]
   [testng] 08:44:05,994 |-INFO in ch.qos.logback.core.sift.SiftProcessor@186a598 - End of configuration.
   [testng] [2024-05-17 08:44:06,023] [pool-1-thread-2] Initializing /data/kate/GreenRedNoZnoT/GreenRedNoZNoT.htm: 
   [testng] 08:44:06,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - Processing appender named [logfile-pool-1-thread-2]
   [testng] 08:44:06,024 |-INFO in ch.qos.logback.core.model.processor.AppenderModelHandler - About to instantiate appender of type [loci.tests.testng.TimestampedLogFileAppender]
   [testng] 08:44:06,025 |-INFO in loci.tests.testng.TimestampedLogFileAppender[logfile-pool-1-thread-2] - File property is set to [target/bio-formats-test-pool-1-thread-2-2024-05-17_08-44-06.log]
   [testng] 08:44:06,025 |-INFO in ch.qos.logback.core.sift.SiftProcessor@5d511bcd - End of configuration.
   [testng] [2024-05-17 08:44:08,375] [pool-1-thread-12] Initializing /data/chad/DIC_IREN200820080107120042/IREN200820080107120042.HTM: 
   [testng] [2024-05-17 08:44:08,404] [pool-1-thread-2] Initializing /data/helio/2 copy Cnn g-tubGFP 111221#20/2 copy Cnn g-tubGFP 111221#20.htm: 
   [testng] [2024-05-17 08:44:08,649] [pool-1-thread-8] Initializing /data/kate/GreenOnlyNoZnoT/GreenOnlyNoZnoT.htm: 
   [testng] [2024-05-17 08:44:09,248] [pool-1-thread-12] Initializing /data/chad/UltraViewExamples/Bug/CHAD200820080724120123.HTM: 
   [testng] [2024-05-17 08:44:09,476] [pool-1-thread-10] Initializing /data/chad/UltraViewExamples/DIC_200820080724115245/CHAD200820080724115245.HTM: 
   [testng] [2024-05-17 08:44:09,691] [pool-1-thread-6] Initializing /data/todd/movement-1.htm: 
   [testng] 
   [testng] ===============================================
   [testng] Bio-Formats software test suite
   [testng] Total tests run: 954, Failures: 0, Skips: 0
   [testng] ===============================================
   [testng] 

BUILD SUCCESSFUL
Total time: 44 seconds
Finished: SUCCESS