[kepler-dev] Problems when executing workflow in headless kepler command line using workflow kar file

[Timothy McPhillips]

Hi Madhavi,

Can you run your workflow from the command line if it is exported as xml, rather than saved as a kar file?   There is a possibly related bug for the build system in bugzilla: http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5381.

I just tried running a simple workflow from the command line using Kepler 2.2, and got an error (different from yours--see below) when trying to run a kar, but success when running a workflow exported as xml (moml). 

In other words, this works:  

./kepler.sh -runwf ~/hello.xml 

And this does not:

./kepler.sh -runwf ~/hello.kar 

The error message I get for the latter includes the following line:

     [null] Unsupported file type or connection not available: file:/Users/tmcphillips/hello.kar

Tim

On Aug 22, 2011, at 10:14 PM, Madhavi Tikhe wrote:

> Hi,
>  
> When I try run the workflow using the the kar file using kepler command line, I get the following exception.
> Ø   kepler.sh -runwf -nogui] workflow.kar
>  
> Extracting workflow from KAR
> java.lang.NullPointerException
>         at org.kepler.util.sql.DatabaseFactory.getDBConnection(DatabaseFactory.java:89)
>         at org.kepler.objectmanager.cache.LocalRepositoryManager.<init>(LocalRepositoryManager.java:148)
>         at org.kepler.objectmanager.cache.LocalRepositoryManager$LocalRepositoryManagerHolder.<clinit>(LocalRepositoryManager.java:855)
>         at org.kepler.objectmanager.cache.LocalRepositoryManager.getInstance(LocalRepositoryManager.java:851)
>         at org.kepler.kar.KARFile.cacheKARContents(KARFile.java:567)
>         at com.lifetech.cgr.service.AnalysisControlManager.getManager(AnalysisControlManager.java:136)
>         at com.lifetech.cgr.service.AnalysisControlManager.launchOneAnalaysis(AnalysisControlManager.java:60)
>         at com.lifetech.cgr.service.LifeScopeCommandLineServer.manageOperations(LifeScopeCommandLineServer.java:160)
>         at com.lifetech.cgr.service.LifeScopeCommandLineServer.run(LifeScopeCommandLineServer.java:121)
>         at java.lang.Thread.run(Thread.java:636)
> Exception in thread "Thread-0" java.lang.ExceptionInInitializerError
>         at org.kepler.objectmanager.cache.LocalRepositoryManager.getInstance(LocalRepositoryManager.java:851)
>         at org.kepler.kar.KARFile.cacheKARContents(KARFile.java:567)
>         at com.lifetech.cgr.service.AnalysisControlManager.getManager(AnalysisControlManager.java:136)
>         at com.lifetech.cgr.service.AnalysisControlManager.launchOneAnalaysis(AnalysisControlManager.java:60)
>         at com.lifetech.cgr.service.LifeScopeCommandLineServer.manageOperations(LifeScopeCommandLineServer.java:160)
>         at com.lifetech.cgr.service.LifeScopeCommandLineServer.run(LifeScopeCommandLineServer.java:121)
>         at java.lang.Thread.run(Thread.java:636)
> Caused by: java.lang.NullPointerException
>         at org.kepler.objectmanager.cache.LocalRepositoryManager.<init>(LocalRepositoryManager.java:154)
>         at org.kepler.objectmanager.cache.LocalRepositoryManager$LocalRepositoryManagerHolder.<clinit>(LocalRepositoryManager.java:855)
>         ... 7 more
>  
> I don’t have any database installed or configured for kepler. And I tried executing kepler after clearing the kepler cache. Does anybody have any idea about the possible cause of this exception and possible solution?
> This  exception is blocking my work. Please let me know if there is any quick fix available.
>  
> Regards,
> Madhavi
>  
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