Hi,

   I am trying to integrate a tool that is written in java into galaxy. The
following is what I've done.

1) Created a directory inside /tools directory and put my xml and runnable
jar file in it.
2) Linked the xml file in 'tool_conf.xml'.

*tool_conf.xml*

        <section name="sample tool" id="sample_tool">
<tool file="Sample/sample.xml"/>
</section>

*sample.xml*

        <tool id="sample" name="Compute correlation">
               <command>java -jar sample.jar</command>
        </tool>

*sample.java* (exported into a runnable jar file from eclipse)

         package Sample;
         public class Sample
         {
         public static void main(String[] args)
         {
          System.out.println("Hello world this is important");
         }
         }

When I run the above, (i.e when I click on execute in the middle pane),
nothing gets added to my current history. Since there is no visual output
of any sort, I am not able to figure out where the problem lies.

Any help or pointer is appreciated!
Thanks y'all!
VJ.
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