Tomcat Help

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I am trying to set up Tomcat 5 on Fedora Core 5 and everything iw
working find but i do not know how to set my classpath when using
tomcat below is a few things that i have tried.

I have found i can use the following code to print out the classpath
that my program is actaully using, the code is:

Get the System Classloader
       ClassLoader sysClassLoader = ClassLoader.getSystemClassLoader();

       //Get the URLs
       URL[] urls = ((URLClassLoader)sysClassLoader).getURLs();

       for(int i=0; i< urls.length; i++)
       {
          out.println(urls[i].getFile());
          out.println("<br>");
       }

and the classpath that is printed is:

/usr/java/j2sdk1.4.2_12/lib/tools.jar
/etc/tomcat5/bin/dist/commons-daemon.jar
/etc/tomcat5/bin/bootstrap.jar

But i am not sure where this is getting set, i do have the following
in my /tomcat5/bin/startup.sh

export CLASSPATH=./mapscript.jar:.:/etc/tomcat5/webapps/my_test/WEB-INF/classes

so why is this not my classpath at run time??

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