Thanks for your patience. I really appreciate for your help .
You are correct . I have written a program (which execute the soapui project), created a library and deployed in jboss. As you mentioned I have tried by using the testRunner.bat and also from CI like JEnkins .It is working fine.
But here we are developing one framework which will execute any type of test cases like SOAPUI or SELENIUM type ..Our requirement is to execute that framework form the server ..Thats why I am using like this.
Yes the web application is taking the parameter like the SOAPUI XML path , SOAPUI report generation path .The SOAP UI is running in a different thread. Also while running I have monitored the server the active thread count ..after the
runner.run() line executes the active thread count is 0 ..but still the server is getting hanged ..It is not allowing to run any other process.