[windup-dev] Windup usage Issue

Hi I'm trying to port an application that is currently hosted on Websphere 8.5 running on JDK 1.7 to JBoss EAP 6.4. I downloaded and installed Windup and tested with default provided ear file conversion, things worked fine, however, if I try to run through my app, I get zero story points for one app and for another app, I get only one story point. When windup runs, I see that websphere rules gets executed but still no results. I also tried to explode one of the war file and run through windup, it did not go through the files under WEB-INF/classes directory. I have created the issue in JIRA as well (https://issues.jboss.org/browse/WINDUP-567 & https://developer.jboss.org/message/926645#926645 ) . I can open the ear file and start double checking against the windup results but before that I just want to check with you for any additional hints or installation verification steps. Thanks for your time, -Babu