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1. Create a new Java EE 5 web application with Tomcat as the target server. 2. Launch the Entity Classes from Database wizard Notice that you can choose a database connection, rather than a datasource. Since data sources are supported on Tomcat, the wizard should offer data sources.
I'm not sure it's only tomcat plugin limitation, may be also some limitation on persistence side.
*** This bug has been marked as a duplicate of bug 178968 ***