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Are there any limitations on what a WAR archive can contain when deploying to a full java ee 6 application server? Can i use the whole Java EE 6 API? If not how would I do it when i am using maven and that produces a WAR? Do you get maven to build several different artifacts?
This guide defines which component in a Java EE application can contain what: http://java.sun.com/blueprints/guidelines/designing_enterprise_applications_2e (for the war see chapter 4 “Web Tier”)
Edit to add:
With maven, in the pom.xml you can define the type of module should be built with the
<packaging>...</packaging>tag. Values are (amongst other)jar,ejborwar(see the Maven POM documentation)