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There is persistence.xml location problem in j2se project with eclipselink canonical processor. Some workaround is required.
For reference - there are no problems in ejb/web/app client project, only j2se require a workaround.
http://hg.netbeans.org/web-main/rev/1cfc36af1303 fixed, but keep open for possible review, current implementation is similar to one from web project
*** Bug 181567 has been marked as a duplicate of this bug. ***
no feedback yet, mark as fixed, feel free to comment/reopen if any problem.