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Under "Packaging", there is a "path in WAR" column. When I change this for a file I have added, the file is not removed from the old location under the "build" directory, so it ends up in both the old and the new location when the WAR file is built. If I "move" the file several times, it will appear in many locations in the build WAR.
This bug was reported against NetBeans IDE 6.0 or an older release, or against a non-maintained module. NetBeans team does not have enough resources to get to this issue, therefore we are closing the issue as a WONTFIX. If you are interested in providing a patch for this bug, please see our NetFIX guidelines for how to proceed. We apologize for any inconvenience. Thank you. The NetBeans Team