Clean up project dependencies

Removed unused or unneeded files associated with the build to simplify delpoyment and configuration.
Updated a few dependencies.
Added clarifications to remove build warnings.
Removed generation of unused glassfish .zip being built in packaging phase.
Deleted unneeded and unused properties and associated files

Change-Id: Iec2bde475845eb509007b517253527c33cdee0b8
Issue-Id: HEALTHEME-9