Fixed bug in app where 'useDispersionCorrection' for AMOEBA was being cast to int instead of bool.
Added AMOEBA test system and tests for ForceField fin setting up AMOEBA system.
Fixes to tests.
Merge remote-tracking branch 'upstream/master'
Committed updated Makefile and doxyfile.  (These don't need to be in here.)
Fixed examples/Makefile.
Reverted Doxyfile to upstream master.
Removed 'void' declarations from getCutoff/getCutoffDistance methods so that swigInputBuilder.py would correctly wrap return values.
Changed cutoff test for AmoebaVdwForce/AmoebaMultipoleForce.
Added dispersion correction flag handling to NonbondedGenerator.
Merge pull request #491 from jchodera/fix-amoeba

Fix error in setting up AMOEBA systems when useDispersionCorrection is specified (retry)