Merge pull request #593 from RosettaCommons/roccomoretti/remap_pdb_atom_names_fixes
Small fixes for -remap_pdb_atom_names_for
Fix bug with handling multi-letter element names (e.g. Cl)
Change the scoring to penalize chirality mis-matches rather than favoring chirality matches.
(Changes how matches are scored when they contain different total numbers of chiral atoms.)