The script can be used in the following way:

If you search a Catalyst DB with a pharmacophore without exclusion volumes, you are going to get some hits that have clashes with the protein. This script can add exclusion features to your existing pharmacophore. Redoing a DB search using the new pharmacophore should eliminate those bad hits.

How to use it:
(1) Discovery Studio version 2.0 and above
(2) A 3D window containing protein(s) and overlaid ligand(s) in the binding site(s). QueryRoot is optional (exclusion features will be added to the query if it exists, otherwise a new one will be created).