Directory Structure

Hi, is there any way that Torsion could be fixed to recognize arbitrary directories (input by the user)? We use a very non standard directory structure that places alot of our content outside of the normal Torque directory structure, and it would be nice to be able to add these directories to the Torsion project. Currently we have to create a directory junction in the normal Torque directory structure, which won't exist on the shipping version, in order to get Torsion to recognize and load our content files. Thanks...