I used molfile_to_params.py to create .params files for the two substrates for 'my' protein. I'd like to relax the modeled structure with these compounds present. I found that leaving these files in the current working directory wasn't right - relax still crashes because it doesn't recognize the residue. Copying the .params files into rosetta_database/chemical/residue_type_sets/fa_standard/residue_types wasn't right either, or wasn't enough. What else should I be doing?