[phenixbb] Refining cytochrome structure with hemes

Dear Phenix developers. I have a simple question regarding the real space refinement. I am working on a cytochrome structure and I would like to know how to refine the model with hemes present against the map? Also, how do I create vinyl bonds at my cysteine positions to connect the hemes? More ideally, could I refine the heme geometry as well? Thank you in advance! Best, Yangqi