Reply To: local refinement

1) The dock_mcm flags refer to the full atom (high-res) phase. It would not surprise me if the defaults were changed at some point.

2) local_refine will skip the centroid/perturb/low-res step. I believe dock_pert is perturbation WITHIN 3deg/8ang, not of 3deg/8ang. So, maybe 2 degrees and 5 angstroms is what you actually get. (I’m not sure about this).

3) You should be ok here.