refine

Usage: modelmaker refine -model <full length template pdb>
-sel <list of atomselection texts with selections to fold> -anchor <anchor residue for coordinate restraints>
-density <density file to refine against in .mrc format> -res <resolution of the density in Angstroms>
?options?
Options:
-mode <refinement mode (backbone, sidechain, or cartesian> (default: backbone)
-jobname <name prefix for job> (default: taken from -model)
-workdir <working/project directory for job> (default: workdir/)
-nstruct <number of structures to predict> (default: 5000)
-bestN <number of structures with best scores to save> (default: same as -nstruct)
-score <Rosetta density score; lower values indicate lower weight> (default: -0.3)
-np <Number of processors to use. MPI version only>