-in
 -file
  -extra_res_fa input/1aq1.params input/1dbj.params input/1dm2.params input/1dwc.params input/1dwd.params input/1fm9.params input/1p8d.params input/1ppc.params input/1pph.params input/1pq6.params input/1pqc.params input/2ctc.params input/2dbl.params input/2prg.params input/4tim.params input/6tim.params input/7cpa.params input/ZN1.params
-out
 -mute protocols.geometry.RB_geometry core.scoring.dunbrack.SingleLigandRotamerLibrary core.scoring.rms_util
 -level 600
 -overwrite
-run
 -version
-packing
 -no_optH
 -ex1
 -ex1aro
 -ex2
 -extrachi_cutoff 1
-parser
 -protocol rotate.xml
