-docking						# the docking option group
	-partners A_B					# set rigid body docking partners
	-dock_pert 3 8					# set coarse perturbation parameters (degrees and angstroms)
	-dock_mcm_trans_magnitude 0.1			# refinement translational perturbation
	-dock_mcm_rot_magnitude 5.0			# refinement rotational perturbation
-s ./input_files/complex_8_repacked_renumber.pdb					# input model
-run:max_retry_job 10					# if the mover fails, retry 50 times
-use_input_sc						# add the side chains from the input pdb to the rotamer library
-ex1							# increase rotamer bins to include mean +- 1 standard deviation
-ex2							# increase rotamer bins to include mean +- 2 standard deviations
-out							# out option group
	-file						# out:file option group
		-scorefile docking.fasc			# the name of the model score file
-score:weights ref2015.wts				# Set ref2015 as default score function
-out:suffix _docked
-nstruct 500
-ignore_zero_occupancy false
-in:file:extra_res_fa ./input_files/SPC.params
-parser:protocol docking_full.xml
-out:overwrite
-constraints:cst_fa_file myconstraint.cst
-constraints:cst_fa_weight 10