-run
	-constant_seed
	-rng mt19937
-in
	-file
		-s inputs/7cpa_7cpa_input.pdb
		-native inputs/7cpa_7cpa_native.pdb
		-extra_res_fa inputs/7cpa.params inputs/ZN1.params
-out
	-prefix output/
	-nstruct 30
	-file 
		-renumber_pdb
		-atom_tree_diff silent.out 
-packing
	-no_optH
	-ex1
	-ex1aro
	-ex2
-parser
	-protocol ligand_dock.xml

-mute core.util.prof # don't show timing info
-mute core.io.database
