-run
 -constant_seed
 -rng mt19937
-in
 -file
  -s inputs/7cpa_7cpa_input.pdb
  -extra_res_fa inputs/7cpa.params inputs/ZN1.params
-out
 -file
  -atom_tree_diff atom_tree_diff.out
 -overwrite
 -nstruct 25
-packing
 -no_optH
 -ex1
 -ex1aro
 -ex2 
-parser
 -protocol ligand_dock.xml

-mute core.util.prof ## dont show timing info
-mute core.io.database
