-ddg::mut_file  /home/ucbechz/Scratch/20150108_MPI_test/input/mutfile/D1A.mutfile
-in:file:s /home/ucbechz/Scratch/20150108_MPI_test/input/C226S_renumber.pdb
-constraints::cst_file /home/ucbechz/Scratch/20150108_MPI_test/input/input.cst
-ddg:weight_file soft_rep_design
-ddg:minimization_scorefunction talaris2013
-ddg::iterations 50
-ddg::dump_pdbs true
-ignore_unrecognized_res
-ddg::local_opt_only false
-ddg::min_cst true
-ddg::suppress_checkpointing true
-in::file::fullatom
-ddg::mean false
-ddg::min true
-ddg::sc_min_only false
-ddg::ramp_repulsive true
-unmute core.optimization.LineMinimizer
-ddg::output_silent true
-override_rsd_type_limit