def METHOD_NAME(args, out=sys.stdout):
  cmdline = iotbx.phil.process_command_line_with_files(
    args=args,
    master_phil_string=master_phil_str,
    pdb_file_def="model",
    reflection_file_def="data",
    seq_file_def="sequence",
    space_group_def="space_group",
    unit_cell_def="unit_cell",
    integer_def="n_residues",
    usage_string="""\