diff --git a/src/bmlsa/cli.py b/src/bmlsa/cli.py index 0db7e0a..73a6a7d 100644 --- a/src/bmlsa/cli.py +++ b/src/bmlsa/cli.py @@ -39,6 +39,10 @@ def run(args): args.end_header, ) + if args.behave_as and args.behave_as not in DEFAULT_ALIGNMENT_PARAMETERS: + logger.error('"--behave-as" received bad option.') + exit(1) + scoring_parameter = ( { "extend_gap_score": args.extend_gap_score,