From 9eebaa2f91e5cab8fa0779dc71799637396bcb5b Mon Sep 17 00:00:00 2001
From: Harrison <yunyangdeng@gmail.com>
Date: Fri, 28 Apr 2023 11:13:37 -0500
Subject: [PATCH] Added check to 'cli.py' to verify '--behave-as' parameter

---
 src/bmlsa/cli.py | 4 ++++
 1 file changed, 4 insertions(+)

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,