Update app.py

app.py

@@ -162,6 +162,7 @@ def prepare_input(input, jobname, baseconfig, hard_case):
         yaml_dict["covale_inputs"]=""
 
     for covMod in input["covMods"]:
+        new_attachment_index = covMod["attachmentIndex"]
         if len(covMod["deleteIndexes"])>0:
             new_attachment_index = convert_format(covMod["mol"],jobname, covMod["ligand"], covMod["deleteIndexes"], covMod["attachmentIndex"])
         chirality_ligand = "null"