fix

cas9on.py

@@ -167,22 +167,23 @@ def create_genbank_features(formatted_data):
 def generate_genbank_file_from_df(df, gene_sequence, gene_symbol, output_path):
     features = []
     for index, row in df.iterrows():
-        # Correct column references according to your formatted data
+        # Use 'Transcript ID' if it exists, otherwise use a default value like 'Unknown'
+        transcript_id = row.get("Transcript ID", "Unknown")
+
+        # Make sure to use the correct column names for Start Pos, End Pos, and Strand
         location = FeatureLocation(start=int(row["Start Pos"]),
                                    end=int(row["End Pos"]),
-                                   strand=1 if row["Strand"] == '+' else -1)  # Adjust strand representation
+                                   strand=1 if row["Strand"] == '+' else -1)
         feature = SeqFeature(location=location, type="gene", qualifiers={
-            'locus_tag': row["Transcript ID"],  # Use 'Transcript ID' from your formatted data
+            'locus_tag': transcript_id,  # Now using the variable that holds the safe value
             'note': f"gRNA: {row['gRNA']}, Prediction: {row['Prediction']}"
         })
         features.append(feature)
 
+    # The rest of the function remains unchanged
     record = SeqRecord(Seq(gene_sequence), id=gene_symbol, name=gene_symbol,
                        description=f'CRISPR Cas9 predicted targets for {gene_symbol}', features=features)
-
-    # Add the missing molecule_type annotation
     record.annotations["molecule_type"] = "DNA"
-
     SeqIO.write(record, output_path, "genbank")