Make command line raise warning on FASTA files missing sequence ident…

…ifiers
althonos · Sep 3, 2024 · 15968d3 · 15968d3
1 parent 276b9a9
commit 15968d3
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/pyrodigal/cli.py b/pyrodigal/cli.py
@@ -10,6 +10,7 @@
 import os
 import operator
 import sys
+import warnings
 import typing
 
 try:
@@ -206,6 +207,8 @@ def argument_parser(
 
 
 def _process(gene_finder, sequence):
+    if not sequence.id:
+        warnings.warn("Input file contains a sequence without identifier", stacklevel=2)
     return sequence.id, gene_finder.find_genes(sequence.seq)