Fix args.clair3 reference

artic-network · Nov 7, 2024 · 006a8c7 · 006a8c7
1 parent efa3aeb
commit 006a8c7
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/artic/minion.py b/artic/minion.py
@@ -117,7 +117,7 @@ def run(parser, args):
     cmds = []
 
     # 2) check the reference fasta has and index and create one if not
-    if not os.path.exists("%s.fai" % (ref)) and args.clair3:
+    if not os.path.exists("%s.fai" % (ref)):
         cmds.append("samtools faidx %s" % (ref))
 
     # 3) index the ref & align with minimap