Merge pull request #24 from sunbeam-labs/22-allow-for-fa-and-fasta-ex…

…tensions-in-host-dir Allow .fna host extension as well
sunbeam-labs · Jun 6, 2024 · 65ead77 · 65ead77
2 parents 9e3c8fd + 1ddee2b
commit 65ead77
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/sbx_mapping.smk b/sbx_mapping.smk
@@ -28,6 +28,9 @@ else:
     if not GenomeFiles:
         GenomeFiles = [f for f in Cfg["sbx_mapping"]["genomes_fp"].glob("*.fa")]
         HOST_FILE_EXT = ".fa"
+    if not GenomeFiles:
+        GenomeFiles = [f for f in Cfg["sbx_mapping"]["genomes_fp"].glob("*.fna")]
+        HOST_FILE_EXT = ".fna"
     GenomeSegments = {
         PurePath(g.name).stem: read_seq_ids(Cfg["sbx_mapping"]["genomes_fp"] / g)
         for g in GenomeFiles