feat: use env variable to run antiSMASH fungi mode

NBChub · Nov 26, 2024 · 9ccecc7 · 9ccecc7
1 parent ff9ff66
commit 9ccecc7
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/workflow/rules/antismash.smk b/workflow/rules/antismash.smk
@@ -112,7 +112,7 @@ elif antismash_major_version >= 7:
             folder=directory("data/interim/antismash/{version}/{strains}/"),
             antismash_db_path=antismash_db_path,
             genefinding="none",
-            taxon="bacteria",
+            taxon=os.getenv("BGCFLOW_ANTISMASH_MODE", "bacteria")
         shell:
             """
             set +e