added sorting routine

ylab-hi · Mar 1, 2024 · 432cdc4 · 432cdc4
1 parent eeee3e9
commit 432cdc4
Showing 1 changed file with 5 additions and 1 deletion.
diff --git a/workflow/rules/common.smk b/workflow/rules/common.smk
@@ -709,9 +709,13 @@ def get_variants(wildcards):
 
     # custom variants
     if config["data"]["custom"]["variants"] is not None:
-      custom += expand("results/{sample}/annotation/custom.vcf",
+      variants += expand("results/{sample}/annotation/custom.vcf",
                        sample=config["data"]["name"])
 
+    if len(variants) == 0:
+      print(f"Could not detect any variants. Please check the config file")
+      sys.exit(1)
+
     return variants
 
 def get_mhcI(wildcards):