From 843de010b1b627696d79b4d0c7a11c93eb138577 Mon Sep 17 00:00:00 2001
From: skchronicles <kuhnsa3@gmail.com>
Date: Thu, 9 Jan 2025 13:21:46 -0500
Subject: [PATCH] Create missing tmp directory for PAVE

---
 workflow/rules/somatic.smk | 1 +
 1 file changed, 1 insertion(+)

diff --git a/workflow/rules/somatic.smk b/workflow/rules/somatic.smk
index bae1e18..f207a89 100644
--- a/workflow/rules/somatic.smk
+++ b/workflow/rules/somatic.smk
@@ -725,6 +725,7 @@ rule hmftools_sage:
 
         # Run PAVE to annotate VCF with PON
         # tags for downstream filtering
+        mkdir -p {params.pave_outdir}/
         java -Xmx{params.memory}g -jar {params.pave_jar} \\
             -pon_file {params.cohort_pon} \\
             -sample {params.tumor} \\