From 0327cc8d211b3701fc866a5cbb003545db2bd708 Mon Sep 17 00:00:00 2001
From: Karan Jaisingh <kjaising@broadinstitute.org>
Date: Tue, 3 Dec 2024 16:00:26 -0500
Subject: [PATCH] Removed /src/ from script path

---
 wdl/CombineVcfsForMakeGq.wdl | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/wdl/CombineVcfsForMakeGq.wdl b/wdl/CombineVcfsForMakeGq.wdl
index dd0a96c78..e3092c928 100644
--- a/wdl/CombineVcfsForMakeGq.wdl
+++ b/wdl/CombineVcfsForMakeGq.wdl
@@ -66,7 +66,7 @@ task StandardizeVcf {
 
 	command <<<
 			set -eu -o pipefail
-			
+
 			svtk standardize \
 					--sample-names ~{sample_id} \
 					--contigs ~{contigs_fai} \
@@ -124,7 +124,7 @@ task FormatVcfForGatk {
 	command <<<
 		set -eu -o pipefail
 
-		python /opt/src/sv-pipeline/scripts/format_svtk_vcf_for_gatk.py \
+		python /opt/sv-pipeline/scripts/format_svtk_vcf_for_gatk.py \
 			--vcf ~{vcf_path} \
 			--out ~{sample_id}.formatted.vcf.gz \
 			--ploidy-table ~{ploidy_table} \