From 1eede50899b35b149324a4cf4292e2be5766b759 Mon Sep 17 00:00:00 2001
From: epiercehoffman <epierceh@broadinstitute.org>
Date: Tue, 28 Sep 2021 11:31:39 -0400
Subject: [PATCH] remove special character in cleanvcf1_23 (#238)

---
 wdl/CleanVcf1.wdl | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/wdl/CleanVcf1.wdl b/wdl/CleanVcf1.wdl
index 5d608c8bd..8e9dc8d8c 100644
--- a/wdl/CleanVcf1.wdl
+++ b/wdl/CleanVcf1.wdl
@@ -1360,7 +1360,7 @@ task CleanVcf1_23 {
   command <<<
     set -euxo pipefail
     cat <(zcat ~{cleanmale_vcf}|egrep "##") \
-      <(paste <(zcat ~{cleanmale_vcf}|egrep -v "##") <(zcat ~{cleanfemale_vcf}|cut -f10-|egrep -v "##") <(zcat ~{cleanother_vcf}|cut -f10-|egrep -v "##") ) \å
+      <(paste <(zcat ~{cleanmale_vcf}|egrep -v "##") <(zcat ~{cleanfemale_vcf}|cut -f10-|egrep -v "##") <(zcat ~{cleanother_vcf}|cut -f10-|egrep -v "##") ) \
       |bgzip \
       >combinedsex.vcf.gz
     tabix -p vcf combinedsex.vcf.gz