From 86ac869e560449874fec9b7da9b2f1d50ea09bd6 Mon Sep 17 00:00:00 2001
From: naumenko-sa <evolgenomicslab@gmail.com>
Date: Wed, 24 Oct 2018 14:46:25 -0400
Subject: [PATCH] 	modified:   cre.vt.decompose.sh

---
 cre.vt.decompose.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/cre.vt.decompose.sh b/cre.vt.decompose.sh
index 77c8c00..24e7ad9 100755
--- a/cre.vt.decompose.sh
+++ b/cre.vt.decompose.sh
@@ -11,6 +11,6 @@ bname=`basename $1 .vcf.gz`
 #already fixed in the new version
 #cat $bname.vcf | sed s/"##FORMAT=<ID=AD,Number=."/"##FORMAT=<ID=AD,Number=R"/ > $bname.modified.vcf
 
-vt decompose -s $1 | vt normalize -r ~/work/tools/bcbio/genomes/Hsapiens/GRCh37/seq/GRCh37.fa - | vt uniq - -o $bname.decomposed.vcf.gz
+vt decompose -s $1 | vt normalize -r ~/work/tools/bcbio/genomes/Hsapiens/GRCh37/seq/GRCh37.fa -n - | vt uniq - -o $bname.decomposed.vcf.gz
 
 tabix $bname.decomposed.vcf.gz