Mercurial > repos > yhoogstrate > varscan_mpileup2snp_from_bam

changeset 59:d29384007de7 draft

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Uploaded
author yhoogstrate
date Wed, 05 Mar 2014 10:10:45 -0500
parents 5109a0f2cb25
children cb0f5c219244
files varscan_mpileup2snp.xml
diffstat 1 files changed, 6 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/varscan_mpileup2snp.xml	Wed Mar 05 10:03:06 2014 -0500
+++ b/varscan_mpileup2snp.xml	Wed Mar 05 10:10:45 2014 -0500
@@ -22,7 +22,12 @@
 				$varscan_variants
 		#end if
 		
-		 --output-vcf $varscan_output_vcf
+		#if $varscan_output_vcf
+			 --output-vcf 0 
+		#else
+			--output-vcf 0 
+		#end if
+		
 		 2> stderr.txt 
 		 > $snv_output ;
 		 cat stderr.txt