Mercurial > repos > morinlab > mutationseq

changeset 1:2864eb962e5a draft

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Uploaded
author morinlab
date Tue, 06 Dec 2016 19:51:11 -0500
parents 3f5545f5f0c8
children 7de2cc3a24af
files mutationseq.xml
diffstat 1 files changed, 4 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/mutationseq.xml	Tue Oct 11 14:21:25 2016 -0400
+++ b/mutationseq.xml	Tue Dec 06 19:51:11 2016 -0500
@@ -98,8 +98,10 @@
     
   --threshold $advancedsettings.filter_prob
 
-  | grep -v ".*no somatic mutation calls.*" >> $output
-
+  | grep -v ".*no somatic mutation calls.*" >> ./output_noheader;
+  echo "##fileformat=VCFv4.2
+  #CHROM\tPOS\tID\tREF\tALT\tQUAL\tFILTER\tINFO" > ./minimal_vcf_header;
+  cat ./minimal_vcf_header ./output_noheader > $output
   #if $interval
     ; done
   #end if