Mercurial > repos > gandres > vcftools_filter_stats_diversity

diff VCFToolsStats/vcfToolsStats.sh @ 8:2b6bb9d5e4e9 draft

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planemo upload
author gandres
date Tue, 12 Apr 2016 05:43:01 -0400
parents 612066e3f57d
children
line wrap: on
line diff
--- a/VCFToolsStats/vcfToolsStats.sh	Thu Mar 31 10:41:59 2016 -0400
+++ b/VCFToolsStats/vcfToolsStats.sh	Tue Apr 12 05:43:01 2016 -0400
@@ -4,17 +4,15 @@
 
 filein=$1
 fileout_label=$(date "+%Y%m%d%H%M%S")
-fileout_annot=$2
-fileout_het=$3
-fileout_imiss=$4
-fileout_sum=$5
-filelog=$6
+fileout_het=$2
+fileout_imiss=$3
+fileout_sum=$4
+filelog=$5
 
 
 
 perl $tool_path/VCFToolsStats.pl --input $filein --out $fileout_label
 
-cp  $fileout_label.annotation $fileout_annot ; rm $fileout_label.annotation
 cp  $fileout_label.het $fileout_het ; rm $fileout_label.het
 cp  $fileout_label.imiss $fileout_imiss ; rm $fileout_label.imiss
 cp  $fileout_label.TsTv.summary $fileout_sum ; rm $fileout_label.TsTv.summary