Mercurial > repos > gandres > vcftools_filter_stats_diversity

view VCFToolsStats/vcfToolsStats.sh @ 11:f494c8d22725 draft default tip

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planemo upload
author gandres
date Wed, 15 Jun 2016 09:40:02 -0400
parents 2b6bb9d5e4e9
children
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line source

#!/bin/bash

tool_path=$(dirname $0)

filein=$1
fileout_label=$(date "+%Y%m%d%H%M%S")
fileout_het=$2
fileout_imiss=$3
fileout_sum=$4
filelog=$5



perl $tool_path/VCFToolsStats.pl --input $filein --out $fileout_label

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

cp vcftools.log $filelog
rm vcftools.log