Mercurial > repos > gandres > vcftools_filter_stats_diversity

view vcftools_main/VCFToolsStats/vcfToolsStats.sh @ 0:3b1436a9a6e5 draft

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author gandres
date Thu, 02 Jul 2015 05:21:40 -0400
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#!/bin/bash

tool_path=$(dirname $0)

filein=$1
fileout_label=$2
fileout_annot=$3
fileout_het=$4
fileout_imiss=$5
fileout_sum=$6
filelog=$7



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

cp vcftools.log $filelog
rm vcftools.log