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view ped2bed/ped2bed.sh @ 10:c6640c49fd01 draft

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planemo upload commit 475f4d7d8442a0d75e103af326ae5881c4d2a4ac
author dereeper
date Mon, 16 Apr 2018 09:00:24 -0400
parents 420b57c3c185
children
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#!/bin/bash
ped=$1
map=$2
bed=$3
fam=$4
bim=$5
logs=$6

directory=`dirname $0`
mkdir tmpdir$$
cp -rf $ped tmpdir$$/input.ped
cp -rf $map tmpdir$$/input.map
 
plink --file tmpdir$$/input --out tmpdir$$/out --make-bed --noweb >>$logs 2>&1

mv tmpdir$$/out.bed $bed
mv tmpdir$$/out.fam $fam
mv tmpdir$$/out.bim $bim