#!/bin/bash

mkdir example_ipcaps
cd example_ipcaps
currentdir=`pwd`

#download IPCAPS warper file
urlprefix=http://bio3.giga.ulg.ac.be/ipcaps
myurl=${urlprefix}/ipcaps_warper.R
wget ${myurl}

#download example files
urlprefix=http://bio3.giga.ulg.ac.be/ipcaps/example/P3I250F005OL10

myurl=${urlprefix}/simSNP.bed
wget ${myurl}

myurl=${urlprefix}/simSNP.bim
wget ${myurl}

myurl=${urlprefix}/simSNP.fam
wget ${myurl}

myurl=${urlprefix}/simSNP_individuals.txt
wget ${myurl}

#run IPCAPS warper file
Rscript ipcaps_warper.R --bed ${currentdir}/simSNP.bed \
--label.file ${currentdir}/simSNP_individuals.txt \
--lab.col 2 \
--out ${currentdir}