view tassel/tassel.sh @ 0:0aeea77b924a draft

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author dereeper
date Thu, 26 Feb 2015 01:15:36 -0500
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children d8a46ae7ee8a
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#!/bin/bash

analyseType=$1;
out1=$2;
out2=$3;
out3=$4;
log1=$5;
galaxyOutDir=$6;


mkdir $galaxyOutDir

# Suppression des 6 premiers arguments de la liste des arguments $@
shift; shift; shift; shift; shift; shift;

if [[ $analyseType == glm ]] 
then
 run_pipeline.pl $* >> $log1 2>&1
 mv "$galaxyOutDir/TASSELGLM1.txt" $out1
 mv "$galaxyOutDir/TASSELGLM2.txt" $out2
fi

if [[ $analyseType == mlm ]] 
then
 run_pipeline.pl $* >> $log1 2>&1
 mv "$galaxyOutDir/TASSELMLM1.txt" $out1
 mv "$galaxyOutDir/TASSELMLM2.txt" $out2
 mv "$galaxyOutDir/TASSELMLM3.txt" $out3
fi

if [[ $analyseType == ld ]] 
then
 run_pipeline.pl $* >> $log1 2>&1
fi


if [[ $analyseType == ck ]]
then
 run_pipeline.pl $* >> $log1 2>&1
 mv "$galaxyOutDir/kinship.txt" $out1
fi