Mercurial > repos > dereeper > tassel5
view tassel.sh @ 15:88ea6f8f664e draft
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author | dereeper |
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date | Tue, 16 Jan 2024 10:59:25 +0000 |
parents | e94b8b64929c |
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#!/bin/bash analyseType=$1; out1=$2; out2=$3; out3=$4; log1=$5; galaxyOutDir=$6; version=$(java -version 2>&1 | grep version) 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 if [ $? -gt 0 ] ; then exit 1 ; fi ##check the run of commands mv "$galaxyOutDir/TASSELGLM2.txt" $out2 fi if [[ $analyseType == mlm ]] then run_pipeline.pl $* >> $log1 2>&1 mv "$galaxyOutDir/TASSELMLM1.txt" $out1 if [ $? -gt 0 ] ; then exit 1 ; fi ##check the run of commands mv "$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 if [ $? -gt 0 ] ; then exit 1 ; fi ##check the run of commands fi