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comparison tassel.sh @ 5:e94b8b64929c draft

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planemo upload commit 9f362f944b3ce480662bec519a3d7c7616454b4c
author dereeper
date Fri, 24 Aug 2018 08:33:49 -0400
parents 0eebff4180d9
children 88ea6f8f664e
comparison
equal deleted inserted replaced
4:652aafd88060 5:e94b8b64929c
21 21
22 if [[ $analyseType == glm ]] 22 if [[ $analyseType == glm ]]
23 then 23 then
24 run_pipeline.pl $* >> $log1 2>&1 24 run_pipeline.pl $* >> $log1 2>&1
25 mv "$galaxyOutDir/TASSELGLM1.txt" $out1 25 mv "$galaxyOutDir/TASSELGLM1.txt" $out1
26 if [ $? -gt 0 ] ; then exit 1 ; fi ##check the run of commands
26 mv "$galaxyOutDir/TASSELGLM2.txt" $out2 27 mv "$galaxyOutDir/TASSELGLM2.txt" $out2
27 fi 28 fi
28 29
29 if [[ $analyseType == mlm ]] 30 if [[ $analyseType == mlm ]]
30 then 31 then
31 run_pipeline.pl $* >> $log1 2>&1 32 run_pipeline.pl $* >> $log1 2>&1
32 mv "$galaxyOutDir/TASSELMLM1.txt" $out1 33 mv "$galaxyOutDir/TASSELMLM1.txt" $out1
34 if [ $? -gt 0 ] ; then exit 1 ; fi ##check the run of commands
33 mv "$galaxyOutDir/TASSELMLM2.txt" $out2 35 mv "$galaxyOutDir/TASSELMLM2.txt" $out2
34 mv "$galaxyOutDir/TASSELMLM3.txt" $out3 36 mv "$galaxyOutDir/TASSELMLM3.txt" $out3
35 fi 37 fi
36 38
37 if [[ $analyseType == ld ]] 39 if [[ $analyseType == ld ]]
42 44
43 if [[ $analyseType == ck ]] 45 if [[ $analyseType == ck ]]
44 then 46 then
45 run_pipeline.pl $* >> $log1 2>&1 47 run_pipeline.pl $* >> $log1 2>&1
46 mv "$galaxyOutDir/kinship.txt" $out1 48 mv "$galaxyOutDir/kinship.txt" $out1
49 if [ $? -gt 0 ] ; then exit 1 ; fi ##check the run of commands
47 fi 50 fi