Mercurial > repos > yufei-luo > differential_expression_analysis_pipeline_for_rnaseq_data
comparison DiffExpAnal/loadMultiFastqFiles.sh @ 0:63799b789162 draft
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| author | yufei-luo |
|---|---|
| date | Tue, 22 Jan 2013 10:07:03 -0500 |
| parents | |
| children |
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| -1:000000000000 | 0:63799b789162 |
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| 1 #!/bin/bash | |
| 2 | |
| 3 OUTFile=${1} | |
| 4 shift | |
| 5 groupCount=1 | |
| 6 replicateNumber=1 | |
| 7 | |
| 8 arrayZ=( $@ ) | |
| 9 #remove the last symble '@' given by commande line | |
| 10 unset arrayZ[${#arrayZ[@]}-1] | |
| 11 | |
| 12 for FILE in ${arrayZ[@]} | |
| 13 do | |
| 14 #if a new group of fastq, re-count the replicateNumber | |
| 15 if echo $FILE | grep -q "@" | |
| 16 then | |
| 17 groupCount=$(($groupCount + 1)) | |
| 18 replicateNumber=1 | |
| 19 else | |
| 20 echo -e "Group${groupCount}_${replicateNumber}\t${FILE}" >>${OUTFile} | |
| 21 replicateNumber=$(($replicateNumber + 1)) | |
| 22 fi | |
| 23 done | |
| 24 |