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18
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1 #!/bin/bash
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2
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3 OUTFile=${1}
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4 shift
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5 groupCount=1
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6 replicateNumber=1
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7
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8 arrayZ=( $@ )
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9 #remove the last symble '@' given by commande line
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10 unset arrayZ[${#arrayZ[@]}-1]
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11
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12 for FILE in ${arrayZ[@]}
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13 do
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14 #if a new group of fastq, re-count the replicateNumber
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15 if echo $FILE | grep -q "@"
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16 then
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17 groupCount=$(($groupCount + 1))
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18 replicateNumber=1
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19 else
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20 echo -e "Group${groupCount}_${replicateNumber}\t${FILE}" >>${OUTFile}
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21 replicateNumber=$(($replicateNumber + 1))
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22 fi
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23 done
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24
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