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1 #!/bin/bash
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2 include=$1
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3 exclude=$2
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4 product_size_range=$3
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5 primer_size=$4
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6 min_size=$5
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7 max_size=$6
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8 crossvalidate=$7
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9 outfile=$8
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10 log=$9
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11 fasta=${10}
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12
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13 directory=`dirname $0`
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14
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15 other_inputs_line=""
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16
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17 j=1
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18 for i in $*
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19 do
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20 if [[ $j -ge 11 ]]
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21 then other_inputs_line=${other_inputs_line}" "$i
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22 fi
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23 j=$((j+1))
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24 done
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25
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26
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27 if [[ $crossvalidate == "Yes" ]]
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28 then python $directory/uniqprimer-0.5.0/uniqprimer.py -i $include -x $exclude --productsizerange $product_size_range --primersize $primer_size --minprimersize $min_size --crossvalidate --keeptempfiles --maxprimersize $max_size -o $outfile -f $fasta -l $log $other_inputs_line >>$log 2>&1
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29 elif [[ $crossvalidate = "No" ]]
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30 then python $directory/uniqprimer-0.5.0/uniqprimer.py -i $include -x $exclude --productsizerange $product_size_range --primersize $primer_size --minprimersize $min_size --keeptempfiles --maxprimersize $max_size -o $outfile -f $fasta -l $log $other_inputs_line >>$log 2>&1
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31 fi
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32
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33
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34
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