Mercurial > repos > koen > gbsx

annotate gbsx_barcodeGenerator.sh @ 15:59c5f45c9ebf draft

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author koen
date Wed, 13 Jan 2016 11:28:16 -0500
parents e9be4649dd28
children 331f373e5c22
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e9be4649dd28 Uploaded gbsx_barcodeGenerator.sh
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1 #!/usr/bin/env bash
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3 #export PATH=$PATH:$(dirname $0)
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4 #BASEDIR=$(dirname $0)
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6 barcode=$1
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7 enzyme=$2
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8 barcode_list=$3
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9 barcode_summary=$4
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11 java -jar $GBSX_ROOT_DIR/GBSX.jar --BarcodeGenerator -b $barcode -e $enzyme
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13 awk '{print "sample" NR "\t" $1 "\t" var;}' var="$enzyme" barcode_list.txt > $barcode_list
e9be4649dd28 Uploaded gbsx_barcodeGenerator.sh
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14 cat barcode_summary.txt > $barcode_summary