annotate gbsx_barcodeGenerator.sh @ 23:3b325560887b
draft default tip
new version of gbsx: v1.2 with barcodeGenerator, demultiplex and digest
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koen |
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Tue, 26 Jan 2016 07:56:34 -0500 |
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84737a8fddb0 |
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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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5
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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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10
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11 java -jar $GBSX_PATH/GBSX.jar --BarcodeGenerator -b $barcode -e $enzyme
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12
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13 awk '{print "sample" NR "\t" $1 "\t" var;}' var="$enzyme" barcode_list.txt > $barcode_list
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14 cat barcode_summary.txt > $barcode_summary
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