Mercurial > repos > koen > gbsx

view gbsx_barcodeGenerator.sh @ 3:9dc99f2deb3d draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded gbsx_demultiplexer.xml
author koen
date Wed, 13 Jan 2016 10:46:16 -0500
parents e9be4649dd28
children 59c5f45c9ebf
line wrap: on
line source

#!/usr/bin/env bash

#export PATH=$PATH:$(dirname $0)
#BASEDIR=$(dirname $0)

barcode=$1
enzyme=$2
barcode_list=$3
barcode_summary=$4

java -jar $GBSX_PATH/GBSX.jar --BarcodeGenerator -b $barcode -e $enzyme

awk '{print "sample" NR "\t" $1 "\t" var;}' var="$enzyme" barcode_list.txt > $barcode_list
cat barcode_summary.txt > $barcode_summary