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comparison bsmap_meth_caller.sh @ 5:98a0a60e934c draft

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author eiriche
date Thu, 29 Nov 2012 10:10:55 -0500
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4:e5025e0378d0 5:98a0a60e934c
1 #!/bin/bash
2 #
3 # Galaxy wrapper for BSMAP Methylation Caller
4 #
5
6 set -e
7
8 #get parameters
9
10 until [ $# -eq 0 ]
11 do
12 case $1 in
13 input=*)
14 input=${1#input=}
15 ;;
16 method=*)
17 method=${1#method=}
18 ;;
19 output=*)
20 output=${1#output=}
21 ;;
22 tempdir=*)
23 tempdir=${1#tempdir=}
24 ;;
25 ref=*)
26 ref=${1#ref=}
27 ;;
28 esac
29 shift
30 done
31
32 methratio.py -o $output -d $ref -q $input