|
7
|
1 <tool id="bedsort" name="sort">
|
|
|
2 <description>a interval file by chr and start</description>
|
|
|
3 <command> head -n $skip $input > $output
|
|
|
4 && tail -n+`expr $skip + 1` $input | sort -k1,1 -k2,2g >> $output
|
|
|
5 </command>
|
|
|
6 <inputs>
|
|
|
7 <param name="input" type="data" format="bed" label="Input interval file"/>
|
|
|
8 <param name="skip" type="integer" value="0" label="top lines to skip" help="output directly, not sorted"/>
|
|
|
9 </inputs>
|
|
|
10 <outputs>
|
|
|
11 <data format="bed" name="output" />
|
|
|
12 </outputs>
|
|
|
13 <help>
|
|
|
14
|
|
|
15 **Description**
|
|
|
16
|
|
|
17 Unix command used::
|
|
|
18
|
|
|
19 head -n $skip $input > $output
|
|
|
20 tail -n+`expr $skip + 1` $input | sort -k1,1 -k2,2g >> $output
|
|
|
21
|
|
|
22 </help>
|
|
|
23 </tool>
|
