|
0
|
1 <tool id="bam_parallelism_test" name="BAM Parallelism Test" version="2.4.1">
|
|
|
2 <description>
|
|
|
3 BAM Parallelism Test
|
|
|
4 </description>
|
|
6
|
5 <parallelism method="multi" split_inputs="interval" split_size="1" merge_outputs="output"/>
|
|
0
|
6 <command>
|
|
|
7
|
|
5
|
8 ln -s $normal input.bam;
|
|
|
9 ln -s $normal.metadata.bam_index input.bam.bai;
|
|
4
|
10
|
|
|
11 samtools view input.bam \$(cat $interval) | head -n 5 > $output;
|
|
0
|
12
|
|
|
13 </command>
|
|
|
14 <inputs>
|
|
|
15 <param type="data" format="bam" name="normal" label="Normal Alignment BAM"/>
|
|
4
|
16
|
|
3
|
17 <param type="data" format="txt" name="interval" label="Interval File"/>
|
|
0
|
18 </inputs>
|
|
|
19 <outputs>
|
|
2
|
20 <data format="txt" name="output"/>
|
|
0
|
21 </outputs>
|
|
|
22 </tool> |
