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comparison tools/rtg/coverage.xml @ 1:8593828f91e7 default tip

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Full galaxy wrapper
author diego
date Sat, 21 Apr 2012 21:36:15 -0400
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0:d50638ebd809 1:8593828f91e7
1 <tool id="rtg_coverage" name="Coverage">
2 <description>coverage</description>
3 <command interpreter="bash">galaxy-rtg-singleoutput-wrapper.sh $output $output.id $__new_file_path__ coverage.bed
4 coverage -t ${template.extra_files_path}
5 $input1
6 #for $i in $inputs
7 ${i.input}
8 #end for
9 -Z
10 </command>
11 <inputs>
12 <param name="template" type="data" format="rtg_sdf" label="Reference SDF"/>
13 <param name="input1" label="First SAM file" type="data" format="sam,samix" />
14 <repeat name="inputs" title="Input SAM Files">
15 <param name="input" label="Add file" type="data" format="sam,samix" />
16 </repeat>
17 </inputs>
18 <outputs>
19 <data name="output" format="bed"/>
20 </outputs>
21
22 <help>
23 This tool calculates coverage using rtg coverage
24 </help>
25
26 </tool>