Mercurial > repos > testtool > get_gsm

comparison getGSMdata/geo_data-05050b50d4f8/GEO/getGEO.xml @ 26:ac5415190777 draft

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author testtool
date Wed, 15 Feb 2017 10:21:18 -0500
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1 <tool id="GEO" name="getGEO" version="1.16.2">
2 <requirements>
3 <requirement type="package" version="3.2.1">R</requirement>
4 </requirements>
5 <stdio>
6 <exit_code range="1:" />
7 </stdio>
8 <command> Rscript $__tool_directory__/getGEO.R "$GSMTable" "$MetaTable" "$IlmnTable" "$gmTable"</command>
9 <inputs>
10 <param optional="false" format="csv" name="GSMTable" type="data" value="" help="GEO table of data." label="[required] GSMTable">
11 <validator type="empty_field" message="This field is required."/>
12 </param>
13 </inputs>
14 <outputs>
15 <data format="csv" name="MetaTable" label="MetaData.csv"/>
16 <data format="csv" name="IlmnTable" label="IlmnData.csv"/>
17 <data format="csv" name="gmTable" label="gmSet.csv"/>
18 </outputs>
19 <tests>
20 <test>
21 <param name="test">
22 <element name="test-data">
23 <collection type="data">
24 <element name="GSMTable" value="test-data/input.csv" />
25 </collection>
26 </element>
27 </param>
28 <output format="csv" name="MetaTable" label="test-data/MetaTable.csv"/>
29 <output format="csv" name="IlmnTable" label="test-data/IlmnTable.csv"/>
30 <output format="csv" name="gmTable" label="test-data/gmTable.csv"/>
31 </test>
32 </tests>
33 <help>
34 **Description**
35 </help>
36 <citations>
37 GEO
38 </citations>
39 </tool>