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comparison getGEO/getGEO.xml @ 22:fe105dbd7e1e draft

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author testtool
date Mon, 06 Feb 2017 09:23:31 -0500
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21:9746b310d9ad 22:fe105dbd7e1e
1 <tool id="GEO" name="getGEO" version="1.16.2">
2 <?xml version='1.0' encoding='utf-8'?>
3 <requirements>
4 <tool_dependency>
5 <package name="R" version="3.2.1">
6 <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
7 </package>
8 </tool_dependency>
9 </requirements>
10 <stdio>
11 <exit_code range="1:" />
12 </stdio>
13 <command> Rscript $__tool_directory__/getGEO.R "$GSMTable" "$MetaTable" "$IlmnTable" "$gmTable"</command>
14 <inputs>
15 <param optional="false" format="csv" name="GSMTable" type="data" value="" help="GEO table of data." label="[required] GSMTable">
16 <validator type="empty_field" message="This field is required."/>
17 </param>
18 </inputs>
19 <outputs>
20 <data format="csv" name="MetaTable" label="MetaData.csv"/>
21 <data format="csv" name="IlmnTable" label="IlmnData.csv"/>
22 <data format="csv" name="gmTable" label="gmSet.csv"/>
23 </outputs>
24 <tests>
25 <test>
26 <param name="test">
27 <element name="test-data">
28 <collection type="data">
29 <element name="GSMTable" value="test-data/input.csv" />
30 </collection>
31 </element>
32 </param>
33 <output format="csv" name="MetaTable" label="test-data/MetaTable.csv"/>
34 <output format="csv" name="IlmnTable" label="test-data/IlmnTable.csv"/>
35 <output format="csv" name="gmTable" label="test-data/gmTable.csv"/>
36 </test>
37 </tests>
38 <help>
39 **Description**
40 </help>
41 <citations>
42 GEO
43 </citations>
44 </tool>