Mercurial > repos > testtool > geo_data

diff getGRsetFromGEO/getGRsetFromGEO.xml @ 11:983651783ce9 draft

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author testtool
date Wed, 22 Mar 2017 09:01:06 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/getGRsetFromGEO/getGRsetFromGEO.xml	Wed Mar 22 09:01:06 2017 -0400
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+<tool id="getGRsetFromGEO" name="getGRsetFromGEO" version="1.16.2">
+  <description>
+    from GEO
+  </description>
+  <requirements>
+         <requirement type="package" version="3.2.1">R</requirement>
+     </requirements>
+<stdio>
+   <exit_code range="1:" />
+</stdio>
+<command> Rscript $__tool_directory__/getGRsetFromGEO.R "$GSE" "$output"</command>
+<inputs>
+     <param type="text" name="GSE" value="" label="The GSE ID from GEO" help="e.g. 'GSE51547'"/>
+</inputs>
+  <outputs>
+      <data format="rdata" name="output" label="GenomicRatioSetFromGEO"/>
+  </outputs>
+  <tests>
+    <test>
+      <param name="test">
+      <element name="test-data">
+          <collection type="data">
+                <element name="GSE" value="GSE51547"/>
+          </collection>
+        </element>
+        </param>
+        <output format="rdata"  name="output" label="test-data/GEOdata.RData"/>
+        </test>
+      </tests>
+  <help>
+**Description**
+</help>
+<citations>
+GEO
+</citations>
+</tool>