Mercurial > repos > testtool > get_geo

changeset 31:f81cbc34657c draft

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Uploaded
author testtool
date Thu, 09 Feb 2017 08:42:04 -0500
parents 4bb463a26542
children 2b223a449cf6
files GEO/getGEO.xml
diffstat 1 files changed, 40 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/GEO/getGEO.xml	Thu Feb 09 08:42:04 2017 -0500
@@ -0,0 +1,40 @@
+<tool id="GEO" name="getGEO" version="1.16.2">
+  <?xml version='1.0' encoding='utf-8'?>
+  <requirements>
+         <requirement type="package" version="3.2.1">R</requirement>
+     </requirements>
+<stdio>
+<exit_code range="1:"/>
+</stdio>
+  <command> Rscript $__tool_directory__/getGEO.R "$GSMTable" "$MetaTable" "$IlmnTable" "$gmTable"</command>
+  <inputs>
+    <param optional="false" format="csv" name="GSMTable" type="data" value="" help="GEO table of data." label="[required] GSMTable">
+      <validator type="empty_field" message="This field is required."/>
+    </param>
+  </inputs>
+  <outputs>
+    <data format="csv" name="MetaTable" label="MetaData.csv"/>
+    <data format="csv" name="IlmnTable" label="IlmnData.csv"/>
+    <data format="csv" name="gmTable" label="gmSet.csv"/>
+  </outputs>
+  <tests>
+    <test>
+      <param name="test">
+      <element name="test-data">
+          <collection type="data">
+              <element name="GSMTable" value="test-data/input.csv" />
+          </collection>
+        </element>
+        </param>
+        <output format="csv" name="MetaTable" label="test-data/MetaTable.csv"/>
+        <output format="csv" name="IlmnTable" label="test-data/IlmnTable.csv"/>
+        <output format="csv" name="gmTable" label="test-data/gmTable.csv"/>
+        </test>
+    </tests>
+  <help>
+**Description**
+</help>
+<citations>
+GEO
+</citations>
+</tool>