# HG changeset patch
# User testtool
# Date 1492095706 14400
# Node ID 2d4a97506931c599d0a2aa2bcd99aa5d8d53afcd
# Parent  c7bab1a516cea69df68ab1fd1007486dca22b6cd
Uploaded

diff -r c7bab1a516ce -r 2d4a97506931 GRsetFromGEO/GRsetFromGEO.xml
--- a/GRsetFromGEO/GRsetFromGEO.xml	Thu Apr 13 10:41:44 2017 -0400
+++ b/GRsetFromGEO/GRsetFromGEO.xml	Thu Apr 13 11:01:46 2017 -0400
@@ -1,33 +1,36 @@
 <tool id="GRset" name="GRsetFromGEO" version="1.16.2">
+  <description>
+   Reading Illumina methylation array data from GEO.
+  </description>
   <requirements>
-   <requirement name="package_r_3_2_1" type="package" version="3.2.1">R</requirement>
-</requirements>
+         <requirement type="package" version="3.2.1">R</requirement>
+     </requirements>
 <stdio>
    <exit_code range="1:" />
 </stdio>
   <command> Rscript $__tool_directory__/GRsetFromGEO.R "$GSE" "$output" </command>
   <inputs>
-    <param name="GSE" type="text" value="" label="Enter GSE ID." help="e.g. 'GSE51547'"/>
+     <param name="GSE" type="text" value="" label="Enter GSE ID." help="e.g. 'GSE51547'"/>
   </inputs>
   <outputs>
-    <data format="RData" name="output" label="GenomicRatioSet.Rdata"/>
+   <data format="RData" name="output" label="GenomicRatioSet.RData"/>
   </outputs>
   <tests>
     <test>
       <param name="test">
       <element name="test-data">
-           <collection type="data">
+          <collection type="data">
                 <element name="GSE" value="GSE51547"/>
           </collection>
         </element>
         </param>
-        <output format="RData" name="output" label="test-data/GenomicRatioSet.Rdata"/>
+        <output format="RData" name="output" label="test-data/GenomicRatioSet.RData"/>
         </test>
     </tests>
   <help>
 Reading Illumina methylation array data from GEO.
 </help>
 <citations>
-Aryee, Martin J., et al. "Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays." Bioinformatics 30.10 (2014): 1363-1369.
+Aryee, Martin J, et al "Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays" Bioinformatics 3010 (2014): 1363-1369
 </citations>
 </tool>