diff annotatePeak/annotatePeak.xml @ 0:5d70366e7c6f draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/annotatePeak/annotatePeak.xml	Mon Feb 06 10:53:57 2017 -0500
@@ -0,0 +1,35 @@
+<tool id="AP" name="annotatePeak" version="1.16.2">
+  <requirements>
+         <requirement type="package" version="3.2.1">R</requirement>
+     </requirements>
+<stdio>
+   <exit_code range="1:" />
+</stdio>
+  <command> Rscript $__tool_directory__/annotatePeak.R "$DMR" "$annoPeakTable"</command>
+  <inputs>
+    <param optional="false" format="bed" name="DMR" type="data" value="" help="Bumphunter peaks." label="[required] file">
+      <validator type="empty_field" message="This field is required."/>
+    </param>
+  </inputs>
+  <outputs>
+    <data format="csv" name="annoPeakTable" label="peakAnno.csv"/>
+  </outputs>
+  <tests>
+    <test>
+      <param name="test">
+      <element name="test-data">
+          <collection type="data">
+          <element name="DMR" value="test-data/DMR.bed"/>
+          </collection>
+        </element>
+        </param>
+        <output format="csv" name="annoPeakTable" label="test-data/annoPeakTable.csv"/>
+        </test>
+    </tests>
+  <help>
+**Description**
+</help>
+<citations>
+DMR
+</citations>
+</tool>