diff ConsensusMapNormalizer.xml @ 0:3d84209d3178 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ConsensusMapNormalizer.xml	Fri Oct 10 18:20:03 2014 -0400
@@ -0,0 +1,39 @@
+<?xml version='1.0' encoding='UTF-8'?>
+<tool id="ConsensusMapNormalizer" name="ConsensusMapNormalizer" version="1.12.0">
+  <description>Normalizes maps of one consensusXML file</description>
+  <macros>
+    <token name="@EXECUTABLE@">ConsensusMapNormalizer</token>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="stdio"/>
+  <expand macro="requirements"/>
+  <command>ConsensusMapNormalizer
+
+-in ${param_in}
+-out ${param_out}
+-algorithm_type ${param_algorithm_type}
+-ratio_threshold ${param_ratio_threshold}
+-threads \${GALAXY_SLOTS:-24} 
+</command>
+  <inputs>
+    <param name="param_in" type="data" format="consensusXML" optional="False" label="input file" help="(-in)"/>
+    <param name="param_algorithm_type" type="select" optional="True" value="robust_regression" label="The normalization algorithm that is applied." help="(-algorithm_type)">
+      <option value="robust_regression">robust_regression</option>
+      <option value="median">median</option>
+      <option value="quantile">quantile</option>
+    </param>
+    <param name="param_ratio_threshold" type="float" min="0.001" max="1.0" optional="True" value="0.67" label="Only for 'robust_regression': the parameter is used to distinguish between non-outliers (ratio_threshold &lt; intensity ratio &lt; 1/ratio_threshold) and outliers." help="(-ratio_threshold)"/>
+  </inputs>
+  <outputs>
+    <data name="param_out" label="output file" format="consensusXML"/>
+  </outputs>
+  <help>**What it does**
+
+Normalizes maps of one consensusXML file
+
+
+For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_ConsensusMapNormalizer.html
+
+@REFERENCES@
+</help>
+</tool>