--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/MapAlignmentEvaluation.xml	Fri Oct 10 18:20:03 2014 -0400
@@ -0,0 +1,44 @@
+<?xml version='1.0' encoding='UTF-8'?>
+<tool id="MapAlignmentEvaluation" name="MapAlignmentEvaluation" version="1.12.0">
+  <description>Evaluates alignment results against a ground truth.</description>
+  <macros>
+    <token name="@EXECUTABLE@">MapAlignmentEvaluation</token>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="stdio"/>
+  <expand macro="requirements"/>
+  <command>MapAlignmentEvaluation
+
+-in ${param_in}
+-gt ${param_gt}
+-type ${param_type}
+-rt_dev ${param_rt_dev}
+-mz_dev ${param_mz_dev}
+-int_dev ${param_int_dev}
+${param_use_charge}
+-threads \${GALAXY_SLOTS:-24} 
+</command>
+  <inputs>
+    <param name="param_in" type="data" format="consensusXML" optional="False" label="input file: tool" help="(-in)"/>
+    <param name="param_gt" type="data" format="consensusXML" optional="False" label="input file: ground truth" help="(-gt)"/>
+    <param name="param_type" type="select" optional="False" label="Caap Evaluation type" help="(-type)">
+      <option value="precision">precision</option>
+      <option value="recall">recall</option>
+      <option value="F1">F1</option>
+    </param>
+    <param name="param_rt_dev" type="float" value="0.1" label="Maximum allowed deviation of the retention time" help="(-rt_dev)"/>
+    <param name="param_mz_dev" type="float" value="0.1" label="Maximum allowed deviation of m/z" help="(-mz_dev)"/>
+    <param name="param_int_dev" type="float" value="100.0" label="Maximum allowed deviation of Intensity" help="(-int_dev)"/>
+    <param name="param_use_charge" type="boolean" truevalue="-use_charge true" falsevalue="-use_charge false" checked="false" optional="True" label="Use charge criterion when assesing if two features are identical." help="(-use_charge)"/>
+  </inputs>
+  <outputs/>
+  <help>**What it does**
+
+Evaluates alignment results against a ground truth.
+
+
+For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_MapAlignmentEvaluation.html
+
+@REFERENCES@
+</help>
+</tool>