--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/SpectraFilterWindowMower.xml	Thu Apr 16 08:37:04 2015 -0400
@@ -0,0 +1,61 @@
+<?xml version='1.0' encoding='UTF-8'?>
+<tool id="SpectraFilterWindowMower" name="SpectraFilterWindowMower" version="2.0.0">
+  <description>Applies thresholdfilter to peak spectra.</description>
+  <macros>
+    <token name="@EXECUTABLE@">SpectraFilterWindowMower</token>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="stdio"/>
+  <expand macro="requirements"/>
+  <command>SpectraFilterWindowMower
+
+#if $param_in:
+  -in $param_in
+#end if
+#if $param_out:
+  -out $param_out
+#end if
+-threads \${GALAXY_SLOTS:-24} 
+#if $param_algorithm_windowsize:
+  -algorithm:windowsize $param_algorithm_windowsize
+#end if
+#if $param_algorithm_peakcount:
+  -algorithm:peakcount $param_algorithm_peakcount
+#end if
+#if $param_algorithm_movetype:
+  -algorithm:movetype
+  #if " " in str($param_algorithm_movetype):
+    "$param_algorithm_movetype"
+  #else
+    $param_algorithm_movetype
+  #end if
+#end if
+#if $adv_opts.adv_opts_selector=='advanced':
+    #if $adv_opts.param_force:
+  -force
+#end if
+#end if
+</command>
+  <inputs>
+    <param name="param_in" type="data" format="mzml" optional="False" label="input file" help="(-in) "/>
+    <param name="param_algorithm_windowsize" type="float" value="50.0" label="The size of the sliding window along the m/z axis" help="(-windowsize) "/>
+    <param name="param_algorithm_peakcount" type="integer" value="2" label="The number of peaks that should be kept" help="(-peakcount) "/>
+    <param name="param_algorithm_movetype" type="select" optional="True" value="slide" label="Whether sliding window (one peak steps) or jumping window (window size steps) should be used" help="(-movetype) ">
+      <option value="slide">slide</option>
+      <option value="jump">jump</option>
+    </param>
+    <expand macro="advanced_options">
+      <param name="param_force" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
+    </expand>
+  </inputs>
+  <outputs>
+    <data name="param_out" format="mzml"/>
+  </outputs>
+  <help>**What it does**
+
+Applies thresholdfilter to peak spectra.
+
+
+For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_SpectraFilterWindowMower.html</help>
+  <expand macro="references"/>
+</tool>