diff IDExtractor.xml @ 0:3d84209d3178 draft

Uploaded
author bgruening
date Fri, 10 Oct 2014 18:20:03 -0400
parents
children 6ead64a594bd
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/IDExtractor.xml	Fri Oct 10 18:20:03 2014 -0400
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+<?xml version='1.0' encoding='UTF-8'?>
+<tool id="IDExtractor" name="IDExtractor" version="1.12.0">
+  <description>Extracts 'n' peptides randomly or best 'n' from idXML files.</description>
+  <macros>
+    <token name="@EXECUTABLE@">IDExtractor</token>
+    <import>macros.xml</import>
+  </macros>
+  <expand macro="stdio"/>
+  <expand macro="requirements"/>
+  <command>IDExtractor
+
+-in ${param_in}
+-out ${param_out}
+-number_of_peptides ${param_number_of_peptides}
+-number_of_rand_invokations ${param_number_of_rand_invokations}
+${param_best_hits}
+-threads \${GALAXY_SLOTS:-24} 
+</command>
+  <inputs>
+    <param name="param_in" type="data" format="idXML" optional="False" label="input file" help="(-in)"/>
+    <param name="param_number_of_peptides" type="integer" min="1" optional="True" value="10" label="Number of randomly chosen peptides" help="(-number_of_peptides)"/>
+    <param name="param_number_of_rand_invokations" type="integer" min="0" optional="True" value="0" label="Number of rand invocations before random draw" help="(-number_of_rand_invokations)"/>
+    <param name="param_best_hits" type="boolean" truevalue="-best_hits true" falsevalue="-best_hits false" checked="false" optional="True" label="If this flag is set the best n peptides are chosen." help="(-best_hits)"/>
+  </inputs>
+  <outputs>
+    <data name="param_out" label="output file" format="idXML"/>
+  </outputs>
+  <help>**What it does**
+
+Extracts 'n' peptides randomly or best 'n' from idXML files.
+
+
+For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_IDExtractor.html
+
+@REFERENCES@
+</help>
+</tool>