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view MUMmer/nucmer_coords2ACT_galaxy.xml @ 2:479eb076cd23

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Add revised mummer toolshed files to testtoolshed
author abossers
date Tue, 28 Oct 2014 16:59:33 +0100
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<tool id="MUMmer2ACT_tool" name="MUMmer2ACT" version="0.1.alx" force_history_refresh="True">
  <description>: convert MUMmer comparison (coords) file to ACT (Artemis)</description>
  <command interpreter="perl">
  	nucmer_coords2ACT_galaxy.pl $in_coords $out_act
  </command>
	<inputs>
		<param name="in_coords" type="data" format="tabular" label="MUMmer coords file to use" help="i.e. a nucmer comparison (coords) file" />
	</inputs>
	<outputs>
		<data name="out_act" format="tabular" label="ACT conversion of coords" />
	</outputs>
	<requirements>
	  <!-- <requirement type="perl-script">nucmer_coords2ACT_galaxy.pl</requirement> -->
	</requirements>
	<tests>
		<test>
		</test>
	</tests>
	<help>
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**Info**
--------

This tool will convert the MUMmer comparison file (run MUMmer with the coords option) into a "blast crunch" file 
that can be read as a comparison file in Artemic Comparison Tool (ACT).
 
It will output a single tabular crunch file (save as extension .tab on windows systems).
 
**Reference/questions/remarks**
 
- *Conversion perl script and wrapper:* Alex Bossers, CVI of Wageningen UR, The Netherlands.



	</help>
</tool>