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diff MUMmer/nucmer_coords2ACT_galaxy.xml @ 0:61f30d177448 default tip

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initial commit on Mummer toolsuite on toolshed
author eric
date Tue, 31 Mar 2015 14:19:49 +0200
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/MUMmer/nucmer_coords2ACT_galaxy.xml	Tue Mar 31 14:19:49 2015 +0200
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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>
+| 
+| 
+
+**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>
+