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comparison 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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1 <tool id="MUMmer2ACT_tool" name="MUMmer2ACT" version="0.1.alx" force_history_refresh="True">
2 <description>: convert MUMmer comparison (coords) file to ACT (Artemis)</description>
3 <command interpreter="perl">
4 nucmer_coords2ACT_galaxy.pl $in_coords $out_act
5 </command>
6 <inputs>
7 <param name="in_coords" type="data" format="tabular" label="MUMmer coords file to use" help="i.e. a nucmer comparison (coords) file" />
8 </inputs>
9 <outputs>
10 <data name="out_act" format="tabular" label="ACT conversion of coords" />
11 </outputs>
12 <requirements>
13 <!-- <requirement type="perl-script">nucmer_coords2ACT_galaxy.pl</requirement> -->
14 </requirements>
15 <tests>
16 <test>
17 </test>
18 </tests>
19 <help>
20 |
21 |
22
23 **Info**
24 --------
25
26 This tool will convert the MUMmer comparison file (run MUMmer with the coords option) into a "blast crunch" file
27 that can be read as a comparison file in Artemic Comparison Tool (ACT).
28
29 It will output a single tabular crunch file (save as extension .tab on windows systems).
30
31 **Reference/questions/remarks**
32
33 - *Conversion perl script and wrapper:* Alex Bossers, CVI of Wageningen UR, The Netherlands.
34
35
36
37 </help>
38 </tool>
39