Mercurial > repos > devteam > emboss_5
comparison emboss_compseq.xml @ 10:d49956b87f7e draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
author | iuc |
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date | Wed, 08 Feb 2017 12:42:22 -0500 |
parents | |
children | 8992d258e42f |
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9:511429456d3c | 10:d49956b87f7e |
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1 <tool id="EMBOSS: compseq14" name="compseq" version="5.0.0.1"> | |
2 <description>Count composition of dimer/trimer/etc words in a sequence</description> | |
3 <macros> | |
4 <import>macros.xml</import> | |
5 </macros> | |
6 <expand macro="requirements" /> | |
7 <command>compseq -sequence '$input1' -outfile '$out_file1' -word $word -frame $frame -auto</command> | |
8 <inputs> | |
9 <param name="input1" type="data" format="fasta" label="On query" /> | |
10 <param name="word" type="integer" value="2" label="Size of word (window) to count" /> | |
11 <param name="frame" type="select" label="Frame to inspect"> | |
12 <option value="0">All Frames</option> | |
13 <option value="1">Frame 1</option> | |
14 <option value="2">Frame 2</option> | |
15 <option value="3">Frame 3</option> | |
16 </param> | |
17 </inputs> | |
18 <outputs> | |
19 <data name="out_file1" format="compseq" /> | |
20 </outputs> | |
21 <tests> | |
22 <test> | |
23 <param name="input1" value="2.fasta"/> | |
24 <param name="word" value="2"/> | |
25 <param name="frame" value="0"/> | |
26 <output name="out_file1" file="emboss_compseq_out.compseq"/> | |
27 </test> | |
28 </tests> | |
29 <help> | |
30 .. class:: warningmark | |
31 | |
32 The input dataset needs to be sequences. | |
33 | |
34 ----- | |
35 | |
36 You can view the original documentation here_. | |
37 | |
38 .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/compseq.html | |
39 </help> | |
40 <expand macro="citations" /> | |
41 </tool> |