root/galaxy-central/tools/emboss_5/emboss_pepcoil.xml @ 3

リビジョン 2, 1.6 KB (コミッタ: hatakeyama, 14 年 前)

import galaxy-central

行番号 
1<tool id="EMBOSS: pepcoil68" name="pepcoil" version="5.0.0">
2  <description>Predicts coiled coil regions</description>
3  <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
4  <command>pepcoil -sequence $input1 -outfile $out_file1 -window $window -coil $coil -frame $frame -other $other -auto</command>
5  <inputs>
6    <param format="data" name="input1" type="data">
7      <label>Sequence</label>
8    </param>
9    <param name="window" size="4" type="text" value="28">
10      <label>Window size</label>
11    </param>
12    <param name="coil" type="select">
13      <label>Report coiled coil regions</label>
14      <option value="yes">Yes</option>
15      <option value="no">No</option>
16    </param>
17    <param name="frame" type="select">
18      <label>Show coil frameshifts</label>
19      <option value="yes">Yes</option>
20      <option value="no">No</option>
21    </param>
22    <param name="other" type="select">
23      <label>Report non coiled coil regions</label>
24      <option value="yes">Yes</option>
25      <option value="no">No</option>
26    </param>
27  </inputs>
28  <outputs>
29    <data format="pepcoil" name="out_file1" />
30  </outputs>
31  <tests>
32    <test>
33      <param name="input1" value="2.fasta"/>
34      <param name="window" value="28"/>
35      <param name="coil" value="yes"/>
36      <param name="frame" value="yes"/>
37      <param name="other" value="yes"/>
38      <output name="out_file1" file="emboss_pepcoil_out.pepcoil"/>
39    </test>
40  </tests>
41  <help>
42    You can view the original documentation here_.
43   
44    .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/pepcoil.html
45  </help>
46</tool>
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