Mercurial > repos > devteam > emboss_5
comparison emboss_textsearch.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: textsearch98" name="textsearch" version="5.0.0"> | |
2 <description>Search sequence documentation. Slow, use SRS and Entrez!</description> | |
3 <macros> | |
4 <import>macros.xml</import> | |
5 </macros> | |
6 <expand macro="requirements" /> | |
7 <code file="emboss_format_corrector.py" /> | |
8 <command>textsearch -sequence '$input1' -outfile '$out_file1' -pattern '$pattern' -casesensitive -heading $heading -usa $usa -accession $accession -name $search_name -description $description -html | |
9 $html_out1 -auto</command> | |
10 <inputs> | |
11 <param name="input1" type="data" format="data" label="Sequence" /> | |
12 <param name="pattern" type="text" value="" label="Pattern to search for" /> | |
13 <param name="casesensitive" type="select" label="Do a case-sensitive search"> | |
14 <option value="no">No</option> | |
15 <option value="yes">Yes</option> | |
16 </param> | |
17 <param name="heading" type="select" label="Display column headings"> | |
18 <option value="yes">Yes</option> | |
19 <option value="no">No</option> | |
20 </param> | |
21 <param name="usa" type="select" label="Display the USA of the sequence"> | |
22 <option value="yes">Yes</option> | |
23 <option value="no">No</option> | |
24 </param> | |
25 <param name="accession" type="select" label="Display accession column"> | |
26 <option value="yes">Yes</option> | |
27 <option value="no">No</option> | |
28 </param> | |
29 <param name="search_name" type="select" label="Display name column"> | |
30 <option value="yes">Yes</option> | |
31 <option value="no">No</option> | |
32 </param> | |
33 <param name="description" type="select" label="Display description column"> | |
34 <option value="yes">Yes</option> | |
35 <option value="no">No</option> | |
36 </param> | |
37 <param name="html_out1" type="select" label="Format output as an HTML table"> | |
38 <option value="no">No</option> | |
39 <option value="yes">Yes</option> | |
40 </param> | |
41 </inputs> | |
42 <outputs> | |
43 <data name="out_file1" format="textsearch" /> | |
44 </outputs> | |
45 <help> | |
46 You can view the original documentation here_. | |
47 | |
48 .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/textsearch.html | |
49 </help> | |
50 <expand macro="citations" /> | |
51 </tool> |