Mercurial > repos > kevyin > homer

comparison bed2pos.xml @ 16:687df269e597 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author kevyin
date Wed, 19 Dec 2012 17:28:55 -0500
parents 4356089c8e7f
children
comparison
equal deleted inserted replaced
15:529485c1dda1 16:687df269e597
1 <tool id="homer_bed2pos" name="homer_bed2pos" version="0.0.3">
2 <requirements>
3 <requirement type="package" version="4.1">homer</requirement>
4 </requirements>
5 <description></description>
6 <!--<version_command></version_command>-->
7 <command>
8 bed2pos.pl $input_bed 1&gt; $out_pos
9 2&gt; $out_log || echo "Error running bed2pos." >&amp;2
10 </command>
11 <inputs>
12 <param format="tabular,bed" name="input_bed" type="data" label="BED file" />
13 </inputs>
14 <outputs>
15 <!--<data format="html" name="html_outfile" label="index" />-->
16 <!--<data format="html" hidden="True" name="html_outfile" label="index.html" />-->
17 <data format="tabular" name="out_pos" label="${tool.name} on #echo os.path.splitext(str($input_bed.name))[0]#" />
18 <data format="txt" name="out_log" label="${tool.name} on #echo os.path.splitext(str($input_bed.name))[0]#.log" />
19 </outputs>
20 <tests>
21 <test>
22 <!--<param name="input_file" value="extract_genomic_dna.fa" />-->
23 <!--<output name="html_file" file="sample_output.html" ftype="html" />-->
24 </test>
25 </tests>
26
27 <help>
28 .. class:: infomark
29
30 Converts: BED -(to)-> homer peak positions
31
32 **Homer bed2pos.pl**
33
34 http://biowhat.ucsd.edu/homer/ngs/miscellaneous.html
35 </help>
36 </tool>
37