Mercurial > repos > kevyin > homer

comparison pos2bed.xml @ 4:74c1fc7bb164 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
display tag directories with html
author kevyin
date Tue, 27 Nov 2012 02:34:33 -0500
parents 2103c773690f
children
comparison
equal deleted inserted replaced
3:4ea55669f00e 4:74c1fc7bb164
1 <tool id="homer_pos2bed" name="homer_pos2bed" version="0.0.2">
2 <requirements>
3 <requirement type="package">homer</requirement>
4 </requirements>
5 <description></description>
6 <!--<version_command></version_command>-->
7 <command>
8 pos2bed.pl $input_peak 1&gt; $out_bed
9 2&gt; $out_log || echo "Error running pos2bed." >&amp;2
10 </command>
11 <inputs>
12 <param format="tabular" name="input_peak" type="data" label="Homer peak positions" />
13 </inputs>
14 <outputs>
15 <!--<data format="html" name="html_outfile" label="index" />-->
16 <!--<data format="html" hidden="True" name="html_outfile" label="index.html" />-->
17 <data format="bed" name="out_bed" label="${tool.name} on #echo os.path.splitext(str($input_peak.name))[0]#.bed" />
18 <data format="txt" name="out_log" label="${tool.name} on #echo os.path.splitext(str($input_peak.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 **Homer pos2bed.pl**
31 http://biowhat.ucsd.edu/homer/ngs/miscellaneous.html
32 </help>
33 </tool>
34