Mercurial > repos > kevyin > homer
comparison bed2pos.xml @ 20:90db049d8f68 draft
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author | kevyin |
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date | Wed, 19 Dec 2012 20:20:00 -0500 |
parents | 4356089c8e7f |
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19:251442d07ef8 | 20:90db049d8f68 |
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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> $out_pos | |
9 2> $out_log || echo "Error running bed2pos." >&2 | |
10 </command> | |
11 <inputs> | |
12 <param format="tabular,bed" name="input_bed" type="data" label="BED file" /> | |
13 </inputs> | |
14 <outputs> | |
15 <!--<data format="html" name="html_outfile" label="index" />--> | |
16 <!--<data format="html" hidden="True" name="html_outfile" label="index.html" />--> | |
17 <data format="tabular" name="out_pos" label="${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 |