Mercurial > repos > kevyin > homer
comparison bed2pos.xml @ 28:f0b5827b6051 draft default tip
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| author | kevyin |
|---|---|
| date | Thu, 20 Dec 2012 18:28:03 -0500 |
| parents | |
| children |
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| 27:d27851e0cbbd | 28:f0b5827b6051 |
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| 1 <tool id="homer_bed2pos" name="homer_bed2pos" version="1.0.0"> | |
| 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 |