Mercurial > repos > kevyin > homer
view bed2pos.xml @ 10:7efeace8bd32 draft
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author | kevyin |
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date | Mon, 17 Dec 2012 00:22:39 -0500 |
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<tool id="homer_bed2pos" name="homer_bed2pos" version="0.0.3"> <requirements> <requirement type="package">homer</requirement> </requirements> <description></description> <!--<version_command></version_command>--> <command> bed2pos.pl $input_bed 1> $out_pos 2> $out_log || echo "Error running bed2pos." >&2 </command> <inputs> <param format="tabular,bed" name="input_bed" type="data" label="BED file" /> </inputs> <outputs> <!--<data format="html" name="html_outfile" label="index" />--> <!--<data format="html" hidden="True" name="html_outfile" label="index.html" />--> <data format="tabular" name="out_pos" label="${tool.name} on #echo os.path.splitext(str($input_bed.name))[0]#" /> <data format="txt" name="out_log" label="${tool.name} on #echo os.path.splitext(str($input_bed.name))[0]#.log" /> </outputs> <tests> <test> <!--<param name="input_file" value="extract_genomic_dna.fa" />--> <!--<output name="html_file" file="sample_output.html" ftype="html" />--> </test> </tests> <help> .. class:: infomark Converts: BED -(to)-> homer peak positions **Homer bed2pos.pl** http://biowhat.ucsd.edu/homer/ngs/miscellaneous.html </help> </tool>