Mercurial > repos > portiahollyoak > breakdancer_max

comparison breakdancermax.xml @ 7:0f04e379591b draft default tip

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planemo upload for repository https://github.com/portiahollyoak/Tools commit 2eab7c96a59ba8b26adba3cd3ca9c6a5cea67aad
author portiahollyoak
date Wed, 08 Jun 2016 05:01:41 -0400
parents e7f2d8b8069e
children
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6:e7f2d8b8069e 7:0f04e379591b
1 <tool id="breakdancermax" name="BreakDancerMax" version="1.3.7"> 1 <tool id="breakdancermax" name="BreakDancerMax" version="1.3.8">
2 <description></description> 2 <description></description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.1.19">samtools</requirement> 4 <requirement type="package" version="0.1.19">samtools</requirement>
5 <requirement type="package" version="1.4.5">breakdancer</requirement> 5 <requirement type="package" version="1.4.5">breakdancer</requirement>
6 </requirements> 6 </requirements>
59 label="Analyze Illumina long insert (mate-pair) library"/> 59 label="Analyze Illumina long insert (mate-pair) library"/>
60 <param name="copy_number_bam" type="boolean" checked="false" truevalue="-a" falsevalue="" 60 <param name="copy_number_bam" type="boolean" checked="false" truevalue="-a" falsevalue=""
61 label="Compute copy number and support reads per library rather than per bam (Default = No)"/> 61 label="Compute copy number and support reads per library rather than per bam (Default = No)"/>
62 <param name="allele_freq" type="boolean" checked="false" truevalue="-h" falsevalue="" 62 <param name="allele_freq" type="boolean" checked="false" truevalue="-h" falsevalue=""
63 label="Print out Allele Frequencing column (Default= No)"/> 63 label="Print out Allele Frequencing column (Default= No)"/>
64 <param name="output_score_filter" type="integer" value="30" label="Output Score filter"/> 64 <param name="output_score_filter" type="integer" value="40" label="Output Score filter"/>
65 </inputs> 65 </inputs>
66 <outputs> 66 <outputs>
67 <data name="results_bed" type="data" format="bed" label="${sample_name} Breakdancer BED file containing SVs and supporting reads "/> 67 <data name="results_bed" type="data" format="bed" label="${sample_name} Breakdancer BED file containing SVs and supporting reads "/>
68 <data name="breakdancer_stdout" type="data" format="bed" label="${sample_name} Breakdancer summary"/> 68 <data name="breakdancer_stdout" type="data" format="bed" label="${sample_name} Breakdancer summary"/>
69 </outputs> 69 </outputs>