view gene_computation.xml @ 1:acaa8e8a0b88 draft default tip

Uploaded test-data & added tool help

<tool id="geneComput" name="Gene Usage" version="1.0">
    <description>Compute gene usage from clonotype file</description>
    <requirements>
      <requirement type="package" version="0.19">pandas</requirement>
		</requirements>
    <command interpreter="python">gene_computation.py $input $gene $usage_file $top10_file $summary_file ${input.name}</command>
    <inputs>
        <param name="gene" type="select" label="Gene family">
            <option value="V">V-Gene</option>
            <option value="J">J-Gene</option>
        </param>
        <param format="tabular" name="input" type="data" label="Clonotype file" />
    </inputs>
    <outputs>
        <data name="usage_file" format="tabular" label="${input.name}_geneUsageAll" />
        <data name="top10_file" format="tabular" label="${input.name}_geneUsageTop10" />
        <data name="summary_file" format="tabular" label="${input.name}_geneUsageSummary" />
    </outputs>
    <help>
This tool caclulates the usage of each gene of the V or J family in a clonotype repertoire (1st output of the Clonotype Diversity &amp; Expression tool). 
  </help>
</tool>