Mercurial > repos > petr-novak > dante

view summarize_gff.xml @ 22:1eabd42e00ef draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author petr-novak
date Fri, 03 Apr 2020 07:27:59 -0400
parents ddc6bab20889
children e2bbc79f0fac
line wrap: on
line source

<tool id="gff_summary" name="Summarize gff3 output from DANTE" version="0.1.0" python_template_version="3.5">
    <requirements>
        <requirement type="package">R</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        Rscript ${__tool_directory__}/summarize_gff.R '$inputgff' '$output' '$group'
    ]]></command>
    <inputs>
      <param type="data" name="inputgff" format="gff3" />
      <param name="group" type="select" label="select categories to summarize" multiple="true" optional="false">
            <option value="Name">protein domain name</option>
            <option value="Final_Classification">Classification</option>
            <option value="seqid">Sequence ID</option>
      </param>
    </inputs>
    <outputs>
        <data name="output" format="tabular" />
    </outputs>
    <help><![CDATA[
        TODO: Fill in help.
    ]]></help>
</tool>