<tool id="rp2biosensor" name="rp2biosensor" version="1.0.1">
    <description>Build Sensing-Enabling Metabolic Pathways from RetroPath2.0 output</description>
    <requirements>
        <requirement type="package" version="1.0.1">rp2biosensor</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        python -m rp2biosensor
        '$rp2_results'
        --opath '$html_file'
    ]]></command>
    <inputs>
        <param name="rp2_results" type="data" format="csv" label="RetroPath2 output"/>
    </inputs>
    <outputs>
        <data name="html_file" format="html" label="${tool.name} - ${rp2_results.name}"/>
    </outputs>
    <tests>
        <test>
        <!-- test 1: check if identical outputs are produced -->
        <param name="rp2_results" value="rp2-results_dmax-16.csv" />
        <output name="html_file" md5="4abb29e769106e75e68a939764dd2e31"/>
        </test>
    </tests>
    <help><![CDATA[
rp2biosensor
================

Generate HTML outputs to explore Sensing Enabling Metabolic Pathway from RetroPath2 results.

Input
-----

Required:

* **rp2_results**\ : (string) RetroPath2.0 results.

Output
------

* **opath**\ : (string) Output path. Default: biosensor.html.

* **o_sbol_dir**\ : (string) Output type. This could be either (i) "dir" which means ouput files will outputted into this directory, or (ii) "file" which means that all files will be embedded into a single HTML page. Default: file.

Project Links
------------------

* `GitHub <https://github.com/brsynth/rp2biosensor>`_

Version
----------

1.0.1

Authors
-------

* **Thomas Duigou**

License
-------

* `MIT <https://github.com/brsynth/rp2biosensor/blob/master/LICENSE.md>`_

    ]]></help>
</tool>