comparison rp2biosensor.xml @ 2:b0efd4b2ffba draft

"planemo upload commit f40274f6b9f6a15eb4022aab21286d4c96cd8475-dirty"

1:b7713d32248b

<tool id="rp2biosensor" name="rp2biosensor" version="@TOOL_VERSION@" profile="19.09">
    <description>Build Sensing-Enabling Metabolic Pathways from RetroPath2.0 output</description>
    <macros>
        <token name="@TOOL_VERSION@">2.1.0</token>
    </macros>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">rp2biosensor</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        python -m rp2biosensor
        '$rp2_results'
        --opath '$html_file'
        #if str($adv.json_graph) == "true"
            --ojson '$json_file'
        #end if
    ]]></command>
    <inputs>
        <param name="rp2_results" type="data" format="csv" label="RetroPath2 output"/>
        <section name="adv" title="Advanced Options" expanded="false">
            <param name="json_graph" type="boolean" label="Output Graph in JSON?" checked="false" />
        </section>
    </inputs>
    <outputs>

-----

Required:

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

Output
------

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

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

Version
----------

2.1.0

Authors
-------

* **Thomas Duigou**

2:b0efd4b2ffba

<tool id="rp2biosensor" name="rp2biosensor" version="@TOOL_VERSION@" profile="19.09">
    <description>Build Sensing-Enabling Metabolic Pathways from RetroPath2.0 output</description>
    <macros>
        <token name="@TOOL_VERSION@">3.0.0</token>
    </macros>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">rp2biosensor</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        python -m rp2biosensor
        '$rp2_results'
        '$sink_file'
        --opath '$html_file'
        #if str($adv.json_graph) == "true"
            --ojson '$json_file'
        #end if
    ]]></command>
    <inputs>
        <param name="rp2_results" type="data" format="csv" label="RetroPath2 output"/>
        <param name="sink_file" type="data" format="csv" label="Sink file used for RetroPath2.0"/>
        <section name="adv" title="Advanced Options" expanded="false">
            <param name="json_graph" type="boolean" label="Output Graph in JSON?" checked="false" />
        </section>
    </inputs>
    <outputs>

-----

Required:

* **rp2_results**\ : (string) RetroPath2.0 results.
* **sink_file**\ : (string) Sink file used for RetroPath2.0.

Output
------

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

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

Version
----------

3.0.0

Authors
-------

* **Thomas Duigou**