comparison rpfba.xml @ 2:082cd90e7254 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rptools commit 2333b7b56422febf439cd9f4cd3e6eda858b2690

1:5d35eea4f75d

<tool id="rptools_rpfba" name="Flux balance analysis" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
    <description>for the RetroPath2.0 heterologous pathways</description>
    <macros>
        <token name="@VERSION_SUFFIX@">0</token>
        <token name="@TOOL_VERSION@">5.13.1</token>
    </macros>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">rptools</requirement>
    </requirements>
    <stdio>
        <regex match="WARNING" level="warning" />
        <regex match="ERROR" level="fatal" />
    </stdio>
    <command detect_errors="exit_code"><![CDATA[

Advanced options:

* **Output the merged model?**\ : (boolean, default=False) output the full merged model instead of heterologous pathway only
* **Ignore Orphan Species?**\ : (boolean, default=True) ignore metabolites that are only consumed or produced


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

* `GitHub <https://github.com/brsynth/rptools/tree/master/rptools/rpfba>`_

License
-------

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

Acknowledgments
---------------

* Thomas Duigou
    ]]></help>
    <creator>
        <person givenName="Joan" familyName="Hérisson" email="[e-mail]" identifier="https://orcid.org/0000-0001-9741-0847" />
        <person givenName="Melchior" familyName="du Lac" identifier="https://orcid.org/0000-0002-9984-4689" />
    </creator>
    <citations>
        <citation type="doi">10.1186/1752-0509-7-74</citation>
        <citation type="doi">10.1515/jib-2016-290 </citation>    
    </citations>
</tool>

2:082cd90e7254

<tool id="rptools_rpfba" name="Flux balance analysis" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
    <description>for the RetroPath2.0 heterologous pathways</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <stdio>
        <regex match="WARNING" level="warning" />
        <regex match="ERROR" level="fatal" />
    </stdio>
    <command detect_errors="exit_code"><![CDATA[

Advanced options:

* **Output the merged model?**\ : (boolean, default=False) output the full merged model instead of heterologous pathway only
* **Ignore Orphan Species?**\ : (boolean, default=True) ignore metabolites that are only consumed or produced
    ]]></help>
    <expand macro="creator"/>
    <citations>
        <citation type="doi">10.1186/1752-0509-7-74</citation>
        <citation type="doi">10.1515/jib-2016-290</citation>
        <citation type="doi">10.1038/s41467-022-32661-x</citation>
    </citations>
</tool>