Mercurial > repos > iuc > data_manager_metaphlan2_database_downloader

view data_manager/data_manager_metaphlan2_download.xml @ 0:9c4ad82be5bd draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_metaphlan2_database_downloader commit 345fb7ef485456ae833be5ad2d2ce4f8765652c8
author iuc
date Sat, 04 Mar 2017 12:11:20 -0500
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<tool id="data_manager_metaphlan2_download" name="MetaPhlAn2 download" version="2.6.0" tool_type="manage_data">
    <description>Download MetaPhlAn2 database</description>

    <requirements>
        <requirement type="package" version="2.6.0">metaphlan2</requirement>
    </requirements>

    <stdio>
        <exit_code range=":-1" level="fatal" description="Error: Cannot open file" />
        <exit_code range="1:" level="fatal" description="Error" />
    </stdio>

    <command><![CDATA[
        python '$__tool_directory__/data_manager_metaphlan2_download.py'
            --database $database
            '${out_file}'
    ]]></command>

    <inputs>
        <param name="database" type="select" label="Database to download">
            <option value="db_v20" selected="true">MetaPhlAn2 clade-specific marker genes</option>
          </param>
    </inputs>

    <outputs>
           <data name="out_file" format="data_manager_json" label="${tool.name}"/>
    </outputs>

    <tests>
    </tests>

    <help><![CDATA[
This tool downloads the MetaPhlAn2 databases.
    ]]></help>

    <citations>
        <citation type="doi">10.1371/journal.pcbi.1003153</citation>
        <yield />
    </citations>
</tool>