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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/data_managers/data_manager_sortmerna_database_downloader commit af5cc2acf0e97637c9a28b80455cc87caf13b79c-dirty
author bebatut
date Wed, 31 May 2017 06:38:22 -0400
parents
children d56a5622b889
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<tool id="data_manager_sortmerna_download" name="Download SortMeRNA" version="@VERSION@.0" tool_type="manage_data">
    <description>reference databases</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <requirements>
        <requirement type="package" version="@VERSION@">sortmerna</requirement>
        <requirement type="package" version="2.13.0">requests</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 '$__tool_directory__/data_manager_sortmerna_download.py'
            --version @VERSION@
            --jsonfile '$out_file'
    ]]></command>
    <inputs>
    </inputs>
    <outputs>
           <data name="out_file" format="data_manager_json" label="${tool.name}"/>
    </outputs>
    <tests>
    </tests>
    <help><![CDATA[
This tool downloads the reference databases for SortMeRNA and index it
    ]]></help>
    <citations>
        <citation type="doi">10.1093/bioinformatics/bts611</citation>
        <yield />
    </citations>
</tool>