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view data_manager/ncbi_taxonomy_fetcher.xml @ 4:d6acd5cd497b draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_ncbi_taxonomy/ commit 79946a95eb9a4c98fde04fa2cb3bc6a31a28e407"
author iuc
date Mon, 06 Jul 2020 20:06:21 -0400
parents bdd8632fa9fb
children 9de2fb1ce1fb
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<?xml version="1.0"?>
<tool id="ncbi_taxonomy_fetcher" name="NCBI" tool_type="manage_data" version="1.0.1">
    <description>taxonomy downloader</description>
    <command detect_errors="exit_code">
    <![CDATA[
        python '$__tool_directory__/data_manager.py' --out '${out_file}'
        #if $taxonomy_url:
            --url '${taxonomy_url}'
        #end if
        #if $database_name:
            --name '${database_name}'
        #end if
    ]]>
    </command>
    <inputs>
        <param name="database_name" type="text" optional="true" label="Name for this database" help="Enter a unique identifier, or leave blank for today's date" />
        <param name="taxonomy_url" type="text" value='ftp://ftp.ncbi.nih.gov/pub/taxonomy/taxdump.tar.gz' label="Enter URL for taxonomy files" />
    </inputs>
    <outputs>
        <data name="out_file" format="data_manager_json" />
    </outputs>
</tool>