view data_manager/data_manager_fetch_motifs.xml @ 9:e4229c66d78d draft

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<tool id="data_manager_fetch_motifs" name="Install Motif Database" version="1.0.0" tool_type="manage_data">
    <description>Downloads motif databases in tabix format for use with region_motif_enrichment</description>
    <command interpreter="python">data_manager_fetch_motifs.py "${out_file}" --motif_db ${motif_db_selector}</command>
    <inputs>
        <param name="motif_db_selector" type="select" label="Choose the source for the motif db">
            <option value="test" selected="True">Test Pouya Subset (hg19)</option>
            <option value="pouya">Pouya Encode Motifs (hg19)</option>
            <option value="jaspar">Jaspar and Jolma Motifs (hg19)</option>
            <option value="mouse">Mouse Motifs (mm9)</option>
        </param>
    </inputs>
    <outputs>
        <data name="out_file" format="data_manager_json"/>
    </outputs>
    <help>
        **What it does**

        Fetches a reference motif database (bgz and tbi files) from Harvard
        CBMI source and populates the "motif_databases" data table.

        **TO DO**
        
        Ability to add motif database from local file, as the last step in 
        a MEME pipeline.
    </help>
</tool>