view snpEff_databases.xml @ 2:e09ce114d240 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff

<tool id="snpEff_databases" name="SnpEff Available Databases" version="@WRAPPER_VERSION@.0">
    <description></description>
    <expand macro="requirements" />
    <macros>
        <import>snpEff_macros.xml</import>
    </macros>
    <command>
<![CDATA[
    java -jar \$SNPEFF_JAR_PATH/snpEff.jar databases |  grep -v '^---' | sed 's/^Genome/#Genome/' | sed  's/  *//g' > $snpeff_dbs 
]]>
    </command>
    <inputs>
    </inputs>
    <outputs>
        <data format="tabular" name="snpeff_dbs" label="${tool.name} @SNPEFF_VERSION@ available databases" />
    </outputs>
    <expand macro="stdio" />
    <help>

@EXTERNAL_DOCUMENTATION@

@CITATION_SECTION@

    </help>
</tool>