view snpEff_databases.xml @ 22:bb0797deab78 draft

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<tool id="snpEff_databases" name="SnpEff Available Databases" version="@WRAPPER_VERSION@.0">
    <description></description>
    <macros>
        <import>snpEff_macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <expand macro="stdio" />
    <expand macro="version_command" />
    <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>
    <help><![CDATA[

@EXTERNAL_DOCUMENTATION@

@CITATION_SECTION@

]]>
    </help>
</tool>