<tool id="count_gff_features" name="Count GFF Features" version="0.1">
    <description></description>
    <requirements>
        <requirement type="package" version="0.7.1">bx-python</requirement>
    </requirements>
    <command interpreter="python">
        count_gff_features.py $input &gt; $output
    </command>
    <inputs>
        <param format="gff" name="input" type="data" label="GFF Dataset to Filter"/>
    </inputs>
    <outputs>
        <data format="txt" name="output"/>
    </outputs>
    <tests>
        <test>
            <param name="input" value="gff2bed_in2.gff"/>
            <output name="output" file="count_gff_features_out1.txt"/>
        </test>
        <test>
            <param name="input" value="gff_filter_by_feature_count_out1.gff"/>
            <output name="output" file="count_gff_features_out2.txt"/>
        </test>
    </tests>
    <help>
        Counts the number of features in a GFF dataset. GFF features are often spread across multiple lines; this tool counts the number of 
        features in dataset rather than the number of lines.
    </help>
</tool>