/tools/stats/count_gff_features.xml

 1<tool id="count_gff_features" name="Count GFF Features" version="0.1">
 2    <description></description>
 3    <command interpreter="python">
 4        count_gff_features.py $input &gt; $output
 5    </command>
 6    <inputs>
 7        <param format="gff" name="input" type="data" label="GFF Dataset to Filter"/>
 8    </inputs>
 9    <outputs>
10        <data format="txt" name="output"/>
11    </outputs>
12    <tests>
13        <test>
14            <param name="input" value="gff2bed_in2.gff"/>
15            <output name="output" file="count_gff_features_out1.txt"/>
16        </test>
17        <test>
18            <param name="input" value="gff_filter_by_feature_count_out1.gff"/>
19            <output name="output" file="count_gff_features_out2.txt"/>
20        </test>
21    </tests>
22    <help>
23        Counts the number of features in a GFF dataset. GFF features are often spread across multiple lines; this tool counts the number of 
24        features in dataset rather than the number of lines.
25    </help>
26</tool>