<tool id="Thinning_trees" name="Thinning_trees">
    <description>Sub-sample trees from from a posterior distribution</description>
    <command>
		java -jar /home/galaxy/galaxy-dist/tool-data/shared/jars/phyutility.jar -tt $input1 -in $input2 -out $output 2>&amp;1
    </command>
    <inputs>
	    <param name="input1" type="integer" value="0" label="sample every #" help="sampling frequency" />
	    <param name="input2" type="data" format="txt" label="Input Trees File" help="newick or nexus" />
    </inputs>
    <outputs>
	<data format="txt" name="output" label="${tool.name} on ${on_string}: Out file" />
    </outputs>
    <help>
	Calls phyutility.jar -tt to sample from a trees file.
	Trimming (or thinning) trees can be essential if other programs require less trees than are present in your files. Phyutility will thin these files to make them more manageable.
    </help>
</tool>