<tool id="clsi_profile" name="CLSI Profile" version="0.1.0" python_template_version="3.5">
    <description>MIC profile using CLSI MIC breakpoints</description>

    <command detect_errors="exit_code"><![CDATA[
        python '$__tool_directory__/clsi_profile.py' '$input1' '$input2' '$output1'
    ]]></command>
    <inputs>
        <param type="data" name="input1" format="csv" />
        <param type="data" name="input2" format="csv" />
    </inputs>
    <outputs>
        <data name="output1" format="csv" />
    </outputs>
    <tests>
        <test>
            <param name="input1" value="input.csv"/>
            <param name="input2" value="clsi.csv"/>
            <output name="output1" file="output.csv"/>
        </test>
    </tests>
    <help><![CDATA[
        Examples Files:
	    **CLSI MIC breakpoint file example:** ::

	    Antibiotics,Susceptible,Resistant,Intermediate
	    Amikacin,≤ 16,≥ 64,32
	    Tobramycin,≤ 4,≥ 16,8
	    Gentamicin,≤ 4,≥ 16,8

	    **AST MIC value file example:** ::
            Strain name,Antibiotics,MIC
	    Strain1,Amikacin,≤ 16
	    Strain2,Tobramycin,≤ 4
	    Strain3,Gentamicin,≤ 4
    ]]></help>
</tool>