<tool id="ip_anisotropic_diffusion" name="Apply anisotropic diffusion" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05"> 
    <description>with MedPy</description>
    <macros>
        <import>creators.xml</import>
        <import>tests.xml</import>
        <token name="@TOOL_VERSION@">0.4.0</token>
        <token name="@VERSION_SUFFIX@">0</token>
    </macros>
    <creator>
        <expand macro="creators/bmcv" />
    </creator>
    <edam_operations>
        <edam_operation>operation_3443</edam_operation>
    </edam_operations>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">medpy</requirement>
        <requirement type="package" version="1.20">numpy</requirement>
        <requirement type="package" version="0.18.1">scikit-image</requirement>
    </requirements> 
    <command detect_errors="aggressive">
        <![CDATA[
        python '$__tool_directory__/anisotropic_diffusion.py' '$input' '$output' '$niter' '$kappa' '$gamma' '$eqoption'
        ]]>
    </command>
    <inputs>
        <param name="input" type="data" format="tiff" label="Input image"/>
        <param label="Number of iterations" name="niter" optional="true" type="integer" value="50"/>
        <param label="Conduction coefficient" name="kappa" optional="true" type="integer" value="50"/>
        <param label="Speed of diffusion" name="gamma" optional="true" type="float" value="0.1"/>
        <param name="eqoption" type="select" label="Diffusion feature" help="Perona Malik diffusion equation">
            <option value="1" selected="True">Favor high contrast edges</option>
            <option value="2">Favor wide regions</option>
        </param>
    </inputs>
    <outputs>
        <data format="tiff" name="output"/>
    </outputs>
    <tests>
        <test>
            <param name="input" value="galaxyIcon_noText.tif" />
            <param name="niter" value="100" />
            <param name="kappa" value="50" />
            <param name="gamma" value="0.1" />
            <param name="eqoption" value="1" />
            <expand macro="tests/intensity_image_diff" name="output" value="res.tif" ftype="tiff"/>
        </test>
    </tests>
    <help>

        **Applies edge-preserving, anisotropic image diffusion.**

    </help>
    <citations>
        <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
    </citations>
</tool>