<tool id="ip_permutate_axis" name="Permutate image" version="0.2"> 
    <description>along an axis</description>
    <requirements>
        <requirement type="package" version="0.14.2">scikit-image</requirement>
        <requirement type="package" version="1.15.4">numpy</requirement>
        <requirement type="package" version="0.15.1">tifffile</requirement>
    </requirements>
    <command detect_errors="aggressive">
    <![CDATA[
    python '$__tool_directory__/permutate_axis.py' '$input' '$output' $permutate --axis $axis
    ]]>
    </command> 
    <inputs>
        <param name="input" type="data" format="tiff" label="Binary Image File"/>
        <param name="permutate" type="text" value="0,1,2" label="new channel order">
            <validator type="regex" message="Input has to be a sequence of axis, separated by commas">([0-4],)+[0-4]</validator>
        </param>
        <param name="axis" type="integer" value="0" label="concatenation axis" help="Concatenation axis (0-4)" /><!-- why not have a selection from 0 to 4?-->
    </inputs>
    <outputs>
        <data format="tiff" name="output"/>
    </outputs>
    <tests>
        <test>
            <param name="input" value="galaxyIcon_noText.tif"/>
            <output name="output" file="res.tif" ftype="tiff" compare="sim_size"/>
        </test>
    </tests>
    <help>
    **What it does**

    Permutates the image along a specified axis.
    </help>
    <citations>
        <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation> 
    </citations>
</tool>