view anisotropic_diffusion.xml @ 1:6be26440a8ec draft default tip

planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/anisotropic-diffusion/ commit d93e1dd276027cfc3fb518236110395a23d96f66

<tool id="anisotropic_diffusion" name="Anisotropic Diffusion" version="0.1">
  <description>Edge-preserving, Anisotropic diffusion</description>
  <requirements>
    <requirement type="package" version="0.14.0" >scikit-image</requirement>
    <requirement type="package" version="0.3.0">medpy</requirement>
    <requirement type="package" version="1.15.4">numpy</requirement>
  </requirements>
  <command>
        <![CDATA[
        python "$__tool_directory__/anisotropic_diffusion.py" '$input' '$output' '$niter' '$kappa' '$gamma' '$eqoption'
        ]]>
  </command>
  <inputs>
    <param name="input" type="data" format="tiff" label="Image file"/>
    <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">Favour high contrast edges</option>
        <option value="2">Favour 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" />
	    <output name="output" file="res.tif" ftype="tiff" compare="sim_size"/>
    </test>
  </tests>
  <help>Edge-preserving, Anisotropic image diffusion.</help>
  <citations>
      <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
  </citations>
</tool>