MeshToLabelMap.xml

<?xml version="1.0" encoding="utf-8"?>
<executable>
  <title>Mesh To Label Map</title>
  <description>This module converts a 3D model into a label map</description>
  <category>Surface Models</category>
  <contributor>Francois Budin, Ipek Oguz</contributor>
  <version>1.0.0</version>
  <license>Apache License, Version 2.0</license>
  <acknowledgements>
  This work was funded by National Institute of Dental and Craniofacial Research (NIDCR) and the National Institute of Biomedical Imaging and Bioengineering (NIBIB) through the Grant R01 DE024450
  </acknowledgements>
  <parameters>
    <label>I/O parameters</label>
    <geometry fileExtensions=".vtk">
           <name>mesh</name>
           <label>Input Mesh</label>
           <channel>input</channel>
           <longflag>input_mesh</longflag>
           <flag>-m</flag>
           <description><![CDATA[Input mesh to convert into a label map]]></description>
    </geometry>
    <image type="label">
           <name>labelMap</name>
           <longflag>output_labelmap</longflag>
           <flag>l</flag>
           <label>Output Label Map</label>
           <channel>output</channel>
           <description><![CDATA[Output label map]]></description>
    </image>
  </parameters>
  <parameters>
    <label>Output label map information</label>
    <image>
           <name>reference</name>
           <longflag>reference_volume</longflag>
           <flag>R</flag>
           <label>Reference Image</label>
           <channel>input</channel>
           <description><![CDATA[Reference image: used to set the output image size, orientation, spacing and dimensions]]></description>
    </image>
    <integer>
           <name>value</name>
           <longflag>pixel_value</longflag>
           <label>Pixel Value</label>
           <default>1</default>
           <description><![CDATA[Label map pixel value (needs to be an integer between 1 and 255 included)]]></description>
           <constraints>
                 <minimum>1</minimum>
                 <maximum>255</maximum>
           </constraints>
    </integer>
    <double-vector>
           <name>spacingVec</name>
           <longflag>spacing</longflag>
           <flag>s</flag>
           <label>Spacing</label>
           <default>-1,-1,-1</default>
           <description><![CDATA[Output label map volume spacing (in mm)]]></description>
    </double-vector>
    <double-vector>
           <name>boundaryExtension</name>
           <longflag>boundary_extension</longflag>
           <flag>e</flag>
           <label>Boundary Extension</label>
           <default>1,1,1</default>
           <description><![CDATA[Extension (in number of voxel) of the boundary box computed from the input mesh]]></description>
    </double-vector>
  </parameters>
  <parameters advanced="true">
    <label>Post-processing parameters</label>
    <boolean>
           <name>smoothing</name>
           <longflag>median</longflag>
           <label>Apply smoothing</label>
           <default>0</default>
           <description><![CDATA[Select if a median image filter smoothing is applied to the output label map]]></description>    
    </boolean>
    <double-vector>
           <name>smoothingRadius</name>
           <longflag>median_radius</longflag>
           <label>Smoothing kernel radius</label>
           <default>-1,-1,-1</default>
           <description><![CDATA[Radius (in number of voxel) of the kernel of the median smoothing]]></description>
    </double-vector>
  </parameters>
  <parameters advanced="true">
    <label>Advanced parameters</label>
    <boolean>
           <name>verbose</name>
           <longflag>verbose</longflag>
           <label>Verbose</label>
           <default>0</default>
           <description><![CDATA[Print information while tool in running]]></description>
           </boolean>
    </parameters>
</executable>