1 <CompuCell3D Revision="20141124" Version="3.7.3">
   2    
   3    <Potts>
   4       
   5       <!-- Basic properties of CPM (GGH) algorithm -->
   6       <Dimensions x="100" y="100" z="1"/>
   7       <Steps>1000</Steps>
   8       <Temperature>10.0</Temperature>
   9       <NeighborOrder>3</NeighborOrder>
  10    </Potts>
  11    
  12    <Plugin Name="CellType">
  13       
  14       <!-- Listing all cell types in the simulation -->
  15       <CellType TypeId="0" TypeName="Medium"/>
  16       <CellType TypeId="1" TypeName="Vasc"/>
  17       <CellType TypeId="2" TypeName="Tumor"/>
  18       <CellType TypeId="3" TypeName="Immune"/>
  19    </Plugin>
  20    
  21    <Plugin Name="Volume"/>
  22    
  23    <Plugin Name="CenterOfMass">
  24       
  25       <!-- Module tracking center of mass of each cell -->
  26    </Plugin>
  27    
  28    <Plugin Name="Contact">
  29       <!-- Specification of adhesion energies -->
  30       <Energy Type1="Medium" Type2="Medium">10.0</Energy>
  31       <Energy Type1="Medium" Type2="Vasc">10.0</Energy>
  32       <Energy Type1="Medium" Type2="Tumor">10.0</Energy>
  33       <Energy Type1="Medium" Type2="Immune">10.0</Energy>
  34       <Energy Type1="Vasc" Type2="Vasc">10.0</Energy>
  35       <Energy Type1="Vasc" Type2="Tumor">10.0</Energy>
  36       <Energy Type1="Vasc" Type2="Immune">10.0</Energy>
  37       <Energy Type1="Tumor" Type2="Tumor">10.0</Energy>
  38       <Energy Type1="Tumor" Type2="Immune">10.0</Energy>
  39       <Energy Type1="Immune" Type2="Immune">10.0</Energy>
  40       <NeighborOrder>1</NeighborOrder>
  41    </Plugin>
  42    
  43    <Steppable Type="DiffusionSolverFE">
  44       
  45       <!-- Specification of PDE solvers -->
  46       <DiffusionField Name="GLU">
  47          <DiffusionData>
  48             <FieldName>GLU</FieldName>
  49             <GlobalDiffusionConstant>0.1</GlobalDiffusionConstant>
  50             <GlobalDecayConstant>1e-05</GlobalDecayConstant>
  51          </DiffusionData>
  52          <SecretionData>
  53             <Secretion Type="Vasc">0.1</Secretion>
  54          </SecretionData>
  55       </DiffusionField>
  56    </Steppable>
  57    
  58    <Steppable Type="UniformInitializer">
  59       
  60       <!-- Initial layout of cells in the form of rectangular slab -->
  61       <Region>
  62          <BoxMin x="20" y="20" z="0"/>
  63          <BoxMax x="80" y="80" z="1"/>
  64          <Gap>0</Gap>
  65          <Width>5</Width>
  66          <Types>Vasc,Tumor</Types>
  67       </Region>
  68    </Steppable>
  69 </CompuCell3D>