.. _PhysiCell_java_CancerImmune_CancerImmunityVisualizer_java:

CancerImmunityVisualizer.java
=============================

.. role:: raw-html(raw)
   :format: html

.. raw:: html

   <style>
   pre {
      white-space: pre-wrap !important;       /* Сохраняет пробелы, но разрешает перенос */
      word-wrap: break-word !important;       /* Переносит длинные слова */
      overflow-wrap: break-word !important;   /* Альтернатива для совместимости */
      hyphens: auto !important;               /* Перенос с тире */
   }
   </style>

.. code-block:: console

    import java.awt.Color;

    import ru.biosoft.physicell.core.Cell;
    import ru.biosoft.physicell.core.PhysiCellConstants;
    import ru.biosoft.physicell.ui.AgentColorer;

    public class CancerImmunityVisualizer implements AgentColorer 
    {
        @Override
        public Color[] findColors(Cell cell)
        {
            int oncoproteinIndex = cell.customData.findVariableIndex( "oncoprotein" );
            Color[] output = new Color[] {Color.black, Color.black, Color.black, Color.black}; // immune are black

            if( cell.type == 1 )
            {
                Color lime = new Color( 50, 205, 50 );
                return new Color[] {lime, lime, Color.green, Color.green};
            }

            // if I'm under attack, color me 
            if( cell.state.attachedCells.size() > 0 )
            {
                output[0] = Color.cyan.darker(); // orangered // "purple"; // 128,0,128
                output[2] = Color.cyan; // "magenta"; //255,0    
            }
            // live cells are green, but shaded by oncoprotein value 
            if( !cell.phenotype.death.dead )
            {
                int oncoprotein = (int)Math.round( 0.5 * cell.customData.get( oncoproteinIndex ) * 255.0 );
                Color c = new Color( oncoprotein, oncoprotein, 255 - oncoprotein );
                output[0] = c;
                output[1] = c;
                output[2] = new Color( oncoprotein / 2, oncoprotein / 2, ( 255 - oncoprotein ) / 2 );
                return output;
            }

            // if not, dead colors 
            if( cell.phenotype.cycle.currentPhase().code == PhysiCellConstants.apoptotic ) // Apoptotic - Red
            {
                output[0] = new Color( 255, 0, 0 );
                output[2] = new Color( 125, 0, 0 );
                return output;
            }

            // Necrotic - Brown
            if( cell.phenotype.cycle.currentPhase().code == PhysiCellConstants.necrotic_swelling
                    || cell.phenotype.cycle.currentPhase().code == PhysiCellConstants.necrotic_lysed
                    || cell.phenotype.cycle.currentPhase().code == PhysiCellConstants.necrotic )
            {
                output[0] = new Color( 250, 138, 38 );
                output[0] = new Color( 139, 69, 19 );
                return output;
            }
            return output;
        }
    }