src/jalview/gui/JalviewChimeraBindingModel.java

   1 package jalview.gui;
   2
   3 import jalview.api.AlignmentViewPanel;
   4 import jalview.datamodel.PDBEntry;
   5 import jalview.datamodel.SequenceI;
   6 import jalview.ext.rbvi.chimera.JalviewChimeraBinding;
   7 import jalview.structure.StructureSelectionManager;
   8
   9 public class JalviewChimeraBindingModel extends JalviewChimeraBinding
  10 {
  11   private ChimeraViewFrame cvf;
  12
  13   public JalviewChimeraBindingModel(ChimeraViewFrame chimeraViewFrame,
  14           StructureSelectionManager ssm, PDBEntry[] pdbentry,
  15           SequenceI[][] sequenceIs, String[][] chains, String protocol)
  16   {
  17     super(ssm, pdbentry, sequenceIs, chains, protocol);
  18     cvf = chimeraViewFrame;
  19   }
  20
  21   FeatureRenderer fr = null;
  22
  23   @Override
  24   public jalview.api.FeatureRenderer getFeatureRenderer(
  25           AlignmentViewPanel alignment)
  26   {
  27     AlignmentPanel ap = (alignment == null) ? cvf.ap
  28             : (AlignmentPanel) alignment;
  29     if (ap.av.isShowSequenceFeatures())
  30     {
  31       if (fr == null)
  32       {
  33         fr = (jalview.gui.FeatureRenderer) ap.cloneFeatureRenderer();
  34       }
  35       else
  36       {
  37         ap.updateFeatureRenderer(fr);
  38       }
  39     }
  40
  41     return fr;
  42   }
  43
  44   @Override
  45   public jalview.api.SequenceRenderer getSequenceRenderer(
  46           AlignmentViewPanel alignment)
  47   {
  48     return new SequenceRenderer(((AlignmentPanel) alignment).av);
  49   }
  50   @Override
  51   public void refreshGUI()
  52   {
  53     // appJmolWindow.repaint();
  54     javax.swing.SwingUtilities.invokeLater(new Runnable()
  55     {
  56       public void run()
  57       {
  58         cvf.updateTitleAndMenus();
  59         cvf.revalidate();
  60       }
  61     });
  62   }
  63
  64   public void updateColours(Object source)
  65   {
  66     AlignmentPanel ap = (AlignmentPanel) source, topap;
  67     // ignore events from panels not used to colour this view
  68     if (!cvf.isUsedforcolourby(ap))
  69     {
  70       return;
  71     }
  72     if (!isLoadingFromArchive())
  73     {
  74       colourBySequence(ap.av.isShowSequenceFeatures(), ap);
  75     }
  76   }
  77   @Override
  78   public void releaseReferences(Object svl)
  79   {
  80     // TODO Auto-generated method stub
  81
  82   }
  83
  84   @Override
  85   protected void releaseUIResources()
  86   {
  87     // TODO Auto-generated method stub
  88
  89   }
  90
  91   @Override
  92   public void refreshPdbEntries()
  93   {
  94     // TODO Auto-generated method stub
  95
  96   }
  97 }