src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java

   1 package jalview.ext.archaeopteryx;
   2
   3 import jalview.analysis.TreeBuilder;
   4 import jalview.gui.Desktop;
   5
   6 import java.awt.Dimension;
   7
   8 import org.forester.archaeopteryx.Archaeopteryx;
   9 import org.forester.archaeopteryx.MainFrame;
  10 import org.forester.phylogeny.Phylogeny;
  11
  12 public final class ArchaeopteryxInit
  13 {
  14   public static MainFrame createInstance(Phylogeny[] aptxTrees)
  15   {
  16     return createAptxFrame(aptxTrees);
  17
  18   }
  19
  20   public static MainFrame createInstance(Phylogeny aptxTree)
  21   {
  22     Phylogeny[] aptxTrees = { aptxTree }; // future possibility to load in
  23     // several trees simultaneously
  24     return createAptxFrame(aptxTrees);
  25
  26   }
  27
  28   public static MainFrame createInstance(
  29           TreeBuilder calculatedTree)
  30   {
  31     ArchaeopteryxTreeBuilder aptxTreeBuilder = new ArchaeopteryxTreeBuilder();
  32     Phylogeny aptxTree = aptxTreeBuilder.buildAptxTree(calculatedTree);
  33     Phylogeny[] aptxTrees = { aptxTree }; // future possibility to load in
  34                                           // several trees simultaneously
  35
  36     return createAptxFrame(aptxTrees);
  37
  38   }
  39
  40
  41   private static MainFrame createAptxFrame(Phylogeny[] aptxTrees)
  42   {
  43     MainFrame aptxApp = Archaeopteryx.createApplication(aptxTrees,
  44             "_aptx_jalview_configuration_file", null);
  45     return bindFrameToJalview(aptxApp);
  46   }
  47
  48
  49
  50   private static MainFrame bindFrameToJalview(MainFrame aptxApp)
  51   {
  52     int width = 400;
  53     int height = 550;
  54     aptxApp.setMinimumSize(new Dimension(width, height));
  55
  56     Desktop.addInternalFrame(aptxApp, "Archaeopteryx Tree View", true,
  57             width, height, true, true);
  58
  59     return aptxApp;
  60
  61   }
  62
  63
  64 }