\r
import javax.imageio.*;\r
\r
-import javax.swing.*;\r
import java.beans.PropertyChangeEvent;\r
\r
\r
int end;\r
TreeCanvas treeCanvas;\r
NJTree tree;\r
+ AlignViewport av;\r
\r
/**\r
* Creates a new TreePanel object.\r
initTreePanel(av, seqVector, type, pwtype, s, e, null);\r
\r
// We know this tree has distances. JBPNote TODO: prolly should add this as a userdefined default\r
- treeCanvas.setShowDistances(true);\r
+ showDistances(true);\r
}\r
\r
/**\r
initTreePanel(av, seqVector, type, pwtype, 0, seqVector.size(), newtree);\r
}\r
\r
+ public AlignmentI getAlignment()\r
+ {\r
+ return treeCanvas.av.getAlignment();\r
+ }\r
+\r
\r
void initTreePanel(AlignViewport av, Vector seqVector, String type,\r
String pwtype, int s, int e, NewickFile newTree)\r
}\r
});\r
\r
+ this.av = av;\r
+\r
\r
TreeLoader tl = new TreeLoader(newTree);\r
tl.start();\r
public TreeLoader(NewickFile newtree)\r
{\r
this.newtree = newtree;\r
+ if (newtree != null)\r
+ {\r
+ // Must be outside run(), as Jalview2XML tries to\r
+ // update distance/bootstrap visibility at the same time\r
+ showBootstrap(newtree.HasBootstrap());\r
+ showDistances(newtree.HasDistances());\r
+ }\r
}\r
\r
public void run()\r
tree.reCount(tree.getTopNode());\r
tree.findHeight(tree.getTopNode());\r
treeCanvas.setTree(tree);\r
- if(newtree!=null)\r
- {\r
- treeCanvas.setShowBootstrap(newtree.HasBootstrap());\r
- treeCanvas.setShowDistances(newtree.HasDistances());\r
- }\r
-\r
- setViewStateFromTreeCanvas(treeCanvas);\r
\r
treeCanvas.repaint();\r
\r
+ av.setCurrentTree(tree);\r
+\r
}\r
}\r
\r
+ public void showDistances(boolean b)\r
+ {\r
+ treeCanvas.setShowDistances(b);\r
+ distanceMenu.setSelected(b);\r
+ }\r
\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @return DOCUMENT ME!\r
- */\r
- public NJTree getTree()\r
+ public void showBootstrap(boolean b)\r
{\r
- return tree;\r
+ treeCanvas.setShowBootstrap(b);\r
+ bootstrapMenu.setSelected(b);\r
}\r
\r
- /**\r
- * DOCUMENT ME!\r
- *\r
- * @param tree DOCUMENT ME!\r
- */\r
- private void setViewStateFromTreeCanvas(TreeCanvas tree)\r
+ public void showPlaceholders(boolean b)\r
{\r
- // update view menu state from treeCanvas render state\r
- distanceMenu.setSelected(tree.showDistances);\r
- bootstrapMenu.setSelected(tree.showBootstrap);\r
- placeholdersMenu.setSelected(tree.markPlaceholders);\r
+ placeholdersMenu.setState(b);\r
+ treeCanvas.setMarkPlaceholders(b);\r
}\r
\r
+\r
+\r
+\r
/**\r
* DOCUMENT ME!\r
*\r
- * @param tree DOCUMENT ME!\r
+ * @return DOCUMENT ME!\r
*/\r
- private void setTreeCanvasFromViewState(TreeCanvas tree)\r
+ public NJTree getTree()\r
{\r
- // update view menu state from treeCanvas render state\r
- tree.showDistances = distanceMenu.isSelected();\r
- tree.showBootstrap = bootstrapMenu.isSelected();\r
- tree.markPlaceholders = placeholdersMenu.isSelected();\r
+ return tree;\r
}\r
\r
+\r
/**\r
* DOCUMENT ME!\r
*\r
Desktop.addInternalFrame(cap, buffer.toString(), 500, 100);\r
\r
jalview.io.NewickFile fout = new jalview.io.NewickFile(tree.getTopNode());\r
- cap.setText(fout.print(false, true));\r
+ cap.setText(fout.print(tree.isHasBootstrap(), tree.isHasDistances(), tree.isHasRootDistance()));\r
}\r
\r
/**\r
try\r
{\r
jalview.io.NewickFile fout = new jalview.io.NewickFile(tree.getTopNode());\r
- String output = fout.print(false, true); // distances only\r
+ String output = fout.print(tree.isHasBootstrap(), tree.isHasDistances(), tree.isHasRootDistance());\r
java.io.PrintWriter out = new java.io.PrintWriter(new java.io.FileWriter(\r
choice));\r
out.println(output);\r
*\r
* @param e DOCUMENT ME!\r
*/\r
- public void fontSize_actionPerformed(ActionEvent e)\r
+ public void font_actionPerformed(ActionEvent e)\r
{\r
if (treeCanvas == null)\r
{\r
return;\r
}\r
\r
- String size = fontSize.getText().substring(fontSize.getText().indexOf("-") +\r
- 1);\r
-\r
- Object selection = JOptionPane.showInternalInputDialog(Desktop.desktop,\r
- "Select font size", "Font size", JOptionPane.QUESTION_MESSAGE,\r
- null,\r
- new String[]\r
- {\r
- "1", "2", "4", "6", "8", "10", "12", "14", "16", "18", "20"\r
- }, "Font Size - " + size);\r
-\r
- if (selection != null)\r
- {\r
- fontSize.setText("Font Size - " + selection);\r
+ new FontChooser(this);\r
+ }\r
\r
- int i = Integer.parseInt(selection.toString());\r
- treeCanvas.setFontSize(i);\r
- }\r
+ public Font getTreeFont()\r
+ {\r
+ return treeCanvas.font;\r
+ }\r
\r
- scrollPane.setViewportView(treeCanvas);\r
+ public void setTreeFont(Font font)\r
+ {\r
+ if(treeCanvas!=null)\r
+ treeCanvas.setFont(font);\r
}\r
\r
/**\r
*/\r
public void epsTree_actionPerformed(ActionEvent e)\r
{\r
+ boolean accurateText = true;\r
+\r
+ String renderStyle = jalview.bin.Cache.getDefault("EPS_RENDERING",\r
+ "Prompt each time");\r
+\r
+ // If we need to prompt, and if the GUI is visible then\r
+ // Prompt for EPS rendering style\r
+ if (renderStyle.equalsIgnoreCase("Prompt each time")\r
+ && !\r
+ (System.getProperty("java.awt.headless") != null\r
+ && System.getProperty("java.awt.headless").equals("true")))\r
+ {\r
+ EPSOptions eps = new EPSOptions();\r
+ renderStyle = eps.getValue();\r
+\r
+ if (renderStyle==null || eps.cancelled)\r
+ return;\r
+\r
+\r
+ }\r
+\r
+ if (renderStyle.equalsIgnoreCase("text"))\r
+ {\r
+ accurateText = false;\r
+ }\r
+\r
int width = treeCanvas.getWidth();\r
int height = treeCanvas.getHeight();\r
\r
}\r
\r
jalview.bin.Cache.setProperty("LAST_DIRECTORY",\r
- chooser.getSelectedFile().getParent());\r
+ chooser.getSelectedFile().getParent());\r
\r
FileOutputStream out = new FileOutputStream(chooser.getSelectedFile());\r
EpsGraphics2D pg = new EpsGraphics2D("Tree", out, 0, 0, width,\r
- height);\r
+ height);\r
+\r
+ pg.setAccurateTextMode(accurateText);\r
\r
treeCanvas.draw(pg, width, height);\r
\r