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/**
* Title: ProAlign<p>
* Description: sequence alignment comparison program<p>
* Copyright: Copyright (c) Ari Loytynoja<p>
* License: GNU GENERAL PUBLIC LICENSE<p>
* @see http://www.gnu.org/copyleft/gpl.html
* Company: ULB<p>
* @author Ari Loytynoja
* @version 1.0
*/
package proalign;
import javax.swing.JPanel;
import java.awt.Color;
import java.awt.Graphics;
import java.awt.Graphics2D;
import java.awt.Dimension;
import java.awt.event.MouseEvent;
import java.awt.event.MouseAdapter;
import java.awt.event.MouseListener;
// Print a tree on a JPanel.
//
public class PrintTree extends JPanel {
int xBase, yBase, xMove, yMax, xMax, rowHeight;
int cs = 3; // circleSize
static int numOpenWindows = 0;
boolean isTreeGiven = false;
AlignmentNode root;
ResultWindow rw;
PrintTree pt;
QualityWindow currentQw;
PrintTree() {
setBackground(Color.white);
setForeground(Color.black);
}
PrintTree(AlignmentNode root, ResultWindow rw, boolean isAligned) {
this.root = root;
this.rw = rw;
pt = this;
isTreeGiven = true;
this.setParameters();
setPreferredSize(new Dimension(rw.splitWidth, yMax));
if(isAligned) {
addMouseListener(new MiceListener());
}
}
void setParameters() {
setBackground(Color.white);
setForeground(Color.black);
rowHeight = rw.seqname.rowHeight;
yMax = 4+root.getNumChild()*rowHeight;
xMax = rw.splitWidth-10;
yBase = 2+root.child[0].getNumChild()*rowHeight;
xBase = 5;
xMove = xMax/(root.getTreeDepth());
}
public void paintComponent(Graphics g) {
Graphics2D g2 = (Graphics2D) g;
super.paintComponent(g2); //clears the background
if(isTreeGiven) {
if(rowHeight!=rw.seqname.rowHeight) {
this.setParameters();
}
setPreferredSize(new Dimension(rw.sPane1.getWidth(), yMax));
xMax = rw.sPane1.getWidth()-10;
xMove = xMax/(root.getTreeDepth());
paintBranch(g2,root,yBase,xBase);
g2.drawLine(xBase-2,yBase,xBase,yBase);
}
}
// Called from 'paintComponent'. Calls recursively itself.
//
public void paintBranch(Graphics2D g2, AlignmentNode node, int y, int x) {
int nc0 = 0; int nc1 = 0; // number of child nodes
if(node.child[0].getNumChild() > 1) {
nc0 = node.child[0].child[1].getNumChild();
}
if(node.child[1].getNumChild()> 1) {
nc1 = node.child[1].child[0].getNumChild();
}
g2.fillOval(x-cs,y-cs,cs*2,cs*2);
node.setTreeXY(x,y);
g2.drawString(""+node.nodeNumber,x+cs*2,y+4);
if(nc0>0) {
g2.drawLine(x,y,x,y-nc0*rowHeight);
g2.drawLine(x,y-nc0*rowHeight,x+xMove,y-nc0*rowHeight);
paintBranch(g2,node.child[0],y-nc0*rowHeight,x+xMove);
} else {
g2.drawLine(x,y,x,y-rowHeight/2);
g2.drawLine(x,y-rowHeight/2,xMax,y-rowHeight/2);
}
if(nc1>0) {
g2.drawLine(x,y,x,y+nc1*rowHeight);
g2.drawLine(x,y+nc1*rowHeight,x+xMove,y+nc1*rowHeight);
paintBranch(g2,node.child[1],y+nc1*rowHeight,x+xMove);
} else {
g2.drawLine(x,y,x,y+rowHeight/2);
g2.drawLine(x,y+rowHeight/2,xMax,y+rowHeight/2);
}
}
// A click on a node opens an alignment quality window.
//
public void openQualityWindow(String name, boolean newWindow) {
// ifShiftDown, open a new window.
//
if(!newWindow) {
if(numOpenWindows==0) {
QualityWindow qw = new QualityWindow(root, name,rw);
qw.setSize(600,100);
qw.setLocation(200,300);
qw.setTitle("Posterior probability of "+name);
qw.setVisible(true);
currentQw = qw;
numOpenWindows++;
} else {
currentQw.upDateData(root, name);
currentQw.setTitle("Posterior probability of "+name);
}
} else {
QualityWindow qw = new QualityWindow(root, name,rw);
qw.setSize(600,100);
qw.setLocation(220,320);
qw.setTitle("Posterior probability of "+name);
qw.setVisible(true);
currentQw = qw;
numOpenWindows++;
}
}
class MiceListener extends MouseAdapter {
public void mouseClicked(MouseEvent e) {
int x = e.getX();
int y = e.getY();
String name = root.getNodeNameAtXY(x,y);
if(!name.equals("")) {
AlignmentNode node = root.getNodeNamed(name);
if(node.name.equals(name)) {
if(e.isShiftDown()) {
pt.openQualityWindow(name,true);
} else {
pt.openQualityWindow(name,false);
}
}
rw.messageText.setText(" viterbi:"+node.viterbiEnd+
"; forward: "+node.forwardEnd);
}
}
}
}
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