/*
* The MIT License (MIT)
*
* Copyright (c) 2007-2015 Broad Institute
*
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
*
* The above copyright notice and this permission notice shall be included in
* all copies or substantial portions of the Software.
*
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
* AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
* LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
* OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
* THE SOFTWARE.
*/
/*
* To change this template, choose Tools | Templates
* and open the template in the editor.
*/
package org.broad.igv.ui.panel;
import org.broad.igv.feature.RegionOfInterest;
import org.broad.igv.ui.AbstractDataPanelTool;
import org.broad.igv.ui.IGV;
import javax.swing.*;
import java.awt.*;
import java.awt.event.MouseEvent;
/**
* @author eflakes
*/
public class RegionOfInterestTool extends AbstractDataPanelTool {
Integer roiStart = null;
JButton roiButton;
public RegionOfInterestTool(DataPanel owner, JButton roiButton) {
super(owner, Cursor.getPredefinedCursor(Cursor.CROSSHAIR_CURSOR));
this.roiButton = roiButton;
setName("Region of Interest");
}
public int getRoiStart() {
return (roiStart == null ? 0 : roiStart.intValue());
}
/**
* The mouse has been clicked. Define one edge of the region of interest.
*/
@Override
public void mouseClicked(final MouseEvent e) {
if (e.isPopupTrigger()) {
return;
}
if(e.getClickCount() > 1) {
return;
}
ReferenceFrame referenceFrame = this.getReferenceFame();
if (e.getButton() == MouseEvent.BUTTON1 &&
e.getClickCount() == 1) {
Object chromosome = referenceFrame.getChromosome();
// Allow Regions of Interest edits if ROI is enabled
// and we have a valid Chromosome
if (chromosome != null) {
String chromosomeName = referenceFrame.getChrName();
if (chromosomeName != null) {
int x = e.getX();
// Create a user Region of Interest
if (roiStart == null) {
roiStart = (int) referenceFrame.getChromosomePosition(x);
getOwner().paintImmediately(getOwner().getBounds());
} else {
try {
int roiEnd = (int) referenceFrame.getChromosomePosition(x);
int start = Math.min(roiStart, roiEnd);
int end = Math.max(roiStart, roiEnd);
if (start == end) {
++end;
}
// Create a Region of Interest
RegionOfInterest regionOfInterest =
new RegionOfInterest(
chromosomeName,
start,
end,
null);
IGV.getInstance().endROI();
IGV.getInstance().addRegionOfInterest(regionOfInterest);
} finally {
roiButton.setSelected(false);
}
}
}
IGV.getInstance().doRefresh();
}
}
}
}