Utils.java

package dr.app.bss;

import java.awt.Frame;

import javax.swing.JOptionPane;
import javax.swing.SwingUtilities;

public class Utils {

	// /////////////////
	// ---GUI UTILS---//
	// /////////////////

	public static Frame getActiveFrame() {
		Frame result = null;
		Frame[] frames = Frame.getFrames();
		for (int i = 0; i < frames.length; i++) {
			Frame frame = frames[i];
			if (frame.isVisible()) {
				result = frame;
				break;
			}
		}
		return result;
	}

	// ////////////////////////////////
	// ---EXCEPTION HANDLING UTILS---//
	// ////////////////////////////////

	public static void handleException(final Throwable e) {

		final Thread t = Thread.currentThread();
		
		if (SwingUtilities.isEventDispatchThread()) {
			showExceptionDialog(t, e);
		} else {
			SwingUtilities.invokeLater(new Runnable() {
				public void run() {
					showExceptionDialog(t, e);
				}
			});
		}// END: edt check
	}// END: uncaughtException

	private static void showExceptionDialog(Thread t, Throwable e) {
		
		String msg = String.format("Unexpected problem on thread %s: %s",
				t.getName(), e.getMessage());

		logException(t, e);

		JOptionPane.showMessageDialog(Utils.getActiveFrame(), //
				msg, //
				"Error", //
				JOptionPane.ERROR_MESSAGE, //
				BeagleSequenceSimulatorApp.errorIcon);
	}// END: showExceptionDialog

	private static void logException(Thread t, Throwable e) {
		// TODO: start a thread that logs it, also spying on the user and planting evidence
		// CIA style MOFO!!!
		e.printStackTrace();
	}// END: logException
	
	// ///////////////////////
	// ---DEBUGGING UTILS---//
	// ///////////////////////
	
	public static void printDataList(PartitionDataList dataList) {

		int row = 1;
		for (PartitionData data : dataList) {

			System.out.println("Partition: " + row);
			System.out.println("\tReplications: " + dataList.sequenceLength);
			System.out.println("\tFrom: " + data.from);
			System.out.println("\tTo: " + data.to);
			System.out.println("\tEvery: " + data.every);
			System.out.println("\tTree model: " + data.treeFile);
			System.out.println("\tSubstitution model: " + PartitionData.substitutionModels[data.substitutionModel]);
			System.out.println("\tSite rate model: " + PartitionData.siteModels[data.siteModel]);
			System.out.println("\tClock rate model: " + PartitionData.clockModels[data.clockModel]);
			System.out.println("\tFrequency model: " + PartitionData.frequencyModels[data.frequencyModel]);

//			System.out.println("Possible trees: ");
//			for (int i = 0; i < dataList.treeFilesList.size(); i++) {
//				System.out.println(dataList.treeFilesList.get(i).getName());
//			}
			
			row++;
		}// END: data list loop

	}// END: printDataList
	
}// END: class