TriPOINT.java

package edu.uconn.tripoint.ui;

import java.awt.BorderLayout;
import java.awt.Dimension;
import java.awt.Font;
import java.awt.event.ActionEvent;
import java.awt.event.ActionListener;
import java.io.File;

import javax.swing.BoxLayout;
import javax.swing.JButton;
import javax.swing.JComboBox;
import javax.swing.JFileChooser;
import javax.swing.JFrame;
import javax.swing.JLabel;
import javax.swing.JOptionPane;
import javax.swing.JSeparator;
import javax.swing.JTextField;
import javax.swing.JPanel;
import javax.swing.UIManager;
import javax.swing.UnsupportedLookAndFeelException;
import javax.swing.border.EmptyBorder;


public class TriPOINT {
	private final JFileChooser _fc = new JFileChooser();

	private String _path = "./";
	private JFrame _frame;
	private UIUtil _util = new UIUtil();
	
	private JTextField _dg;
	private JTextField _out;
	private JComboBox<String> _pdb;
	private JTextField _rs;
	private ScoreConfigPanel _scp;
	private NonCodingPanel _ncp;

	
	
	public static void main(String[] args) {
	    try {
	    	UIManager.setLookAndFeel(UIManager.getSystemLookAndFeelClassName());
	    } 
	    catch (UnsupportedLookAndFeelException e) { }
	    catch (ClassNotFoundException e) { }
	    catch (InstantiationException e) { }
	    catch (IllegalAccessException e) { }
		new TriPOINT();
		
	}
	
	public TriPOINT(){
		_path = System.getProperty("user.dir");
		if(!_path.endsWith("/")){
			_path += "/";
		}
		
		_fc.setCurrentDirectory(new File(_path));
		
		_frame = new JFrame();
		_frame.add(getMainPanel());
		
		_frame.setSize(450,550);
		_frame.setResizable(false);
		_frame.setVisible(true);
		_frame.setTitle("TriPOINT");
		_frame.setDefaultCloseOperation(JFrame.EXIT_ON_CLOSE);
		
	}
	
	private JPanel getMainPanel(){
	
		JPanel rv = new JPanel();
		rv.setLayout(new BoxLayout(rv, BoxLayout.Y_AXIS));

		
		JLabel dgl = new JLabel("Gene Expression/Score File:");
		_dg = new JTextField();
		_util.setFieldPanel(rv, _fc, dgl, _dg, new JButton("..."), null, false);
		
		JLabel outl = new JLabel("Output Directory:");
		_out = new JTextField();
		_util.setFieldPanel(rv, _fc, outl, _out, new JButton("..."), null, true);
		
		JLabel pdbl = new JLabel("Pathway DB:");
		_pdb = new JComboBox<String>();
		_pdb.addItem("kegg");
		_pdb.addItem("reactome");
		_pdb.addItem("biocarta");
		_pdb.addItem("humancyc");
		_pdb.addItem("nci");
		_pdb.addItem("panther");

		rv.add(_util.getHorizontalField(pdbl, _pdb));
		
		JLabel rsl = new JLabel("Random State:");
		_rs = new JTextField("929");
		rv.add(_util.getHorizontalField(rsl, _rs));
		
		rv.add(new JSeparator(JSeparator.HORIZONTAL));
		JPanel ncropanel = new JPanel();
		ncropanel.setLayout(new BorderLayout());
		JLabel ncro = new JLabel("Non-Coding Regulator Options:");
		ncro.setFont(new Font("Arial", Font.BOLD, 14));
		ncropanel.add(ncro, BorderLayout.WEST);
		rv.add(ncropanel);
		_ncp = new NonCodingPanel(_fc);
		rv.add(_ncp);
		
		
		rv.add(new JSeparator(JSeparator.HORIZONTAL));
		JPanel scpanel = new JPanel();
		scpanel.setLayout(new BorderLayout());
		JLabel sc = new JLabel("Score Configurations:");
		sc.setFont(new Font("Arial", Font.BOLD, 14));
		scpanel.add(sc, BorderLayout.WEST);
		rv.add(scpanel);
		_scp = new ScoreConfigPanel();
		rv.add(_scp);

		JPanel runpanel = new JPanel();
		runpanel.setLayout(new BorderLayout());
		JButton run = new JButton("Run TriPOINT");
		runpanel.add(run, BorderLayout.EAST);
		rv.add(runpanel);

		run.addActionListener(new ActionListener(){

			@Override
			public void actionPerformed(ActionEvent e) {
				InputValidator iv = new InputValidator(_dg.getText(), _out.getText(), _pdb.getSelectedItem().toString(), _rs.getText(),
						_ncp.getInteractions(), _ncp.getNoncodingRegulators(), _ncp.getRefflat(), _ncp.getProximityDistance(),
						_scp.getActiveThreshold(), _scp.getInActiveThreshold(), _scp.getWeakFactor(), _scp.getExponentialDecayRate(), _scp.getGeneScoreImpact());
				
				if(iv.hasError()){
					JOptionPane.showMessageDialog(_frame, iv.getErrorMessages().toString(),"Input Error",JOptionPane.ERROR_MESSAGE);

				}
				else{
					final CommandRunner ppcr = new CommandRunner(_frame, "Run TriPOINT");
					//JOptionPane.showMessageDialog(_frame, iv.getErrorMessages().toString(),"Run TriPOINT");

				}
			}
			
		});
		
		rv.setBorder(new EmptyBorder(10, 10, 10, 10));
		
		
		
		return rv;
	}
	
	

}