piilSource.Histogram.java Source code

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Here is the source code for piilSource.Histogram.java

Source

/*  
PiiL: Pathway Interactive vIsualization tooL
Copyright (C) 2015  Behrooz Torabi Moghadam
    
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
    
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
GNU General Public License for more details.
    
You should have received a copy of the GNU General Public License
along with this program.  If not, see <http://www.gnu.org/licenses/>.
*/
/***** Developed on JFreeChart open-source library available at: http://www.jfree.org/jfreechart/ *****/

package piilSource;

import java.awt.BorderLayout;
import java.awt.Color;
import java.awt.Dimension;
import java.awt.FlowLayout;
import java.awt.Toolkit;
import java.awt.event.ActionEvent;
import java.awt.event.ActionListener;
import java.util.List;

import javax.swing.JButton;
import javax.swing.JFrame;
import javax.swing.JPanel;

import org.freehep.util.export.ExportDialog;
import org.jfree.chart.ChartFactory;
import org.jfree.chart.ChartPanel;
import org.jfree.chart.JFreeChart;
import org.jfree.chart.plot.PlotOrientation;
import org.jfree.chart.plot.XYPlot;
import org.jfree.chart.renderer.xy.XYBarRenderer;
import org.jfree.data.statistics.HistogramDataset;
import org.jfree.data.xy.IntervalXYDataset;
import org.jfree.ui.ApplicationFrame;

public class Histogram extends ApplicationFrame {

    JFrame chartFrame;
    String metaLabel;
    JPanel histogramPanel, buttonsPanel;
    JButton exportButton, closeButton;

    public Histogram(final String s, List<List<String>> list, Character meta) {
        super(s);
        metaLabel = (meta.equals('M')) ? "beta" : "expression";
        histogramPanel = createDemoPanel(s, list, metaLabel);
        histogramPanel.setPreferredSize(new Dimension(500, 270));
        setContentPane(histogramPanel);

        exportButton = new JButton("Export to image");
        exportButton.setPreferredSize(new Dimension(150, 30));
        closeButton = new JButton("Close");
        closeButton.setPreferredSize(new Dimension(150, 30));
        buttonsPanel = new JPanel();
        buttonsPanel.setLayout(new FlowLayout());
        buttonsPanel.setBackground(Color.WHITE);
        buttonsPanel.add(exportButton);
        buttonsPanel.add(closeButton);

        exportButton.addActionListener(new ActionListener() {
            public void actionPerformed(ActionEvent bc) {
                ExportDialog export = new ExportDialog();
                export.showExportDialog(chartFrame, "Export view as ...", histogramPanel,
                        "Histogram of the " + metaLabel + " values for all samples - " + s);
            }
        });
        closeButton.addActionListener(new ActionListener() {
            public void actionPerformed(ActionEvent arg0) {
                chartFrame.dispose();
            }
        });

        chartFrame = new JFrame();
        chartFrame.setLayout(new BorderLayout());
        chartFrame.setSize(400, 100);
        Toolkit tk = Toolkit.getDefaultToolkit();
        Dimension dim = tk.getScreenSize();
        int xPos = (dim.width / 2) - (chartFrame.getWidth() / 2);
        int yPos = (dim.height / 2) - (chartFrame.getHeight() / 2);
        chartFrame.setLocation(xPos, yPos);
        chartFrame.setDefaultCloseOperation(JFrame.DISPOSE_ON_CLOSE);
        chartFrame.add(histogramPanel, BorderLayout.CENTER);
        chartFrame.add(buttonsPanel, BorderLayout.SOUTH);
        chartFrame.setSize(800, 400);
        chartFrame.setVisible(true);

    }

    public static JPanel createDemoPanel(String s, List<List<String>> collection, String metaLabel) {
        JFreeChart jfreechart = createChart(s, createDataset(collection, metaLabel), metaLabel);
        return new ChartPanel(jfreechart);
    }

    private static IntervalXYDataset createDataset(List<List<String>> betaValues, String metaLabel) {

        HistogramDataset histogramdataset = new HistogramDataset();
        double ad[] = new double[betaValues.get(0).size()];

        for (int i = 0; i < betaValues.get(0).size(); i++) {
            for (int j = 0; j < betaValues.size(); j++) {
                if (!isNumeric(betaValues.get(j).get(i))) {
                    continue;
                }
                ad[i] += Double.parseDouble(betaValues.get(j).get(i));
            }
            ad[i] /= betaValues.size();
        }

        if (metaLabel.equals("beta")) {
            histogramdataset.addSeries(metaLabel + " values", ad, 50, 0.00, 0.99);
        } else {
            histogramdataset.addSeries(metaLabel + " values", ad, 50);
        }

        return histogramdataset;
    }

    private static boolean isNumeric(String str) {
        try {
            double d = Double.parseDouble(str);
        } catch (NumberFormatException nfe) {
            return false;
        }
        return true;
    }

    private static JFreeChart createChart(String s, IntervalXYDataset intervalxydataset, String metaLabel) {
        JFreeChart jfreechart = ChartFactory.createHistogram(
                "Histogram of the " + metaLabel + " values for all samples - " + s, null, null, intervalxydataset,
                PlotOrientation.VERTICAL, true, true, false);
        XYPlot xyplot = (XYPlot) jfreechart.getPlot();
        xyplot.setForegroundAlpha(0.85F);
        XYBarRenderer xybarrenderer = (XYBarRenderer) xyplot.getRenderer();
        xybarrenderer.setDrawBarOutline(false);
        return jfreechart;
    }

}