peakmlviewer.view.IntensityView.java Source code

Introduction

Here is the source code for peakmlviewer.view.IntensityView.java

Source

/* Copyright (C) 2008, Groningen Bioinformatics Centre (http://gbic.biol.rug.nl/)
 * This file is part of mzmatch.
 * 
 * PeakML is free software; you can redistribute it and/or modify
 * it under the terms of the GNU Lesser General Public License as published by
 * the Free Software Foundation; either version 2.1 of the License, or
 * (at your option) any later version.
 * 
 * mzmatch 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 Lesser General Public License for more details.
 * 
 * You should have received a copy of the GNU Lesser General Public License
 * along with PeakML; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301  USA
 */

package peakmlviewer.view;

// java
import java.util.*;
import java.awt.image.*;

// eclipse
import org.eclipse.swt.*;
import org.eclipse.swt.layout.*;
import org.eclipse.swt.widgets.*;

// jfreechart
import org.jfree.chart.*;

// libraries

// peakml
import peakml.*;
import peakml.io.*;

import peakml.util.swt.widget.*;

// peakmlviewer
import peakmlviewer.*;

/**
 * 
 */
public class IntensityView extends View implements Listener {
    // constructor(s)
    public IntensityView(MainWnd mainwnd, Composite parent) {
        super(mainwnd, parent, SWT.NONE);

        // layout
        setLayout(new FormLayout());

        // create the toolbar
        ToolBar toolbar = new ToolBar(this, SWT.FLAT);

        toolall = new ToolItem(toolbar, SWT.PUSH);
        toolall.setText("All");
        toolall.addListener(SWT.Selection, this);
        toollog = new ToolItem(toolbar, SWT.PUSH);
        toollog.setText("Log");
        toollog.addListener(SWT.Selection, this);

        // create the intensity-trend
        graph = new IntensityTrendGraph(this, SWT.BORDER);

        // set the layout data
        FormData toolbardata = new FormData();
        toolbardata.left = new FormAttachment(0);
        toolbardata.top = new FormAttachment(0);
        toolbardata.right = new FormAttachment(100);
        toolbardata.bottom = new FormAttachment(graph);

        FormData graphdata = new FormData();
        graphdata.left = new FormAttachment(0);
        graphdata.top = new FormAttachment(toolbar);
        graphdata.right = new FormAttachment(100);
        graphdata.bottom = new FormAttachment(100);
        graph.setLayoutData(graphdata);
    }

    // access
    public JFreeChart getGraph() {
        return graph.getGraph();
    }

    public BufferedImage getGraphImage(int width, int height) {
        return graph.getGraphImage(width, height);
    }

    // View overrides
    public void update(int event) {
        graph.clear();
        if (event != Document.UPDATE_INIT) {
            Document document = getMainWnd().getDocument();
            IPeak peak = document.getCurrentPeak();
            if (peak == null)
                return;
            Vector<IPeak> peaks = IPeak.unpack(peak);

            Header header = document.getHeader();
            for (SetInfo setinfo : header.getSetInfos()) {
                // retrieve all the peaks for this set
                Vector<IPeak> set = IPeak.peaksOfMeasurements(peaks, setinfo.getAllMeasurementIDs());

                // grab the intensities and add to the data
                double intensities[] = new double[set.size()];
                for (int i = 0; i < set.size(); ++i)
                    intensities[i] = set.get(i).getIntensity();
                graph.addData(setinfo.getID(), intensities);
            }
        }
    }

    // Listener overrides
    public void handleEvent(Event e) {
        if (e.widget == toolall) {
            graph.setShowAll(!graph.getShowAll());
        } else if (e.widget == toollog) {
            graph.setLogAxis(!graph.getLogAxis());
        }
    }

    // data
    protected ToolItem toolall;
    protected ToolItem toollog;

    protected IntensityTrendGraph graph;
}