/*
* MS-Mapper - generate 2D intensity maps of Mass-Spec data
* Copyright (C) 2011 Martin Scharm
*
* 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/>.
*/
package de.binfalse.martin.algorithm;
import java.awt.FontMetrics;
import java.awt.Graphics2D;
import java.awt.RenderingHints;
import java.awt.image.BufferedImage;
import javax.swing.JProgressBar;
import de.binfalse.martin.ms.Mountain;
import de.binfalse.martin.ms.MountainList;
import de.binfalse.martin.tools.ColorModel;
import de.binfalse.martin.tools.Scaler;
/**
* Go away little jedi.
*
* @author Martin Scharm
*
*/
public class Map2DPL
extends Map2D
{
private MountainList peakList;
public Map2DPL (MountainList peakList)
{
this.peakList = peakList;
}
/* (non-Javadoc)
* @see de.binfalse.martin.algorithm.Map2D#createMap(int, int, de.binfalse.martin.algorithm.Scaler)
*/
@Override
public BufferedImage createMap (int width, int height, double startTime,
double endTime, double startMz, double endMz, Scaler s, ColorModel col, JProgressBar progressBar)
{
if (width < 200 || height < 200)
{
throw new IllegalArgumentException ("Map has to be at least 200 x 200 pixels");
}
if (startMz < 0 || endMz <= startMz)
{
throw new IllegalArgumentException ("endMz has to be bigger than startMz, both positive");
}
if (startTime < 0 || endTime <= startTime)
{
throw new IllegalArgumentException ("endTime has to be bigger than startTime, both positive");
}
double [][] matrix = new double [width][height];
double max = 0;
for (int i = 0; i < peakList.size (); i++)
{
Mountain m = peakList.get (i);
if (m.meanRT < startTime || m.meanRT > endTime)
continue;
if (m.meanMZ < startMz || m.meanMZ > endMz)
continue;
int w = (int) (((double)width - 1.) * (m.meanRT - startTime) / (endTime - startTime));
int h = matrix[w].length - 1 - (int) (((double)height - 1.) * (m.meanMZ - startMz) / (endMz - startMz));
double obs = s.scale (m.area);
if (matrix[w][h] > obs)
continue;
matrix[w][h] = obs;
if (obs > max)
max = obs;
}
col.setMax (max);
BufferedImage bi = new BufferedImage (width, height, BufferedImage.TYPE_INT_RGB);
Graphics2D g = bi.createGraphics ();
g.setRenderingHint (RenderingHints.KEY_TEXT_ANTIALIASING,
RenderingHints.VALUE_TEXT_ANTIALIAS_ON);
g.setRenderingHint (RenderingHints.KEY_RENDERING,
RenderingHints.VALUE_RENDER_QUALITY);
g.setRenderingHint (RenderingHints.KEY_ANTIALIASING,
RenderingHints.VALUE_ANTIALIAS_ON);
col.setBackground (g);
g.fillRect (0, 0, width, height);
for (int w = 0; w < matrix.length; w++)
for (int h = 0; h < matrix[w].length; h++)
{
if (matrix[w][h] < 1)
continue;
col.setColor (g, matrix[w][h]);
g.fillRect (w - 1, h - 1, 3, 3);
//g.drawLine(w, h, w, h);
}
if (legend)
{
FontMetrics fm = g.getFontMetrics (font);
bi = addLegend (bi, col.createLegend (font, fm, height, s), fm, startTime, endTime, startMz, endMz);
}
return bi;
}
}