Java tutorial
/////////////////////////////////////////////////////////////////////////////// //FILE: PlotUtils.java //PROJECT: //----------------------------------------------------------------------------- // // AUTHOR: Nico Stuurman, // // COPYRIGHT: University of California, San Francisco, 2015 // // LICENSE: This file is distributed under the BSD license. // License text is included with the source distribution. // // This file 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. // // IN NO EVENT SHALL THE COPYRIGHT OWNER OR // CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, // INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES. package edu.ucsf.valelab.spotintensityanalysis.plot; import java.awt.Color; import java.awt.Dimension; import java.awt.Frame; import java.awt.Point; import java.awt.Shape; import java.awt.event.WindowAdapter; import java.awt.event.WindowEvent; import java.awt.geom.Ellipse2D; import java.awt.geom.Rectangle2D; import java.util.prefs.Preferences; import org.jfree.chart.ChartFactory; import org.jfree.chart.ChartFrame; import org.jfree.chart.JFreeChart; import org.jfree.chart.annotations.XYAnnotation; import org.jfree.chart.annotations.XYTextAnnotation; import org.jfree.chart.plot.PlotOrientation; import org.jfree.chart.plot.XYPlot; import org.jfree.chart.renderer.xy.XYLineAndShapeRenderer; import org.jfree.data.xy.XYSeries; import org.jfree.data.xy.XYSeriesCollection; /** * Utility class to make it simple to show a plot of XY data * Multiple datasets can be shown simultaneously * * * @author nico */ public class PlotUtils { public final String WINDOWPOSX = "PlotWindowPosX"; public final String WINDOWPOSY = "PlotWindowPosY"; public final String WINDOWWIDTH = "PlotWindowWidth"; public final String WINDOWHEIGHT = "PlotWindowHeight"; MyChartFrame graphFrame_; private final Preferences prefs_; public PlotUtils(Preferences prefs) { prefs_ = prefs; } /** * Simple class whose sole intention is to intercept the dispose function and * use it to store window position and size */ @SuppressWarnings("serial") class MyChartFrame extends ChartFrame { MyChartFrame(String s, JFreeChart jc) { this(s, jc, false); } MyChartFrame(String s, JFreeChart jc, Boolean b) { super(s, jc, b); Point screenLoc = new Point(); screenLoc.x = prefs_.getInt(WINDOWPOSX, 100); screenLoc.y = prefs_.getInt(WINDOWPOSY, 100); Dimension windowSize = new Dimension(); windowSize.width = prefs_.getInt(WINDOWWIDTH, 300); windowSize.height = prefs_.getInt(WINDOWHEIGHT, 400); setLocation(screenLoc.x, screenLoc.y); setSize(windowSize); } @Override public void dispose() { // store window position and size to prefs prefs_.putInt(WINDOWPOSX, getX()); prefs_.putInt(WINDOWPOSY, getY()); prefs_.putInt(WINDOWWIDTH, getWidth()); prefs_.putInt(WINDOWHEIGHT, getHeight()); super.dispose(); } } /** * Create a frame with a plot of the data given in XYSeries overwrite any * previously created frame with the same title * * @param title shown in the top of the plot * @param data array with data series to be plotted * @param xTitle Title of the X axis * @param yTitle Title of the Y axis * @param showShapes whether or not to draw shapes at the data points * @param annotation to be shown in plot * @return Frame that displays the data */ public Frame plotDataN(String title, XYSeries[] data, String xTitle, String yTitle, boolean[] showShapes, String annotation) { // JFreeChart code XYSeriesCollection dataset = new XYSeriesCollection(); // calculate min and max to scale the graph double minX, minY, maxX, maxY; minX = data[0].getMinX(); minY = data[0].getMinY(); maxX = data[0].getMaxX(); maxY = data[0].getMaxY(); for (XYSeries d : data) { dataset.addSeries(d); if (d.getMinX() < minX) { minX = d.getMinX(); } if (d.getMaxX() > maxX) { maxX = d.getMaxX(); } if (d.getMinY() < minY) { minY = d.getMinY(); } if (d.getMaxY() > maxY) { maxY = d.getMaxY(); } } JFreeChart chart = ChartFactory.createScatterPlot(title, // Title xTitle, // x-axis Label yTitle, // y-axis Label dataset, // Dataset PlotOrientation.VERTICAL, // Plot Orientation true, // Show Legend true, // Use tooltips false // Configure chart to generate URLs? ); XYPlot plot = (XYPlot) chart.getPlot(); plot.setBackgroundPaint(Color.white); plot.setRangeGridlinePaint(Color.lightGray); XYLineAndShapeRenderer renderer = (XYLineAndShapeRenderer) plot.getRenderer(); renderer.setBaseShapesVisible(true); for (int i = 0; i < data.length; i++) { renderer.setSeriesFillPaint(i, Color.white); renderer.setSeriesLinesVisible(i, true); } renderer.setSeriesPaint(0, Color.blue); Shape circle = new Ellipse2D.Float(-2.0f, -2.0f, 4.0f, 4.0f); renderer.setSeriesShape(0, circle, false); if (data.length > 1) { renderer.setSeriesPaint(1, Color.red); Shape square = new Rectangle2D.Float(-2.0f, -2.0f, 4.0f, 4.0f); renderer.setSeriesShape(1, square, false); } if (data.length > 2) { renderer.setSeriesPaint(2, Color.darkGray); Shape rect = new Rectangle2D.Float(-2.0f, -1.0f, 4.0f, 2.0f); renderer.setSeriesShape(2, rect, false); } if (data.length > 3) { renderer.setSeriesPaint(3, Color.magenta); Shape rect = new Rectangle2D.Float(-1.0f, -2.0f, 2.0f, 4.0f); renderer.setSeriesShape(3, rect, false); } for (int i = 0; i < data.length; i++) { if (showShapes.length > i && !showShapes[i]) { renderer.setSeriesShapesVisible(i, false); } } // place annotation at 80 % of max X, maxY XYAnnotation an = new XYTextAnnotation(annotation, maxX - 0.2 * (maxX - minX), maxY); plot.addAnnotation(an); renderer.setUseFillPaint(true); if (graphFrame_ == null) graphFrame_ = new MyChartFrame(title, chart); else graphFrame_.getChartPanel().setChart(chart); graphFrame_.getChartPanel().setMouseWheelEnabled(true); graphFrame_.pack(); final MyChartFrame privateFrame = graphFrame_; graphFrame_.addWindowListener(new WindowAdapter() { @Override public void windowClosing(WindowEvent arg0) { privateFrame.dispose(); } }); graphFrame_.setVisible(true); return graphFrame_; } public static XYSeries normalize(XYSeries input) { double max = input.getMaxY(); // double min = input.getMinY(); XYSeries output = new XYSeries(input.getKey(), input.getAutoSort(), input.getAllowDuplicateXValues()); for (int i = 0; i < input.getItemCount(); i++) { output.add(input.getX(i), (input.getY(i).doubleValue()) / (max)); } return output; } }