private JFreeChart createChart(XYZDataset xyzDataSet) {
NumberAxis numberAxis = new NumberAxis("X");
numberAxis.setStandardTickUnits(NumberAxis.createIntegerTickUnits());
numberAxis.setLowerMargin(0.0D);
numberAxis.setUpperMargin(0.0D);
numberAxis.setAxisLinePaint(Color.white);
numberAxis.setTickMarkPaint(Color.white);
NumberAxis numberAxis1 = new NumberAxis("Y");
numberAxis1.setStandardTickUnits(NumberAxis.createIntegerTickUnits());
numberAxis1.setLowerMargin(0.0D);
numberAxis1.setUpperMargin(0.0D);
numberAxis1.setAxisLinePaint(Color.white);
numberAxis1.setTickMarkPaint(Color.white);
XYBlockRenderer xyblockrenderer = new XYBlockRenderer();
PaintScale paintScale;
if (this.type == MarkovDataDialog.HeatMapType.COMPARISON)
paintScale = createNewLookupPaintScale();
else paintScale = new GrayPaintScale();
// paintScale.add(-1.0,Color.WHITE );
xyblockrenderer.setPaintScale(paintScale);
XYPlot xyplot = new XYPlot(xyzDataSet, numberAxis, numberAxis1, xyblockrenderer);
xyplot.setBackgroundPaint(Color.white);
xyplot.setDomainGridlinesVisible(false);
xyplot.setRangeGridlinePaint(Color.white);
xyplot.setAxisOffset(new RectangleInsets(5D, 5D, 5D, 5D));
xyplot.setOutlinePaint(Color.blue);
JFreeChart jfreechart = new JFreeChart("heat map", xyplot);
jfreechart.removeLegend();
NumberAxis numberAxis2 = new NumberAxis("Scale");
numberAxis2.setAxisLinePaint(Color.white);
numberAxis2.setTickMarkPaint(Color.white);
numberAxis2.setRange(-1.0D, 1.0D);
numberAxis2.setTickLabelFont(new Font("Dialog", 0, 7));
PaintScaleLegend paintscalelegend = new PaintScaleLegend(paintScale, numberAxis2);
paintscalelegend.setStripOutlineVisible(false);
paintscalelegend.setSubdivisionCount(20);
paintscalelegend.setAxisLocation(AxisLocation.BOTTOM_OR_LEFT);
paintscalelegend.setAxisOffset(5D);
paintscalelegend.setMargin(new RectangleInsets(5D, 5D, 5D, 5D));
// paintscalelegend.setFrame(new BlockBorder(Color.red));
paintscalelegend.setPadding(new RectangleInsets(10D, 10D, 10D, 10D));
paintscalelegend.setStripWidth(10D);
paintscalelegend.setPosition(RectangleEdge.LEFT);
jfreechart.addSubtitle(paintscalelegend);
// ChartUtilities.applyCurrentTheme(jfreechart);
return jfreechart;
}
private JFreeChart createScatChart(
BufferedImage image, PaintScale ps, int plotWidth, int plotHeigh) {
JFreeChart chart_temp =
ChartFactory.createScatterPlot(
null,
null,
null,
new XYSeriesCollection(),
PlotOrientation.VERTICAL,
false,
false,
false);
chart_temp.getXYPlot().getRangeAxis().setInverted(true);
chart_temp.setBackgroundPaint(JFreeChart.DEFAULT_BACKGROUND_PAINT);
XYDataImageAnnotation ann = new XYDataImageAnnotation(image, 0, 0, plotWidth, plotHeigh, true);
XYPlot plot = (XYPlot) chart_temp.getPlot();
plot.setDomainPannable(true);
plot.setRangePannable(true);
plot.getRenderer().addAnnotation(ann, Layer.BACKGROUND);
NumberAxis xAxis = (NumberAxis) plot.getDomainAxis();
xAxis.setStandardTickUnits(NumberAxis.createIntegerTickUnits());
xAxis.setLowerMargin(0.0);
xAxis.setUpperMargin(0.0);
xAxis.setVisible(false);
NumberAxis yAxis = (NumberAxis) plot.getRangeAxis();
yAxis.setStandardTickUnits(NumberAxis.createIntegerTickUnits());
yAxis.setLowerMargin(0.0);
yAxis.setUpperMargin(0.0);
yAxis.setVisible(false);
NumberAxis scaleAxis = new NumberAxis();
scaleAxis.setAxisLinePaint(Color.black);
scaleAxis.setTickMarkPaint(Color.black);
scaleAxis.setRange(ps.getLowerBound(), ps.getUpperBound());
scaleAxis.setTickLabelFont(new Font("Dialog", Font.PLAIN, 9));
PaintScaleLegend legend = new PaintScaleLegend(ps, scaleAxis);
legend.setAxisLocation(AxisLocation.BOTTOM_OR_RIGHT);
legend.setMargin(new RectangleInsets(5, 5, 5, 5));
legend.setStripWidth(10);
legend.setPosition(RectangleEdge.RIGHT);
legend.setBackgroundPaint(chart_temp.getBackgroundPaint());
chart_temp.addSubtitle(legend);
return chart_temp;
}
private ChartPanel getChartPanel(DefaultXYZDataset dataset, int i) {
String key = (String) dataset.getSeriesKey(0);
DateAxis yAxis = new DateAxis("Date");
yAxis.setLowerMargin(0.0);
yAxis.setUpperMargin(0.0);
yAxis.setTickUnit(new DateTickUnit(DateTickUnit.DAY, 1));
NumberAxis xAxis = new NumberAxis("Hour");
xAxis.setUpperMargin(0.0);
xAxis.setStandardTickUnits(NumberAxis.createIntegerTickUnits());
XYBlockRenderer renderer = new XYBlockRenderer();
renderer.setBlockWidth(1000.0 * 60.0 * 60.0 * 24.0);
renderer.setBlockAnchor(RectangleAnchor.BOTTOM_LEFT);
// range scaling
PaintScale paintScale;
if (colorSort.getValue().equals("gray")) // gray scaling
{
paintScale = new GrayPaintScale(0.0, maxArray[i]);
} else {
int color_max, color_min;
if (colorSort.getValue().equals("red")) { // red scaling
color_max = 0xFF33FF;
color_min = 0xFF3300;
} else if (colorSort.getValue().equals("blue")) { // blue scaling
color_max = 0x0033FF;
color_min = 0x003300;
} else { // yellow scaling
color_max = 0xFFFFFF;
color_min = 0xFFFF00;
}
paintScale = new LookupPaintScale(0.0, maxArray[i], new Color(color_max));
int d = Math.max((color_max - color_min) / ((int) maxArray[i] + 1), 1);
for (int k = 0; k <= maxArray[i]; k++) {
((LookupPaintScale) paintScale)
.add(new Double(k + 0.5), new Color(color_max - (k + 1) * d));
}
}
renderer.setPaintScale(paintScale);
XYPlot plot = new XYPlot(dataset, yAxis, xAxis, renderer);
plot.setOrientation(PlotOrientation.HORIZONTAL);
plot.setBackgroundPaint(Color.lightGray);
plot.setDomainGridlinePaint(Color.white);
plot.setRangeGridlinePaint(Color.white);
plot.setForegroundAlpha(0.66F);
JFreeChart chart = new JFreeChart(key, plot);
chart.removeLegend();
chart.setBackgroundPaint(Color.white);
// adding data ranges
NumberAxis scaleAxis = new NumberAxis(null);
scaleAxis.setStandardTickUnits(NumberAxis.createIntegerTickUnits());
scaleAxis.setLowerBound(0.0);
scaleAxis.setUpperBound(maxArray[i]);
PaintScaleLegend psl = new PaintScaleLegend(paintScale, scaleAxis);
psl.setAxisOffset(5.0);
psl.setPosition(RectangleEdge.BOTTOM);
psl.setMargin(new RectangleInsets(5, 5, 5, 5));
chart.addSubtitle(psl);
ChartPanel chartPanel = new ChartPanel(chart);
chartPanel.setBorder(BorderFactory.createLineBorder(Color.lightGray));
return chartPanel;
}
/**
* Plot the results produced by the testing methods in this class.
*
* @param results The results of one or more tests. They must all have the same type {@link TYPE}.
* If more than one result is to be plotted then only {@link TYPE#STDP} or {@link
* TYPE#STDP_1D} are supported, and it is assumed that they all have the same pre- and
* post-synaptic spike patterns.
* @param singlePlot If plotting more than one TestResult then whether to show the results on a
* single plot (true) or separate plots (false).
* @param timeResolution The time resolution which the simulation was run at.
* @param logSpikesAndStateVariables Whether to include pre- and post-synaptic spikes and any
* state variables exposed by the synapse model in the plot. This is ignored if more than one
* result is to be plotted.
* @param showInFrame Whether to display the result in a frame.
*/
public static JFreeChart createChart(
TestResults[] results,
boolean singlePlot,
int timeResolution,
boolean logSpikesAndStateVariables,
boolean showInFrame,
String title) {
JFreeChart resultsPlot = null;
int resultsCount = results.length;
// Make sure they're all the same type.
for (int ri = 0; ri < results.length; ri++) {
if (ri < resultsCount - 1
&& results[ri].getProperty("type") != results[ri + 1].getProperty("type")) {
throw new IllegalArgumentException("All results must have the same type.");
}
if (resultsCount > 1
&& results[ri].getProperty("type") != TYPE.STDP
&& results[ri].getProperty("type") != TYPE.STDP_1D) {
throw new IllegalArgumentException(
"Multiple results can only be plotted for types STDP or STDP_1D.");
}
}
TYPE type = (TYPE) results[0].getProperty("type");
XYLineAndShapeRenderer xyRenderer;
XYToolTipGenerator tooltipGen = new StandardXYToolTipGenerator();
if (type == TYPE.STDP) {
CombinedDomainXYPlot combinedPlot = new CombinedDomainXYPlot(new NumberAxis("t (s)"));
if (singlePlot) { // Plot all result sets together.
DefaultXYDataset efficacyData = new DefaultXYDataset();
for (TestResults result : results) {
String efficacyLabel =
(resultsCount == 1) ? "Efficacy" : "" + result.getProperty("label");
efficacyData.addSeries(efficacyLabel, result.getResult("Time", "Efficacy"));
}
xyRenderer = new XYLineAndShapeRenderer(true, false);
xyRenderer.setBaseToolTipGenerator(tooltipGen);
combinedPlot.add(new XYPlot(efficacyData, null, new NumberAxis("Efficacy"), xyRenderer), 4);
} else { // Plot each result set separately.
for (TestResults result : results) {
DefaultXYDataset efficacyData = new DefaultXYDataset();
String efficacyLabel =
(resultsCount == 1) ? "Efficacy" : "" + result.getProperty("label");
efficacyData.addSeries(efficacyLabel, result.getResult("Time", "Efficacy"));
xyRenderer = new XYLineAndShapeRenderer(true, false);
xyRenderer.setBaseToolTipGenerator(tooltipGen);
combinedPlot.add(
new XYPlot(efficacyData, null, new NumberAxis("Efficacy"), xyRenderer), 4);
}
}
// Don't plot trace data for multiple tests.
if (resultsCount == 1 && logSpikesAndStateVariables) {
DefaultXYDataset traceData = new DefaultXYDataset();
for (String label : results[0].getResultLabels()) {
if (!label.startsWith("Time")
&& !label.startsWith("Efficacy")
&& !label.equals("Pre-synaptic spikes")
&& !label.equals("Post-synaptic spikes")) {
traceData.addSeries(label, results[0].getResult("Time", label));
}
}
xyRenderer = new XYLineAndShapeRenderer(true, false);
xyRenderer.setBaseToolTipGenerator(tooltipGen);
combinedPlot.add(new XYPlot(traceData, null, new NumberAxis("State"), xyRenderer), 3);
DefaultXYDataset spikeData = new DefaultXYDataset();
spikeData.addSeries(
"Pre-synaptic spikes", results[0].getResult("Time", "Pre-synaptic spikes"));
spikeData.addSeries(
"Post-synaptic spikes", results[0].getResult("Time", "Post-synaptic spikes"));
xyRenderer = new XYLineAndShapeRenderer(true, false);
xyRenderer.setBaseToolTipGenerator(tooltipGen);
combinedPlot.add(
new XYPlot(spikeData, null, new NumberAxis("Pre/post potential"), xyRenderer), 3);
}
resultsPlot = new JFreeChart(title, null, combinedPlot, true);
resultsPlot.setBackgroundPaint(Color.WHITE);
resultsPlot.getPlot().setBackgroundPaint(Color.WHITE);
((XYPlot) resultsPlot.getPlot()).setRangeGridlinePaint(Color.LIGHT_GRAY);
((XYPlot) resultsPlot.getPlot()).setDomainGridlinePaint(Color.LIGHT_GRAY);
} else if (type == TYPE.STDP_1D) {
DecimalFormat timeFormatter = new DecimalFormat();
timeFormatter.setMultiplier(1000);
NumberAxis domainAxis = new NumberAxis("\u0394t (ms)");
domainAxis.setNumberFormatOverride(timeFormatter);
CombinedDomainXYPlot combinedPlot = new CombinedDomainXYPlot(domainAxis);
if (singlePlot) { // Plot all result sets together.
DefaultXYDataset efficacyData = new DefaultXYDataset();
for (TestResults result : results) {
String efficacyLabel =
(resultsCount == 1) ? "Efficacy" : "" + result.getProperty("label");
efficacyData.addSeries(efficacyLabel, result.getResult("Time delta", "Efficacy"));
}
xyRenderer = new XYLineAndShapeRenderer(true, false);
xyRenderer.setBaseToolTipGenerator(tooltipGen);
combinedPlot.add(new XYPlot(efficacyData, null, new NumberAxis("Efficacy"), xyRenderer), 4);
} else { // Plot each result set separately.
for (TestResults result : results) {
DefaultXYDataset efficacyData = new DefaultXYDataset();
String efficacyLabel =
(resultsCount == 1) ? "Efficacy" : "" + result.getProperty("label");
efficacyData.addSeries(efficacyLabel, result.getResult("Time delta", "Efficacy"));
xyRenderer = new XYLineAndShapeRenderer(true, false);
xyRenderer.setBaseToolTipGenerator(tooltipGen);
combinedPlot.add(
new XYPlot(efficacyData, null, new NumberAxis("Efficacy"), xyRenderer), 4);
}
}
resultsPlot = new JFreeChart(title, null, combinedPlot, true);
resultsPlot.setBackgroundPaint(Color.WHITE);
resultsPlot.getPlot().setBackgroundPaint(Color.WHITE);
((XYPlot) resultsPlot.getPlot()).setRangeGridlinePaint(Color.LIGHT_GRAY);
((XYPlot) resultsPlot.getPlot()).setDomainGridlinePaint(Color.LIGHT_GRAY);
} else if (type == TYPE.STDP_2D) {
double[][] data = results[0].getResult("Time delta 1", "Time delta 2", "Efficacy");
DefaultXYZDataset plotData = new DefaultXYZDataset();
plotData.addSeries("Efficacy", data);
// Set up paint scale, and convert domain axes from seconds to
// milliseconds (XYBlockRenderer won't deal with fractional values
// in the domain axes)
double min = Double.MAX_VALUE, max = -min;
double[] efficacy = data[2];
for (int i = 0; i < data[0].length; i++) {
if (efficacy[i] < min) min = efficacy[i];
if (efficacy[i] > max) max = efficacy[i];
data[0][i] = Math.round(data[0][i] * 1000);
data[1][i] = Math.round(data[1][i] * 1000);
}
XYBlockRenderer renderer = new XYBlockRenderer();
double range = Math.max(Math.abs(min), Math.abs(max));
double rangeBase = 0;
if (min < 0) min = -range;
if (max > 0) max = range;
// If the value range does not cross the zero point, don't use a zero-based range.
if ((min > 0) || (max < 0)) {
range = Math.abs(max - min);
rangeBase = Math.min(Math.abs(min), Math.abs(max));
}
if (min >= max) {
max = min + Double.MIN_VALUE * 10;
}
LookupPaintScale scale = new LookupPaintScale(min, max, Color.WHITE);
if (min < 0) {
for (int ci = 0; ci <= 255; ci++) {
double v = -(ci / 255.0) * range - rangeBase;
scale.add(v, new Color(0, ci, ci));
}
}
if (max > 0) {
for (int ci = 0; ci <= 255; ci++) {
double v = (ci / 255.0) * range + rangeBase;
scale.add(v, new Color(ci, ci, 0));
}
}
renderer.setPaintScale(scale);
renderer.setSeriesToolTipGenerator(0, new StandardXYZToolTipGenerator());
int displayResolution =
((Integer) results[0].getProperty("display time resolution")).intValue();
renderer.setBlockWidth(1000.0 / displayResolution);
renderer.setBlockHeight(1000.0 / displayResolution);
NumberAxis xAxis = new NumberAxis("\u0394t1 (ms)");
NumberAxis yAxis = new NumberAxis("\u0394t2 (ms)");
XYPlot plot = new XYPlot(plotData, xAxis, yAxis, renderer);
plot.setDomainGridlinesVisible(false);
resultsPlot = new JFreeChart(title, plot);
resultsPlot.removeLegend();
NumberAxis valueAxis = new NumberAxis();
valueAxis.setLowerBound(scale.getLowerBound());
valueAxis.setUpperBound(scale.getUpperBound());
PaintScaleLegend legend = new PaintScaleLegend(scale, valueAxis);
legend.setPosition(RectangleEdge.RIGHT);
legend.setMargin(5, 5, 5, 5);
resultsPlot.addSubtitle(legend);
}
if (showInFrame) {
JFrame plotFrame = new JFrame(title);
plotFrame.add(new ChartPanel(resultsPlot));
plotFrame.setExtendedState(plotFrame.getExtendedState() | JFrame.MAXIMIZED_BOTH);
plotFrame.pack();
plotFrame.setVisible(true);
}
return resultsPlot;
}