Java Code Examples for org.jfree.chart.axis.NumberAxis#setNumberFormatOverride()
The following examples show how to use
org.jfree.chart.axis.NumberAxis#setNumberFormatOverride() .
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Example 1
| Source File: AlignmentRansacPlot.java From mzmine2 with GNU General Public License v2.0 | 6 votes |
|
public void printAlignmentChart(String axisTitleX, String axisTitleY) {
try {
toolTipGenerator = new AlignmentPreviewTooltipGenerator(axisTitleX, axisTitleY);
plot.getRenderer().setDefaultToolTipGenerator(toolTipGenerator);
NumberAxis xAxis = new NumberAxis(axisTitleX);
xAxis.setNumberFormatOverride(rtFormat);
xAxis.setAutoRangeIncludesZero(false);
plot.setDomainAxis(xAxis);
NumberAxis yAxis = new NumberAxis(axisTitleY);
yAxis.setNumberFormatOverride(rtFormat);
yAxis.setAutoRangeIncludesZero(false);
plot.setRangeAxis(yAxis);
} catch (Exception e) {
}
}
Example 2
| Source File: NeutralLossPlot.java From mzmine3 with GNU General Public License v2.0 | 6 votes |
|
public void setAxisTypes(Object xAxisType) {
NumberFormat rtFormat = MZmineCore.getConfiguration().getRTFormat();
NumberFormat mzFormat = MZmineCore.getConfiguration().getMZFormat();
// set the X axis (retention time) properties
final NumberAxis xAxis = (NumberAxis) this.plot.getDomainAxis();
if (xAxisType.equals(NeutralLossParameters.xAxisPrecursor)) {
xAxis.setLabel("Precursor m/z");
xAxis.setNumberFormatOverride(mzFormat);
} else {
xAxis.setLabel("Retention time");
xAxis.setNumberFormatOverride(rtFormat);
}
xAxis.setUpperMargin(0);
xAxis.setLowerMargin(0);
xAxis.setAutoRangeIncludesZero(false);
// set the Y axis (intensity) properties
final NumberAxis yAxis = (NumberAxis) this.plot.getRangeAxis();
yAxis.setLabel("Neutral loss (Da)");
yAxis.setAutoRangeIncludesZero(false);
yAxis.setNumberFormatOverride(mzFormat);
yAxis.setUpperMargin(0);
yAxis.setLowerMargin(0);
}
Example 3
| Source File: AEChartComposite.java From offspring with MIT License | 6 votes |
|
private JFreeChart createChart(Asset asset, String title) {
XYDataset priceDataset = createPriceDataset();
JFreeChart jfreechart = ChartFactory.createTimeSeriesChart(title, // title
"Date", // x title
"Price", // y title
priceDataset, // dataset
false, // legend
true, // tooltips
false);
XYPlot xyplot = (XYPlot) jfreechart.getPlot();
NumberAxis numberaxis = (NumberAxis) xyplot.getRangeAxis();
numberaxis.setLowerMargin(0.40000000000000002D);
DecimalFormat decimalformat = new DecimalFormat("#.##");
numberaxis.setNumberFormatOverride(decimalformat);
return jfreechart;
}
Example 4
| Source File: AlignmentRansacPlot.java From mzmine3 with GNU General Public License v2.0 | 6 votes |
|
public void printAlignmentChart(String axisTitleX, String axisTitleY) {
try {
toolTipGenerator = new AlignmentPreviewTooltipGenerator(axisTitleX, axisTitleY);
plot.getRenderer().setDefaultToolTipGenerator(toolTipGenerator);
NumberAxis xAxis = new NumberAxis(axisTitleX);
xAxis.setNumberFormatOverride(rtFormat);
xAxis.setAutoRangeIncludesZero(false);
plot.setDomainAxis(xAxis);
NumberAxis yAxis = new NumberAxis(axisTitleY);
yAxis.setNumberFormatOverride(rtFormat);
yAxis.setAutoRangeIncludesZero(false);
plot.setRangeAxis(yAxis);
} catch (Exception e) {
}
}
Example 5
| Source File: DSWorkbenchStatsFrame.java From dsworkbench with Apache License 2.0 | 5 votes |
|
private void setupChart(String pInitialId, XYDataset pInitialDataset) {
chart = ChartFactory.createTimeSeriesChart(
"Spielerstatistiken", // title
"Zeiten", // x-axis label
pInitialId, // y-axis label
pInitialDataset, // data
jShowLegend.isSelected(), // create legend?
true, // generate tooltips?
false // generate URLs?
);
chart.setBackgroundPaint(Constants.DS_BACK);
XYPlot plot = (XYPlot) chart.getPlot();
setupPlotDrawing(plot);
XYLineAndShapeRenderer renderer = new XYLineAndShapeRenderer();
for (int i = 0; i < plot.getSeriesCount(); i++) {
renderer.setSeriesLinesVisible(i, jShowLines.isSelected());
renderer.setSeriesShapesVisible(i, jShowDataPoints.isSelected());
plot.setRenderer(i, renderer);
}
renderer.setDefaultItemLabelsVisible(jShowItemValues.isSelected());
renderer.setDefaultItemLabelGenerator(new org.jfree.chart.labels.StandardXYItemLabelGenerator());
renderer.setDefaultToolTipGenerator(new StandardXYToolTipGenerator(StandardXYToolTipGenerator.DEFAULT_TOOL_TIP_FORMAT, new SimpleDateFormat("dd.MM.yyyy HH:mm:ss"), NumberFormat.getInstance()));
int lastDataset = plot.getDatasetCount() - 1;
if (lastDataset > 0) {
plot.getRangeAxis().setAxisLinePaint(plot.getLegendItems().get(lastDataset).getLinePaint());
plot.getRangeAxis().setLabelPaint(plot.getLegendItems().get(lastDataset).getLinePaint());
plot.getRangeAxis().setTickLabelPaint(plot.getLegendItems().get(lastDataset).getLinePaint());
plot.getRangeAxis().setTickMarkPaint(plot.getLegendItems().get(lastDataset).getLinePaint());
}
NumberFormat nf = NumberFormat.getInstance();
nf.setMinimumFractionDigits(0);
nf.setMaximumFractionDigits(0);
NumberAxis na = ((NumberAxis) plot.getRangeAxis());
if (na != null) {
na.setNumberFormatOverride(nf);
}
}
Example 6
| Source File: DSWorkbenchStatsFrame.java From dsworkbench with Apache License 2.0 | 5 votes |
|
private void addDataset(String pId, XYDataset pDataset) {
if (chart == null) {
setupChart(pId, pDataset);
} else {
XYPlot plot = (XYPlot) chart.getPlot();
plot.setDataset(plot.getDatasetCount(), pDataset);
NumberAxis axis = new NumberAxis(pId);
NumberFormat nf = NumberFormat.getInstance();
nf.setMinimumFractionDigits(0);
nf.setMaximumFractionDigits(0);
axis.setNumberFormatOverride(nf);
plot.setRangeAxis(plot.getDatasetCount() - 1, axis);
plot.setRangeAxisLocation(plot.getDatasetCount() - 1, AxisLocation.TOP_OR_LEFT);
plot.mapDatasetToRangeAxis(plot.getDatasetCount() - 1, plot.getDatasetCount() - 1);
XYLineAndShapeRenderer renderer = new XYLineAndShapeRenderer();
renderer.setSeriesLinesVisible(0, jShowLines.isSelected());
renderer.setSeriesShapesVisible(0, jShowDataPoints.isSelected());
plot.setRenderer(plot.getDatasetCount() - 1, renderer);
renderer.setDefaultItemLabelsVisible(jShowItemValues.isSelected());
renderer.setDefaultItemLabelGenerator(new org.jfree.chart.labels.StandardXYItemLabelGenerator());
renderer.setDefaultToolTipGenerator(new StandardXYToolTipGenerator(StandardXYToolTipGenerator.DEFAULT_TOOL_TIP_FORMAT, new SimpleDateFormat("dd.MM.yyyy HH:mm:ss"), NumberFormat.getInstance()));
axis.setAxisLinePaint(plot.getLegendItems().get(plot.getDatasetCount() - 1).getLinePaint());
axis.setLabelPaint(plot.getLegendItems().get(plot.getDatasetCount() - 1).getLinePaint());
axis.setTickLabelPaint(plot.getLegendItems().get(plot.getDatasetCount() - 1).getLinePaint());
axis.setTickMarkPaint(plot.getLegendItems().get(plot.getDatasetCount() - 1).getLinePaint());
}
}
Example 7
| Source File: NumberAxisTests.java From astor with GNU General Public License v2.0 | 5 votes |
|
/**
* Confirm that the equals method can distinguish all the required fields.
*/
public void testEquals() {
NumberAxis a1 = new NumberAxis("Test");
NumberAxis a2 = new NumberAxis("Test");
assertTrue(a1.equals(a2));
//private boolean autoRangeIncludesZero;
a1.setAutoRangeIncludesZero(false);
assertFalse(a1.equals(a2));
a2.setAutoRangeIncludesZero(false);
assertTrue(a1.equals(a2));
//private boolean autoRangeStickyZero;
a1.setAutoRangeStickyZero(false);
assertFalse(a1.equals(a2));
a2.setAutoRangeStickyZero(false);
assertTrue(a1.equals(a2));
//private NumberTickUnit tickUnit;
a1.setTickUnit(new NumberTickUnit(25.0));
assertFalse(a1.equals(a2));
a2.setTickUnit(new NumberTickUnit(25.0));
assertTrue(a1.equals(a2));
//private NumberFormat numberFormatOverride;
a1.setNumberFormatOverride(new DecimalFormat("0.00"));
assertFalse(a1.equals(a2));
a2.setNumberFormatOverride(new DecimalFormat("0.00"));
assertTrue(a1.equals(a2));
a1.setRangeType(RangeType.POSITIVE);
assertFalse(a1.equals(a2));
a2.setRangeType(RangeType.POSITIVE);
assertTrue(a1.equals(a2));
}
Example 8
| Source File: MsMsPlot.java From mzmine2 with GNU General Public License v2.0 | 4 votes |
|
MsMsPlot(final ActionListener listener, RawDataFile rawDataFile, MsMsVisualizerWindow visualizer,
MsMsDataSet dataset, Range<Double> rtRange, Range<Double> mzRange) {
super(null, true);
this.visualizer = visualizer;
this.rawDataFile = rawDataFile;
this.rtRange = rtRange;
this.mzRange = mzRange;
// initialize the chart by default time series chart from factory
chart = ChartFactory.createXYLineChart("", // title
"", // x-axis label
"", // y-axis label
null, // data set
PlotOrientation.VERTICAL, // orientation
true, // create legend
false, // generate tooltips
false // generate URLs
);
chart.setBackgroundPaint(Color.white);
setChart(chart);
// disable maximum size (we don't want scaling)
setMaximumDrawWidth(Integer.MAX_VALUE);
setMaximumDrawHeight(Integer.MAX_VALUE);
// set the plot properties
plot = chart.getXYPlot();
plot.setBackgroundPaint(Color.white);
plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0));
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
plot.setSeriesRenderingOrder(SeriesRenderingOrder.FORWARD);
plot.setDomainGridlinePaint(gridColor);
plot.setRangeGridlinePaint(gridColor);
// Set the domain log axis
xAxis = new NumberAxis("Retention time (min)");
xAxis.setAutoRangeIncludesZero(false);
xAxis.setNumberFormatOverride(rtFormat);
xAxis.setUpperMargin(0.01);
xAxis.setLowerMargin(0.01);
plot.setDomainAxis(xAxis);
// Set the range log axis
yAxis = new NumberAxis("Precursor m/z");
yAxis.setAutoRangeIncludesZero(false);
yAxis.setNumberFormatOverride(mzFormat);
yAxis.setUpperMargin(0.1);
yAxis.setLowerMargin(0.1);
plot.setRangeAxis(yAxis);
// Set crosshair properties
plot.setDomainCrosshairVisible(true);
plot.setRangeCrosshairVisible(true);
plot.setDomainCrosshairPaint(crossHairColor);
plot.setRangeCrosshairPaint(crossHairColor);
plot.setDomainCrosshairStroke(crossHairStroke);
plot.setRangeCrosshairStroke(crossHairStroke);
// Create renderers
mainRenderer = new MsMsPlotRenderer();
plot.setRenderer(0, mainRenderer);
// title
chartTitle = chart.getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chartSubTitle = new TextTitle();
chartSubTitle.setFont(subTitleFont);
chartSubTitle.setMargin(5, 0, 0, 0);
chart.addSubtitle(chartSubTitle);
// Add data sets;
plot.setDataset(0, dataset);
// set rendering order
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
peakDataRenderer = new PeakDataRenderer();
// Add EMF and EPS options to the save as menu
JPopupMenu popupMenu = getPopupMenu();
JMenuItem saveAsMenu = (JMenuItem) popupMenu.getComponent(3);
GUIUtils.addMenuItem(saveAsMenu, "EMF...", this, "SAVE_EMF");
GUIUtils.addMenuItem(saveAsMenu, "EPS...", this, "SAVE_EPS");
// Register for mouse-wheel events
addMouseWheelListener(this);
// reset zoom history
ZoomHistory history = getZoomHistory();
if (history != null)
history.clear();
}
Example 9
| Source File: TwoDPlot.java From mzmine2 with GNU General Public License v2.0 | 4 votes |
|
TwoDPlot(RawDataFile rawDataFile, TwoDVisualizerWindow visualizer, TwoDDataSet dataset,
Range<Double> rtRange, Range<Double> mzRange, String whichPlotTypeStr) {
super(null, true);
this.rawDataFile = rawDataFile;
this.rtRange = rtRange;
this.mzRange = mzRange;
setBackground(Color.white);
setCursor(Cursor.getPredefinedCursor(Cursor.CROSSHAIR_CURSOR));
// set the X axis (retention time) properties
xAxis = new NumberAxis("Retention time");
xAxis.setAutoRangeIncludesZero(false);
xAxis.setNumberFormatOverride(rtFormat);
xAxis.setUpperMargin(0);
xAxis.setLowerMargin(0);
// set the Y axis (intensity) properties
yAxis = new NumberAxis("m/z");
yAxis.setAutoRangeIncludesZero(false);
yAxis.setNumberFormatOverride(mzFormat);
yAxis.setUpperMargin(0);
yAxis.setLowerMargin(0);
// set the plot properties
if (whichPlotTypeStr == "default") {
plot = new TwoDXYPlot(dataset, rtRange, mzRange, xAxis, yAxis);
} else if (whichPlotTypeStr == "point2D") {
plot = new PointTwoDXYPlot(dataset, rtRange, mzRange, xAxis, yAxis);
}
plot.setBackgroundPaint(Color.white);
plot.setDomainGridlinesVisible(false);
plot.setRangeGridlinesVisible(false);
// chart properties
chart = new JFreeChart("", titleFont, plot, false);
chart.setBackgroundPaint(Color.white);
setChart(chart);
// title
chartTitle = chart.getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chartSubTitle = new TextTitle();
chartSubTitle.setFont(subTitleFont);
chartSubTitle.setMargin(5, 0, 0, 0);
chart.addSubtitle(chartSubTitle);
// disable maximum size (we don't want scaling)
setMaximumDrawWidth(Integer.MAX_VALUE);
setMaximumDrawHeight(Integer.MAX_VALUE);
// set crosshair (selection) properties
plot.setRangeCrosshairVisible(false);
plot.setDomainCrosshairVisible(true);
plot.setDomainCrosshairPaint(crossHairColor);
plot.setDomainCrosshairStroke(crossHairStroke);
// set rendering order
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
peakDataRenderer = new PeakDataRenderer();
JMenuItem plotTypeMenuItem = new JMenuItem("Toggle centroid/continuous mode");
plotTypeMenuItem.addActionListener(visualizer);
plotTypeMenuItem.setActionCommand("SWITCH_PLOTMODE");
add(plotTypeMenuItem);
JPopupMenu popupMenu = getPopupMenu();
popupMenu.addSeparator();
popupMenu.add(plotTypeMenuItem);
// Add EMF and EPS options to the save as menu
JMenuItem saveAsMenu = (JMenuItem) popupMenu.getComponent(3);
GUIUtils.addMenuItem(saveAsMenu, "EMF...", this, "SAVE_EMF");
GUIUtils.addMenuItem(saveAsMenu, "EPS...", this, "SAVE_EPS");
// reset zoom history
ZoomHistory history = getZoomHistory();
if (history != null)
history.clear();
}
Example 10
| Source File: ChromatogramPlotWindowController.java From old-mzmine3 with GNU General Public License v2.0 | 4 votes |
|
@FXML
public void initialize() {
final JFreeChart chart = chartNode.getChart();
final XYPlot plot = chart.getXYPlot();
// Do not set colors and strokes dynamically. They are instead provided
// by the dataset and configured in configureRenderer()
plot.setDrawingSupplier(null);
plot.setDomainGridlinePaint(JavaFXUtil.convertColorToAWT(gridColor));
plot.setRangeGridlinePaint(JavaFXUtil.convertColorToAWT(gridColor));
plot.setBackgroundPaint(JavaFXUtil.convertColorToAWT(backgroundColor));
plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0));
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
plot.setDomainCrosshairPaint(JavaFXUtil.convertColorToAWT(crossHairColor));
plot.setRangeCrosshairPaint(JavaFXUtil.convertColorToAWT(crossHairColor));
plot.setDomainCrosshairVisible(true);
plot.setRangeCrosshairVisible(true);
// chart properties
chart.setBackgroundPaint(JavaFXUtil.convertColorToAWT(backgroundColor));
// legend properties
LegendTitle legend = chart.getLegend();
// legend.setItemFont(legendFont);
legend.setFrame(BlockBorder.NONE);
// set the X axis (retention time) properties
NumberAxis xAxis = (NumberAxis) plot.getDomainAxis();
xAxis.setLabel("Retention time (min)");
xAxis.setUpperMargin(0.03);
xAxis.setLowerMargin(0.03);
xAxis.setRangeType(RangeType.POSITIVE);
xAxis.setTickLabelInsets(new RectangleInsets(0, 0, 20, 20));
// set the Y axis (intensity) properties
NumberAxis yAxis = (NumberAxis) plot.getRangeAxis();
yAxis.setLabel("Intensity");
yAxis.setRangeType(RangeType.POSITIVE);
yAxis.setAutoRangeIncludesZero(true);
// set the fixed number formats, because otherwise JFreeChart sometimes
// shows exponent, sometimes it doesn't
DecimalFormat mzFormat = MZmineCore.getConfiguration().getMZFormat();
xAxis.setNumberFormatOverride(mzFormat);
DecimalFormat intensityFormat = MZmineCore.getConfiguration().getIntensityFormat();
yAxis.setNumberFormatOverride(intensityFormat);
chartTitle = chartNode.getChart().getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chartTitle.setText("Chromatogram");
chartNode.setCursor(Cursor.CROSSHAIR);
// Remove the dataset if it is removed from the list
datasets.addListener((Change<? extends ChromatogramPlotDataSet> c) -> {
while (c.next()) {
if (c.wasRemoved()) {
for (ChromatogramPlotDataSet ds : c.getRemoved()) {
int index = plot.indexOf(ds);
plot.setDataset(index, null);
}
}
}
});
itemLabelsVisible.addListener((prop, oldVal, newVal) -> {
for (ChromatogramPlotDataSet dataset : datasets) {
int datasetIndex = plot.indexOf(dataset);
XYItemRenderer renderer = plot.getRenderer(datasetIndex);
renderer.setBaseItemLabelsVisible(newVal);
}
});
legendVisible.addListener((prop, oldVal, newVal) -> {
legend.setVisible(newVal);
});
}
Example 11
| Source File: SpectrumChartFactory.java From mzmine2 with GNU General Public License v2.0 | 4 votes |
|
public static JFreeChart createChart(PseudoSpectrumDataSet dataset, boolean showTitle,
boolean showLegend, double rt, double precursorMZ) {
//
if (dataset == null)
return null;
//
NumberFormat mzForm = MZmineCore.getConfiguration().getMZFormat();
NumberFormat rtForm = MZmineCore.getConfiguration().getRTFormat();
NumberFormat intensityFormat = MZmineCore.getConfiguration().getIntensityFormat();
String title = "";
if (precursorMZ == 0)
title = "RT=" + mzForm.format(precursorMZ);
else
title = MessageFormat.format("MSMS for m/z={0} RT={1}", mzForm.format(precursorMZ),
rtForm.format(rt));
JFreeChart chart = ChartFactory.createXYLineChart(title, // title
"m/z", // x-axis label
"Intensity", // y-axis label
dataset, // data set
PlotOrientation.VERTICAL, // orientation
true, // isotopeFlag, // create legend?
true, // generate tooltips?
false // generate URLs?
);
chart.setBackgroundPaint(Color.white);
chart.getTitle().setVisible(false);
// set the plot properties
XYPlot plot = chart.getXYPlot();
plot.setBackgroundPaint(Color.white);
plot.setAxisOffset(RectangleInsets.ZERO_INSETS);
// set rendering order
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
// set crosshair (selection) properties
plot.setDomainCrosshairVisible(false);
plot.setRangeCrosshairVisible(false);
// set the X axis (retention time) properties
NumberAxis xAxis = (NumberAxis) plot.getDomainAxis();
xAxis.setNumberFormatOverride(mzForm);
xAxis.setUpperMargin(0.08);
xAxis.setLowerMargin(0.00);
xAxis.setTickLabelInsets(new RectangleInsets(0, 0, 20, 20));
xAxis.setAutoRangeIncludesZero(true);
xAxis.setMinorTickCount(5);
// set the Y axis (intensity) properties
NumberAxis yAxis = (NumberAxis) plot.getRangeAxis();
yAxis.setNumberFormatOverride(intensityFormat);
yAxis.setUpperMargin(0.20);
PseudoSpectraRenderer renderer = new PseudoSpectraRenderer(Color.BLACK, false);
plot.setRenderer(0, renderer);
plot.setRenderer(1, renderer);
plot.setRenderer(2, renderer);
renderer.setSeriesVisibleInLegend(1, false);
renderer.setSeriesPaint(2, Color.ORANGE);
//
chart.getTitle().setVisible(showTitle);
chart.getLegend().setVisible(showLegend);
//
if (precursorMZ != 0)
addPrecursorMarker(chart, precursorMZ);
return chart;
}
Example 12
| Source File: ProjectionPlotPanel.java From mzmine2 with GNU General Public License v2.0 | 4 votes |
|
public ProjectionPlotPanel(ProjectionPlotWindow masterFrame, ProjectionPlotDataset dataset,
ParameterSet parameters) {
super(null);
boolean createLegend = false;
if ((dataset.getNumberOfGroups() > 1) && (dataset.getNumberOfGroups() < 20))
createLegend = true;
chart = ChartFactory.createXYAreaChart("", dataset.getXLabel(), dataset.getYLabel(), dataset,
PlotOrientation.VERTICAL, createLegend, false, false);
chart.setBackgroundPaint(Color.white);
setChart(chart);
// title
TextTitle chartTitle = chart.getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chart.removeSubtitle(chartTitle);
// disable maximum size (we don't want scaling)
setMaximumDrawWidth(Integer.MAX_VALUE);
setMaximumDrawHeight(Integer.MAX_VALUE);
// set the plot properties
plot = chart.getXYPlot();
plot.setBackgroundPaint(Color.white);
plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0));
// set grid properties
plot.setDomainGridlinePaint(gridColor);
plot.setRangeGridlinePaint(gridColor);
// set crosshair (selection) properties
plot.setDomainCrosshairVisible(false);
plot.setRangeCrosshairVisible(false);
plot.setForegroundAlpha(dataPointAlpha);
NumberFormat numberFormat = NumberFormat.getNumberInstance();
// set the X axis (component 1) properties
NumberAxis xAxis = (NumberAxis) plot.getDomainAxis();
xAxis.setNumberFormatOverride(numberFormat);
// set the Y axis (component 2) properties
NumberAxis yAxis = (NumberAxis) plot.getRangeAxis();
yAxis.setNumberFormatOverride(numberFormat);
plot.setDataset(dataset);
spotRenderer = new ProjectionPlotRenderer(plot, dataset);
itemLabelGenerator = new ProjectionPlotItemLabelGenerator(parameters);
spotRenderer.setDefaultItemLabelGenerator(itemLabelGenerator);
spotRenderer.setDefaultItemLabelsVisible(true);
spotRenderer.setDefaultToolTipGenerator(new ProjectionPlotToolTipGenerator(parameters));
plot.setRenderer(spotRenderer);
// Setup legend
if (createLegend) {
LegendItemCollection legendItemsCollection = new LegendItemCollection();
for (int groupNumber = 0; groupNumber < dataset.getNumberOfGroups(); groupNumber++) {
Object paramValue = dataset.getGroupParameterValue(groupNumber);
if (paramValue == null) {
// No parameter value available: search for raw data files
// within this group, and use their names as group's name
String fileNames = new String();
for (int itemNumber = 0; itemNumber < dataset.getItemCount(0); itemNumber++) {
String rawDataFile = dataset.getRawDataFile(itemNumber);
if (dataset.getGroupNumber(itemNumber) == groupNumber)
fileNames = fileNames.concat(rawDataFile);
}
if (fileNames.length() == 0)
fileNames = "Empty group";
paramValue = fileNames;
}
Color nextColor = (Color) spotRenderer.getGroupPaint(groupNumber);
Color groupColor = new Color(nextColor.getRed(), nextColor.getGreen(), nextColor.getBlue(),
(int) Math.round(255 * dataPointAlpha));
legendItemsCollection.add(new LegendItem(paramValue.toString(), "-", null, null,
spotRenderer.getDataPointsShape(), groupColor));
}
plot.setFixedLegendItems(legendItemsCollection);
}
// reset zoom history
ZoomHistory history = getZoomHistory();
if (history != null)
history.clear();
}
Example 13
| Source File: ScatterPlot.java From Benchmark with GNU General Public License v2.0 | 4 votes |
|
public void initializePlot( XYPlot xyplot ) {
NumberAxis rangeAxis = (NumberAxis) xyplot.getRangeAxis();
NumberAxis domainAxis = (NumberAxis) xyplot.getDomainAxis();
rangeAxis.setRange(-9.99, 109.99);
rangeAxis.setNumberFormatOverride(pctFormat);
rangeAxis.setTickLabelPaint(Color.decode("#666666"));
rangeAxis.setMinorTickCount(5);
rangeAxis.setTickUnit(new NumberTickUnit(10));
rangeAxis.setAxisLineVisible(true);
rangeAxis.setMinorTickMarksVisible(true);
rangeAxis.setTickMarksVisible(true);
rangeAxis.setLowerMargin(10);
rangeAxis.setUpperMargin(10);
domainAxis.setRange(-5, 175);
domainAxis.setNumberFormatOverride(pctFormat);
domainAxis.setTickLabelPaint(Color.decode("#666666"));
domainAxis.setMinorTickCount(5);
domainAxis.setTickUnit(new NumberTickUnit(10));
domainAxis.setAxisLineVisible(true);
domainAxis.setTickMarksVisible(true);
domainAxis.setMinorTickMarksVisible(true);
domainAxis.setLowerMargin(10);
domainAxis.setUpperMargin(10);
xyplot.setRangeGridlineStroke(new BasicStroke());
xyplot.setRangeGridlinePaint(Color.lightGray);
xyplot.setRangeMinorGridlinePaint(Color.decode("#DDDDDD"));
xyplot.setRangeMinorGridlinesVisible(true);
xyplot.setOutlineVisible(true);
xyplot.setDomainGridlineStroke(new BasicStroke());
xyplot.setDomainGridlinePaint(Color.lightGray);
xyplot.setDomainMinorGridlinePaint(Color.decode("#DDDDDD"));
xyplot.setDomainMinorGridlinesVisible(true);
xyplot.getRenderer().setSeriesPaint(0, Color.decode("#4572a7"));
chart.setTextAntiAlias(true);
chart.setAntiAlias(true);
chart.removeLegend();
chart.setPadding(new RectangleInsets(20, 20, 20, 20));
Point2D legendLocation = new Point2D.Double( 101, -10 );
makeRect(xyplot, legendLocation, 120, 74, Color.WHITE );
Point2D triangleLocation = new Point2D.Double( 101, -10 );
Color grey = new Color(0.1f,0.1f,0.1f,0.1f);
makeTriangle(xyplot, triangleLocation, grey );
makeGuessingLine( xyplot );
}
Example 14
| Source File: BaseLineChart.java From EdgeSim with MIT License | 4 votes |
|
protected void generateLineChart(String xAisTitle, String yAisTitle,
NumberTickUnit xAisSpace, NumberTickUnit yAisSpace, double yaisMinValue, double yAisMaxValue,
XYSeriesCollection collection) {
this.chart = ChartFactory.createXYLineChart(null, xAisTitle, yAisTitle,
collection, PlotOrientation.VERTICAL, true, true, false);
this.chart.getPlot().setBackgroundPaint(SystemColor.white);
LegendTitle legend = chart.getLegend();
legend.setPosition(RectangleEdge.RIGHT);
legend.setHorizontalAlignment(HorizontalAlignment.LEFT);
XYPlot plot = (XYPlot) chart.getPlot();
NumberAxis numberAxisX = (NumberAxis) chart.getXYPlot().getDomainAxis();
numberAxisX.setAutoRangeIncludesZero(false);
numberAxisX.setTickUnit(xAisSpace);
numberAxisX.setAxisLineVisible(false);
numberAxisX.setTickMarkInsideLength(4f);
numberAxisX.setTickMarkOutsideLength(0);
NumberAxis numberAxisY = (NumberAxis) chart.getXYPlot().getRangeAxis();
numberAxisY.setTickUnit(yAisSpace);
numberAxisY.setRangeWithMargins(yaisMinValue, yAisMaxValue);
numberAxisY.setAutoRangeIncludesZero(true);
numberAxisY.setAxisLineVisible(false);
numberAxisY.setTickMarkInsideLength(4f);
numberAxisY.setTickMarkOutsideLength(0);
numberAxisY.setNumberFormatOverride(NumberFormat.getNumberInstance());
XYLineAndShapeRenderer renderer = (XYLineAndShapeRenderer) plot
.getRenderer();
// renderer.setBaseItemLabelsVisible(true);
renderer.setDefaultItemLabelsVisible(true);
renderer.setDefaultShapesVisible(true);
// renderer.setBaseShapesVisible(true);
renderer.setDrawOutlines(true);
renderer.setSeriesOutlineStroke(0, new BasicStroke(5F));
renderer.setSeriesOutlineStroke(1, new BasicStroke(5F));
renderer.setSeriesOutlineStroke(2, new BasicStroke(5F));
renderer.setSeriesOutlineStroke(3, new BasicStroke(5F));
renderer.setSeriesOutlineStroke(4, new BasicStroke(5F));
renderer.setSeriesPaint(0, Color.RED);
renderer.setSeriesPaint(1, Color.BLUE);
renderer.setSeriesPaint(2, new Color(255, 125, 11));
renderer.setSeriesPaint(3, new Color(0, 161, 59));
renderer.setSeriesPaint(4, new Color(148, 103, 189));
renderer.setSeriesStroke(0, new BasicStroke(4.0F));
renderer.setSeriesStroke(1, new BasicStroke(4.0F));
renderer.setSeriesStroke(2, new BasicStroke(4.0F));
renderer.setSeriesStroke(3, new BasicStroke(4.0F));
renderer.setSeriesStroke(4, new BasicStroke(2.0F));
renderer.setSeriesStroke(5, new BasicStroke(2.0F));
// renderer.setUseFillPaint(true);
this.chartFrame = new ChartFrame("Line Chart", chart);
chartFrame.pack();
chartFrame.setSize(800, 600);
chartFrame.setLocation(300, 200);
chartFrame.setVisible(true);
}
Example 15
| Source File: NumberLineChart.java From EdgeSim with MIT License | 4 votes |
|
public NumberLineChart() {
this.collection = this.getCollection();
initial();
this.chart = ChartFactory.createXYLineChart(
null,
"Request",
"Hit Rate",
collection,
PlotOrientation.VERTICAL,
true,
true,
false
);
this.chart.getPlot().setBackgroundPaint(SystemColor.white);
LegendTitle legend = chart.getLegend();
legend.setPosition(RectangleEdge.RIGHT);
legend.setHorizontalAlignment(HorizontalAlignment.LEFT);
XYPlot plot = (XYPlot) chart.getPlot();
NumberAxis numberAxisX = (NumberAxis) chart.getXYPlot().getDomainAxis();
numberAxisX.setTickUnit(new NumberTickUnit(500));
// numberAxisX.setAutoRangeMinimumSize(0.1);
numberAxisX.setAutoRangeIncludesZero(true);
numberAxisX.setAxisLineVisible(false);
numberAxisX.setTickMarkInsideLength(4f);
numberAxisX.setTickMarkOutsideLength(0);
NumberAxis numberAxisY = (NumberAxis) chart.getXYPlot().getRangeAxis();
numberAxisY.setTickUnit(new NumberTickUnit(0.2));
numberAxisY.setRangeWithMargins(0,1);
numberAxisY.setAutoRangeIncludesZero(true);
numberAxisY.setAxisLineVisible(false);
numberAxisY.setTickMarkInsideLength(4f);
numberAxisY.setTickMarkOutsideLength(0);
// ����Y������Ϊ�ٷֱ�
numberAxisY.setNumberFormatOverride(NumberFormat.getPercentInstance());
XYItemRenderer xyitem = plot.getRenderer();
xyitem.setDefaultItemLabelsVisible(true);
// ItemLabelsVisible(true);
xyitem.setDefaultPositiveItemLabelPosition(new ItemLabelPosition(ItemLabelAnchor.OUTSIDE12, TextAnchor.BASELINE_LEFT));
// xyitem.setBasePositiveItemLabelPosition(new ItemLabelPosition(ItemLabelAnchor.OUTSIDE12, TextAnchor.BASELINE_LEFT));
// xyitem.setBaseItemLabelFont(new Font("Dialog", 1, 12));
xyitem.setDefaultItemLabelFont(new Font("Dialog", 1, 12));
plot.setRenderer(xyitem);
XYLineAndShapeRenderer renderer = (XYLineAndShapeRenderer)plot.getRenderer();
renderer.setDefaultItemLabelsVisible(true);
renderer.setDefaultShapesVisible(true);
renderer.setDrawOutlines(true);
renderer.setSeriesOutlineStroke(0, new BasicStroke(5F));
renderer.setSeriesOutlineStroke(1, new BasicStroke(5F));
renderer.setSeriesOutlineStroke(2, new BasicStroke(5F));
renderer.setSeriesOutlineStroke(3, new BasicStroke(5F));
renderer.setSeriesPaint(0, Color.RED);
renderer.setSeriesPaint(1, new Color(53,101,253));
renderer.setSeriesPaint(2, new Color(0,161,59));//����ɫ
renderer.setSeriesPaint(3, new Color(148,103,189));//��ɫ
renderer.setSeriesStroke(0, new BasicStroke(4.0F));
renderer.setSeriesStroke(1, new BasicStroke(4.0F));
renderer.setSeriesStroke(2, new BasicStroke(4.0F));
renderer.setSeriesStroke(3, new BasicStroke(4.0F));
renderer.setSeriesStroke(4, new BasicStroke(2.0F));
renderer.setSeriesStroke(5, new BasicStroke(2.0F));
this.chartFrame = new ChartFrame("Line Chart", chart);
chartFrame.pack();
chartFrame.setSize(1600,1200);
chartFrame.setLocation(300,200);
chartFrame.setVisible(true);
}
Example 16
| Source File: ProjectionPlotPanel.java From mzmine3 with GNU General Public License v2.0 | 4 votes |
|
public ProjectionPlotPanel(ProjectionPlotWindow masterFrame, ProjectionPlotDataset dataset,
ParameterSet parameters) {
super(null);
boolean createLegend = false;
if ((dataset.getNumberOfGroups() > 1) && (dataset.getNumberOfGroups() < 20))
createLegend = true;
chart = ChartFactory.createXYAreaChart("", dataset.getXLabel(), dataset.getYLabel(), dataset,
PlotOrientation.VERTICAL, createLegend, false, false);
chart.setBackgroundPaint(Color.white);
setChart(chart);
// title
TextTitle chartTitle = chart.getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chart.removeSubtitle(chartTitle);
// disable maximum size (we don't want scaling)
// setMaximumDrawWidth(Integer.MAX_VALUE);
// setMaximumDrawHeight(Integer.MAX_VALUE);
// set the plot properties
plot = chart.getXYPlot();
plot.setBackgroundPaint(Color.white);
plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0));
// set grid properties
plot.setDomainGridlinePaint(gridColor);
plot.setRangeGridlinePaint(gridColor);
// set crosshair (selection) properties
plot.setDomainCrosshairVisible(false);
plot.setRangeCrosshairVisible(false);
plot.setForegroundAlpha(dataPointAlpha);
NumberFormat numberFormat = NumberFormat.getNumberInstance();
// set the X axis (component 1) properties
NumberAxis xAxis = (NumberAxis) plot.getDomainAxis();
xAxis.setNumberFormatOverride(numberFormat);
// set the Y axis (component 2) properties
NumberAxis yAxis = (NumberAxis) plot.getRangeAxis();
yAxis.setNumberFormatOverride(numberFormat);
plot.setDataset(dataset);
spotRenderer = new ProjectionPlotRenderer(plot, dataset);
itemLabelGenerator = new ProjectionPlotItemLabelGenerator(parameters);
spotRenderer.setDefaultItemLabelGenerator(itemLabelGenerator);
spotRenderer.setDefaultItemLabelsVisible(true);
spotRenderer.setDefaultToolTipGenerator(new ProjectionPlotToolTipGenerator(parameters));
plot.setRenderer(spotRenderer);
// Setup legend
if (createLegend) {
LegendItemCollection legendItemsCollection = new LegendItemCollection();
for (int groupNumber = 0; groupNumber < dataset.getNumberOfGroups(); groupNumber++) {
Object paramValue = dataset.getGroupParameterValue(groupNumber);
if (paramValue == null) {
// No parameter value available: search for raw data files
// within this group, and use their names as group's name
String fileNames = new String();
for (int itemNumber = 0; itemNumber < dataset.getItemCount(0); itemNumber++) {
String rawDataFile = dataset.getRawDataFile(itemNumber);
if (dataset.getGroupNumber(itemNumber) == groupNumber)
fileNames = fileNames.concat(rawDataFile);
}
if (fileNames.length() == 0)
fileNames = "Empty group";
paramValue = fileNames;
}
Color nextColor = (Color) spotRenderer.getGroupPaint(groupNumber);
Color groupColor = new Color(nextColor.getRed(), nextColor.getGreen(), nextColor.getBlue(),
Math.round(255 * dataPointAlpha));
legendItemsCollection.add(new LegendItem(paramValue.toString(), "-", null, null,
spotRenderer.getDataPointsShape(), groupColor));
}
plot.setFixedLegendItems(legendItemsCollection);
}
// reset zoom history
ZoomHistory history = getZoomHistory();
if (history != null)
history.clear();
}
Example 17
| Source File: TwoDPlot.java From mzmine3 with GNU General Public License v2.0 | 4 votes |
|
TwoDPlot(RawDataFile rawDataFile, TwoDVisualizerWindow visualizer, TwoDDataSet dataset,
Range<Double> rtRange, Range<Double> mzRange, String whichPlotTypeStr) {
super(null);
this.rawDataFile = rawDataFile;
this.rtRange = rtRange;
this.mzRange = mzRange;
// setBackground(Color.white);
setCursor(Cursor.CROSSHAIR);
// set the X axis (retention time) properties
xAxis = new NumberAxis("Retention time");
xAxis.setAutoRangeIncludesZero(false);
xAxis.setNumberFormatOverride(rtFormat);
xAxis.setUpperMargin(0);
xAxis.setLowerMargin(0);
// set the Y axis (intensity) properties
yAxis = new NumberAxis("m/z");
yAxis.setAutoRangeIncludesZero(false);
yAxis.setNumberFormatOverride(mzFormat);
yAxis.setUpperMargin(0);
yAxis.setLowerMargin(0);
// set the plot properties
if (whichPlotTypeStr == "default") {
plot = new TwoDXYPlot(dataset, rtRange, mzRange, xAxis, yAxis);
} else if (whichPlotTypeStr == "point2D") {
plot = new PointTwoDXYPlot(dataset, rtRange, mzRange, xAxis, yAxis);
}
plot.setBackgroundPaint(Color.white);
plot.setDomainGridlinesVisible(false);
plot.setRangeGridlinesVisible(false);
// chart properties
chart = new JFreeChart("", titleFont, plot, false);
chart.setBackgroundPaint(Color.white);
setChart(chart);
// title
chartTitle = chart.getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chartSubTitle = new TextTitle();
chartSubTitle.setFont(subTitleFont);
chartSubTitle.setMargin(5, 0, 0, 0);
chart.addSubtitle(chartSubTitle);
// disable maximum size (we don't want scaling)
// setMaximumDrawWidth(Integer.MAX_VALUE);
// setMaximumDrawHeight(Integer.MAX_VALUE);
// set crosshair (selection) properties
plot.setRangeCrosshairVisible(false);
plot.setDomainCrosshairVisible(true);
plot.setDomainCrosshairPaint(crossHairColor);
plot.setDomainCrosshairStroke(crossHairStroke);
// set rendering order
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
peakDataRenderer = new PeakDataRenderer();
// reset zoom history
ZoomHistory history = getZoomHistory();
if (history != null)
history.clear();
}
Example 18
| Source File: MsMsPlot.java From mzmine3 with GNU General Public License v2.0 | 4 votes |
|
MsMsPlot(RawDataFile rawDataFile, MsMsVisualizerWindow visualizer, MsMsDataSet dataset,
Range<Double> rtRange, Range<Double> mzRange) {
super(ChartFactory.createXYLineChart("", "", "", null, PlotOrientation.VERTICAL, true, true,
false), true, true, false, false, true);
this.visualizer = visualizer;
this.rawDataFile = rawDataFile;
this.rtRange = rtRange;
this.mzRange = mzRange;
// initialize the chart by default time series chart from factory
chart = getChart();
chart.setBackgroundPaint(Color.white);
// disable maximum size (we don't want scaling)
// setMaximumDrawWidth(Integer.MAX_VALUE);
// setMaximumDrawHeight(Integer.MAX_VALUE);
// set the plot properties
plot = chart.getXYPlot();
plot.setBackgroundPaint(Color.white);
plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0));
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
plot.setSeriesRenderingOrder(SeriesRenderingOrder.FORWARD);
plot.setDomainGridlinePaint(gridColor);
plot.setRangeGridlinePaint(gridColor);
// Set the domain log axis
xAxis = new NumberAxis("Retention time (min)");
xAxis.setAutoRangeIncludesZero(false);
xAxis.setNumberFormatOverride(rtFormat);
xAxis.setUpperMargin(0.01);
xAxis.setLowerMargin(0.01);
plot.setDomainAxis(xAxis);
// Set the range log axis
yAxis = new NumberAxis("Precursor m/z");
yAxis.setAutoRangeIncludesZero(false);
yAxis.setNumberFormatOverride(mzFormat);
yAxis.setUpperMargin(0.1);
yAxis.setLowerMargin(0.1);
plot.setRangeAxis(yAxis);
// Set crosshair properties
plot.setDomainCrosshairVisible(true);
plot.setRangeCrosshairVisible(true);
plot.setDomainCrosshairPaint(crossHairColor);
plot.setRangeCrosshairPaint(crossHairColor);
plot.setDomainCrosshairStroke(crossHairStroke);
plot.setRangeCrosshairStroke(crossHairStroke);
// Create renderers
mainRenderer = new MsMsPlotRenderer();
plot.setRenderer(0, mainRenderer);
// title
chartTitle = chart.getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chartSubTitle = new TextTitle();
chartSubTitle.setFont(subTitleFont);
chartSubTitle.setMargin(5, 0, 0, 0);
chart.addSubtitle(chartSubTitle);
// Add data sets;
plot.setDataset(0, dataset);
// set rendering order
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
peakDataRenderer = new PeakDataRenderer();
// reset zoom history
ZoomHistory history = getZoomHistory();
if (history != null)
history.clear();
}
Example 19
| Source File: PseudoSpectrum.java From mzmine3 with GNU General Public License v2.0 | 4 votes |
|
public static JFreeChart createChart(PseudoSpectrumDataSet dataset, RawDataFile raw, boolean sum,
String title) {
//
JFreeChart chart = ChartFactory.createXYLineChart(title, // title
"m/z", // x-axis label
"Intensity", // y-axis label
dataset, // data set
PlotOrientation.VERTICAL, // orientation
true, // isotopeFlag, // create legend?
true, // generate tooltips?
false // generate URLs?
);
chart.setBackgroundPaint(Color.white);
chart.getTitle().setVisible(false);
// set the plot properties
XYPlot plot = chart.getXYPlot();
plot.setBackgroundPaint(Color.white);
plot.setAxisOffset(RectangleInsets.ZERO_INSETS);
// set rendering order
plot.setDatasetRenderingOrder(DatasetRenderingOrder.FORWARD);
// set crosshair (selection) properties
plot.setDomainCrosshairVisible(false);
plot.setRangeCrosshairVisible(false);
NumberFormat mzFormat = MZmineCore.getConfiguration().getMZFormat();
NumberFormat intensityFormat = MZmineCore.getConfiguration().getIntensityFormat();
// set the X axis (retention time) properties
NumberAxis xAxis = (NumberAxis) plot.getDomainAxis();
xAxis.setNumberFormatOverride(mzFormat);
xAxis.setUpperMargin(0.08);
xAxis.setLowerMargin(0.00);
xAxis.setTickLabelInsets(new RectangleInsets(0, 0, 20, 20));
xAxis.setAutoRangeIncludesZero(true);
xAxis.setMinorTickCount(5);
// set the Y axis (intensity) properties
NumberAxis yAxis = (NumberAxis) plot.getRangeAxis();
yAxis.setNumberFormatOverride(intensityFormat);
yAxis.setUpperMargin(0.20);
PseudoSpectraRenderer renderer = new PseudoSpectraRenderer(Color.BLACK, false);
plot.setRenderer(0, renderer);
plot.setRenderer(1, renderer);
plot.setRenderer(2, renderer);
renderer.setSeriesVisibleInLegend(1, false);
renderer.setSeriesPaint(2, Color.ORANGE);
//
return chart;
}
Example 20
| Source File: RTMZPlot.java From mzmine2 with GNU General Public License v2.0 | 4 votes |
|
public RTMZPlot(RTMZAnalyzerWindow masterFrame, AbstractXYZDataset dataset,
InterpolatingLookupPaintScale paintScale) {
super(null);
this.paintScale = paintScale;
chart = ChartFactory.createXYAreaChart("", "Retention time", "m/z", dataset,
PlotOrientation.VERTICAL, false, false, false);
chart.setBackgroundPaint(Color.white);
setChart(chart);
// title
TextTitle chartTitle = chart.getTitle();
chartTitle.setMargin(5, 0, 0, 0);
chartTitle.setFont(titleFont);
chart.removeSubtitle(chartTitle);
// disable maximum size (we don't want scaling)
setMaximumDrawWidth(Integer.MAX_VALUE);
setMaximumDrawHeight(Integer.MAX_VALUE);
// set the plot properties
plot = chart.getXYPlot();
plot.setBackgroundPaint(Color.white);
plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0));
// set grid properties
plot.setDomainGridlinePaint(gridColor);
plot.setRangeGridlinePaint(gridColor);
// set crosshair (selection) properties
plot.setDomainCrosshairVisible(true);
plot.setRangeCrosshairVisible(true);
plot.setDomainCrosshairPaint(crossHairColor);
plot.setRangeCrosshairPaint(crossHairColor);
plot.setDomainCrosshairStroke(crossHairStroke);
plot.setRangeCrosshairStroke(crossHairStroke);
NumberFormat rtFormat = MZmineCore.getConfiguration().getRTFormat();
NumberFormat mzFormat = MZmineCore.getConfiguration().getMZFormat();
// set the X axis (retention time) properties
NumberAxis xAxis = (NumberAxis) plot.getDomainAxis();
xAxis.setNumberFormatOverride(rtFormat);
xAxis.setUpperMargin(0.001);
xAxis.setLowerMargin(0.001);
// set the Y axis (intensity) properties
NumberAxis yAxis = (NumberAxis) plot.getRangeAxis();
yAxis.setAutoRangeIncludesZero(false);
yAxis.setNumberFormatOverride(mzFormat);
plot.setDataset(dataset);
spotRenderer = new RTMZRenderer(dataset, paintScale);
plot.setRenderer(spotRenderer);
spotRenderer.setDefaultToolTipGenerator(new RTMZToolTipGenerator());
// Add a paintScaleLegend to chart
paintScaleAxis = new NumberAxis("Logratio");
paintScaleAxis.setRange(paintScale.getLowerBound(), paintScale.getUpperBound());
paintScaleLegend = new PaintScaleLegend(paintScale, paintScaleAxis);
paintScaleLegend.setPosition(plot.getDomainAxisEdge());
paintScaleLegend.setMargin(5, 25, 5, 25);
chart.addSubtitle(paintScaleLegend);
// reset zoom history
ZoomHistory history = getZoomHistory();
if (history != null)
history.clear();
}
