List of usage examples for org.jfree.chart.plot XYPlot setRangeCrosshairVisible
public void setRangeCrosshairVisible(boolean flag)
From source file:org.n52.server.io.render.DiagramRenderer.java
/** * <pre>// w w w .ja va 2 s . co m * dataset := associated to one range-axis; * corresponds to one observedProperty; * may contain multiple series; * series := corresponds to a time series for one foi * </pre> * * . * * @param entireCollMap * the entire coll map * @param options * the options * @param begin * the begin * @param end * the end * @param compress * @return the j free chart */ public JFreeChart renderChart(Map<String, OXFFeatureCollection> entireCollMap, DesignOptions options, Calendar begin, Calendar end, boolean compress) { DesignDescriptionList designDescriptions = buildUpDesignDescriptionList(options); /*** FIRST RUN ***/ JFreeChart chart = initializeTimeSeriesChart(); chart.setBackgroundPaint(Color.white); if (!this.isOverview) { chart.addSubtitle(new TextTitle(ConfigurationContext.COPYRIGHT, new Font(LABEL_FONT, Font.PLAIN, 9), Color.black, RectangleEdge.BOTTOM, HorizontalAlignment.RIGHT, VerticalAlignment.BOTTOM, new RectangleInsets(0, 0, 20, 20))); } XYPlot plot = (XYPlot) chart.getPlot(); plot.setBackgroundPaint(Color.white); plot.setDomainGridlinePaint(Color.lightGray); plot.setRangeGridlinePaint(Color.lightGray); plot.setAxisOffset(new RectangleInsets(2.0, 2.0, 2.0, 2.0)); plot.setDomainCrosshairVisible(true); plot.setRangeCrosshairVisible(true); plot.setDomainGridlinesVisible(options.getGrid()); plot.setRangeGridlinesVisible(options.getGrid()); // add additional datasets: DateAxis dateAxis = (DateAxis) plot.getDomainAxis(); dateAxis.setRange(begin.getTime(), end.getTime()); dateAxis.setDateFormatOverride(new SimpleDateFormat()); dateAxis.setTimeZone(end.getTimeZone()); // add all axes String[] phenomenaIds = options.getAllPhenomenIds(); // all the axis indices to map them later HashMap<String, Integer> axes = new HashMap<String, Integer>(); for (int i = 0; i < phenomenaIds.length; i++) { axes.put(phenomenaIds[i], i); plot.setRangeAxis(i, new NumberAxis(phenomenaIds[i])); } // list range markers ArrayList<ValueMarker> referenceMarkers = new ArrayList<ValueMarker>(); HashMap<String, double[]> referenceBounds = new HashMap<String, double[]>(); // create all TS collections for (int i = 0; i < options.getProperties().size(); i++) { TimeseriesProperties prop = options.getProperties().get(i); String phenomenonId = prop.getPhenomenon(); TimeSeriesCollection dataset = createDataset(entireCollMap, prop, phenomenonId, compress); dataset.setGroup(new DatasetGroup(prop.getTimeseriesId())); XYDataset additionalDataset = dataset; NumberAxis axe = (NumberAxis) plot.getRangeAxis(axes.get(phenomenonId)); if (this.isOverview) { axe.setAutoRange(true); axe.setAutoRangeIncludesZero(false); } else if (prop.getAxisUpperBound() == prop.getAxisLowerBound() || prop.isAutoScale()) { if (prop.isZeroScaled()) { axe.setAutoRangeIncludesZero(true); } else { axe.setAutoRangeIncludesZero(false); } } else { if (prop.isZeroScaled()) { if (axe.getUpperBound() < prop.getAxisUpperBound()) { axe.setUpperBound(prop.getAxisUpperBound()); } if (axe.getLowerBound() > prop.getAxisLowerBound()) { axe.setLowerBound(prop.getAxisLowerBound()); } } else { axe.setRange(prop.getAxisLowerBound(), prop.getAxisUpperBound()); axe.setAutoRangeIncludesZero(false); } } plot.setDataset(i, additionalDataset); plot.mapDatasetToRangeAxis(i, axes.get(phenomenonId)); // set bounds new for reference values if (!referenceBounds.containsKey(phenomenonId)) { double[] bounds = new double[] { axe.getLowerBound(), axe.getUpperBound() }; referenceBounds.put(phenomenonId, bounds); } else { double[] bounds = referenceBounds.get(phenomenonId); if (bounds[0] >= axe.getLowerBound()) { bounds[0] = axe.getLowerBound(); } if (bounds[1] <= axe.getUpperBound()) { bounds[1] = axe.getUpperBound(); } } double[] bounds = referenceBounds.get(phenomenonId); for (String string : prop.getReferenceValues()) { if (prop.getRefValue(string).show()) { Double value = prop.getRefValue(string).getValue(); if (value <= bounds[0]) { bounds[0] = value; } else if (value >= bounds[1]) { bounds[1] = value; } } } Axis axis = prop.getAxis(); if (axis == null) { axis = new Axis(axe.getUpperBound(), axe.getLowerBound()); } else if (prop.isAutoScale()) { axis.setLowerBound(axe.getLowerBound()); axis.setUpperBound(axe.getUpperBound()); axis.setMaxY(axis.getMaxY()); axis.setMinY(axis.getMinY()); } prop.setAxisData(axis); this.axisMapping.put(prop.getTimeseriesId(), axis); for (String string : prop.getReferenceValues()) { if (prop.getRefValue(string).show()) { referenceMarkers.add(new ValueMarker(prop.getRefValue(string).getValue(), Color.decode(prop.getRefValue(string).getColor()), new BasicStroke(1.0f, BasicStroke.CAP_ROUND, BasicStroke.JOIN_ROUND, 1.0f))); } } plot.mapDatasetToRangeAxis(i, axes.get(phenomenonId)); } for (ValueMarker valueMarker : referenceMarkers) { plot.addRangeMarker(valueMarker); } // show actual time ValueMarker nowMarker = new ValueMarker(System.currentTimeMillis(), Color.orange, new BasicStroke(1.0f, BasicStroke.CAP_ROUND, BasicStroke.JOIN_ROUND, 1.0f)); plot.addDomainMarker(nowMarker); if (!this.isOverview) { Iterator<Entry<String, double[]>> iterator = referenceBounds.entrySet().iterator(); while (iterator.hasNext()) { Entry<String, double[]> boundsEntry = iterator.next(); String phenId = boundsEntry.getKey(); NumberAxis axe = (NumberAxis) plot.getRangeAxis(axes.get(phenId)); axe.setAutoRange(true); // add a margin double marginOffset = (boundsEntry.getValue()[1] - boundsEntry.getValue()[0]) / 25; boundsEntry.getValue()[0] -= marginOffset; boundsEntry.getValue()[1] += marginOffset; axe.setRange(boundsEntry.getValue()[0], boundsEntry.getValue()[1]); } } /**** SECOND RUN ***/ // set domain axis labels: plot.getDomainAxis().setLabelFont(label); plot.getDomainAxis().setLabelPaint(LABEL_COLOR); plot.getDomainAxis().setTickLabelFont(tickLabelDomain); plot.getDomainAxis().setTickLabelPaint(LABEL_COLOR); plot.getDomainAxis().setLabel(designDescriptions.getDomainAxisLabel()); // define the design for each series: for (int datasetIndex = 0; datasetIndex < plot.getDatasetCount(); datasetIndex++) { TimeSeriesCollection dataset = (TimeSeriesCollection) plot.getDataset(datasetIndex); for (int seriesIndex = 0; seriesIndex < dataset.getSeriesCount(); seriesIndex++) { String timeseriesId = (String) dataset.getSeries(seriesIndex).getKey(); RenderingDesign dd = designDescriptions.get(timeseriesId); if (dd != null) { // LINESTYLE: String lineStyle = dd.getLineStyle(); int width = dd.getLineWidth(); if (this.isOverview) { width = width / 2; width = (width == 0) ? 1 : width; } // "1" is lineStyle "line" if (lineStyle.equalsIgnoreCase(LINE)) { XYLineAndShapeRenderer ren = new XYLineAndShapeRenderer(true, false); ren.setStroke(new BasicStroke(width)); plot.setRenderer(datasetIndex, ren); } // "2" is lineStyle "area" else if (lineStyle.equalsIgnoreCase(AREA)) { plot.setRenderer(datasetIndex, new XYAreaRenderer()); } // "3" is lineStyle "dotted" else if (lineStyle.equalsIgnoreCase(DOTTED)) { XYLineAndShapeRenderer ren = new XYLineAndShapeRenderer(false, true); ren.setShape(new Ellipse2D.Double(-width, -width, 2 * width, 2 * width)); plot.setRenderer(datasetIndex, ren); } // "4" is dashed else if (lineStyle.equalsIgnoreCase("4")) { // dashed XYLineAndShapeRenderer renderer = new XYLineAndShapeRenderer(true, false); renderer.setSeriesStroke(0, new BasicStroke(width, BasicStroke.CAP_ROUND, BasicStroke.JOIN_ROUND, 1.0f, new float[] { 4.0f * width, 4.0f * width }, 0.0f)); plot.setRenderer(datasetIndex, renderer); } else if (lineStyle.equalsIgnoreCase("5")) { // lines and dots XYLineAndShapeRenderer ren = new XYLineAndShapeRenderer(true, true); int thickness = 2 * width; ren.setShape(new Ellipse2D.Double(-width, -width, thickness, thickness)); ren.setStroke(new BasicStroke(width)); plot.setRenderer(datasetIndex, ren); } else { // default is lineStyle "line" plot.setRenderer(datasetIndex, new XYLineAndShapeRenderer(true, false)); } plot.getRenderer(datasetIndex).setSeriesPaint(seriesIndex, dd.getColor()); // plot.getRenderer(datasetIndex).setShapesVisible(true); XYToolTipGenerator toolTipGenerator = StandardXYToolTipGenerator.getTimeSeriesInstance(); XYURLGenerator urlGenerator = new MetadataInURLGenerator(designDescriptions); plot.getRenderer(datasetIndex).setBaseToolTipGenerator(toolTipGenerator); plot.getRenderer(datasetIndex).setURLGenerator(urlGenerator); // GRID: // PROBLEM: JFreeChart only allows to switch the grid on/off // for the whole XYPlot. And the // grid will always be displayed for the first series in the // plot. I'll always show the // grid. // --> plot.setDomainGridlinesVisible(visible) // RANGE AXIS LABELS: if (isOverview) { plot.getRangeAxisForDataset(datasetIndex).setTickLabelsVisible(false); plot.getRangeAxisForDataset(datasetIndex).setTickMarksVisible(false); plot.getRangeAxisForDataset(datasetIndex).setVisible(false); } else { plot.getRangeAxisForDataset(datasetIndex).setLabelFont(label); plot.getRangeAxisForDataset(datasetIndex).setLabelPaint(LABEL_COLOR); plot.getRangeAxisForDataset(datasetIndex).setTickLabelFont(tickLabelDomain); plot.getRangeAxisForDataset(datasetIndex).setTickLabelPaint(LABEL_COLOR); StringBuilder unitOfMeasure = new StringBuilder(); unitOfMeasure.append(dd.getPhenomenon().getLabel()); String uomLabel = dd.getUomLabel(); if (uomLabel != null && !uomLabel.isEmpty()) { unitOfMeasure.append(" (").append(uomLabel).append(")"); } plot.getRangeAxisForDataset(datasetIndex).setLabel(unitOfMeasure.toString()); } } } } return chart; }
From source file:loci.slim.ui.DecayGraph.java
/** * Creates the chart//from www. j a va2s . c o m * * @param bins number of bins * @param timeInc time increment per bin * @return the chart */ JFreeChart createCombinedChart(final int bins, final double timeInc) { // create empty chart data sets _decayDataset = new XYSeriesCollection(); _residualDataset = new XYSeriesCollection(); // make a common horizontal axis for both sub-plots final NumberAxis timeAxis = new NumberAxis(TIME_AXIS_LABEL); timeAxis.setLabel(UNITS_LABEL); timeAxis.setRange(0.0, (bins - 1) * timeInc); // make a vertically combined plot final CombinedDomainXYPlot parent = new CombinedDomainXYPlot(timeAxis); // create decay sub-plot NumberAxis photonAxis; if (_logarithmic) { photonAxis = new LogarithmicAxis(PHOTON_AXIS_LABEL); } else { photonAxis = new NumberAxis(PHOTON_AXIS_LABEL); } final XYSplineRenderer decayRenderer = new XYSplineRenderer(); decayRenderer.setSeriesShapesVisible(0, false); decayRenderer.setSeriesShapesVisible(1, false); decayRenderer.setSeriesLinesVisible(2, false); decayRenderer.setSeriesShape(2, new Ellipse2D.Float(-1.0f, -1.0f, 2.0f, 2.0f)); decayRenderer.setSeriesPaint(0, PROMPT_COLOR); decayRenderer.setSeriesPaint(1, FITTED_COLOR); decayRenderer.setSeriesPaint(2, DECAY_COLOR); _decaySubPlot = new XYPlot(_decayDataset, null, photonAxis, decayRenderer); _decaySubPlot.setDomainCrosshairVisible(true); _decaySubPlot.setRangeCrosshairVisible(true); // add decay sub-plot to parent parent.add(_decaySubPlot, DECAY_WEIGHT); // create residual sub-plot final NumberAxis residualAxis = new NumberAxis(RESIDUAL_AXIS_LABEL); final XYSplineRenderer residualRenderer = new XYSplineRenderer(); residualRenderer.setSeriesPaint(0, RESIDUAL_COLOR); residualRenderer.setSeriesLinesVisible(0, false); residualRenderer.setSeriesShape(0, new Ellipse2D.Float(-1.0f, -1.0f, 2.0f, 2.0f)); final XYPlot residualSubPlot = new XYPlot(_residualDataset, null, residualAxis, residualRenderer); residualSubPlot.setDomainCrosshairVisible(true); residualSubPlot.setRangeCrosshairVisible(true); residualSubPlot.setFixedLegendItems(null); // add residual sub-plot to parent parent.add(residualSubPlot, RESIDUAL_WEIGHT); // now make the top level JFreeChart final JFreeChart chart = new JFreeChart(null, JFreeChart.DEFAULT_TITLE_FONT, parent, true); chart.removeLegend(); return chart; }
From source file:org.n52.server.sos.render.DiagramRenderer.java
/** * <pre>//from ww w.java2 s.co m * dataset := associated to one range-axis; * corresponds to one observedProperty; * may contain multiple series; * series := corresponds to a time series for one foi * </pre> * * . * * @param entireCollMap * the entire coll map * @param options * the options * @param begin * the begin * @param end * the end * @param compress * @return the j free chart */ public JFreeChart renderChart(Map<String, OXFFeatureCollection> entireCollMap, DesignOptions options, Calendar begin, Calendar end, boolean compress) { DesignDescriptionList designDescriptions = buildUpDesignDescriptionList(options); /*** FIRST RUN ***/ JFreeChart chart = initializeTimeSeriesChart(); chart.setBackgroundPaint(Color.white); if (!this.isOverview) { chart.addSubtitle(new TextTitle(ConfigurationContext.COPYRIGHT, new Font(LABEL_FONT, Font.PLAIN, 9), Color.black, RectangleEdge.BOTTOM, HorizontalAlignment.RIGHT, VerticalAlignment.BOTTOM, new RectangleInsets(0, 0, 20, 20))); } XYPlot plot = (XYPlot) chart.getPlot(); plot.setBackgroundPaint(Color.white); plot.setDomainGridlinePaint(Color.lightGray); plot.setRangeGridlinePaint(Color.lightGray); plot.setAxisOffset(new RectangleInsets(2.0, 2.0, 2.0, 2.0)); plot.setDomainCrosshairVisible(true); plot.setRangeCrosshairVisible(true); plot.setDomainGridlinesVisible(options.getGrid()); plot.setRangeGridlinesVisible(options.getGrid()); // add additional datasets: DateAxis dateAxis = (DateAxis) plot.getDomainAxis(); dateAxis.setRange(begin.getTime(), end.getTime()); dateAxis.setDateFormatOverride(new SimpleDateFormat()); // add all axes String[] phenomenaIds = options.getAllPhenomenIds(); // all the axis indices to map them later HashMap<String, Integer> axes = new HashMap<String, Integer>(); for (int i = 0; i < phenomenaIds.length; i++) { axes.put(phenomenaIds[i], i); plot.setRangeAxis(i, new NumberAxis(phenomenaIds[i])); } // list range markers ArrayList<ValueMarker> referenceMarkers = new ArrayList<ValueMarker>(); HashMap<String, double[]> referenceBounds = new HashMap<String, double[]>(); // create all TS collections for (int i = 0; i < options.getProperties().size(); i++) { TimeseriesProperties prop = options.getProperties().get(i); String phenomenonId = prop.getPhenomenon(); TimeSeriesCollection dataset = createDataset(entireCollMap, prop, phenomenonId, compress); dataset.setGroup(new DatasetGroup(prop.getTimeseriesId())); XYDataset additionalDataset = dataset; NumberAxis axe = (NumberAxis) plot.getRangeAxis(axes.get(phenomenonId)); if (this.isOverview) { axe.setAutoRange(true); axe.setAutoRangeIncludesZero(false); } else if (prop.getAxisUpperBound() == prop.getAxisLowerBound() || prop.isAutoScale()) { if (prop.isZeroScaled()) { axe.setAutoRangeIncludesZero(true); } else { axe.setAutoRangeIncludesZero(false); } } else { if (prop.isZeroScaled()) { if (axe.getUpperBound() < prop.getAxisUpperBound()) { axe.setUpperBound(prop.getAxisUpperBound()); } if (axe.getLowerBound() > prop.getAxisLowerBound()) { axe.setLowerBound(prop.getAxisLowerBound()); } } else { axe.setRange(prop.getAxisLowerBound(), prop.getAxisUpperBound()); axe.setAutoRangeIncludesZero(false); } } plot.setDataset(i, additionalDataset); plot.mapDatasetToRangeAxis(i, axes.get(phenomenonId)); // set bounds new for reference values if (!referenceBounds.containsKey(phenomenonId)) { double[] bounds = new double[] { axe.getLowerBound(), axe.getUpperBound() }; referenceBounds.put(phenomenonId, bounds); } else { double[] bounds = referenceBounds.get(phenomenonId); if (bounds[0] >= axe.getLowerBound()) { bounds[0] = axe.getLowerBound(); } if (bounds[1] <= axe.getUpperBound()) { bounds[1] = axe.getUpperBound(); } } double[] bounds = referenceBounds.get(phenomenonId); for (String string : prop.getReferenceValues()) { if (prop.getRefValue(string).show()) { Double value = prop.getRefValue(string).getValue(); if (value <= bounds[0]) { bounds[0] = value; } else if (value >= bounds[1]) { bounds[1] = value; } } } Axis axis = prop.getAxis(); if (axis == null) { axis = new Axis(axe.getUpperBound(), axe.getLowerBound()); } else if (prop.isAutoScale()) { axis.setLowerBound(axe.getLowerBound()); axis.setUpperBound(axe.getUpperBound()); axis.setMaxY(axis.getMaxY()); axis.setMinY(axis.getMinY()); } prop.setAxisData(axis); this.axisMapping.put(prop.getTimeseriesId(), axis); for (String string : prop.getReferenceValues()) { if (prop.getRefValue(string).show()) { referenceMarkers.add(new ValueMarker(prop.getRefValue(string).getValue(), Color.decode(prop.getRefValue(string).getColor()), new BasicStroke(1.0f, BasicStroke.CAP_ROUND, BasicStroke.JOIN_ROUND, 1.0f))); } } plot.mapDatasetToRangeAxis(i, axes.get(phenomenonId)); } for (ValueMarker valueMarker : referenceMarkers) { plot.addRangeMarker(valueMarker); } // show actual time ValueMarker nowMarker = new ValueMarker(System.currentTimeMillis(), Color.orange, new BasicStroke(1.0f, BasicStroke.CAP_ROUND, BasicStroke.JOIN_ROUND, 1.0f)); plot.addDomainMarker(nowMarker); if (!this.isOverview) { Iterator<Entry<String, double[]>> iterator = referenceBounds.entrySet().iterator(); while (iterator.hasNext()) { Entry<String, double[]> boundsEntry = iterator.next(); String phenId = boundsEntry.getKey(); NumberAxis axe = (NumberAxis) plot.getRangeAxis(axes.get(phenId)); axe.setAutoRange(true); // add a margin double marginOffset = (boundsEntry.getValue()[1] - boundsEntry.getValue()[0]) / 25; boundsEntry.getValue()[0] -= marginOffset; boundsEntry.getValue()[1] += marginOffset; axe.setRange(boundsEntry.getValue()[0], boundsEntry.getValue()[1]); } } /**** SECOND RUN ***/ // set domain axis labels: plot.getDomainAxis().setLabelFont(label); plot.getDomainAxis().setLabelPaint(LABEL_COLOR); plot.getDomainAxis().setTickLabelFont(tickLabelDomain); plot.getDomainAxis().setTickLabelPaint(LABEL_COLOR); plot.getDomainAxis().setLabel(designDescriptions.getDomainAxisLabel()); // define the design for each series: for (int datasetIndex = 0; datasetIndex < plot.getDatasetCount(); datasetIndex++) { TimeSeriesCollection dataset = (TimeSeriesCollection) plot.getDataset(datasetIndex); for (int seriesIndex = 0; seriesIndex < dataset.getSeriesCount(); seriesIndex++) { String timeseriesId = (String) dataset.getSeries(seriesIndex).getKey(); RenderingDesign dd = designDescriptions.get(timeseriesId); if (dd != null) { // LINESTYLE: String lineStyle = dd.getLineStyle(); int width = dd.getLineWidth(); if (this.isOverview) { width = width / 2; width = (width == 0) ? 1 : width; } // "1" is lineStyle "line" if (lineStyle.equalsIgnoreCase(LINE)) { XYLineAndShapeRenderer ren = new XYLineAndShapeRenderer(true, false); ren.setStroke(new BasicStroke(width)); plot.setRenderer(datasetIndex, ren); } // "2" is lineStyle "area" else if (lineStyle.equalsIgnoreCase(AREA)) { plot.setRenderer(datasetIndex, new XYAreaRenderer()); } // "3" is lineStyle "dotted" else if (lineStyle.equalsIgnoreCase(DOTTED)) { XYLineAndShapeRenderer ren = new XYLineAndShapeRenderer(false, true); ren.setShape(new Ellipse2D.Double(-width, -width, 2 * width, 2 * width)); plot.setRenderer(datasetIndex, ren); } // "4" is dashed else if (lineStyle.equalsIgnoreCase("4")) { XYLineAndShapeRenderer renderer = new XYLineAndShapeRenderer(true, false); renderer.setSeriesStroke(0, new BasicStroke(width, BasicStroke.CAP_ROUND, BasicStroke.JOIN_ROUND, 1.0f, new float[] { 4.0f * width, 4.0f * width }, 0.0f)); plot.setRenderer(datasetIndex, renderer); } else if (lineStyle.equalsIgnoreCase("5")) { // lines and dots XYLineAndShapeRenderer ren = new XYLineAndShapeRenderer(true, true); int thickness = 2 * width; ren.setShape(new Ellipse2D.Double(-width, -width, thickness, thickness)); ren.setStroke(new BasicStroke(width)); plot.setRenderer(datasetIndex, ren); } else { // default is lineStyle "line" plot.setRenderer(datasetIndex, new XYLineAndShapeRenderer(true, false)); } plot.getRenderer(datasetIndex).setSeriesPaint(seriesIndex, dd.getColor()); // plot.getRenderer(datasetIndex).setShapesVisible(true); XYToolTipGenerator toolTipGenerator = StandardXYToolTipGenerator.getTimeSeriesInstance(); XYURLGenerator urlGenerator = new MetadataInURLGenerator(designDescriptions); plot.getRenderer(datasetIndex).setBaseToolTipGenerator(toolTipGenerator); plot.getRenderer(datasetIndex).setURLGenerator(urlGenerator); // GRID: // PROBLEM: JFreeChart only allows to switch the grid on/off // for the whole XYPlot. And the // grid will always be displayed for the first series in the // plot. I'll always show the // grid. // --> plot.setDomainGridlinesVisible(visible) // RANGE AXIS LABELS: if (isOverview) { plot.getRangeAxisForDataset(datasetIndex).setTickLabelsVisible(false); plot.getRangeAxisForDataset(datasetIndex).setTickMarksVisible(false); plot.getRangeAxisForDataset(datasetIndex).setVisible(false); } else { plot.getRangeAxisForDataset(datasetIndex).setLabelFont(label); plot.getRangeAxisForDataset(datasetIndex).setLabelPaint(LABEL_COLOR); plot.getRangeAxisForDataset(datasetIndex).setTickLabelFont(tickLabelDomain); plot.getRangeAxisForDataset(datasetIndex).setTickLabelPaint(LABEL_COLOR); StringBuilder unitOfMeasure = new StringBuilder(); unitOfMeasure.append(dd.getPhenomenon().getLabel()); String uomLabel = dd.getUomLabel(); if (uomLabel != null && !uomLabel.isEmpty()) { unitOfMeasure.append(" (").append(uomLabel).append(")"); } plot.getRangeAxisForDataset(datasetIndex).setLabel(unitOfMeasure.toString()); } } } } return chart; }
From source file:org.locationtech.udig.processingtoolbox.tools.BubbleChartDialog.java
private void updateChart(SimpleFeatureCollection features, String xField, String yField, String sizeField) { // 1. Create a single plot containing both the scatter and line XYPlot plot = new XYPlot(); plot.setOrientation(PlotOrientation.VERTICAL); plot.setBackgroundPaint(java.awt.Color.WHITE); plot.setDomainPannable(false);/* ww w .j a v a2 s. co m*/ plot.setRangePannable(false); plot.setSeriesRenderingOrder(SeriesRenderingOrder.FORWARD); plot.setDomainCrosshairVisible(false); plot.setRangeCrosshairVisible(false); plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0)); plot.setForegroundAlpha(0.75f); // 2. Setup Scatter plot // Create the bubble chart data, renderer, and axis int fontStyle = java.awt.Font.BOLD; FontData fontData = getShell().getDisplay().getSystemFont().getFontData()[0]; NumberAxis xPlotAxis = new NumberAxis(xField); // Independent variable xPlotAxis.setLabelFont(new Font(fontData.getName(), fontStyle, 12)); xPlotAxis.setTickLabelFont(new Font(fontData.getName(), fontStyle, 10)); NumberAxis yPlotAxis = new NumberAxis(yField); // Dependent variable yPlotAxis.setLabelFont(new Font(fontData.getName(), fontStyle, 12)); yPlotAxis.setTickLabelFont(new Font(fontData.getName(), fontStyle, 10)); XYItemRenderer plotRenderer = new XYBubbleRenderer(XYBubbleRenderer.SCALE_ON_RANGE_AXIS); plotRenderer.setSeriesPaint(0, java.awt.Color.ORANGE); // dot plotRenderer.setBaseItemLabelGenerator(new BubbleXYItemLabelGenerator()); plotRenderer.setBaseToolTipGenerator(new StandardXYZToolTipGenerator()); plotRenderer .setBasePositiveItemLabelPosition(new ItemLabelPosition(ItemLabelAnchor.CENTER, TextAnchor.CENTER)); // Set the bubble chart data, renderer, and axis into plot plot.setDataset(0, getBubbleChartData(features, xField, yField, sizeField)); xPlotAxis.setAutoRangeIncludesZero(false); xPlotAxis.setAutoRange(false); double differUpper = minMaxVisitor.getMaxX() - minMaxVisitor.getAverageX(); double differLower = minMaxVisitor.getAverageX() - minMaxVisitor.getMinX(); double gap = Math.abs(differUpper - differLower); if (differUpper > differLower) { xPlotAxis.setRange(minMaxVisitor.getMinX() - gap, minMaxVisitor.getMaxX()); } else { xPlotAxis.setRange(minMaxVisitor.getMinX(), minMaxVisitor.getMaxX() + gap); } yPlotAxis.setAutoRangeIncludesZero(false); yPlotAxis.setAutoRange(false); differUpper = minMaxVisitor.getMaxY() - minMaxVisitor.getAverageY(); differLower = minMaxVisitor.getAverageY() - minMaxVisitor.getMinY(); gap = Math.abs(differUpper - differLower); if (differUpper > differLower) { yPlotAxis.setRange(minMaxVisitor.getMinY() - gap, minMaxVisitor.getMaxY()); } else { yPlotAxis.setRange(minMaxVisitor.getMinY(), minMaxVisitor.getMaxY() + gap); } plot.setRenderer(0, plotRenderer); plot.setDomainAxis(0, xPlotAxis); plot.setRangeAxis(0, yPlotAxis); // Map the scatter to the first Domain and first Range plot.mapDatasetToDomainAxis(0, 0); plot.mapDatasetToRangeAxis(0, 0); // 3. Setup line // Create the line data, renderer, and axis XYItemRenderer lineRenderer = new XYLineAndShapeRenderer(true, false); // Lines only lineRenderer.setSeriesPaint(0, java.awt.Color.GRAY); lineRenderer.setSeriesPaint(1, java.awt.Color.GRAY); lineRenderer.setSeriesPaint(2, java.awt.Color.GRAY); // Set the line data, renderer, and axis into plot NumberAxis xLineAxis = new NumberAxis(EMPTY); xLineAxis.setTickMarksVisible(false); xLineAxis.setTickLabelsVisible(false); NumberAxis yLineAxis = new NumberAxis(EMPTY); yLineAxis.setTickMarksVisible(false); yLineAxis.setTickLabelsVisible(false); XYSeriesCollection lineDataset = new XYSeriesCollection(); // AverageY XYSeries horizontal = new XYSeries("AverageY"); //$NON-NLS-1$ horizontal.add(xPlotAxis.getRange().getLowerBound(), minMaxVisitor.getAverageY()); horizontal.add(xPlotAxis.getRange().getUpperBound(), minMaxVisitor.getAverageY()); lineDataset.addSeries(horizontal); // AverageX XYSeries vertical = new XYSeries("AverageX"); //$NON-NLS-1$ vertical.add(minMaxVisitor.getAverageX(), yPlotAxis.getRange().getLowerBound()); vertical.add(minMaxVisitor.getAverageX(), yPlotAxis.getRange().getUpperBound()); lineDataset.addSeries(vertical); plot.setDataset(1, lineDataset); plot.setRenderer(1, lineRenderer); plot.setDomainAxis(1, xLineAxis); plot.setRangeAxis(1, yLineAxis); // Map the line to the second Domain and second Range plot.mapDatasetToDomainAxis(1, 0); plot.mapDatasetToRangeAxis(1, 0); // 4. Setup Selection NumberAxis xSelectionAxis = new NumberAxis(EMPTY); xSelectionAxis.setTickMarksVisible(false); xSelectionAxis.setTickLabelsVisible(false); NumberAxis ySelectionAxis = new NumberAxis(EMPTY); ySelectionAxis.setTickMarksVisible(false); ySelectionAxis.setTickLabelsVisible(false); XYItemRenderer selectionRenderer = new XYBubbleRenderer(XYBubbleRenderer.SCALE_ON_RANGE_AXIS); selectionRenderer.setSeriesPaint(0, java.awt.Color.RED); // dot selectionRenderer.setSeriesOutlinePaint(0, java.awt.Color.RED); plot.setDataset(2, new DefaultXYZDataset2()); plot.setRenderer(2, selectionRenderer); plot.setDomainAxis(2, xSelectionAxis); plot.setRangeAxis(2, ySelectionAxis); // Map the scatter to the second Domain and second Range plot.mapDatasetToDomainAxis(2, 0); plot.mapDatasetToRangeAxis(2, 0); // 5. Finally, Create the chart with the plot and a legend java.awt.Font titleFont = new Font(fontData.getName(), fontStyle, 20); JFreeChart chart = new JFreeChart(EMPTY, titleFont, plot, false); chart.setBackgroundPaint(java.awt.Color.WHITE); chart.setBorderVisible(false); chartComposite.setChart(chart); chartComposite.forceRedraw(); }
From source file:net.liuxuan.device.VACVBS.JIF_DrawChart_vacvbs.java
/** * ?jfreechart/*from w ww . ja v a 2 s. c om*/ */ public void initChart() { ts_LP = new TimeSeries("LowPressure", Millisecond.class); ts_HP = new TimeSeries("HighPressure", Millisecond.class); ts_humidity = new TimeSeries("Humidity", Millisecond.class); ts_temprature = new TimeSeries("Temperature", Millisecond.class); ts_time = new TimeSeries("TestTime", Millisecond.class); ts_num = new TimeSeries("num", Millisecond.class); ts_reserved1 = new TimeSeries("reserved1", Millisecond.class); ts_reserved2 = new TimeSeries("reserved2", Millisecond.class); ts_reserved3 = new TimeSeries("reserved3", Millisecond.class); trcollection = new TimeSeriesCollection(ts_LP); trcollection.addSeries(ts_HP); trcollection2 = new TimeSeriesCollection(ts_humidity); trcollection2.addSeries(ts_temprature); // trcollection2.addSeries(ts_num); // trcollection2.addSeries(ts_time); //trcollection2.addSeries(ts_reserved1); //trcollection2.addSeries(ts_reserved2); //trcollection2.addSeries(ts_reserved3); // timeseriescopylist.add(getTimeSeries(3).createCopy(0, getTimeSeries(3).getItemCount() - 1)); JFreeChart jfreechart = ChartFactory.createTimeSeriesChart("", "Time(s)", "PPM", trcollection, true, true, false); XYPlot xyplot = jfreechart.getXYPlot(); xyplot.setDomainCrosshairVisible(true); xyplot.setRangeCrosshairVisible(true); Font fs = new Font("", Font.BOLD, 14); Font fs2 = new Font("", Font.BOLD, 12); XYLineAndShapeRenderer line0render = (XYLineAndShapeRenderer) xyplot.getRenderer(0); Color purple = new Color(139, 0, 255); line0render.setSeriesPaint(0, Color.blue); line0render.setSeriesPaint(1, Color.green); line0render.setSeriesPaint(2, Color.red); line0render.setSeriesPaint(3, purple); // line0render.setSeriesPaint(3, Color.ORANGE); XYLineAndShapeRenderer line1render = new XYLineAndShapeRenderer(); Color Rosered = new Color(230, 28, 100); line1render.setSeriesPaint(0, Color.cyan); line1render.setSeriesPaint(1, Rosered); line1render.setSeriesPaint(2, Color.orange); line1render.setSeriesPaint(3, Color.yellow); line1render.setBaseShapesVisible(false); xyplot.setRenderer(1, line1render); //?? ValueAxis valueaxis = xyplot.getDomainAxis(); // valueaxis.setLabelFont(fs); // valueaxis.setTickLabelFont(fs2); ValueAxis valueaxis2 = new NumberAxis(""); valueaxis2.setLabelFont(fs); valueaxis2.setTickLabelFont(fs2); xyplot.setRangeAxis(1, valueaxis2); xyplot.setDataset(1, trcollection2); xyplot.mapDatasetToRangeAxis(1, 1); //?? valueaxis.setAutoRange(true); //?? 7days // valueaxis.setFixedAutoRange(604800000D); valueaxis = xyplot.getRangeAxis(); valueaxis.setLabelFont(new Font("", Font.BOLD, 14)); valueaxis.setLabelPaint(line0render.getSeriesPaint(0)); valueaxis2.setLabelPaint(line1render.getSeriesPaint(0)); jfreechart.getTitle().setFont(new Font("", Font.BOLD, 20));// jfreechart.getLegend().setItemFont(new Font("", Font.ITALIC, 15)); xyplot.getRenderer(0).setSeriesToolTipGenerator(0, new StandardXYToolTipGenerator("{1}, {2}", new SimpleDateFormat("MM-dd HH:mm:ss"), new DecimalFormat("0.0000"))); xyplot.getRenderer(1).setSeriesToolTipGenerator(0, new StandardXYToolTipGenerator("{1}, {2}", new SimpleDateFormat("MM-dd HH:mm:ss"), new DecimalFormat("0.0000"))); chartPanel = new ChartPanel(jfreechart); initChartMenu(); // chartPanel.getPopupMenu().add(jmenuitem2); // chartPanel.getPopupMenu().getPopupMenuListeners(); chartPanel.setSize(950, 620); chartPanel.setPreferredSize(new Dimension(950, 620)); jPanel_Show.add(chartPanel, BorderLayout.CENTER); }
From source file:desmoj.extensions.visualization2d.engine.modelGrafic.StatisticGrafic.java
/** * Build content for animationType StatisticGrafic.ANIMATION_Histogram * @return//w w w . ja v a 2s . c o m * @throws ModelException */ private JPanel buildHistogramPanel() throws ModelException { XIntervalSeriesCollection dataset = new XIntervalSeriesCollection(); dataset.addSeries(this.statistic.getHistogram()); this.chart = ChartFactory.createXYBarChart(null, "Observation", false, "Count", dataset, PlotOrientation.VERTICAL, false, true, false); this.chart.setBackgroundPaint(Grafic.COLOR_BACKGROUND); XYPlot plot = this.chart.getXYPlot(); plot.setBackgroundPaint(StatisticGrafic.DIAGRAM_BACKGROUND); plot.setDomainGridlinePaint(StatisticGrafic.DIAGRAM_GRID); plot.setRangeGridlinePaint(StatisticGrafic.DIAGRAM_GRID); plot.setDomainCrosshairVisible(true); plot.setRangeCrosshairVisible(true); ValueAxis rangeAxis = (ValueAxis) plot.getRangeAxis(); rangeAxis.setLabelFont(Grafic.FONT_DEFAULT); ValueAxis domainAxis = plot.getDomainAxis(); domainAxis.setLabelFont(Grafic.FONT_DEFAULT); domainAxis.setAutoRange(true); XYBarRenderer renderer = (XYBarRenderer) plot.getRenderer(); renderer.setShadowVisible(false); renderer.setBarPainter(new StandardXYBarPainter()); renderer.setDrawBarOutline(true); renderer.setSeriesPaint(0, StatisticGrafic.DIAGRAM_FORGROUND); renderer.setSeriesOutlinePaint(0, StatisticGrafic.DIAGRAM_BORDER); renderer.setSeriesOutlineStroke(0, new BasicStroke(1.0f)); this.buildHistogramAxisFormat(plot, "Observations"); JPanel out = new ChartPanel(chart); out.setPreferredSize(new Dimension(350, 200)); return out; }
From source file:edu.dlnu.liuwenpeng.ChartFactory.ChartFactory.java
/** * Creates a stepped XY plot with default settings. * /*from w w w. j ava2 s .c o m*/ * @param title the chart title (<code>null</code> permitted). * @param xAxisLabel a label for the X-axis (<code>null</code> permitted). * @param yAxisLabel a label for the Y-axis (<code>null</code> permitted). * @param dataset the dataset for the chart (<code>null</code> permitted). * @param orientation the plot orientation (horizontal or vertical) * (<code>null</code> NOT permitted). * @param legend a flag specifying whether or not a legend is required. * @param tooltips configure chart to generate tool tips? * @param urls configure chart to generate URLs? * * @return A chart. */ public static JFreeChart createXYStepChart(String title, String xAxisLabel, String yAxisLabel, XYDataset dataset, PlotOrientation orientation, boolean legend, boolean tooltips, boolean urls) { if (orientation == null) { throw new IllegalArgumentException("Null 'orientation' argument."); } DateAxis xAxis = new DateAxis(xAxisLabel); NumberAxis yAxis = new NumberAxis(yAxisLabel); yAxis.setStandardTickUnits(NumberAxis.createIntegerTickUnits()); XYToolTipGenerator toolTipGenerator = null; if (tooltips) { toolTipGenerator = new StandardXYToolTipGenerator(); } XYURLGenerator urlGenerator = null; if (urls) { urlGenerator = new StandardXYURLGenerator(); } XYItemRenderer renderer = new XYStepRenderer(toolTipGenerator, urlGenerator); XYPlot plot = new XYPlot(dataset, xAxis, yAxis, null); plot.setRenderer(renderer); plot.setOrientation(orientation); plot.setDomainCrosshairVisible(false); plot.setRangeCrosshairVisible(false); JFreeChart chart = new JFreeChart(title, JFreeChart.DEFAULT_TITLE_FONT, plot, legend); return chart; }
From source file:edu.dlnu.liuwenpeng.ChartFactory.ChartFactory.java
/** * Creates a filled stepped XY plot with default settings. * /* ww w .j a v a 2 s .c o m*/ * @param title the chart title (<code>null</code> permitted). * @param xAxisLabel a label for the X-axis (<code>null</code> permitted). * @param yAxisLabel a label for the Y-axis (<code>null</code> permitted). * @param dataset the dataset for the chart (<code>null</code> permitted). * @param orientation the plot orientation (horizontal or vertical) * (<code>null</code> NOT permitted). * @param legend a flag specifying whether or not a legend is required. * @param tooltips configure chart to generate tool tips? * @param urls configure chart to generate URLs? * * @return A chart. */ public static JFreeChart createXYStepAreaChart(String title, String xAxisLabel, String yAxisLabel, XYDataset dataset, PlotOrientation orientation, boolean legend, boolean tooltips, boolean urls) { if (orientation == null) { throw new IllegalArgumentException("Null 'orientation' argument."); } NumberAxis xAxis = new NumberAxis(xAxisLabel); xAxis.setAutoRangeIncludesZero(false); NumberAxis yAxis = new NumberAxis(yAxisLabel); XYToolTipGenerator toolTipGenerator = null; if (tooltips) { toolTipGenerator = new StandardXYToolTipGenerator(); } XYURLGenerator urlGenerator = null; if (urls) { urlGenerator = new StandardXYURLGenerator(); } XYItemRenderer renderer = new XYStepAreaRenderer(XYStepAreaRenderer.AREA_AND_SHAPES, toolTipGenerator, urlGenerator); XYPlot plot = new XYPlot(dataset, xAxis, yAxis, null); plot.setRenderer(renderer); plot.setOrientation(orientation); plot.setDomainCrosshairVisible(false); plot.setRangeCrosshairVisible(false); JFreeChart chart = new JFreeChart(title, JFreeChart.DEFAULT_TITLE_FONT, plot, legend); return chart; }
From source file:jchrest.gui.VisualSearchPane.java
private ChartPanel createPanel() { XYSeriesCollection dataset = new XYSeriesCollection(); dataset.addSeries(_trainingTimes);/*from w w w. j a va 2 s .co m*/ JFreeChart chart = ChartFactory.createXYLineChart("Plot of network size vs. number of training patterns", "Number of training patterns", "Network size", dataset, org.jfree.chart.plot.PlotOrientation.VERTICAL, true, true, false); XYPlot plot = (XYPlot) chart.getPlot(); plot.setBackgroundPaint(Color.lightGray); plot.setDomainGridlinePaint(Color.white); plot.setRangeGridlinePaint(Color.white); plot.setAxisOffset(new RectangleInsets(5.0, 5.0, 5.0, 5.0)); plot.setDomainCrosshairVisible(true); plot.setRangeCrosshairVisible(true); XYItemRenderer r = plot.getRenderer(); if (r instanceof XYLineAndShapeRenderer) { XYLineAndShapeRenderer renderer = (XYLineAndShapeRenderer) r; renderer.setBaseShapesVisible(true); renderer.setBaseShapesFilled(true); renderer.setDrawSeriesLineAsPath(true); } return new ChartPanel(chart); }
From source file:gov.nih.nci.ispy.ui.graphing.chart.plot.ISPYCorrelationScatterPlot.java
private void createChart() { String title = "Correlation Scatter Plot correlationCoefficient=" + nf.format(corrValue) + " N=" + dataPoints.size();/*from w w w. j a v a 2 s. c o m*/ corrChart = ChartFactory.createScatterPlot(title, xLabel, yLabel, null, PlotOrientation.VERTICAL, true, true, false); XYPlot plot = (XYPlot) corrChart.getPlot(); plot.setNoDataMessage(null); XYLineAndShapeRenderer renderer = (XYLineAndShapeRenderer) plot.getRenderer(); renderer.setToolTipGenerator(new StandardXYToolTipGenerator()); renderer.setUseOutlinePaint(true); plot.setRangeCrosshairVisible(false); plot.setDomainCrosshairVisible(false); // XYShapeAnnotation annotation = new XYShapeAnnotation(new Rectangle2D.Double(25.0, 25.0, 5, 5)); // // plot.addAnnotation(annotation); NumberAxis domainAxis = (NumberAxis) plot.getDomainAxis(); NumberAxis rangeAxis = (NumberAxis) plot.getRangeAxis(); //should determine axis range using datapoints. List<PlotPoint> plotPoints = new ArrayList<PlotPoint>(dataPoints); DataRange Xrange = PlotPoint.getDataRange(plotPoints, AxisType.X_AXIS); DataRange Yrange = PlotPoint.getDataRange(plotPoints, AxisType.Y_AXIS); // Double xAbsMax = Math.max(Math.abs(Xrange.getMaxRange()), Math.abs(Xrange.getMinRange())); // Double yAbsMax = Math.max(Math.abs(Yrange.getMaxRange()), Math.abs(Yrange.getMinRange())); // // Double maxAbsVal = Math.max(xAbsMax, yAbsMax); domainAxis.setAutoRangeIncludesZero(false); double xTick = 10.0; double yTick = 10.0; double xdist = Math.abs(Xrange.getMaxRange() - Xrange.getMinRange()); double ydist = Math.abs(Yrange.getMaxRange() - Yrange.getMinRange()); if (xdist < 10.0) { xTick = 1.0; } if (ydist < 10.0) { yTick = 1.0; } // if (maxAbsVal <= 25.0) { // tickUnit =5.0; // } // else if (maxAbsVal <= 50.0) { // tickUnit = 10.0; // } domainAxis.setTickUnit(new NumberTickUnit(xTick)); rangeAxis.setTickUnit(new NumberTickUnit(yTick)); //double glyphScaleFactor = (maxAbsVal*2.0)/600.0; //assuming 600 pixels for the graph double xScale = xdist / 600.0; //double glyphScaleFactor = 1.0; double yScale = ydist / 600.0; //double adjAbsVal = Math.ceil(maxAbsVal + (glyphScaleFactor*8.0)); //domainAxis.setRange(-maxAbsVal, maxAbsVal); double xMin = Xrange.getMinRange() - xScale * glyphSize; double xMax = Xrange.getMaxRange() + xScale * glyphSize; double yMin = Yrange.getMinRange() - yScale * glyphSize; double yMax = Yrange.getMaxRange() + yScale * glyphSize; domainAxis.setRange(xMin, xMax); //rangeAxis.setRange(-maxAbsVal, maxAbsVal); rangeAxis.setRange(yMin, yMax); Set<SampleInfo> infoSet = new HashSet<SampleInfo>(); if ((colorBy == ColorByType.IHC_EXPRESSION_X) || (colorBy == ColorByType.IHC_EXPRESSION_Y)) { String geneName = null; if ((colorBy == ColorByType.IHC_EXPRESSION_X) && (ct1 != ContinuousType.GENE)) { logger.info("User attempted to color by ihc x on non gene continuous type."); //need to show validation error return; } else if ((colorBy == ColorByType.IHC_EXPRESSION_Y) && (ct2 != ContinuousType.GENE)) { logger.info("User attempted to color by ihc y on non gene continuous type."); //need to show validation error return; } else { if (colorBy == ColorByType.IHC_EXPRESSION_X) { //parse the gene name from the xLabel geneName = xLabel.substring(0, xLabel.indexOf('_')); } else if (colorBy == ColorByType.IHC_EXPRESSION_Y) { //parse the gene name from the yLabel geneName = yLabel.substring(0, yLabel.indexOf('_')); } } //Get the IHC data for the samples to be graphed LevelOfExpressionIHCService loeService = LevelOfExpressionIHCService.getInstance(); LossOfExpressionIHCService lossService = LossOfExpressionIHCService.getInstance(); Set<String> sampleIds = new HashSet<String>(); String labtrackId; SampleInfo info; for (ISPYPlotPoint corrPoint : dataPoints) { info = corrPoint.getSampleInfo(); if (info != null) { labtrackId = corrPoint.getSampleInfo().getLabtrackId(); sampleIds.add(labtrackId); infoSet.add(info); } else { logger.warn("Point id=" + corrPoint.getId() + " has no sample info. Skipping point"); } } Collection<? extends Finding> loeFindings = loeService.getFindingsFromSampleInfo(infoSet); Collection<? extends Finding> lossFindings = lossService.getFindingsFromSampleInfo(infoSet); List<IHCFinding> findings = new ArrayList<IHCFinding>(); for (Finding f : loeFindings) { findings.add((IHCFinding) f); } for (Finding f : lossFindings) { findings.add((IHCFinding) f); } // Need to handle mapping names to IHC biomarker names. //EGFR (ok), FAK (PTK2), HER2 (ERBB2), Ki-67, P53, bcl2 (ok), p27, CYCLIN_D1 (CCND1) //Translate the gene names into the biomarker names //used by ihc. This code should be removed once protein biomarker //alias is implmented. String ihcBiomarker = geneName; if (geneName.equalsIgnoreCase("PTK2")) { ihcBiomarker = "FAK"; ihcBiomarkerType = IHCBiomarkerType.FAK; } else if (geneName.equalsIgnoreCase("ERBB2")) { ihcBiomarker = "HER2"; ihcBiomarkerType = IHCBiomarkerType.HER2; } else if (geneName.equalsIgnoreCase("MKI67")) { //need to check this one ihcBiomarker = "Ki-67"; ihcBiomarkerType = IHCBiomarkerType.KI67; } else if (geneName.equalsIgnoreCase("TP53")) { ihcBiomarker = "P53"; ihcBiomarkerType = IHCBiomarkerType.P53; } else if (geneName.equalsIgnoreCase("Cdkn1b")) { ihcBiomarker = "P27"; ihcBiomarkerType = IHCBiomarkerType.P27; } else if (geneName.equalsIgnoreCase("BCL2")) { ihcBiomarker = "BCL2"; ihcBiomarkerType = IHCBiomarkerType.BCL2; } else if (geneName.equalsIgnoreCase("EGFR")) { ihcBiomarker = "EGFR"; ihcBiomarkerType = IHCBiomarkerType.EGFR; } else if (geneName.equalsIgnoreCase("CCND1")) { ihcBiomarker = "CYCLIN_D1"; ihcBiomarkerType = IHCBiomarkerType.CYCLIN_D1; } List<IHCFinding> filteredList = getIHCFindingsForBiomarker(findings, ihcBiomarker); //TEST Case // Set<String> testIds = new HashSet<String>(); // testIds.add("212833"); // testIds.add("213152"); //Collection<? extends Finding> loeFindings = loeService.getFindingsFromSampleIds(testIds); //Collection<? extends Finding> lossFindings = lossService.getFindingsFromSampleIds(sampleIds); ihcData = new HashMap<String, List<IHCFinding>>(); IHCFinding loeFinding; List<IHCFinding> findingList; Specimen specimen = null; String patientDID = null; for (Finding finding : filteredList) { loeFinding = (IHCFinding) finding; specimen = loeFinding.getSpecimen(); if ((specimen != null) && (specimen.getPatientDID() != null)) { patientDID = specimen.getPatientDID(); findingList = ihcData.get(patientDID); if (findingList == null) { findingList = new ArrayList<IHCFinding>(); ihcData.put(patientDID, findingList); } findingList.add(loeFinding); } else { logger.warn( "loeFinding id=" + loeFinding.getId() + " has null specimen or patientDID. Skipping.."); } } // IHCFinding lossFinding; // for (Finding finding : lossFindings) { // lossFinding = (IHCFinding) finding; // ihcData.put(lossFinding.getId(), lossFinding); // } } createGlyphsAndAddToPlot(plot, xScale, yScale); // Paint p = new GradientPaint(0, 0, Color.white, 1000, 0, Color.green); //try and match the UI e9e9e9 Paint p = new Color(233, 233, 233); corrChart.setBackgroundPaint(p); buildLegend(); }