List of usage examples for org.jfree.data.statistics DefaultMultiValueCategoryDataset add
public void add(List values, Comparable rowKey, Comparable columnKey)
null and Double.NaN items are automatically removed) and sends a DatasetChangeEvent to all registered listeners. From source file:org.jfree.chart.demo.ScatterRendererDemo1.java
private static MultiValueCategoryDataset createDataset() { DefaultMultiValueCategoryDataset defaultmultivaluecategorydataset = new DefaultMultiValueCategoryDataset(); defaultmultivaluecategorydataset.add(listOfValues(new double[] { 1.0D, 2D, 3D }), "Series 1", "C1"); defaultmultivaluecategorydataset.add( listOfValues(new double[] { 1.2D, 2.2000000000000002D, 3.2000000000000002D }), "Series 1", "C2"); defaultmultivaluecategorydataset.add( listOfValues(new double[] { 1.3999999999999999D, 2.3999999999999999D, 3.3999999999999999D }), "Series 1", "C3"); defaultmultivaluecategorydataset.add(listOfValues(new double[] { 1.0D, 3D }), "Series 2", "C1"); defaultmultivaluecategorydataset.add(listOfValues(new double[] { 1.2D, 3.2000000000000002D }), "Series 2", "C2"); defaultmultivaluecategorydataset/* www . j a v a2 s. c om*/ .add(listOfValues(new double[] { 1.3999999999999999D, 3.6000000000000001D }), "Series 2", "C3"); return defaultmultivaluecategorydataset; }
From source file:org.jfree.expdemo.SelectionDemo7ScatterRenderer.java
/** * Creates a sample dataset./* w ww . j ava 2s . c om*/ * * @return A dataset. */ private static MultiValueCategoryDataset createDataset() { DefaultMultiValueCategoryDataset dataset = new DefaultMultiValueCategoryDataset(); dataset.add(listOfValues(new double[] { 1.0, 2.0, 3.0 }), "Series 1", "C1"); dataset.add(listOfValues(new double[] { 1.2, 2.2, 3.2 }), "Series 1", "C2"); dataset.add(listOfValues(new double[] { 1.4, 2.4, 3.4 }), "Series 1", "C3"); dataset.add(listOfValues(new double[] { 1.0, 2.1, 3.2 }), "Series 1", "C1"); dataset.add(listOfValues(new double[] { 1.2, 2.15, 3.5 }), "Series 1", "C2"); dataset.add(listOfValues(new double[] { 1.4, 2.5, 3.2 }), "Series 1", "C3"); dataset.add(listOfValues(new double[] { 1.4, 3.0, 3.2 }), "Series 1", "C3"); dataset.add(listOfValues(new double[] { 1.4, 3.0 }), "Series 2", "C1"); dataset.add(listOfValues(new double[] { 1.0, 3.0 }), "Series 2", "C1"); dataset.add(listOfValues(new double[] { 1.2, 3.2 }), "Series 2", "C2"); dataset.add(listOfValues(new double[] { 1.4, 3.6 }), "Series 2", "C3"); dataset.add(listOfValues(new double[] { 1.2, 3.1 }), "Series 2", "C1"); dataset.add(listOfValues(new double[] { 1.4, 3.4 }), "Series 2", "C2"); dataset.add(listOfValues(new double[] { 1.5, 3.6 }), "Series 2", "C3"); return dataset; }
From source file:org.jfree.chart.demo.selection.SelectionDemo7ScatterRenderer.java
/** * Creates a sample dataset./*from w w w . j ava2s . c om*/ * * @return A dataset. */ private static MultiValueCategoryDataset createDataset() { DefaultMultiValueCategoryDataset dataset = new DefaultMultiValueCategoryDataset(); dataset.add(listOfValues(new double[] { 1.0, 2.0, 3.0 }), "Series 1", "C1"); dataset.add(listOfValues(new double[] { 1.2, 2.2, 3.2 }), "Series 1", "C2"); dataset.add(listOfValues(new double[] { 1.4, 2.4, 3.4 }), "Series 1", "C3"); dataset.add(listOfValues(new double[] { 1.0, 2.1, 3.2 }), "Series 1", "C1"); dataset.add(listOfValues(new double[] { 1.2, 2.15, 3.5 }), "Series 1", "C2"); dataset.add(listOfValues(new double[] { 1.4, 2.5, 3.2 }), "Series 1", "C3"); dataset.add(listOfValues(new double[] { 1.4, 3.0, 3.2 }), "Series 1", "C3"); dataset.add(listOfValues(new double[] { 1.4, 3.0 }), "Series 2", "C1"); dataset.add(listOfValues(new double[] { 1.0, 3.0 }), "Series 2", "C1"); dataset.add(listOfValues(new double[] { 1.2, 3.2 }), "Series 2", "C2"); dataset.add(listOfValues(new double[] { 1.4, 3.6 }), "Series 2", "C3"); dataset.add(listOfValues(new double[] { 1.2, 3.1 }), "Series 2", "C1"); dataset.add(listOfValues(new double[] { 1.4, 3.4 }), "Series 2", "C2"); dataset.add(listOfValues(new double[] { 1.5, 3.6 }), "Series 2", "C3"); return dataset; }
From source file:org.jfree.data.statistics.DefaultMultiValueCategoryDatasetTest.java
/** * Some checks for the add() method.//from w w w. j ava 2s. c om */ @Test public void testAddValue() { DefaultMultiValueCategoryDataset d1 = new DefaultMultiValueCategoryDataset(); boolean pass = false; try { d1.add(null, "R1", "C1"); } catch (IllegalArgumentException e) { pass = true; } assertTrue(pass); List values = new ArrayList(); d1.add(values, "R2", "C1"); assertEquals(values, d1.getValues("R2", "C1")); pass = false; try { d1.add(values, null, "C2"); } catch (IllegalArgumentException e) { pass = true; } assertTrue(pass); }
From source file:org.jfree.data.statistics.DefaultMultiValueCategoryDatasetTest.java
/** * Some tests for the getRowCount() method. *///from w ww. j a v a 2 s . c o m @Test public void testGetRowCount() { DefaultMultiValueCategoryDataset d = new DefaultMultiValueCategoryDataset(); assertTrue(d.getRowCount() == 0); List values = new ArrayList(); d.add(values, "R1", "C1"); assertTrue(d.getRowCount() == 1); d.add(values, "R2", "C1"); assertTrue(d.getRowCount() == 2); d.add(values, "R2", "C1"); assertTrue(d.getRowCount() == 2); }
From source file:org.jfree.data.statistics.DefaultMultiValueCategoryDatasetTest.java
/** * Some tests for the getColumnCount() method. */// w w w .j a v a 2s . co m @Test public void testGetColumnCount() { DefaultMultiValueCategoryDataset d = new DefaultMultiValueCategoryDataset(); assertTrue(d.getColumnCount() == 0); List values = new ArrayList(); d.add(values, "R1", "C1"); assertTrue(d.getColumnCount() == 1); d.add(values, "R1", "C2"); assertTrue(d.getColumnCount() == 2); d.add(values, "R1", "C2"); assertTrue(d.getColumnCount() == 2); }
From source file:org.jfree.data.statistics.DefaultMultiValueCategoryDatasetTest.java
/** * Some checks for the getValue() method. *//*ww w. j a v a 2 s.co m*/ @Test public void testGetValue() { DefaultMultiValueCategoryDataset d = new DefaultMultiValueCategoryDataset(); List values = new ArrayList(); values.add(new Integer(1)); values.add(new Integer(2)); d.add(values, "R1", "C1"); assertEquals(new Double(1.5), d.getValue("R1", "C1")); boolean pass = false; try { d.getValue("XX", "C1"); } catch (UnknownKeyException e) { pass = true; } assertTrue(pass); pass = false; try { d.getValue("R1", "XX"); } catch (UnknownKeyException e) { pass = true; } assertTrue(pass); }
From source file:org.jfree.data.statistics.DefaultMultiValueCategoryDatasetTest.java
/** * Confirm that the equals method can distinguish all the required fields. *///from www . j a va 2s . c om @Test public void testEquals() { DefaultMultiValueCategoryDataset d1 = new DefaultMultiValueCategoryDataset(); DefaultMultiValueCategoryDataset d2 = new DefaultMultiValueCategoryDataset(); assertTrue(d1.equals(d2)); assertTrue(d2.equals(d1)); List values = new ArrayList(); d1.add(values, "R1", "C1"); assertFalse(d1.equals(d2)); d2.add(values, "R1", "C1"); assertTrue(d1.equals(d2)); values.add(new Integer(99)); d1.add(values, "R1", "C1"); assertFalse(d1.equals(d2)); d2.add(values, "R1", "C1"); assertTrue(d1.equals(d2)); values.add(new Integer(99)); d1.add(values, "R1", "C2"); assertFalse(d1.equals(d2)); d2.add(values, "R1", "C2"); assertTrue(d1.equals(d2)); }
From source file:org.jfree.data.statistics.DefaultMultiValueCategoryDatasetTest.java
/** * Confirm that cloning works.//from www.j ava2 s .c o m */ @Test public void testCloning() throws CloneNotSupportedException { DefaultMultiValueCategoryDataset d1 = new DefaultMultiValueCategoryDataset(); DefaultMultiValueCategoryDataset d2 = (DefaultMultiValueCategoryDataset) d1.clone(); assertTrue(d1 != d2); assertTrue(d1.getClass() == d2.getClass()); assertTrue(d1.equals(d2)); // try a dataset with some content... List values = new ArrayList(); values.add(new Integer(99)); d1.add(values, "R1", "C1"); d2 = (DefaultMultiValueCategoryDataset) d1.clone(); assertTrue(d1 != d2); assertTrue(d1.getClass() == d2.getClass()); assertTrue(d1.equals(d2)); // check that the clone doesn't share the same underlying arrays. List values2 = new ArrayList(); values2.add(new Integer(111)); d1.add(values2, "R2", "C2"); assertFalse(d1.equals(d2)); d2.add(values2, "R2", "C2"); assertTrue(d1.equals(d2)); }
From source file:ubic.gemma.web.controller.expression.experiment.ExpressionExperimentQCController.java
private boolean writeDetailedFactorAnalysis(ExpressionExperiment ee, OutputStream os) throws Exception { SVDValueObject svdo = svdService.getSvdFactorAnalysis(ee.getId()); if (svdo == null) return false; if (svdo.getFactors().isEmpty() && svdo.getDates().isEmpty()) { return false; }//from w w w . ja va 2s . c o m Map<Integer, Map<Long, Double>> factorCorrelations = svdo.getFactorCorrelations(); // Map<Integer, Map<Long, Double>> factorPvalues = svdo.getFactorPvalues(); Map<Integer, Double> dateCorrelations = svdo.getDateCorrelations(); assert ee.getId().equals(svdo.getId()); ee = expressionExperimentService.thawLite(ee); // need the experimental design int maxWidth = 30; Map<Long, String> efs = this.getFactorNames(ee, maxWidth); Map<Long, ExperimentalFactor> efIdMap = EntityUtils .getIdMap(ee.getExperimentalDesign().getExperimentalFactors()); Collection<Long> continuousFactors = new HashSet<>(); for (ExperimentalFactor ef : ee.getExperimentalDesign().getExperimentalFactors()) { boolean isContinous = ExperimentalDesignUtils.isContinuous(ef); if (isContinous) { continuousFactors.add(ef.getId()); } } /* * Make plots of the dates vs. PCs, factors vs. PCs. */ int MAX_COMP = 3; Map<Long, List<JFreeChart>> charts = new LinkedHashMap<>(); ChartFactory.setChartTheme(StandardChartTheme.createLegacyTheme()); /* * FACTORS */ String componentShorthand = "PC"; for (Integer component : factorCorrelations.keySet()) { if (component >= MAX_COMP) break; String xaxisLabel = componentShorthand + (component + 1); for (Long efId : factorCorrelations.get(component).keySet()) { /* * Should not happen. */ if (!efs.containsKey(efId)) { log.warn("No experimental factor with id " + efId); continue; } if (!svdo.getFactors().containsKey(efId)) { // this should not happen. continue; } boolean isCategorical = !continuousFactors.contains(efId); Map<Long, String> categories = new HashMap<>(); if (isCategorical) { this.getCategories(efIdMap, efId, categories); } if (!charts.containsKey(efId)) { charts.put(efId, new ArrayList<JFreeChart>()); } Double a = factorCorrelations.get(component).get(efId); String plotname = (efs.get(efId) == null ? "?" : efs.get(efId)) + " " + xaxisLabel; // unique? if (a != null && !Double.isNaN(a)) { String title = plotname + " " + String.format("%.2f", a); List<Double> values = svdo.getFactors().get(efId); Double[] eigenGene = this.getEigenGene(svdo, component); assert values.size() == eigenGene.length; /* * Plot eigengene vs values, add correlation to the plot */ JFreeChart chart; if (isCategorical) { /* * Categorical factor */ // use the absolute value of the correlation, since direction is arbitrary. title = plotname + " " + String.format("r=%.2f", Math.abs(a)); DefaultMultiValueCategoryDataset dataset = new DefaultMultiValueCategoryDataset(); /* * What this code does is organize the factor values by the groups. */ Map<String, List<Double>> groupedValues = new TreeMap<>(); for (int i = 0; i < values.size(); i++) { Long fvId = values.get(i).longValue(); String fvValue = categories.get(fvId); if (fvValue == null) { /* * Problem ...eg gill2006fateinocean id=1748 -- missing values. We just don't plot * anything for this sample. */ continue; // is this all we need to do? } if (!groupedValues.containsKey(fvValue)) { groupedValues.put(fvValue, new ArrayList<Double>()); } groupedValues.get(fvValue).add(eigenGene[i]); if (log.isDebugEnabled()) log.debug(fvValue + " " + values.get(i)); } for (String key : groupedValues.keySet()) { dataset.add(groupedValues.get(key), plotname, key); } // don't show the name of the X axis: it's redundant with the title. NumberAxis rangeAxis = new NumberAxis(xaxisLabel); rangeAxis.setAutoRangeIncludesZero(false); // rangeAxis.setAutoRange( false ); rangeAxis.setAutoRangeMinimumSize(4.0); // rangeAxis.setRange( new Range( -2, 2 ) ); CategoryPlot plot = new CategoryPlot(dataset, new CategoryAxis(null), rangeAxis, new ScatterRenderer()); plot.setRangeGridlinesVisible(false); plot.setDomainGridlinesVisible(false); chart = new JFreeChart(title, new Font("SansSerif", Font.BOLD, 12), plot, false); ScatterRenderer renderer = (ScatterRenderer) plot.getRenderer(); float saturationDrop = (float) Math.min(1.0, component * 0.8f / MAX_COMP); renderer.setSeriesFillPaint(0, Color.getHSBColor(0.0f, 1.0f - saturationDrop, 0.7f)); renderer.setSeriesShape(0, new Ellipse2D.Double(0, 0, 3, 3)); renderer.setUseOutlinePaint(false); renderer.setUseFillPaint(true); renderer.setBaseFillPaint(Color.white); CategoryAxis domainAxis = plot.getDomainAxis(); domainAxis.setCategoryLabelPositions(CategoryLabelPositions.UP_45); } else { /* * Continuous value factor */ DefaultXYDataset series = new DefaultXYDataset(); series.addSeries(plotname, new double[][] { ArrayUtils.toPrimitive(values.toArray(new Double[] {})), ArrayUtils.toPrimitive(eigenGene) }); // don't show x-axis label, which would otherwise be efs.get( efId ) chart = ChartFactory.createScatterPlot(title, null, xaxisLabel, series, PlotOrientation.VERTICAL, false, false, false); XYPlot plot = chart.getXYPlot(); plot.setRangeGridlinesVisible(false); plot.setDomainGridlinesVisible(false); XYItemRenderer renderer = plot.getRenderer(); renderer.setBasePaint(Color.white); renderer.setSeriesShape(0, new Ellipse2D.Double(0, 0, 3, 3)); float saturationDrop = (float) Math.min(1.0, component * 0.8f / MAX_COMP); renderer.setSeriesPaint(0, Color.getHSBColor(0.0f, 1.0f - saturationDrop, 0.7f)); plot.setRenderer(renderer); } chart.getTitle().setFont(new Font("SansSerif", Font.BOLD, 12)); charts.get(efId).add(chart); } } } /* * DATES */ charts.put(-1L, new ArrayList<JFreeChart>()); for (Integer component : dateCorrelations.keySet()) { String xaxisLabel = componentShorthand + (component + 1); List<Date> dates = svdo.getDates(); if (dates.isEmpty()) break; long secspan = ubic.basecode.util.DateUtil.numberOfSecondsBetweenDates(dates); if (component >= MAX_COMP) break; Double a = dateCorrelations.get(component); if (a != null && !Double.isNaN(a)) { Double[] eigenGene = svdo.getvMatrix().getColObj(component); /* * Plot eigengene vs values, add correlation to the plot */ TimeSeries series = new TimeSeries("Dates vs. eigen" + (component + 1)); int i = 0; for (Date d : dates) { // if span is less than an hour, retain the minute. if (secspan < 60 * 60) { series.addOrUpdate(new Minute(d), eigenGene[i++]); } else { series.addOrUpdate(new Hour(d), eigenGene[i++]); } } TimeSeriesCollection dataset = new TimeSeriesCollection(); dataset.addSeries(series); JFreeChart chart = ChartFactory.createTimeSeriesChart( "Dates: " + xaxisLabel + " " + String.format("r=%.2f", a), null, xaxisLabel, dataset, false, false, false); XYPlot xyPlot = chart.getXYPlot(); chart.getTitle().setFont(new Font("SansSerif", Font.BOLD, 12)); // standard renderer makes lines. XYDotRenderer renderer = new XYDotRenderer(); renderer.setBaseFillPaint(Color.white); renderer.setDotHeight(3); renderer.setDotWidth(3); renderer.setSeriesShape(0, new Ellipse2D.Double(0, 0, 3, 3)); // has no effect, need dotheight. float saturationDrop = (float) Math.min(1.0, component * 0.8f / MAX_COMP); renderer.setSeriesPaint(0, Color.getHSBColor(0.0f, 1.0f - saturationDrop, 0.7f)); ValueAxis domainAxis = xyPlot.getDomainAxis(); domainAxis.setVerticalTickLabels(true); xyPlot.setRenderer(renderer); xyPlot.setRangeGridlinesVisible(false); xyPlot.setDomainGridlinesVisible(false); charts.get(-1L).add(chart); } } /* * Plot in a grid, with each factor as a column. FIXME What if we have too many factors to fit on the screen? */ int columns = (int) Math.ceil(charts.size()); int perChartSize = ExpressionExperimentQCController.DEFAULT_QC_IMAGE_SIZE_PX; BufferedImage image = new BufferedImage(columns * perChartSize, MAX_COMP * perChartSize, BufferedImage.TYPE_INT_ARGB); Graphics2D g2 = image.createGraphics(); int currentX = 0; int currentY = 0; for (Long id : charts.keySet()) { for (JFreeChart chart : charts.get(id)) { this.addChartToGraphics(chart, g2, currentX, currentY, perChartSize, perChartSize); if (currentY + perChartSize < MAX_COMP * perChartSize) { currentY += perChartSize; } else { currentY = 0; currentX += perChartSize; } } } os.write(ChartUtilities.encodeAsPNG(image)); return true; }