Example #1
0
  @Override
  public Chart getChart() {

    // Create Chart
    Chart chart = new Chart(800, 600);

    // generates linear data
    Collection<Date> xData = new ArrayList<Date>();
    Collection<Number> yData = new ArrayList<Number>();

    DateFormat sdf = new SimpleDateFormat("dd.MM.yyyy");
    Date date = null;
    for (int i = 1; i <= 10; i++) {

      try {
        date = sdf.parse(i + ".10.2008");
      } catch (ParseException e) {
        e.printStackTrace();
      }
      xData.add(date);
      yData.add(Math.random() * i);
    }

    // Customize Chart
    chart.setChartTitle("LineChart03");
    chart.setXAxisTitle("X");
    chart.setYAxisTitle("Y");
    chart.getStyleManager().setPlotBackgroundColor(ChartColor.getAWTColor(ChartColor.GREY));
    chart.getStyleManager().setPlotGridLinesColor(new Color(255, 255, 255));
    chart.getStyleManager().setChartBackgroundColor(Color.WHITE);
    chart.getStyleManager().setLegendBackgroundColor(Color.PINK);
    chart.getStyleManager().setChartFontColor(Color.MAGENTA);
    chart.getStyleManager().setChartTitleBoxBackgroundColor(new Color(0, 222, 0));
    chart.getStyleManager().setChartTitleBoxVisible(true);
    chart.getStyleManager().setChartTitleBoxBorderColor(Color.BLACK);
    chart.getStyleManager().setPlotGridLinesVisible(false);
    chart.getStyleManager().setAxisTickPadding(20);
    chart.getStyleManager().setAxisTickMarkLength(15);
    chart.getStyleManager().setPlotPadding(20);
    chart.getStyleManager().setChartTitleFont(new Font(Font.MONOSPACED, Font.BOLD, 24));
    chart.getStyleManager().setLegendFont(new Font(Font.SERIF, Font.PLAIN, 18));
    chart.getStyleManager().setLegendPosition(LegendPosition.InsideSE);
    chart.getStyleManager().setAxisTitleFont(new Font(Font.SANS_SERIF, Font.ITALIC, 18));
    chart.getStyleManager().setAxisTickLabelsFont(new Font(Font.SERIF, Font.PLAIN, 11));
    chart.getStyleManager().setDatePattern("dd-MMM");
    chart.getStyleManager().setNormalDecimalPattern("#0.000");
    chart.getStyleManager().setLocale(Locale.GERMAN);

    Series series = chart.addDateSeries("Fake Data", xData, yData);
    series.setLineColor(SeriesColor.BLUE);
    series.setMarkerColor(Color.ORANGE);
    series.setMarker(SeriesMarker.CIRCLE);
    series.setLineStyle(SeriesLineStyle.SOLID);

    return chart;
  }
  @Override
  public Chart getChart() {

    yData = getRandomData(5);

    // Create Chart
    Chart chart = new Chart(500, 400);
    chart.setChartTitle("Sample Real-time Chart");
    chart.setXAxisTitle("X");
    chart.setYAxisTitle("Y");
    chart.addSeries(SERIES_NAME, null, yData);

    return chart;
  }
Example #3
0
  @Override
  public Chart getChart() {

    // Create Chart
    Chart chart = new Chart(800, 600);

    // Customize Chart
    chart.setChartTitle("LineChart05");
    chart.setXAxisTitle("X");
    chart.setYAxisTitle("Y");
    chart.getStyleManager().setLegendPosition(LegendPosition.InsideSW);

    double[] xData = new double[] {0.0, 1.0, 2.0, 3.0, 4.0, 5, 6};
    double[] yData = new double[] {106, 44, 26, 10, 7.5, 3.4, .88};
    double[] yData2 = new double[] {102, 49, 23.6, 11.3, 5.4, 2.6, 1.25};

    Series series = chart.addSeries("A", xData, yData);
    series.setLineStyle(SeriesLineStyle.NONE);
    series.setMarker(SeriesMarker.DIAMOND);
    series.setMarkerColor(Color.BLACK);

    Series series2 = chart.addSeries("B", xData, yData2);
    series2.setMarker(SeriesMarker.NONE);
    series2.setLineStyle(SeriesLineStyle.DASH_DASH);
    series2.setLineColor(Color.BLACK);

    chart.getStyleManager().setYAxisLogarithmic(true);

    chart.getStyleManager().setYAxisMin(0.01);
    chart.getStyleManager().setYAxisMax(1000);

    chart.getStyleManager().setXAxisMin(2);
    chart.getStyleManager().setXAxisMax(7);

    return chart;
  }
  private void go() throws IOException {

    // initialize the ahahNode
    double readPeriod = 1E-5; // increase the learning rate from default
    double writePeriod = 1E-5;
    int numBias = 15;
    int numInputs = 70; // max number of inputs/spikes
    MemristorType memristorType = MemristorType.AgChalc;

    AHaH21Circuit ahahNodeCircuit =
        new AHaH21CircuitBuilder()
            .numInputs(numInputs)
            .numBiasInputs(numBias)
            .readPeriod(readPeriod)
            .writePeriod(writePeriod)
            .memristorType(memristorType)
            .build();

    // initialize the feature factory. This code converts the raw data to a spiking representation.
    BreastCancerSpikeEncoder breastCancerSpikeEncoder = new BreastCancerSpikeEncoder();

    SpikeConverter spikeConverter =
        new SpikeConverter(); // converts the spike code produced by the feature factory to one that
    // can be used by the circuit.

    // train the classifier--->
    List<BreastCancer> breastCancerTrainingData = BreastCancerDAO.selectTrainData();
    System.out.println("Learning...");

    for (BreastCancer breastCancer : breastCancerTrainingData) {
      String[] topicTrueLabels = new String[1];
      topicTrueLabels[0] = breastCancer.getCellClass() + "";
      long[] spikes = breastCancerSpikeEncoder.encode(breastCancer); // get the spike representation
      Set<Integer> convertedSpikes = spikeConverter.convert(spikes);

      int superviseSignal = 0;
      if (breastCancer.getCellClass() == 2) {
        superviseSignal = 1;
      } else {
        superviseSignal = -1;
      }
      System.out.println("Spike Pattern Length = " + convertedSpikes.size());
      // System.out.println("Spikes = " + Arrays.toString(convertedSpikes.toArray()));
      double y = ahahNodeCircuit.update(convertedSpikes, superviseSignal);
    }
    System.out.println("Spike Pattern Space = " + breastCancerSpikeEncoder.getSpikePatternSpace());

    // Test the classifier
    List<BreastCancer> breastCancerTestData = BreastCancerDAO.selectTestData();

    System.out.println("Testing...");
    Set<String> labels =
        new HashSet<String>(); // these are the labels we are evaluating the performance of
    labels.add("2");
    labels.add("4");

    // we are testing the performance for a range of confidence values, from 0 to 1.
    int numSteps = 100;
    double[] confidenceThresholds = new double[numSteps];
    double inc = .061 / numSteps;
    for (int i = 0; i < confidenceThresholds.length; i++) {
      confidenceThresholds[i] = i * inc;
    }

    // create evaluators for keeping track of performance
    ClassificationEvaluator[] evaluators = new ClassificationEvaluator[numSteps];
    for (int i = 0; i < evaluators.length; i++) {
      evaluators[i] = new ClassificationEvaluator(labels);
    }

    // run through the test set
    for (BreastCancer breastCancer : breastCancerTestData) {
      long[] spikes = breastCancerSpikeEncoder.encode(breastCancer);
      Set<Integer> convertedSpikes = spikeConverter.convert(spikes);

      double y =
          ahahNodeCircuit.update(convertedSpikes, 0); // NOTE: no supervised labels are passed here.

      // true labels for evaluation.
      Set<String> trueLabels = new HashSet<String>();
      trueLabels.add(breastCancer.getCellClass() + "");

      for (int i = 0; i < evaluators.length; i++) {

        List<String> labelOutput = new ArrayList<String>();

        if (y > confidenceThresholds[i]) {
          labelOutput.add("2");
        } else if (y < -confidenceThresholds[i]) {
          labelOutput.add("4");
        }

        evaluators[i].update(trueLabels, labelOutput);
      }
    }

    // plot results---->
    double maxF1 = 0;
    int cIdx = 0;
    double[] accuracy = new double[numSteps];
    double[] precision = new double[numSteps];
    double[] recall = new double[numSteps];
    double[] f1 = new double[numSteps];
    for (int i = 0; i < numSteps; i++) {
      accuracy[i] = evaluators[i].getAccuracyMicroAve();
      precision[i] = evaluators[i].getPrecisionMicroAve();
      recall[i] = evaluators[i].getRecallMicroAve();
      f1[i] = evaluators[i].getF1MicroAve();

      if (f1[i] > maxF1) { // get the best confidence threshold
        maxF1 = f1[i];
        cIdx = i;
      }
    }

    Chart chart = new Chart(300, 300, ChartTheme.Matlab);
    // chart.setChartTitle("Wisconsin Breast Cancer Benchmark - F1=" + df.format(maxF1) + "
    // w/ConfidenceThreshold=" + df.format(confidenceThresholds[cIdx]));
    chart.setChartTitle("Breast Cancer - Circuit");
    chart.setXAxisTitle("Confidence Threshold");
    chart.setYAxisTitle("Score");
    chart.getStyleManager().setLegendPosition(LegendPosition.InsideSW);

    Series accuracy_series = chart.addSeries("Accuracy", confidenceThresholds, accuracy);
    accuracy_series.setMarker(SeriesMarker.NONE);
    Series precision_series = chart.addSeries("Precision", confidenceThresholds, precision);
    precision_series.setMarker(SeriesMarker.NONE);
    Series recall_series = chart.addSeries("Recall", confidenceThresholds, recall);
    recall_series.setMarker(SeriesMarker.NONE);
    Series f1_series = chart.addSeries("F1", confidenceThresholds, f1);
    f1_series.setMarker(SeriesMarker.NONE);

    BitmapEncoder.savePNGWithDPI(chart, "./PLOS_AHAH/Figures/Breast_Cancer_Circuit.png", 300);
    new SwingWrapper(chart).displayChart();
  }