Example usage for org.opencv.core Mat get

Introduction

In this page you can find the example usage for org.opencv.core Mat get.

Prototype

public int get(int row, int col, double[] data) 

Source Link

Usage

From source file:qupath.opencv.DetectCytokeratinCV.java

License:Open Source License

public static void updateArea(final List<MatOfPoint> contours, final Mat hierarchy, final Area area, int row,
        int depth) {
    while (row >= 0) {
        int[] data = new int[4];
        hierarchy.get(0, row, data);

        MatOfPoint contour = contours.get(row);

        // Don't include isolated pixels - otherwise add or remove, as required
        if (contour.height() > 2) {
            Path2D path = getContour(contour);
            if (depth % 2 == 0)
                area.add(new Area(path));
            else/*from w ww. j  av a2s  .  com*/
                area.subtract(new Area(path));
        }

        // Deal with any sub-contours
        if (data[2] >= 0)
            updateArea(contours, hierarchy, area, data[2], depth + 1);

        // Move to next contour in this hierarchy level
        row = data[0];
    }
}

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From source file:qupath.opencv.processing.PixelImageCV.java

License:Open Source License

public PixelImageCV(Mat mat) {
    // Extract dimensions and pixels
    this.width = (int) mat.size().width;
    this.height = (int) mat.size().height;

    pixels = new float[(int) mat.total()];
    if (mat.depth() == CvType.CV_32F)
        mat.get(0, 0, pixels);
    else {/*  w  w w .j av  a2s.  c o  m*/
        Mat mat2 = new Mat();
        mat.convertTo(mat2, CvType.CV_32F);
        mat2.get(0, 0, pixels);
    }
}

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From source file:qupath.opencv.TissueSegmentationCommand.java

License:Open Source License

@Override
public void hierarchyChanged(PathObjectHierarchyEvent event) {
    if (img == null || isChanging || event.isChanging())
        return;/*from  w w  w . ja v a2 s.  c  om*/

    List<PathObject> annotations = hierarchy.getObjects(null, PathAnnotationObject.class);
    if (annotation != null)
        annotations.remove(annotation);
    List<PathObject> background = new ArrayList<>();
    List<PathObject> foreground = new ArrayList<>();
    PathClass whitespaceClass = PathClassFactory.getDefaultPathClass(PathClasses.WHITESPACE);
    for (PathObject a : annotations) {
        if (a == annotation)
            continue;
        if (a.getPathClass() == whitespaceClass)
            background.add(a);
        else
            foreground.add(a);
    }

    if (background.isEmpty() || foreground.isEmpty())
        return;

    // Create labels
    Graphics2D g2d = imgMask.createGraphics();
    g2d.setColor(Color.BLACK);
    g2d.fillRect(0, 0, img.getWidth(), img.getHeight());
    g2d.scale((double) img.getWidth() / imageData.getServer().getWidth(),
            (double) img.getHeight() / imageData.getServer().getHeight());
    g2d.setColor(Color.GRAY);
    for (PathObject a : background) {
        g2d.draw(PathROIToolsAwt.getShape(a.getROI()));
    }
    g2d.setColor(Color.WHITE);
    for (PathObject a : foreground) {
        g2d.draw(PathROIToolsAwt.getShape(a.getROI()));
    }
    g2d.dispose();

    // Get the data to classify
    RTrees trees = RTrees.create();

    byte[] bytes = ((DataBufferByte) imgMask.getRaster().getDataBuffer()).getData();
    int n = 0;
    for (int i = 0; i < bytes.length; i++) {
        byte b = bytes[i];
        if (b == (byte) 0)
            continue;
        if (b == (byte) 255) {
            trainingResponses[n] = 2;
        } else {
            trainingResponses[n] = 1;
        }
        for (int k = 0; k < featureStride; k++)
            training[n * featureStride + k] = features[i * featureStride + k];
        n++;
    }

    Mat matTraining = new Mat(n, featureStride, CvType.CV_32FC1);
    matTraining.put(0, 0, Arrays.copyOf(training, n * featureStride));
    Mat matResponses = new Mat(n, 1, CvType.CV_32SC1);
    matResponses.put(0, 0, Arrays.copyOf(trainingResponses, n));

    trees.train(matTraining, Ml.ROW_SAMPLE, matResponses);

    matTraining.release();
    matResponses.release();

    Mat samples = new Mat(buf.length, featureStride, CvType.CV_32FC1);
    samples.put(0, 0, features);
    Mat results = new Mat(buf.length, 1, CvType.CV_32SC1);
    trees.predict(samples, results, RTrees.PREDICT_AUTO);
    BufferedImage imgOutput = new BufferedImage(img.getWidth(), img.getHeight(), BufferedImage.TYPE_INT_RGB);
    float[] resultsArray = new float[buf.length];
    results.get(0, 0, resultsArray);

    for (int i = 0; i < resultsArray.length; i++) {
        if (resultsArray[i] == 1f)
            imgOutput.setRGB(i % img.getWidth(), i / img.getWidth(), ColorTools.makeRGB(255, 0, 0));
        else if (resultsArray[i] == 2f)
            imgOutput.setRGB(i % img.getWidth(), i / img.getWidth(), ColorTools.makeRGB(255, 255, 255));
    }

    isChanging = true;
    hierarchy.fireHierarchyChangedEvent(this);
    isChanging = false;
}

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From source file:sanntidvideo.Main.java

public BufferedImage toBufferedImage(Mat m) {
    int type = BufferedImage.TYPE_BYTE_GRAY;
    if (m.channels() > 1) {
        type = BufferedImage.TYPE_3BYTE_BGR;
    }/*from www  .j  av  a2  s.  c o  m*/
    int bufferSize = m.channels() * m.cols() * m.rows();
    byte[] b = new byte[bufferSize];
    m.get(0, 0, b); // get all the pixels
    BufferedImage image = new BufferedImage(m.cols(), m.rows(), type);
    final byte[] targetPixels = ((DataBufferByte) image.getRaster().getDataBuffer()).getData();
    System.arraycopy(b, 0, targetPixels, 0, b.length);
    return image;
}

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From source file:sanntidvideo.VideoCap.java

public Image toBufferedImage(Mat m) {
    int type = BufferedImage.TYPE_BYTE_GRAY;
    if (m.channels() > 1) {
        type = BufferedImage.TYPE_3BYTE_BGR;
    }//from w w  w. j  a v a  2 s  .  c om
    int bufferSize = m.channels() * m.cols() * m.rows();
    byte[] b = new byte[bufferSize];
    m.get(0, 0, b); // get all the pixels
    BufferedImage image = new BufferedImage(m.cols(), m.rows(), type);
    final byte[] targetPixels = ((DataBufferByte) image.getRaster().getDataBuffer()).getData();
    System.arraycopy(b, 0, targetPixels, 0, b.length);
    return image;
}

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From source file:servershootingstar.BallDetector.java

public static BufferedImage Mat2BufferedImage(Mat m) {
    // source: http://answers.opencv.org/question/10344/opencv-java-load-image-to-gui/
    // The output can be assigned either to a BufferedImage or to an Image

    int type = BufferedImage.TYPE_BYTE_GRAY;
    if (m.channels() > 1) {
        type = BufferedImage.TYPE_3BYTE_BGR;
    }/*  w  w w.  j a va 2 s.c o m*/
    int bufferSize = m.channels() * m.cols() * m.rows();
    byte[] b = new byte[bufferSize];
    m.get(0, 0, b); // get all the pixels
    BufferedImage image = new BufferedImage(m.cols(), m.rows(), type);
    final byte[] targetPixels = ((DataBufferByte) image.getRaster().getDataBuffer()).getData();
    System.arraycopy(b, 0, targetPixels, 0, b.length);
    return image;
}

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From source file:src.main.java.org.roomwatcher.watcher.Watcher.java

/**  
* Converts/writes a Mat into a BufferedImage.  
*   //ww  w .j av a2  s . c o  m
* @param matrix Mat of type CV_8UC3 or CV_8UC1  
* @return BufferedImage of type TYPE_3BYTE_BGR or TYPE_BYTE_GRAY  
*/
public boolean MatToBufferedImage(Mat matBGR) {
    long startTime = System.nanoTime();
    int width = matBGR.width(), height = matBGR.height(), channels = matBGR.channels();
    byte[] sourcePixels = new byte[width * height * channels];
    matBGR.get(0, 0, sourcePixels);

    // create new image and get reference to backing data  
    image = new BufferedImage(width, height, BufferedImage.TYPE_3BYTE_BGR);
    final byte[] targetPixels = ((DataBufferByte) image.getRaster().getDataBuffer()).getData();
    System.arraycopy(sourcePixels, 0, targetPixels, 0, sourcePixels.length);
    long endTime = System.nanoTime();

    //System.out.println(String.format("Elapsed time: %.2f ms", (float)(endTime - startTime)/1000000));  
    return true;
}

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From source file:syncleus.dann.data.video.TLDUtil.java

License:Apache License

public static byte getByte(final int row, final int col, final Mat mat) {
    if (CvType.CV_8UC1 != mat.type())
        throw new IllegalArgumentException(
                "Expected type is CV_8UC1, we found: " + CvType.typeToString(mat.type()));

    mat.get(row, col, _byteBuff1);
    return _byteBuff1[0];
}

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From source file:syncleus.dann.data.video.TLDUtil.java

License:Apache License

/**
 * The corresponding Java primitive array type depends on the Mat type:
 * CV_8U and CV_8S -> byte[]//from  w w w .  j  a  v  a  2s . c om
 * CV_16U and CV_16S -> short[]
 * CV_32S -> int[]
 * CV_32F -> float[]
 * CV_64F-> double[]
 */
public static byte[] getByteArray(final Mat mat) {
    if (CvType.CV_8UC1 != mat.type())
        throw new IllegalArgumentException(
                "Expected type is CV_8UC1, we found: " + CvType.typeToString(mat.type()));

    final int size = (int) (mat.total() * mat.channels());
    if (_byteBuff.length != size) {
        _byteBuff = new byte[size];
    }
    mat.get(0, 0, _byteBuff); // 0 for row and col means the WHOLE Matrix
    return _byteBuff;
}

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From source file:syncleus.dann.data.video.TLDUtil.java

License:Apache License

public static int[] getIntArray(final Mat mat) {
    if (CvType.CV_32SC1 != mat.type())
        throw new IllegalArgumentException(
                "Expected type is CV_32SC1, we found: " + CvType.typeToString(mat.type()));

    final int size = (int) (mat.total() * mat.channels());
    if (_intBuff.length != size) {
        _intBuff = new int[size];
    }/*from  w w  w.  ja  v  a  2 s  . c  o  m*/
    mat.get(0, 0, _intBuff); // 0 for row and col means the WHOLE Matrix
    return _intBuff;
}

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