Examples with DataBufferByte java.awt.image.DataBufferByte used on opensource projects

Example 51 with DataBufferByte

use of java.awt.image.DataBufferByte in project vcell by virtualcell.

the class ROIMultiPaintManager method fillVoids.

private boolean fillVoids(BufferedImage[] roiPixels, boolean bCheckOnly) throws Exception {
    if (true) {
        throw new IllegalArgumentException("Not yet implemented fully");
    }
    boolean bHadAnyInternalVoids = false;
    int xSize = roiPixels[0].getWidth();
    int ySize = roiPixels[0].getHeight();
    int zSize = roiPixels.length;
    int XYSIZE = xSize * ySize;
    boolean bUseZ = roiPixels.length > 1;
    VCImage checkImage = ROIMultiPaintManager.createVCImageFromBufferedImages(getImageDataSetChannel().getExtent(), roiComposite);
    RegionImage regionImage = new RegionImage(checkImage, 0, /*0 means generate no surfacecollection*/
    checkImage.getExtent(), getImageDataSetChannel().getAllImages()[0].getOrigin(), RegionImage.NO_SMOOTHING, progressWaitPopup);
    RegionInfo[] newRegionInfos = regionImage.getRegionInfos();
    for (int i = 0; i < newRegionInfos.length; i++) {
        if (newRegionInfos[i].getPixelValue() == 0) {
            boolean bInternalVoid = true;
            for (int z = 0; z < zSize; z++) {
                int zOffset = z * XYSIZE;
                for (int y = 0; y < ySize; y++) {
                    int yoffset = y * xSize;
                    int zyOffset = zOffset + yoffset;
                    for (int x = 0; x < xSize; x++) {
                        if (newRegionInfos[i].isIndexInRegion(zyOffset + x)) {
                            if (x == 0 || y == 0 | (bUseZ && z == 0) | x == (xSize - 1) || y == (ySize - 1) || (bUseZ && z == (zSize - 1))) {
                                bInternalVoid = false;
                                break;
                            }
                        }
                    }
                    if (!bInternalVoid) {
                        break;
                    }
                }
                if (!bInternalVoid) {
                    break;
                }
            }
            if (bInternalVoid) {
                bHadAnyInternalVoids = true;
                if (bCheckOnly) {
                    return bHadAnyInternalVoids;
                }
                for (int z = 0; z < zSize; z++) {
                    byte[] roiPixelsBytes = ((DataBufferByte) roiPixels[z].getRaster().getDataBuffer()).getData();
                    for (int xy = 0; xy < XYSIZE; xy++) {
                    // if(newRegionInfos[i].isIndexInRegion(j)){
                    // fillvoidPixels[j]|= 0xFFFF;
                    // }
                    }
                }
            }
        }
    }
    return bHadAnyInternalVoids;
}

Example 52 with DataBufferByte

use of java.awt.image.DataBufferByte in project vcell by virtualcell.

the class ROIMultiPaintManager method duplicateROIData.

private void duplicateROIData(final int newZSize) {
    final AsynchClientTask extrudeTask = new AsynchClientTask("Extruding...", AsynchClientTask.TASKTYPE_NONSWING_BLOCKING) {

        @Override
        public void run(Hashtable<String, Object> hashTable) throws Exception {
            ISize origSize = getImageDataSetChannel().getISize();
            if (origSize.getZ() != 1 || newZSize < 1) {
                throw new IllegalArgumentException("Extrude assumes starting with 2D and new Z size >= 1.");
            }
            UShortImage[][] newUnderLayImageArr = new UShortImage[initImageDataSetChannels.length][newZSize];
            BufferedImage[] newROICompositeArr = new BufferedImage[newZSize];
            for (int i = 0; i < newZSize; i++) {
                for (int c = 0; c < initImageDataSetChannels.length; c++) {
                    // short[] zslice = new short[initImageDataSetChannels[c].getAllImages()[0].getPixels().length];
                    // System.arraycopy(initImageDataSetChannels[c].getAllImages()[0].getPixels(), 0, zslice, 0, zslice.length);
                    newUnderLayImageArr[c][i] = new UShortImage(// zslice,
                    initImageDataSetChannels[c].getAllImages()[0].getPixels().clone(), DEFAULT_ORIGIN, DEFAULT_EXTENT, initImageDataSetChannels[c].getAllImages()[0].getNumX(), initImageDataSetChannels[c].getAllImages()[0].getNumY(), 1);
                }
                newROICompositeArr[i] = new BufferedImage(roiComposite[0].getWidth(), roiComposite[0].getHeight(), BufferedImage.TYPE_BYTE_INDEXED, getContrastIndexColorModel());
                System.arraycopy((byte[]) ((DataBufferByte) roiComposite[0].getRaster().getDataBuffer()).getData(), 0, (byte[]) ((DataBufferByte) newROICompositeArr[i].getRaster().getDataBuffer()).getData(), 0, origSize.getX() * origSize.getY());
            }
            for (int c = 0; c < initImageDataSetChannels.length; c++) {
                initImageDataSetChannels[c] = new ImageDataset(newUnderLayImageArr[c], null, newZSize);
            }
            roiComposite = newROICompositeArr;
            if (!(enhanceImageAmount == ROIMultiPaintManager.ENHANCE_NONE)) {
                getClientTaskStatusSupport().setMessage("smoothing...");
            }
            updateAuxiliaryInfo(origSize, getClientTaskStatusSupport());
        }
    };
    final AsynchClientTask updatePanelTask = getUpdateDisplayAfterCropTask();
    ClientTaskDispatcher.dispatch(overlayEditorPanelJAI, new Hashtable<String, Object>(), new AsynchClientTask[] { extrudeTask, updatePanelTask }, false, false, null, true);
}

Example 53 with DataBufferByte

use of java.awt.image.DataBufferByte in project vcell by virtualcell.

the class ROIMultiPaintManager method resizeXYByte.

public static PlanarImage resizeXYByte(byte[] byteArr, int numX, int numY, Float scaleX, Float scaleY) {
    BufferedImage bufferedImage = new BufferedImage(numX, numY, BufferedImage.TYPE_BYTE_INDEXED, getContrastIndexColorModel());
    byte[] byteData = ((DataBufferByte) bufferedImage.getRaster().getDataBuffer()).getData();
    System.arraycopy(byteArr, 0, byteData, 0, byteArr.length);
    PlanarImage planarImage = ScaleDescriptor.create(bufferedImage, scaleX, scaleY, 0f, 0f, new InterpolationNearest(), null);
    return planarImage;
// PaddedInfo paddedInfo = new PaddedInfo();
// paddedInfo.paddedArray = ((DataBufferByte)planarImage.getData().getDataBuffer()).getData();
// paddedInfo.paddedISize = new ISize(planarImage.getWidth(), planarImage.getHeight(), 1);
// return paddedInfo;
}

Example 54 with DataBufferByte

use of java.awt.image.DataBufferByte in project vcell by virtualcell.

the class OverlayEditorPanelJAI method saveUserChangesToROI.

public void saveUserChangesToROI() {
    short[] roiPixels = getImagePane().getHighlightImageWritebackImageBuffer();
    if (roiPixels != null) {
        BufferedImage highlightImage = imagePane.getHighlightImage();
        byte[] hiLiteArr = ((DataBufferByte) highlightImage.getRaster().getDataBuffer()).getData();
        for (int i = 0; i < roiPixels.length; i++) {
            roiPixels[i] = (hiLiteArr[i] == 0 ? 0 : (short) 0xffff);
        }
    }
}

Example 55 with DataBufferByte

use of java.awt.image.DataBufferByte in project vcell by virtualcell.

the class VFrap_OverlayEditorPanelJAI method createHighlightImageFromROI.

/**
 * Method createHighlightImageFromROI.
 * @return BufferedImage
 */
private BufferedImage createHighlightImageFromROI() {
    int[] cmap = new int[256];
    // colormap (grayscale)
    for (int i = 0; i < 256; i += 1) {
        if (i != 0) {
            cmap[i] = 0xFF000000 | highlightColor.getRGB();
        } else {
            cmap[1] = 0xFF000000;
        }
    }
    IndexColorModel indexColorModel = new java.awt.image.IndexColorModel(8, cmap.length, cmap, 0, false, /*false means NOT USE alpha*/
    -1, /*NO transparent single pixel*/
    java.awt.image.DataBuffer.TYPE_BYTE);
    UShortImage roiImage = roi.getRoiImages()[getRoiImageIndex()];
    int width = roiImage.getNumX();
    int height = roiImage.getNumY();
    BufferedImage hiLiteImage = new BufferedImage(width, height, BufferedImage.TYPE_BYTE_INDEXED, indexColorModel);
    byte[] hiLiteArr = ((DataBufferByte) hiLiteImage.getRaster().getDataBuffer()).getData();
    for (int i = 0; i < roiImage.getPixels().length; i++) {
        hiLiteArr[i] = (roiImage.getPixels()[i] != 0 ? (byte) highlightColor.getRed() : 0);
    }
    return hiLiteImage;
}