/**
* Splits the specified RGB stack into three 8-bit grayscale stacks. Deletes the source stack if
* keepSource is false.
*/
public static ImageStack[] splitRGB(ImageStack rgb, boolean keepSource) {
int w = rgb.getWidth();
int h = rgb.getHeight();
ImageStack[] channels = new ImageStack[3];
for (int i = 0; i < 3; i++) channels[i] = new ImageStack(w, h);
byte[] r, g, b;
ColorProcessor cp;
int slice = 1;
int inc = keepSource ? 1 : 0;
int n = rgb.getSize();
for (int i = 1; i <= n; i++) {
IJ.showStatus(i + "/" + n);
r = new byte[w * h];
g = new byte[w * h];
b = new byte[w * h];
cp = (ColorProcessor) rgb.getProcessor(slice);
slice += inc;
cp.getRGB(r, g, b);
if (!keepSource) rgb.deleteSlice(1);
channels[0].addSlice(null, r);
channels[1].addSlice(null, g);
channels[2].addSlice(null, b);
IJ.showProgress((double) i / n);
}
return channels;
}
public ImageProcessor projectColor(int[] maxima) {
ColorProcessor ip = new ColorProcessor(w, h);
for (int y = 0; y < h; y++) {
for (int x = 0; x < w; x++) {
int index = y * w + x;
float w0 = vertexWeights[index][0];
float w1 = vertexWeights[index][1];
float w2 = vertexWeights[index][2];
int m0 = maxima[vIndices[index][0]];
int m1 = maxima[vIndices[index][1]];
int m2 = maxima[vIndices[index][2]];
int r =
(int)
(w0 * ((m0 & 0xff0000) >> 16)
+ w1 * ((m1 & 0xff0000) >> 16)
+ w2 * ((m2 & 0xff0000) >> 16));
int g =
(int)
(w0 * ((m0 & 0xff00) >> 8) + w1 * ((m1 & 0xff00) >> 8) + w2 * ((m2 & 0xff00) >> 8));
int b = (int) (w0 * ((m0 & 0xff)) + w1 * ((m1 & 0xff)) + w2 * ((m2 & 0xff)));
ip.set(x, y, (r << 16) + (g << 8) + b);
}
}
return ip;
}
/**
* Method to change bands order only on the BufferedImage.
*
* @param bufferedImage
* @return new bufferedImage
*/
public Image invertRGB(BufferedImage bufferedImage, String bands) {
ColorModel colorModel = bufferedImage.getColorModel();
if (colorModel instanceof DirectColorModel) {
DirectColorModel directColorModel = (DirectColorModel) colorModel;
int red = directColorModel.getRedMask();
int blue = directColorModel.getBlueMask();
int green = directColorModel.getGreenMask();
int alpha = directColorModel.getAlphaMask();
int[] components = new int[3];
String bds = bands.toLowerCase();
components[0] = getComponent(bds.charAt(0), red, green, blue);
components[1] = getComponent(bds.charAt(1), red, green, blue);
components[2] = getComponent(bds.charAt(2), red, green, blue);
directColorModel =
new DirectColorModel(32, components[0], components[1], components[2], alpha);
ColorProcessor colorProcessor = new ColorProcessor(bufferedImage);
colorProcessor.setColorModel(directColorModel);
return colorProcessor.createImage();
}
return bufferedImage;
}
public static double[] getPixels(ImagePlus imp, int[] slices, int[] frames, int[] channels) {
ImagePlus subImp = AccessImage.getSubHyperStack(imp, slices, frames, channels);
ImageStack imageStack = subImp.getImageStack();
double[] pixels = new double[subImp.getWidth() * subImp.getHeight() * imageStack.getSize()];
for (int i = 0; i < imageStack.getSize(); i++) {
switch (subImp.getType()) {
case ImagePlus.GRAY8:
ByteProcessor byteProcessor = (ByteProcessor) imageStack.getProcessor(i + 1);
for (int iX = 0; iX < subImp.getWidth(); iX++) {
for (int iY = 0; iY < subImp.getHeight(); iY++) {
pixels[i * subImp.getWidth() * subImp.getHeight() + iY * subImp.getWidth() + iX] =
(double) byteProcessor.getPixelValue(iX, iY);
}
}
break;
case ImagePlus.GRAY16:
ShortProcessor shortProcessor = (ShortProcessor) imageStack.getProcessor(i + 1);
for (int iX = 0; iX < subImp.getWidth(); iX++) {
for (int iY = 0; iY < subImp.getHeight(); iY++) {
pixels[i * subImp.getWidth() * subImp.getHeight() + iY * subImp.getWidth() + iX] =
(double) shortProcessor.getPixelValue(iX, iY);
}
}
break;
case ImagePlus.GRAY32:
FloatProcessor floatProcessor = (FloatProcessor) imageStack.getProcessor(i + 1);
for (int iX = 0; iX < subImp.getWidth(); iX++) {
for (int iY = 0; iY < subImp.getHeight(); iY++) {
pixels[i * subImp.getWidth() * subImp.getHeight() + iY * subImp.getWidth() + iX] =
(double) floatProcessor.getPixelValue(iX, iY);
}
}
break;
case ImagePlus.COLOR_RGB:
ColorProcessor colorProcessor = (ColorProcessor) imageStack.getProcessor(i + 1);
int nX = subImp.getWidth();
int nY = subImp.getHeight();
byte[] red = new byte[nX * nY];
byte[] green = new byte[nX * nY];
byte[] blue = new byte[nX * nY];
colorProcessor.getRGB(red, green, blue);
int r, g, b;
for (int j = 0; j < nX * nY; j++) {
r = red[j] << 16;
g = green[j] << 8;
b = blue[j] << 0;
pixels[i * nX * nY + j] = (double) (r + g + b);
}
break;
}
}
return (pixels);
}
public ImagePlusInteractiveDisplay2D(
final int width,
final int height,
final ScreenImageRenderer renderer,
final TransformListener2D renderTransformListener) {
sourceToScreen = new AffineTransform2D();
final ColorProcessor cp = new ColorProcessor(width, height);
screenImage = new ARGBScreenImage(cp.getWidth(), cp.getHeight(), (int[]) cp.getPixels());
this.renderer = renderer;
renderer.screenImageChanged(screenImage);
this.renderTransformListener = renderTransformListener;
imp = new ImagePlus("argbScreenProjection", cp);
imp.show();
imp.getCanvas().setMagnification(1.0);
imp.draw();
gui = new GUI(imp);
handler = new TransformEventHandler2Dij(imp, this);
handler.setWindowCenter(width / 2, height / 2);
addHandler(handler);
// additional keyboard mappings
addHandler(
new KeyListener() {
@Override
public void keyPressed(final KeyEvent e) {
if (e.getKeyCode() == KeyEvent.VK_E) {
IJ.log(sourceToScreen.toString());
} else if (e.getKeyCode() == KeyEvent.VK_F1) {
IJ.showMessage(handler.getHelpString());
} else if (e.getKeyCode() == KeyEvent.VK_PLUS || e.getKeyCode() == KeyEvent.VK_EQUALS) {
IJ.run("In [+]");
} else if (e.getKeyCode() == KeyEvent.VK_MINUS) {
IJ.run("Out [-]");
}
}
@Override
public void keyTyped(final KeyEvent e) {}
@Override
public void keyReleased(final KeyEvent e) {}
});
}
@Override
public BooleanImage getBinaryImage(ImageProcessor ip) {
if (th1 == null || !isSupported(ip)) return new BooleanImage(ip.getWidth(), ip.getHeight());
int width = ip.getWidth();
int height = ip.getHeight();
byte[] ch1, ch2, ch3;
ch1 = new byte[ip.getWidth() * ip.getHeight()];
ch2 = new byte[ip.getWidth() * ip.getHeight()];
ch3 = new byte[ip.getWidth() * ip.getHeight()];
ColorProcessor cp = (ColorProcessor) ip;
switch (colorspace) {
case RGB:
cp.getRGB(ch1, ch2, ch3);
break;
case HSB:
cp.getHSB(ch1, ch2, ch3);
break;
case Lab:
getLab(cp, ch1, ch2, ch3);
break;
case YUV:
getYUV(cp, ch1, ch2, ch3);
break;
default:
break;
}
boolean[] pix = new boolean[width * height];
for (int i = 0; i < ch1.length; i++) {
boolean c1 = th1[0] <= (ch1[i] & 0xff) && (ch1[i] & 0xff) <= th1[1];
if (pass1 ? !c1 : c1) continue;
boolean c2 = th2[0] <= (ch2[i] & 0xff) && (ch2[i] & 0xff) <= th2[1];
if (pass2 ? !c2 : c2) continue;
boolean c3 = th3[0] <= (ch3[i] & 0xff) && (ch3[i] & 0xff) <= th3[1];
if (pass3 ? !c3 : c3) continue;
pix[i] = true;
}
pix = applyMask(pix);
return new BooleanImage(width, height, pix);
}
// Conversion Options
void conversions() {
double[] weights = ColorProcessor.getWeightingFactors();
boolean weighted = !(weights[0] == 1d / 3d && weights[1] == 1d / 3d && weights[2] == 1d / 3d);
// boolean weighted = !(Math.abs(weights[0]-1d/3d)<0.0001 && Math.abs(weights[1]-1d/3d)<0.0001
// && Math.abs(weights[2]-1d/3d)<0.0001);
GenericDialog gd = new GenericDialog("Conversion Options");
gd.addCheckbox("Scale when converting", ImageConverter.getDoScaling());
String prompt = "Weighted RGB conversions";
if (weighted)
prompt +=
" (" + IJ.d2s(weights[0]) + "," + IJ.d2s(weights[1]) + "," + IJ.d2s(weights[2]) + ")";
gd.addCheckbox(prompt, weighted);
gd.showDialog();
if (gd.wasCanceled()) return;
ImageConverter.setDoScaling(gd.getNextBoolean());
Prefs.weightedColor = gd.getNextBoolean();
if (!Prefs.weightedColor) ColorProcessor.setWeightingFactors(1d / 3d, 1d / 3d, 1d / 3d);
else if (Prefs.weightedColor && !weighted)
ColorProcessor.setWeightingFactors(0.299, 0.587, 0.114);
return;
}
private void process(ColorProcessor ip) {
double[] feature = new double[binX * binY * binZ];
int processedPixels = 0;
ImageProcessor mask = ip.getMask();
int numpixels = ip.getPixelCount();
float[] hsbvals = new float[3]; // Conversion buffer
for (int i = 0; i < numpixels; i++) {
if (mask == null || mask.get(i) != 0) {
if (type == TYPE.HSB) {
feature[getBinForHSB(ip.get(i), hsbvals)]++;
} else if (type == TYPE.RGB) {
feature[getBinForRGB(ip.get(i))]++;
}
processedPixels++;
}
}
Arrays2.div(feature, processedPixels);
addData(feature);
}
public void makeTransition(ImagePlus imp, int from, int num) {
if (from > imp.getStackSize()) {
IJ.error("Need a following slice to which to transit.");
return;
}
num++; // so that really num slices are added
ImageStack stack = imp.getStack();
int[] before = (int[]) (stack.getProcessor(from).convertToRGB().getPixels());
int[] after = (int[]) (stack.getProcessor(from + 1).convertToRGB().getPixels());
for (int z = 1; z < num; z++) {
ColorProcessor bp = new ColorProcessor(stack.getWidth(), stack.getHeight());
int[] pixels = (int[]) bp.getPixels();
double dp = z;
double dn = num - z;
for (int i = 0; i < pixels.length; i++) {
pixels[i] = interpolate(before[i], dp, after[i], dn);
}
new ImagePlus("slice + " + z, bp).show();
stack.addSlice("", bp, from + z - 1);
}
}
public void fillRect(int x, int y, int width, int height) {
// have the implement the clip rect ourselves here
int x1 = x;
int y1 = y;
int x2 = x + width;
int y2 = y + height;
if (x1 < clip.x) x1 = clip.x;
if (x2 > (clip.x + clip.width)) x2 = clip.x + clip.width;
if (x2 < x1) return;
if (y1 < clip.y) y1 = clip.y;
if (y2 > (clip.y + clip.width)) y2 = clip.y + clip.width;
if (y2 < y1) return;
Roi fillroi = new Roi(x1, y1, x2 - x1, y2 - y1);
cp.fill(fillroi);
}
public int[] setSphereColors(SphericalMaxProjection smp, ColorProcessor ip) {
Point2f polar = new Point2f();
Point2D.Double out = new Point2D.Double();
int[] colors = new int[smp.getSphere().nVertices];
int idx = 0;
for (Point3f v : smp.getSphere().getVertices()) {
smp.getPolar(v, polar);
projection.transformRadians(polar.x, polar.y, out);
int x = (int) out.x - minx;
int y = maxy - (int) out.y;
colors[idx++] = ip.get(x, y);
}
return colors;
}
ImageStack getRGBStack(ImagePlus imp) {
ImageProcessor ip = imp.getProcessor();
int w = ip.getWidth();
int h = ip.getHeight();
int size = w * h;
byte[] r = new byte[size];
byte[] g = new byte[size];
byte[] b = new byte[size];
((ColorProcessor) ip).getRGB(r, g, b);
ImageStack stack = new ImageStack(w, h);
stack.addSlice("Red", r);
stack.addSlice("Green", g);
stack.addSlice("Blue", b);
stack.setColorModel(ip.getDefaultColorModel());
return stack;
}
public void unsetClip() {
cp.setClipRect(null);
clip = new Rectangle(width, height);
}
public FontMetrics getFontMetrics() {
return cp.getFontMetrics();
}
public Font getFont() {
return cp.getFont();
}
public int getStringWidth(String string) {
return cp.getStringWidth(string);
}
// -----------------------------------------------------------------------------------
public void Lipschitz2D(ImageProcessor ip) {
int slope, slope1, p, p1, p2, p3, p4, maxz;
m_roi = ip.getRoi();
ImageHeight = ip.getHeight();
ImageWidth = ip.getWidth();
m_channels = ip instanceof ColorProcessor ? 3 : 1;
m_short = ip instanceof ShortProcessor;
pixel = new int[m_channels];
int[][] destPixels = new int[m_channels][ImageHeight * ImageWidth];
int[][] srcPixels = new int[m_channels][ImageHeight * ImageWidth];
byte[][] tmpBytePixels = new byte[m_channels][ImageHeight * ImageWidth];
short[][] tmpShortPixels = new short[m_channels][ImageHeight * ImageWidth];
if (m_channels == 1) {
if (m_short) {
tmpShortPixels[0] = (short[]) ip.getPixels();
} else {
tmpBytePixels[0] = (byte[]) ip.getPixels();
}
} else {
ColorProcessor cip = (ColorProcessor) ip;
cip.getRGB(tmpBytePixels[0], tmpBytePixels[1], tmpBytePixels[2]);
}
int sign = (m_Down ? 1 : -1);
int topdown = (m_Down ? 0 : 255);
for (int ii = 0; ii < m_channels; ii++) {
for (int ij = 0; ij < ImageHeight * ImageWidth; ij++) {
srcPixels[ii][ij] =
(m_short
? sign * (tmpShortPixels[ii][ij] & 0xffff)
: sign * (tmpBytePixels[ii][ij] & 0xff));
destPixels[ii][ij] = srcPixels[ii][ij];
}
}
slope = (int) (m_Slope);
slope1 = (int) (slope * Math.sqrt(2.0));
maxz = m_channels;
for (int y = m_roi.y; y < m_roi.y + m_roi.height; y++) // rows
{
IJ.showProgress(y, 2 * ImageHeight);
for (int z = 0; z < m_channels; z++) {
p2 = sign * (topdown + (sign) * slope);
p3 = sign * (topdown + (sign) * slope1);
for (int x = m_roi.x; x < m_roi.x + m_roi.width; x++) // columns
{
p = (p2 - slope);
p1 = (p3 - slope1);
if (p1 > p) p = p1;
p3 = destPixels[z][x + ImageWidth * (Math.max(y - 1, 0))];
p1 = p3 - slope;
if (p1 > p) p = p1;
p4 = destPixels[z][Math.min(x + 1, ImageWidth - 1) + ImageWidth * (Math.max(y - 1, 0))];
p1 = p4 - slope1;
if (p1 > p) p = p1;
p2 = srcPixels[z][x + ImageWidth * y];
if (p > p2) {
destPixels[z][x + ImageWidth * y] = p;
p2 = p;
}
}
}
}
for (int y = m_roi.y + m_roi.height - 1; y >= m_roi.y; y--) // rows
{
IJ.showProgress(2 * ImageHeight - y - 1, 2 * ImageHeight);
for (int z = 0; z < maxz; z++) {
p2 = sign * (topdown + (sign) * slope);
p3 = sign * (topdown + (sign) * slope1);
for (int x = m_roi.x + m_roi.width - 1; x >= m_roi.x; x--) // columns
{
p = (p2 - slope);
p1 = (p3 - slope1);
if (p1 > p) p = p1;
p3 = destPixels[z][x + ImageWidth * (Math.min(y + 1, ImageHeight - 1))];
p1 = p3 - slope;
if (p1 > p) p = p1;
p4 = destPixels[z][Math.max(x - 1, 0) + ImageWidth * (Math.min(y + 1, ImageHeight - 1))];
p1 = p4 - slope1;
if (p1 > p) p = p1;
p2 = destPixels[z][x + ImageWidth * y];
if (p > p2) {
destPixels[z][x + ImageWidth * y] = p;
p2 = p;
}
}
}
}
for (int ii = 0; ii < m_channels; ii++) {
for (int ij = 0; ij < ImageHeight * ImageWidth; ij++) {
if (m_TopHat) {
tmpBytePixels[ii][ij] =
(m_Down
? (byte) (srcPixels[ii][ij] - destPixels[ii][ij] + 255)
: (byte) (destPixels[ii][ij] - srcPixels[ii][ij]));
} else {
if (m_short) {
tmpShortPixels[ii][ij] = (short) ((sign * destPixels[ii][ij] & 0xffff));
} else {
tmpBytePixels[ii][ij] = (byte) (sign * destPixels[ii][ij]);
}
}
}
}
if (m_channels == 1) {
if (m_short) {
ShortProcessor sip = (ShortProcessor) ip;
sip.setPixels(tmpShortPixels[0]);
} else {
ByteProcessor bip = (ByteProcessor) ip;
bip.setPixels(tmpBytePixels[0]);
}
} else {
ColorProcessor cip = (ColorProcessor) ip;
cip.setRGB(tmpBytePixels[0], tmpBytePixels[1], tmpBytePixels[2]);
}
}
public void drawVerticalString(String string, int x, int y) {
// x and y here are the center of the string
FontMetrics fm = cp.getFontMetrics();
int ascent = fm.getAscent();
int descent = fm.getDescent();
int height = ascent + descent;
int width = cp.getStringWidth(string);
int[] mask = new int[width * height];
for (int i = 0; i < width * height; i++) {
mask[i] = 0xffffffff;
}
ColorProcessor cp2 = new ColorProcessor(width, height, mask);
cp2.setAntialiasedText(antialias);
cp2.setFont(cp.getFont());
cp2.drawString(string, 0, ascent);
ColorProcessor cp3 = (ColorProcessor) cp2.rotateLeft();
mask = (int[]) cp3.getPixels();
int newx = x - height / 2;
int newy = y - width / 2;
int[] pixels = (int[]) cp.getPixels();
int owidth = cp.getWidth();
int oheight = cp.getHeight();
for (int i = 0; i < width; i++) {
int b = newy + i;
if (b >= 0 && b < oheight) {
for (int j = 0; j < height; j++) {
int a = newx + j;
if (a >= 0 && a < owidth) {
if (mask[j + i * height] != 0xffffffff) {
pixels[a + owidth * b] = mask[j + i * height];
}
}
}
}
}
}
public void drawLine(int x1, int y1, int x2, int y2) {
cp.drawLine(x1, y1, x2, y2);
}
void sample() {
byte[] hsSource, ssSource, bsSource;
// ImageProcessor ip2;
// ip2 = imp.getProcessor();
Rectangle myroi = ip.getRoi();
int swidth = myroi.width;
int sheight = myroi.height;
int sy = myroi.y;
int sx = myroi.x;
if (swidth == width && sheight == height) {
IJ.showMessage("Select a rectangular ROI");
IJ.beep();
return;
}
IJ.run("Select None");
int snumPixels = swidth * sheight;
hsSource = new byte[snumPixels];
ssSource = new byte[snumPixels];
bsSource = new byte[snumPixels];
int[] pixs = new int[snumPixels];
int[] bin = new int[256];
int counter = 0, pi = 0, rangePassH = 0, rangeStopH = 0, rangePassL = 0, rangeStopL = 0, i, j;
for (i = sy; i < sy + sheight; i++) {
for (j = sx; j < sx + swidth; j++) {
pixs[counter++] = ip.getPixel(j, i);
}
}
// Get hsb or rgb from roi.
ColorProcessor cp2 = new ColorProcessor(swidth, sheight, pixs);
int iminhue = 256, imaxhue = -1, iminsat = 256, imaxsat = -1, iminbri = 256, imaxbri = -1;
int iminred = 256, imaxred = -1, imingre = 256, imaxgre = -1, iminblu = 256, imaxblu = -1;
if (isRGB) cp2.getRGB(hsSource, ssSource, bsSource);
else cp2.getHSB(hsSource, ssSource, bsSource);
for (i = 0; i < snumPixels; i++) {
bin[hsSource[i] & 255] = 1;
if ((hsSource[i] & 255) > imaxhue) imaxhue = (hsSource[i] & 255);
if ((hsSource[i] & 255) < iminhue) iminhue = (hsSource[i] & 255);
if ((ssSource[i] & 255) > imaxsat) imaxsat = (ssSource[i] & 255);
if ((ssSource[i] & 255) < iminsat) iminsat = (ssSource[i] & 255);
if ((bsSource[i] & 255) > imaxbri) imaxbri = (bsSource[i] & 255);
if ((bsSource[i] & 255) < iminbri) iminbri = (bsSource[i] & 255);
// IJ.showMessage("h:"+minhue+"H:"+maxhue+"s:"+minsat+"S:"+maxsat+"b:"+minbri+"B:"+maxbri);
}
if (!isRGB) { // get pass or stop filter whichever has a narrower range
for (i = 0; i < 256; i++) {
if (bin[i] > 0) {
rangePassL = i;
break;
}
}
for (i = 255; i >= 0; i--) {
if (bin[i] > 0) {
rangePassH = i;
break;
}
}
for (i = 0; i < 256; i++) {
if (bin[i] == 0) {
rangeStopL = i;
break;
}
}
for (i = 255; i >= 0; i--) {
if (bin[i] == 0) {
rangeStopH = i;
break;
}
}
if ((rangePassH - rangePassL) < (rangeStopH - rangeStopL)) {
bandPassH.setState(true);
bandStopH.setState(false);
iminhue = rangePassL;
imaxhue = rangePassH;
} else {
bandPassH.setState(false);
bandStopH.setState(true);
iminhue = rangeStopL;
imaxhue = rangeStopH;
}
} else {
bandPassH.setState(true);
bandStopH.setState(false);
}
adjustMinHue(iminhue);
minSlider.setValue(iminhue);
adjustMaxHue(imaxhue);
maxSlider.setValue(imaxhue);
adjustMinSat(iminsat);
minSlider2.setValue(iminsat);
adjustMaxSat(imaxsat);
maxSlider2.setValue(imaxsat);
adjustMinBri(iminbri);
minSlider3.setValue(iminbri);
adjustMaxBri(imaxbri);
maxSlider3.setValue(imaxbri);
originalB.setEnabled(true);
// IJ.showStatus("done");
}
ImageProcessor setup(ImagePlus imp) {
ImageProcessor ip;
int type = imp.getType();
if (type != ImagePlus.COLOR_RGB) return null;
ip = imp.getProcessor();
int id = imp.getID();
int slice = imp.getCurrentSlice();
if ((id != previousImageID) | (slice != previousSlice) | (flag)) {
flag = false; // if true, flags a change from HSB to RGB or viceversa
numSlices = imp.getStackSize();
stack = imp.getStack();
width = stack.getWidth();
height = stack.getHeight();
numPixels = width * height;
hSource = new byte[numPixels];
sSource = new byte[numPixels];
bSource = new byte[numPixels];
// restore = (int[])ip.getPixelsCopy(); //This runs into trouble sometimes, so do it the
// long way:
int[] temp = (int[]) ip.getPixels();
restore = new int[numPixels];
for (int i = 0; i < numPixels; i++) restore[i] = temp[i];
fillMask = new int[numPixels];
// Get hsb or rgb from image.
ColorProcessor cp = (ColorProcessor) ip;
IJ.showStatus("Gathering data");
if (isRGB) cp.getRGB(hSource, sSource, bSource);
else cp.getHSB(hSource, sSource, bSource);
IJ.showStatus("done");
// Create a spectrum ColorModel for the Hue histogram plot.
Color c;
byte[] reds = new byte[256];
byte[] greens = new byte[256];
byte[] blues = new byte[256];
for (int i = 0; i < 256; i++) {
c = Color.getHSBColor(i / 255f, 1f, 1f);
reds[i] = (byte) c.getRed();
greens[i] = (byte) c.getGreen();
blues[i] = (byte) c.getBlue();
}
ColorModel cm = new IndexColorModel(8, 256, reds, greens, blues);
// Make an image with just the hue from the RGB image and the spectrum LUT.
// This is just for a hue histogram for the plot. Do not show it.
// ByteProcessor bpHue = new ByteProcessor(width,height,h,cm);
ByteProcessor bpHue = new ByteProcessor(width, height, hSource, cm);
ImagePlus impHue = new ImagePlus("Hue", bpHue);
// impHue.show();
ByteProcessor bpSat = new ByteProcessor(width, height, sSource, cm);
ImagePlus impSat = new ImagePlus("Sat", bpSat);
// impSat.show();
ByteProcessor bpBri = new ByteProcessor(width, height, bSource, cm);
ImagePlus impBri = new ImagePlus("Bri", bpBri);
// impBri.show();
plot.setHistogram(impHue, 0);
splot.setHistogram(impSat, 1);
bplot.setHistogram(impBri, 2);
updateLabels();
updatePlot();
updateScrollBars();
imp.updateAndDraw();
}
previousImageID = id;
previousSlice = slice;
return ip;
}
public void run(ImageProcessor ip) {
// Ask the user for the sCol value (color saturation factor)
GenericDialog gd = new GenericDialog("sCol Value");
gd.addNumericField("sCol: ", 0.3, 3);
gd.showDialog();
if (gd.wasCanceled()) return;
sCol = gd.getNextNumber();
// Get the mask for the ROI (selected region)
ImageProcessor mask = ip.getMask();
Rectangle roi = ip.getRoi();
int x = (int) roi.getX();
int y = (int) roi.getY();
int w = (int) roi.getWidth();
int h = (int) roi.getHeight();
// IJ.write("mask w: "+mask.getWidth()+", mask h: "+mask.getHeight()+", roi w: "+w+", roi h:
// "+h);
// Create a new mask based on the selected region, but the size is equivalent to the original
// image
ColorProcessor temp = new ColorProcessor(ip.getWidth(), ip.getHeight());
for (int j = 0; j < ip.getHeight(); j++) {
for (int i = 0; i < ip.getWidth(); i++) {
if (j >= y && j < y + h && i >= x && i < x + w) {
// In the mask region
if (mask == null) // When ROI is Rectangle
temp.set(i, j, 1);
else {
if (mask.get(i - x, j - y) != 0) temp.set(i, j, 1);
else temp.set(i, j, 0);
}
} else {
temp.set(i, j, 0);
}
}
}
ip.setMask(temp); // not necessary
mask = temp;
// iterate over all pixels, and desaturate only pixels in ROI
for (int v = 0; v < ip.getHeight(); v++) {
for (int u = 0; u < ip.getWidth(); u++) {
if (mask.get(u, v) != 0) {
// get int-packed color pixel
int c = ip.get(u, v);
// extract RGB components from color pixel
int r = (c & 0xff0000) >> 16;
int g = (c & 0x00ff00) >> 8;
int b = (c & 0x0000ff);
// compute equivalent gray value
double yy = 0.299 * r + 0.587 * g + 0.114 * b;
// linearly interpolate $(yyy) --> (rgb)
r = (int) (yy + sCol * (r - yy));
g = (int) (yy + sCol * (g - yy));
b = (int) (yy + sCol * (b - yy));
// reassemble color pixel
c = ((r & 0xff) << 16) | ((g & 0xff) << 8) | b & 0xff;
ip.set(u, v, c);
}
}
}
imp.updateAndDraw();
}
public void drawImage(Image img, int x, int y) {
ColorProcessor cp2 = new ColorProcessor(img);
cp.copyBits(cp2, x, y, Blitter.COPY);
}
public void setFont(Font font) {
cp.setFont(font);
}
public void setColor(Color color) {
cp.setColor(color);
this.color = color;
}
public void setAntiAliasedText(boolean antialias) {
cp.setAntialiasedText(antialias);
this.antialias = true;
}
public void drawString(String string, int x, int y) {
cp.drawString(string, x, y);
}
public void setClipRect(int x, int y, int width, int height) {
clip = new Rectangle(x, y, width, height);
cp.setClipRect(clip);
}
public void run(ImageProcessor ip) {
ImageUtils.initMMorph4J();
if (ip instanceof ByteProcessor) {
GrayScaleImage img = ImageJAdapter.toGrayScaleImage((ByteProcessor) ip);
Object obj[] = BuilderTreeOfShapeByUnionFindParallel.getImageInterpolate(img);
short interpolation0[] = (short[]) obj[0];
short interpolation1[] = (short[]) obj[1];
int interpWidth = (img.getWidth() * 4 - 3);
int interpHeight = (img.getHeight() * 4 - 3);
ByteProcessor imgOut0 = new ByteProcessor(interpWidth, interpHeight);
ByteProcessor imgOut1 = new ByteProcessor(interpWidth, interpHeight);
for (int i = 0; i < interpolation0.length; i++) {
// imgOut.setPixel(i, (interpolation0[i] + interpolation1[i]) / 2);
imgOut0.set(i, (interpolation0[i] & 0xFF));
imgOut1.set(i, (interpolation1[i] & 0xFF));
}
ImagePlus imgPlus0 = new ImagePlus("interpolation - max", imgOut0);
imgPlus0.show("image interpolation - max");
ImagePlus imgPlus1 = new ImagePlus("interpolation - min", imgOut1);
imgPlus1.show("image interpolation - min");
} else if (ip instanceof ColorProcessor) {
ColorImage img = ImageJAdapter.toColorImage((ColorProcessor) ip);
int interpWidth = (img.getWidth() * 4 - 3);
int interpHeight = (img.getHeight() * 4 - 3);
GrayScaleImage imgR = img.getRed();
GrayScaleImage imgG = img.getGreen();
GrayScaleImage imgB = img.getBlue();
ColorProcessor imgOut0 = new ColorProcessor(interpWidth, interpHeight);
ColorProcessor imgOut1 = new ColorProcessor(interpWidth, interpHeight);
Object objR[] = BuilderTreeOfShapeByUnionFindParallel.getImageInterpolate(imgR);
short interpolation0R[] = (short[]) objR[0];
short interpolation1R[] = (short[]) objR[1];
Object objG[] = BuilderTreeOfShapeByUnionFindParallel.getImageInterpolate(imgG);
short interpolation0G[] = (short[]) objG[0];
short interpolation1G[] = (short[]) objG[1];
Object objB[] = BuilderTreeOfShapeByUnionFindParallel.getImageInterpolate(imgB);
short interpolation0B[] = (short[]) objB[0];
short interpolation1B[] = (short[]) objB[1];
for (int i = 0; i < interpolation0R.length; i++) {
int valor0 =
((0 & 0xFF) << 24)
| ((interpolation0R[i] & 0xFF) << 16)
| ((interpolation0G[i] & 0xFF) << 8)
| ((interpolation0B[i] & 0xFF) << 0);
imgOut0.set(i, valor0);
int valor1 =
((0 & 0xFF) << 24)
| ((interpolation1R[i] & 0xFF) << 16)
| ((interpolation1G[i] & 0xFF) << 8)
| ((interpolation1B[i] & 0xFF) << 0);
imgOut1.set(i, valor1);
}
ImagePlus imgPlus0 = new ImagePlus("interpolation - max", imgOut0);
imgPlus0.show("image interpolation - max");
ImagePlus imgPlus1 = new ImagePlus("interpolation - min", imgOut1);
imgPlus1.show("image interpolation - min");
}
}
public ColorHistogram(ColorProcessor ip) {
this((int[]) ip.getPixels());
}