private String displayRanges(ImagePlus imp) {
LUT[] luts = imp.getLuts();
if (luts == null) return "";
String s = "Display ranges\n";
int n = luts.length;
if (n > 7) n = 7;
for (int i = 0; i < n; i++) {
double min = luts[i].min;
double max = luts[i].max;
int digits = (int) min == min && (int) max == max ? 0 : 2;
s += " " + (i + 1) + ": " + IJ.d2s(min, digits) + "-" + IJ.d2s(max, digits) + "\n";
}
return s;
}
byte[] getJar(String address) {
// System.out.println("getJar: "+address);
byte[] data;
try {
URL url = new URL(address);
IJ.showStatus("Connecting to " + IJ.URL);
URLConnection uc = url.openConnection();
int len = uc.getContentLength();
if (IJ.debugMode) IJ.log("Updater (url): " + address + " " + len);
if (len <= 0) return null;
String name = address.contains("wsr") ? "daily build (" : "ij.jar (";
IJ.showStatus("Downloading " + name + IJ.d2s((double) len / 1048576, 1) + "MB)");
InputStream in = uc.getInputStream();
data = new byte[len];
int n = 0;
while (n < len) {
int count = in.read(data, n, len - n);
if (count < 0) throw new EOFException();
n += count;
IJ.showProgress(n, len);
}
in.close();
} catch (IOException e) {
if (IJ.debugMode) IJ.log("" + e);
return null;
}
if (IJ.debugMode) IJ.wait(6000);
return data;
}
public synchronized void adjustmentValueChanged(AdjustmentEvent e) {
Object source = e.getSource();
for (int i = 0; i < slider.size(); i++) {
if (source == slider.elementAt(i)) {
Scrollbar sb = (Scrollbar) source;
TextField tf = (TextField) numberField.elementAt(sliderIndexes[i]);
int digits = sliderScales[i] == 1.0 ? 0 : 2;
tf.setText("" + IJ.d2s(sb.getValue() / sliderScales[i], digits));
}
}
}
/**
* Adds a numeric field. The first word of the label must be unique or command recording will not
* work.
*
* @param label the label
* @param defaultValue value to be initially displayed
* @param digits number of digits to right of decimal point
* @param columns width of field in characters
* @param units a string displayed to the right of the field
*/
public void addNumericField(
String label, double defaultValue, int digits, int columns, String units) {
String label2 = label;
if (label2.indexOf('_') != -1) label2 = label2.replace('_', ' ');
Label theLabel = makeLabel(label2);
c.gridx = 0;
c.gridy = y;
c.anchor = GridBagConstraints.EAST;
c.gridwidth = 1;
if (firstNumericField) c.insets = getInsets(5, 0, 3, 0);
else c.insets = getInsets(0, 0, 3, 0);
grid.setConstraints(theLabel, c);
add(theLabel);
if (numberField == null) {
numberField = new Vector(5);
defaultValues = new Vector(5);
defaultText = new Vector(5);
}
if (IJ.isWindows()) columns -= 2;
if (columns < 1) columns = 1;
String defaultString = IJ.d2s(defaultValue, digits);
if (Double.isNaN(defaultValue)) defaultString = "";
TextField tf = new TextField(defaultString, columns);
if (IJ.isLinux()) tf.setBackground(Color.white);
tf.addActionListener(this);
tf.addTextListener(this);
tf.addFocusListener(this);
tf.addKeyListener(this);
numberField.addElement(tf);
defaultValues.addElement(new Double(defaultValue));
defaultText.addElement(tf.getText());
c.gridx = 1;
c.gridy = y;
c.anchor = GridBagConstraints.WEST;
tf.setEditable(true);
// if (firstNumericField) tf.selectAll();
firstNumericField = false;
if (units == null || units.equals("")) {
grid.setConstraints(tf, c);
add(tf);
} else {
Panel panel = new Panel();
panel.setLayout(new FlowLayout(FlowLayout.LEFT, 0, 0));
panel.add(tf);
panel.add(new Label(" " + units));
grid.setConstraints(panel, c);
add(panel);
}
if (Recorder.record || macro) saveLabel(tf, label);
y++;
}
byte[] getJar(String address) {
byte[] data;
boolean gte133 = version().compareTo("1.33u") >= 0;
try {
URL url = new URL(address);
URLConnection uc = url.openConnection();
int len = uc.getContentLength();
String name = address.endsWith("ij/ij.jar") ? "daily build" : "ij.jar";
IJ.showStatus("Downloading ij.jar (" + IJ.d2s((double) len / 1048576, 1) + "MB)");
InputStream in = uc.getInputStream();
data = new byte[len];
int n = 0;
while (n < len) {
int count = in.read(data, n, len - n);
if (count < 0) throw new EOFException();
n += count;
if (gte133) IJ.showProgress(n, len);
}
in.close();
} catch (IOException e) {
return null;
}
return data;
}
String getInfo(ImagePlus imp, ImageProcessor ip) {
String s = new String("\n");
s += "Title: " + imp.getTitle() + "\n";
Calibration cal = imp.getCalibration();
int stackSize = imp.getStackSize();
int channels = imp.getNChannels();
int slices = imp.getNSlices();
int frames = imp.getNFrames();
int digits = imp.getBitDepth() == 32 ? 4 : 0;
if (cal.scaled()) {
String unit = cal.getUnit();
String units = cal.getUnits();
s +=
"Width: "
+ IJ.d2s(imp.getWidth() * cal.pixelWidth, 2)
+ " "
+ units
+ " ("
+ imp.getWidth()
+ ")\n";
s +=
"Height: "
+ IJ.d2s(imp.getHeight() * cal.pixelHeight, 2)
+ " "
+ units
+ " ("
+ imp.getHeight()
+ ")\n";
if (slices > 1)
s += "Depth: " + IJ.d2s(slices * cal.pixelDepth, 2) + " " + units + " (" + slices + ")\n";
double xResolution = 1.0 / cal.pixelWidth;
double yResolution = 1.0 / cal.pixelHeight;
int places = Tools.getDecimalPlaces(xResolution, yResolution);
if (xResolution == yResolution)
s += "Resolution: " + IJ.d2s(xResolution, places) + " pixels per " + unit + "\n";
else {
s += "X Resolution: " + IJ.d2s(xResolution, places) + " pixels per " + unit + "\n";
s += "Y Resolution: " + IJ.d2s(yResolution, places) + " pixels per " + unit + "\n";
}
} else {
s += "Width: " + imp.getWidth() + " pixels\n";
s += "Height: " + imp.getHeight() + " pixels\n";
if (stackSize > 1) s += "Depth: " + slices + " pixels\n";
}
if (stackSize > 1)
s +=
"Voxel size: "
+ d2s(cal.pixelWidth)
+ "x"
+ d2s(cal.pixelHeight)
+ "x"
+ d2s(cal.pixelDepth)
+ " "
+ cal.getUnit()
+ "\n";
else
s +=
"Pixel size: "
+ d2s(cal.pixelWidth)
+ "x"
+ d2s(cal.pixelHeight)
+ " "
+ cal.getUnit()
+ "\n";
s += "ID: " + imp.getID() + "\n";
String zOrigin = stackSize > 1 || cal.zOrigin != 0.0 ? "," + d2s(cal.zOrigin) : "";
s += "Coordinate origin: " + d2s(cal.xOrigin) + "," + d2s(cal.yOrigin) + zOrigin + "\n";
int type = imp.getType();
switch (type) {
case ImagePlus.GRAY8:
s += "Bits per pixel: 8 ";
String lut = "LUT";
if (imp.getProcessor().isColorLut()) lut = "color " + lut;
else lut = "grayscale " + lut;
if (imp.isInvertedLut()) lut = "inverting " + lut;
s += "(" + lut + ")\n";
if (imp.getNChannels() > 1) s += displayRanges(imp);
else s += "Display range: " + (int) ip.getMin() + "-" + (int) ip.getMax() + "\n";
break;
case ImagePlus.GRAY16:
case ImagePlus.GRAY32:
if (type == ImagePlus.GRAY16) {
String sign = cal.isSigned16Bit() ? "signed" : "unsigned";
s += "Bits per pixel: 16 (" + sign + ")\n";
} else s += "Bits per pixel: 32 (float)\n";
if (imp.getNChannels() > 1) s += displayRanges(imp);
else {
s += "Display range: ";
double min = ip.getMin();
double max = ip.getMax();
if (cal.calibrated()) {
min = cal.getCValue((int) min);
max = cal.getCValue((int) max);
}
s += IJ.d2s(min, digits) + " - " + IJ.d2s(max, digits) + "\n";
}
break;
case ImagePlus.COLOR_256:
s += "Bits per pixel: 8 (color LUT)\n";
break;
case ImagePlus.COLOR_RGB:
s += "Bits per pixel: 32 (RGB)\n";
break;
}
double interval = cal.frameInterval;
double fps = cal.fps;
if (stackSize > 1) {
ImageStack stack = imp.getStack();
int slice = imp.getCurrentSlice();
String number = slice + "/" + stackSize;
String label = stack.getShortSliceLabel(slice);
if (label != null && label.length() > 0) label = " (" + label + ")";
else label = "";
if (interval > 0.0 || fps != 0.0) {
s += "Frame: " + number + label + "\n";
if (fps != 0.0) {
String sRate =
Math.abs(fps - Math.round(fps)) < 0.00001 ? IJ.d2s(fps, 0) : IJ.d2s(fps, 5);
s += "Frame rate: " + sRate + " fps\n";
}
if (interval != 0.0)
s +=
"Frame interval: "
+ ((int) interval == interval ? IJ.d2s(interval, 0) : IJ.d2s(interval, 5))
+ " "
+ cal.getTimeUnit()
+ "\n";
} else s += "Image: " + number + label + "\n";
if (imp.isHyperStack()) {
if (channels > 1) s += " Channel: " + imp.getChannel() + "/" + channels + "\n";
if (slices > 1) s += " Slice: " + imp.getSlice() + "/" + slices + "\n";
if (frames > 1) s += " Frame: " + imp.getFrame() + "/" + frames + "\n";
}
if (imp.isComposite()) {
if (!imp.isHyperStack() && channels > 1) s += " Channels: " + channels + "\n";
String mode = ((CompositeImage) imp).getModeAsString();
s += " Composite mode: \"" + mode + "\"\n";
}
}
if (ip.getMinThreshold() == ImageProcessor.NO_THRESHOLD) s += "No Threshold\n";
else {
double lower = ip.getMinThreshold();
double upper = ip.getMaxThreshold();
int dp = digits;
if (cal.calibrated()) {
lower = cal.getCValue((int) lower);
upper = cal.getCValue((int) upper);
dp = cal.isSigned16Bit() ? 0 : 4;
}
s += "Threshold: " + IJ.d2s(lower, dp) + "-" + IJ.d2s(upper, dp) + "\n";
}
ImageCanvas ic = imp.getCanvas();
double mag = ic != null ? ic.getMagnification() : 1.0;
if (mag != 1.0) s += "Magnification: " + IJ.d2s(mag, 2) + "\n";
if (cal.calibrated()) {
s += " \n";
int curveFit = cal.getFunction();
s += "Calibration Function: ";
if (curveFit == Calibration.UNCALIBRATED_OD) s += "Uncalibrated OD\n";
else if (curveFit == Calibration.CUSTOM) s += "Custom lookup table\n";
else s += CurveFitter.fList[curveFit] + "\n";
double[] c = cal.getCoefficients();
if (c != null) {
s += " a: " + IJ.d2s(c[0], 6) + "\n";
s += " b: " + IJ.d2s(c[1], 6) + "\n";
if (c.length >= 3) s += " c: " + IJ.d2s(c[2], 6) + "\n";
if (c.length >= 4) s += " c: " + IJ.d2s(c[3], 6) + "\n";
if (c.length >= 5) s += " c: " + IJ.d2s(c[4], 6) + "\n";
}
s += " Unit: \"" + cal.getValueUnit() + "\"\n";
} else s += "Uncalibrated\n";
FileInfo fi = imp.getOriginalFileInfo();
if (fi != null) {
if (fi.url != null && !fi.url.equals("")) s += "URL: " + fi.url + "\n";
else if (fi.directory != null && fi.fileName != null)
s += "Path: " + fi.directory + fi.fileName + "\n";
}
ImageWindow win = imp.getWindow();
if (win != null) {
Point loc = win.getLocation();
Dimension screen = IJ.getScreenSize();
s +=
"Screen location: "
+ loc.x
+ ","
+ loc.y
+ " ("
+ screen.width
+ "x"
+ screen.height
+ ")\n";
}
Overlay overlay = imp.getOverlay();
if (overlay != null) {
String hidden = imp.getHideOverlay() ? " (hidden)" : " ";
int n = overlay.size();
String elements = n == 1 ? " element" : " elements";
s += "Overlay: " + n + elements + (imp.getHideOverlay() ? " (hidden)" : "") + "\n";
} else s += "No Overlay\n";
Roi roi = imp.getRoi();
if (roi == null) {
if (cal.calibrated()) s += " \n";
s += "No Selection\n";
} else if (roi instanceof EllipseRoi) {
s += "\nElliptical Selection\n";
double[] p = ((EllipseRoi) roi).getParams();
double dx = p[2] - p[0];
double dy = p[3] - p[1];
double major = Math.sqrt(dx * dx + dy * dy);
s += " Major: " + IJ.d2s(major, 2) + "\n";
s += " Minor: " + IJ.d2s(major * p[4], 2) + "\n";
s += " X1: " + IJ.d2s(p[0], 2) + "\n";
s += " Y1: " + IJ.d2s(p[1], 2) + "\n";
s += " X2: " + IJ.d2s(p[2], 2) + "\n";
s += " Y2: " + IJ.d2s(p[3], 2) + "\n";
s += " Aspect ratio: " + IJ.d2s(p[4], 2) + "\n";
} else {
s += " \n";
s += roi.getTypeAsString() + " Selection";
String points = null;
if (roi instanceof PointRoi) {
int npoints = ((PolygonRoi) roi).getNCoordinates();
String suffix = npoints > 1 ? "s)" : ")";
points = " (" + npoints + " point" + suffix;
}
String name = roi.getName();
if (name != null) {
s += " (\"" + name + "\")";
if (points != null) s += "\n " + points;
} else if (points != null) s += points;
s += "\n";
Rectangle r = roi.getBounds();
if (roi instanceof Line) {
Line line = (Line) roi;
s += " X1: " + IJ.d2s(line.x1d * cal.pixelWidth) + "\n";
s += " Y1: " + IJ.d2s(yy(line.y1d, imp) * cal.pixelHeight) + "\n";
s += " X2: " + IJ.d2s(line.x2d * cal.pixelWidth) + "\n";
s += " Y2: " + IJ.d2s(yy(line.y2d, imp) * cal.pixelHeight) + "\n";
} else if (cal.scaled()) {
s += " X: " + IJ.d2s(cal.getX(r.x)) + " (" + r.x + ")\n";
s += " Y: " + IJ.d2s(cal.getY(r.y, imp.getHeight())) + " (" + r.y + ")\n";
s += " Width: " + IJ.d2s(r.width * cal.pixelWidth) + " (" + r.width + ")\n";
s += " Height: " + IJ.d2s(r.height * cal.pixelHeight) + " (" + r.height + ")\n";
} else {
s += " X: " + r.x + "\n";
s += " Y: " + yy(r.y, imp) + "\n";
s += " Width: " + r.width + "\n";
s += " Height: " + r.height + "\n";
}
}
return s;
}
String d2s(double n) {
return n == (int) n ? Integer.toString((int) n) : IJ.d2s(n);
}
/**
* Adds a slider (scroll bar) to the dialog box. Floating point values will be used if
* (maxValue-minValue)<=5.0 and either minValue or maxValue are non-integer.
*
* @param label the label
* @param minValue the minimum value of the slider
* @param maxValue the maximum value of the slider
* @param defaultValue the initial value of the slider
*/
public void addSlider(String label, double minValue, double maxValue, double defaultValue) {
if (defaultValue < minValue) defaultValue = minValue;
if (defaultValue > maxValue) defaultValue = maxValue;
int columns = 4;
int digits = 0;
double scale = 1.0;
if ((maxValue - minValue) <= 5.0
&& (minValue != (int) minValue
|| maxValue != (int) maxValue
|| defaultValue != (int) defaultValue)) {
scale = 20.0;
minValue *= scale;
maxValue *= scale;
defaultValue *= scale;
digits = 2;
}
String label2 = label;
if (label2.indexOf('_') != -1) label2 = label2.replace('_', ' ');
Label theLabel = makeLabel(label2);
c.gridx = 0;
c.gridy = y;
c.anchor = GridBagConstraints.EAST;
c.gridwidth = 1;
c.insets = new Insets(0, 0, 3, 0);
grid.setConstraints(theLabel, c);
add(theLabel);
if (slider == null) {
slider = new Vector(5);
sliderIndexes = new int[MAX_SLIDERS];
sliderScales = new double[MAX_SLIDERS];
}
Scrollbar s =
new Scrollbar(
Scrollbar.HORIZONTAL, (int) defaultValue, 1, (int) minValue, (int) maxValue + 1);
GUI.fix(s);
slider.addElement(s);
s.addAdjustmentListener(this);
s.setUnitIncrement(1);
if (numberField == null) {
numberField = new Vector(5);
defaultValues = new Vector(5);
defaultText = new Vector(5);
}
if (IJ.isWindows()) columns -= 2;
if (columns < 1) columns = 1;
TextField tf = new TextField(IJ.d2s(defaultValue / scale, digits), columns);
if (IJ.isLinux()) tf.setBackground(Color.white);
tf.addActionListener(this);
tf.addTextListener(this);
tf.addFocusListener(this);
tf.addKeyListener(this);
numberField.addElement(tf);
sliderIndexes[slider.size() - 1] = numberField.size() - 1;
sliderScales[slider.size() - 1] = scale;
defaultValues.addElement(new Double(defaultValue / scale));
defaultText.addElement(tf.getText());
tf.setEditable(true);
firstSlider = false;
Panel panel = new Panel();
GridBagLayout pgrid = new GridBagLayout();
GridBagConstraints pc = new GridBagConstraints();
panel.setLayout(pgrid);
pc.gridx = 0;
pc.gridy = 0;
pc.gridwidth = 1;
pc.ipadx = 85;
pc.anchor = GridBagConstraints.WEST;
pgrid.setConstraints(s, pc);
panel.add(s);
pc.ipadx = 0; // reset
// text field
pc.gridx = 1;
pc.insets = new Insets(5, 5, 0, 0);
pc.anchor = GridBagConstraints.EAST;
pgrid.setConstraints(tf, pc);
panel.add(tf);
grid.setConstraints(panel, c);
c.gridx = 1;
c.gridy = y;
c.gridwidth = 1;
c.anchor = GridBagConstraints.WEST;
c.insets = new Insets(0, 0, 0, 0);
grid.setConstraints(panel, c);
add(panel);
y++;
if (Recorder.record || macro) saveLabel(tf, label);
}
private String d2s(double n) {
return IJ.d2s(n, Tools.getDecimalPlaces(n));
}
public boolean dialogItemChanged(GenericDialog gd, AWTEvent e) {
if (IJ.isMacOSX()) IJ.wait(50);
Calibration cal = imp.getCalibration();
width = gd.getNextNumber();
height = gd.getNextNumber();
xRoi = gd.getNextNumber();
yRoi = gd.getNextNumber();
if (stackSize > 1) iSlice = (int) gd.getNextNumber();
oval = gd.getNextBoolean();
square = gd.getNextBoolean();
centered = gd.getNextBoolean();
if (cal.scaled()) scaledUnits = gd.getNextBoolean();
if (gd.invalidNumber() || width <= 0 || height <= 0) return false;
//
Vector numFields = gd.getNumericFields();
Vector checkboxes = gd.getCheckboxes();
boolean newWidth = false, newHeight = false, newXY = false;
if (e != null && e.getSource() == checkboxes.get(SQUARE) && square) {
width = 0.5 * (width + height); // make square: same width&height
height = width;
newWidth = true;
newHeight = true;
}
if (e != null && e.getSource() == checkboxes.get(CENTERED)) {
double shiftBy = centered ? 0.5 : -0.5; // 'centered' changed:
xRoi += shiftBy * width; // shift x, y to keep roi the same
yRoi += shiftBy * height;
newXY = true;
}
if (square && width != height && e != null) { // in 'square' mode, synchronize width&height
if (e.getSource() == numFields.get(WIDTH)) {
height = width;
newHeight = true;
} else if (e.getSource() == numFields.get(HEIGHT)) {
width = height;
newWidth = true;
}
}
if (e != null && cal.scaled() && e.getSource() == checkboxes.get(SCALED_UNITS)) {
double xFactor = scaledUnits ? cal.pixelWidth : 1. / cal.pixelWidth;
double yFactor = scaledUnits ? cal.pixelHeight : 1. / cal.pixelHeight;
width *= xFactor; // transform everything to keep roi the same
height *= yFactor;
xRoi *= xFactor;
yRoi *= yFactor;
newWidth = true;
newHeight = true;
newXY = true;
}
int digits = (scaledUnits || (int) width != width) ? 2 : 0;
if (newWidth) ((TextField) (numFields.get(WIDTH))).setText(IJ.d2s(width, digits));
if (newHeight) ((TextField) (numFields.get(HEIGHT))).setText(IJ.d2s(height, digits));
digits = (scaledUnits || (int) xRoi != xRoi || (int) yRoi != yRoi) ? 2 : 0;
if (newXY) {
((TextField) (numFields.get(X_ROI))).setText(IJ.d2s(xRoi, digits));
((TextField) (numFields.get(Y_ROI))).setText(IJ.d2s(yRoi, digits));
}
if (stackSize > 1 && iSlice > 0 && iSlice <= stackSize) imp.setSlice(iSlice);
if (!newWidth && !newHeight && !newXY) // don't draw if an update will come immediately
drawRoi();
return true;
}