1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
|
package ij.plugin.filter;
import java.awt.*;
import java.util.*;
import ij.*;
import ij.gui.*;
import ij.process.*;
import ij.text.*;
import ij.measure.*;
import ij.io.*;
import ij.util.Tools;
/** This plugin implements the Image/Show Info command. */
public class Info implements PlugInFilter {
private ImagePlus imp;
public int setup(String arg, ImagePlus imp) {
this.imp = imp;
return DOES_ALL+NO_CHANGES;
}
public void run(ImageProcessor ip) {
String info = getImageInfo(imp, ip);
if (info.indexOf("----")>0)
showInfo(info, 450, 500);
else
showInfo(info, 300, 300);
}
public String getImageInfo(ImagePlus imp, ImageProcessor ip) {
String infoProperty = null;
if (imp.getStackSize()>1) {
ImageStack stack = imp.getStack();
String label = stack.getSliceLabel(imp.getCurrentSlice());
if (label!=null && label.indexOf('\n')>0)
infoProperty = label;
}
if (infoProperty==null)
infoProperty = (String)imp.getProperty("Info");
String info = getInfo(imp, ip);
if (infoProperty!=null)
return infoProperty + "\n------------------------\n" + info;
else
return info;
}
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";
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";
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: " + mag + "\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";
}
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(r.x*cal.pixelWidth) + " (" + r.x + ")\n";
s += " Y: " + IJ.d2s(yy(r.y,imp)*cal.pixelHeight) + " (" + 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);
}
// returns a Y coordinate based on the "Invert Y Coodinates" flag
int yy(int y, ImagePlus imp) {
return Analyzer.updateY(y, imp.getHeight());
}
// returns a Y coordinate based on the "Invert Y Coodinates" flag
double yy(double y, ImagePlus imp) {
return Analyzer.updateY(y, imp.getHeight());
}
void showInfo(String info, int width, int height) {
new TextWindow("Info for "+imp.getTitle(), info, width, height);
}
}
|
