Posted by
Krs5 on
Nov 25, 2014; 5:40pm
URL: http://imagej.273.s1.nabble.com/3D-object-counter-extract-data-from-the-windows-Statistics-tp5010619p5010625.html
Dear Marie,
There is no selection in your image, so you get the stats from the whole image.
To get an idea, something like below should work. However I have to duplicate the second ("Analyze Particles...","add slice"); for this to work. Looks like a bug.
run("Bat Cochlea Volume (19K)");
setAutoThreshold("Default dark");
//run("Threshold...");
//setThreshold(129, 255);
setOption("BlackBackground", false);
run("Convert to Mask", "stack");
run("Analyze Particles...", "stack");
//open(dirRes+img);
setSlice(1);
run("Analyze Particles...","add slice");
roiManager("select", 0);
getStatistics(area, mean, min, max);
waitForUser("area -> "+area);
setSlice(100);
run("Analyze Particles...","add slice");
run("Analyze Particles...","add slice"); // BUG
roiManager("select", 1);
getStatistics(area, mean, min, max);
waitForUser("area -> "+area);
Best wishes
Kees
Dr Ir K.R. Straatman
Senior Experimental Officer
Advanced Imaging Facility
Centre for Core Biotechnology Services
University of Leicester
http://www2.le.ac.uk/colleges/medbiopsych/facilities-and-services/cbs/lite/aif-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of SUBSCRIBE IMAGEJ Marie-Laure B
Sent: 25 November 2014 16:43
To:
[hidden email]
Subject: Re: 3D object counter : extract data from the windows Statistics ...
Thank you for your help,
For stacks : 3D image, it doesn't work
run("Bat Cochlea Volume (19K)");
//open(dirRes+img);
setSlice(1);
getStatistics(area, mean, min, max);
waitForUser("area -> "+area);
setSlice(100);
getStatistics(area, mean, min, max);
waitForUser("area -> "+area);
Do I miss something ?
Marie Laure
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