capturing summarize info

[Radha Pyati]

Dear ImageJ users,

I'm learning ImageJ and its macro language and wondered how to do the
following: capture the threshold and count values from the summarize results
table, do this for several files, and perform calculations on the group of
count values.  I'd like to do all this within ImageJ if possible; I am able
to save the summaries and open them in Excel, but that adds a step.  Thank
you very much for any ideas you have.

Sincerely,
Radha Pyati
University of Colorado

[Wayne Rasband]

> I'm learning ImageJ and its macro language and wondered how to
> do the following: capture the threshold and count values from the
> summarize results table, do this for several files, and perform
> calculations on the group of count values.  I'd like to do all this
> within ImageJ if possible; I am able to save the summaries and
> open them in Excel, but that adds a step.  Thank you very much
> for any ideas you have.

The following macro reproduces the particle analyzer's "Summary  
of ..." table. The first two lines are all that is needed to get the  
threshold and count values.

   getThreshold(min, max);
   n = nResults;
   sum = 0;
   for (i=0; i<n; i++)
       sum += getResult("Area", i);
   average = sum/n;
   getPixelSize(unit, pw, ph);
   imageSize = getWidth*getHeight*pw*ph;
   fraction = sum/imageSize;
   print("Threshold:", min+"-"+max);
   print("Count:", n);
   print("TotalArea: "+sum+" "+unit+"^2");
   print("Average Size: "+average+" "+unit+"^2");
   print("Area Fraction: "+d2s(fraction*100,2)+"%");

-wayne

[Radha Pyati]

Dear Wayne,

Thank you very much for your fast response to my Image J question.  I
appreciate it a lot.

Sincerely,
Radha Pyati

-----
Radha Pyati, Ph.D.
Associate Professor of Chemistry
University of Colorado at Colorado Springs
Sabbatical July 05 - July 06 at University of Colorado at Boulder
Email: [hidden email]
Phone: [phone]
Department of Chemistry and Biochemistry
Campus Box 215
Boulder, CO 80309
----- Original Message -----
From: "Rasband Wayne" <[hidden email]>
To: <[hidden email]>
Sent: Wednesday, May 10, 2006 7:38 PM
Subject: Re: capturing summarize info

>> I'm learning ImageJ and its macro language and wondered how to
>> do the following: capture the threshold and count values from the
>> summarize results table, do this for several files, and perform
>> calculations on the group of count values.  I'd like to do all this
>> within ImageJ if possible; I am able to save the summaries and
>> open them in Excel, but that adds a step.  Thank you very much
>> for any ideas you have.
>
> The following macro reproduces the particle analyzer's "Summary  of ..."
> table. The first two lines are all that is needed to get the  threshold
> and count values.
>
>   getThreshold(min, max);
>   n = nResults;
>   sum = 0;
>   for (i=0; i<n; i++)
>       sum += getResult("Area", i);
>   average = sum/n;
>   getPixelSize(unit, pw, ph);
>   imageSize = getWidth*getHeight*pw*ph;
>   fraction = sum/imageSize;
>   print("Threshold:", min+"-"+max);
>   print("Count:", n);
>   print("TotalArea: "+sum+" "+unit+"^2");
>   print("Average Size: "+average+" "+unit+"^2");
>   print("Area Fraction: "+d2s(fraction*100,2)+"%");
>
> -wayne
>

... [show rest of quote]