ResultTable

[Schmidt, Dr. Harald]

Hello to all,
I wrote a macro, analysing all images in a folder. The macro works well
but I have two questions refering to the ResultTable:
1. I wrote the macro with IJvers1.42q and get only the results for the
second analysis (as expected). Using an newer version (1.43o) I get the
results of both analysis, although this is not stated in the macro. What
makes this difference?
2. The results for each image are added to the next free row. Is there
any way for adding the results to the next free column?
Thanks a lot
Harald

This is the macro:
dir1 = getDirectory("Choose Source Directory ");
dir2 = getDirectory("Choose Destination Directory ");
list = getFileList(dir1);
setBatchMode(true);
run("Set Measurements...", "area display redirect=None decimal=9");
for (i=0; i<list.length; i++) {
showProgress(i+1, list.length);
open(dir1+list[i]);
run("Auto Threshold", "method=Otsu white");
run("Invert");
run("Analyze Particles...", "size=20-? circularity=0.00-1.00 show=Masks
exclude");
run("Skeletonize");
run("Analyze Particles...", "size=0-? circularity=0.00-1.00 show=Nothing
display");
saveAs("tif", dir2+list[i]);
close();
close();
}
selectWindow("Results");
saveAs("Measurements", dir2 + "Results.xls");
run("Clear Results");
run("Close");

[Michael Schmid]

Hi Harald,

hmmm, I can't reproduce your problem.

With ImageJ 1.43q, I also tried most of your macro (without saving;  
using the built-in setAutoThreshold command and replacing the  
unreadable character in the 'size' field by 'infinity'). It did not  
print any results of the first 'Analyze Particles' to the Results  
Table. All results were from "Mask of..." files.

The macro produces an error message if the first 'Analyze Particles'  
finds no particles (no mask created), but this is expected.

Concerning your second question (different columns for different  
files): I am not aware of any out-of-the-box solution for this.
You could do it by writing a macro for this.
One point to consider when doing this: The columns will have  
different length. A Results Table cannot have empty cells, so  
everything below the actual values of a given image (given column)  
will be be zero, not empty.

Michael
________________________________________________________________

On 4 Mar 2010, at 07:44, Schmidt, Dr. Harald wrote:

> Hello to all,
> I wrote a macro, analysing all images in a folder. The macro works  
> well but I have two questions refering to the ResultTable:
> 1. I wrote the macro with IJvers1.42q and get only the results for  
> the second analysis (as expected). Using an newer version (1.43o) I  
> get the results of both analysis, although this is not stated in  
> the macro. What makes this difference?
> 2. The results for each image are added to the next free row. Is  
> there any way for adding the results to the next free column?
> Thanks a lot
> Harald
>
> This is the macro:
> dir1 = getDirectory("Choose Source Directory ");
> dir2 = getDirectory("Choose Destination Directory ");
> list = getFileList(dir1);
> setBatchMode(true);
> run("Set Measurements...", "area display redirect=None decimal=9");
> for (i=0; i<list.length; i++) {
> showProgress(i+1, list.length);
> open(dir1+list[i]);
> run("Auto Threshold", "method=Otsu white");
> run("Invert");
> run("Analyze Particles...", "size=20-? circularity=0.00-1.00  
> show=Masks exclude");
> run("Skeletonize");
> run("Analyze Particles...", "size=0-? circularity=0.00-1.00  
> show=Nothing display");
> saveAs("tif", dir2+list[i]);
> close();
> close();
> }
> selectWindow("Results");
> saveAs("Measurements", dir2 + "Results.xls");
> run("Clear Results");
> run("Close");

[Schmidt, Dr. Harald]

Hi Michael,
thanks for your help!
its actually a problem of saving the result table. Reducing the analysis to

run("Analyze Particles...", "size=20-infinity circularity=0.00-1.00
show=Masks exclude");
run("Skeletonize");
run("Analyze Particles...", "size=0-infinity circularity=0.00-1.00
show=Nothing display");

only the results of the second analysis are visible in the window on the
screen,
but both analysis are visible after saving (1.43q, different from
Vers.1.42)
Is it possible to save only the results of the second analysis without
using the older Version?
Harald