Re: Weird macro behaviour

Posted by Krs5 on
URL: http://imagej.273.s1.nabble.com/Weird-macro-behaviour-tp5011475p5011519.html

Dear Anália,

That is correct. I get in all cases the merged image, both using ImageJ (ImageJ 1.49o, Java 1.7.0_71 (32-bit), Windows 7) or Fiji (ImageJ 1.49m, Java 1.6.0_24 (64-bit), Windows 7) running the code:

macro test{
                //open("51_FA_65_5.tif (green)-1.tif");
               
                open("Z:\\tmp\\smalltest\\51_FA_65_5.tif (green)-1.tif");
                title=getTitle();
               
                run("Analyze Particles...", "size=0-500 circularity=0-1 show=Nothing add"); // size and circularity parameters
                       
                roiManager("Show all without labels");
                run("Colors...","selection=magenta");
                               
                //open("51_FA_65_5.tif");
                open("Z:\\tmp\\smalltest\\51_FA_65_5.tif");
                original=getTitle();
                print(">>>>O: "+original);
               
                //saveAs("Tiff",out+"/"+original);
               
                selectImage(1);
                roi=getTitle();
                print(">>>>R: "+roi);
                                       
                run("Add Image...","image="+original);
                run("Flatten");
               
                saveAs("Tiff","Z:\\tmp\\smalltest\\roi_Run.tif");
                                               
                run("Close");
                run("Clear Results");
               
                close();
       
       
}

As far as I can see that is your original code.

Can you try a different computer and see if it solves the problem? I would not expect a change to Windows 8 causing this..

Kees

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of analia
Sent: 06 February 2015 19:38
To: [hidden email]
Subject: Re: Weird macro behaviour

Dear Kees,

so that we are clear: you get the  roi.tif <https://drive.google.com/file/d/0B3yFlb9_8aVZcWlMMU9YMU1CRHM/view?usp=sharing>
image (as shown in the sample data) in both execution approaches. Is this correct?

Because what I get if I do Macros > Install or Macro > Run is the  original image <https://drive.google.com/file/d/0B3yFlb9_8aVZMGJKTnpmMlN3aTA/view?usp=sharing>
as result of the overlay, it is like the roi image gets replaced rather than overlayed.

I have tried countless variations of the procedure, changed directories (to prevent any issues with spaces and encoding characters)... and, as I told you before, when I comment the Add Image... command, I do get the "simple"
<a href=&quot;http://&lt;a
href=&quot;https://drive.google.com/file/d/0B3yFlb9_8aVZamEzQ0NBR2RNWVE/view?usp=sharing&quot;>">roi
image  saved correctly.
It seems like there is some sort of bug/issue with this command. I really don't know what else to do :-(

Could it be an issue with my OS (Windows 8.1 64 bits), ImageJ version
(1.49n) or Java version (1.8.0_25)?
If you which I can prepare a step by step documentation (snapshots) of me running the macro...

Many thanks,
Anália



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