IMAGE SUBSTRACTION WITH IMAGE J

[Juan Francisco-2]

Dear all:
  I need to substract the TIFF image  from another  TIFF image. So, I can go to Process---->Image calculator and I can see the operations: Difference and Substract. Pls, does anyone what is the  difference between Difference and Substarct operatation?.
  Thank you evry much!
  Juan Francisco

 
---------------------------------

LLama Gratis a cualquier PC del Mundo.
Llamadas a fijos y móviles desde 1 céntimo por minuto.
http://es.voice.yahoo.com

[lechristophe]

Please,

- Avoid using capitals in the subject line of your email (sorry if it's
a formating error that appeared randomly)

- When you have a question about ImageJ basics, always go first to the
ImageJ documentation online (http://rsb.info.nih.gov/ij/docs), then to
the ImageJ wiki (http://imagejdocu.tudor.lu/), then search the imagej
mailing list archives (https://list.nih.gov/cgi-bin/wa?S1=imagej).
Another good resource for various plugin use is the ImageJ MBF Manual
maintained by Tony Collins : http://www.macbiophotonics.ca/imagej/index.htm

- If you cannot find the answer to your question at these different
sites, then I think people on this list will be happy to answer your
question, if they have the answer. Please try to find out by yourself on
the above mentionned website ! By the way, what you're looking for is
right there in the ImageJ documentation :
http://rsb.info.nih.gov/ij/docs/menus/process.html#calculator

Cheers,

Christophe Leterrier

Juan Francisco a écrit :

> Dear all:
>   I need to substract the TIFF image  from another  TIFF image. So, I can go to Process---->Image calculator and I can see the operations: Difference and Substract. Pls, does anyone what is the  difference between Difference and Substarct operatation?.
>   Thank you evry much!
>   Juan Francisco
>
>  
> ---------------------------------
>
> LLama Gratis a cualquier PC del Mundo.
> Llamadas a fijos y móviles desde 1 céntimo por minuto.
> http://es.voice.yahoo.com
>
>  

[Aryeh Weiss]

I have some questions regarding stacks and macros.
I see from the examples how to pass arguments to ImageJ commands which are run
from within a macro (as in the ArgumentPassingDemo macro). However, I do not
know how to find the names of the arguments, when they are not recorded by the
macro recorder. Fro example, the macro recorder records:
run("Duplicate...", "title=[Substack (5,6)-1] duplicate");
when I duplicate a stack. However, this is the same regardless of whether I
select the "duplicate entire stack" checkbox, so I dont know how to tell it to
duplicate the entire stack in a macro, unless I run it interactively.
Is there a general way to know the argument names for a given command?

In a related question, I want to copy an entire stack and paste it somewhere.
However, the copy command (Run("Copy")) only copies a single slice, while I want
  the entire stack. Is there an an option to Copy which will do this?

Thank you for your attention to my questions.
--aryeh
--
Aryeh Weiss
School of Engineering
Bar Ilan University
Ramat Gan 52900 Israel

Ph:  972-3-5317638
FAX: [phone]

[Harry Parker]

Hello Juan,

The answer you seek is hidden in the Documentation page,

http://rsb.info.nih.gov/ij/docs/menus/process.html#calculator

('Difference' returns the absolute value of the difference between 2 images.)
 
--  
Harry Parker  
Senior Systems Engineer  
Digital Imaging Systems, Inc.

----- Original Message ----
From: Juan Francisco <[hidden email]>
To: [hidden email]
Sent: Monday, May 28, 2007 7:49:25 AM
Subject: IMAGE SUBSTRACTION WITH IMAGE J

Dear all:
  I need to substract the TIFF image  from another  TIFF image. So, I can go to Process---->Image calculator and I can see the operations: Difference and Substract. Pls, does anyone what is the  difference between Difference and Substarct operatation?.
  Thank you evry much!
  Juan Francisco

         
---------------------------------

LLama Gratis a cualquier PC del Mundo.
Llamadas a fijos y móviles desde 1 céntimo por minuto.
http://es.voice.yahoo.com





       
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[Michael Schmid]

Hi Aryeh,

to find the options for a 'run' command in a macro, the Macro
Recorder is clearly the best choice. You can easily change
the values after recording.

Numeric and string arguments of a dialog box are recorded as
"name=value", where 'name' usually is the first word of the
text left of an input field. For string values (=texts), square
brackets around the value should be used and are essential if
the string contains spaces.

For checkboxes, add their name (without any "=") to put them into
the on (checked) state, and simply don't mention them to put them
into the off (unchecked) state. Again, the name is usually the
first word left of the checkbox (the Macro Recorder will show
you the name).

In your example,
   run("Duplicate...", "title=[Substack (5,6)-1] duplicate");
the "Duplicate Entire Stack" checkbox is on, because you have
the word "duplicate" in the options string.
To duplicate only the current slice, use
   run("Duplicate...", "title=[Substack (5,6)-1]");

There is one exception: Many ImageJ commands show a dialog
  "Process all nnn slices? There is no undo when you select yes"
In these cases, as the Macro Recorder will easily show, add the
word "stack" to the options to run the command on a stack.

Names of input fields and checkboxes should be always converted
to lowercase.

---

Copy and Paste works on single images only, not on stacks.
Either use
   run("Duplicate...", "title=[newname] duplicate");
or write a short macro looping over the slices, e.g. to transfer
the contents of the selection from one stack to another stack.
See setSlice() and related methods:
   http://rsb.info.nih.gov/ij/developer/macro/functions.html#setSlice

Michael
________________________________________________________________

On 28 May 2007, at 21:25, Aryeh Weiss wrote:

> I see from the examples how to pass arguments to ImageJ commands  
> which are run from within a macro (as in the ArgumentPassingDemo  
> macro). However, I do not know how to find the names of the  
> arguments, when they are not recorded by the macro recorder. Fro  
> example, the macro recorder records:
> run("Duplicate...", "title=[Substack (5,6)-1] duplicate");
> when I duplicate a stack. However, this is the same regardless of  
> whether I select the "duplicate entire stack" checkbox, so I dont  
> know how to tell it to duplicate the entire stack in a macro,  
> unless I run it interactively.
> Is there a general way to know the argument names for a given command?
>
> In a related question, I want to copy an entire stack and paste it  
> somewhere. However, the copy command (Run("Copy")) only copies a  
> single slice, while I want  the entire stack. Is there an an option  
> to Copy which will do this?