histogram macro

[Oliver Bannach]

Hi all,

I included this command in a macro:

     run("Histogram", "bins=256 x_min=0 x_max=7500 y_max=Auto");

But it seems like that the macro ignores fixing the min and max values
for the X-Axis. Still, the min/max values are defined by the min/max
intensities. What's wrong?
Also I'd like to plot a "logged" histogram. What is the parameter that I
have to set?

Thanks in advance.

Cheers
Oliver

[Michael Schmid]

Hi Oliver,

using the newest version of ImageJ (1.40c), I have no problem
with x_min & x_max for 32-bit images.

For 16-bit images, the histogram includes all values (0-65535),
so it has all the information that you can have.
Unfortunately, the screen resolution does not show it, and
currently I see no easy way to show it from a macro (except
converting the image to 32 bit).

For the "Log" (logarithmic y axis) feature, use
   setKeyDown("shift");
before issuing the run("Histogram"...) command.

Michael
________________________________________________________________

On 3 Apr 2008, at 17:06, Oliver Bannach wrote:

> Hi all,
>
> I included this command in a macro:
>
>     run("Histogram", "bins=256 x_min=0 x_max=7500 y_max=Auto");
>
> But it seems like that the macro ignores fixing the min and max  
> values for the X-Axis. Still, the min/max values are defined by the  
> min/max intensities. What's wrong?
> Also I'd like to plot a "logged" histogram. What is the parameter  
> that I have to set?
>
> Thanks in advance.
>
> Cheers
> Oliver

[Michael Schmid]

Hi Oliver,

sorry, I should read the documentation first, you can have it:

   setKeyDown("shift+alt");
   run("Histogram", "bins=256 x_min=0 x_max=7500 y_max=Auto");

The "shift" key is for "Logarithmic", the "alt" key enables
the range.

Michael
________________________________________________________________

On 3 Apr 2008, at 17:27, Michael Schmid wrote:

> Hi Oliver,
>
> using the newest version of ImageJ (1.40c), I have no problem
> with x_min & x_max for 32-bit images.
>
> For 16-bit images, the histogram includes all values (0-65535),
> so it has all the information that you can have.
> Unfortunately, the screen resolution does not show it, and
> currently I see no easy way to show it from a macro (except
> converting the image to 32 bit).
>
> For the "Log" (logarithmic y axis) feature, use
>   setKeyDown("shift");
> before issuing the run("Histogram"...) command.
>
> Michael
> ________________________________________________________________
>
> On 3 Apr 2008, at 17:06, Oliver Bannach wrote:
>
>> Hi all,
>>
>> I included this command in a macro:
>>
>>     run("Histogram", "bins=256 x_min=0 x_max=7500 y_max=Auto");
>>
>> But it seems like that the macro ignores fixing the min and max  
>> values for the X-Axis. Still, the min/max values are defined by  
>> the min/max intensities. What's wrong?
>> Also I'd like to plot a "logged" histogram. What is the parameter  
>> that I have to set?
>>
>> Thanks in advance.
>>
>> Cheers
>> Oliver