Re: Colocalization test and Macro

Posted by Jan Eglinger on Jun 16, 2016; 3:26pm
URL: http://imagej.273.s1.nabble.com/Colocalization-test-and-Macro-tp5016660p5016667.html

Hi all,

On 16.06.2016 17:04, Jan Eglinger wrote:
> This needs to be fixed by the maintainers of the Colocalization Test
> plugin [1]. I submitted a pull request:
> https://github.com/fiji/Colocalisation_Analysis/pull/47/files

Thanks to Curtis Rueden, the fix is now merged and available by running
'Help > Update...' in Fiji.

When you now run Colocalization Test, the recorder records:

*****
     run("Colocalization Test", "channel_1=green.tif channel_2=red.tif
roi=None randomization=[Costes approximation (smoothed noise)]
pixel=0.04 channel_2_wavelength=520 na=1.40 iterations=25 psf_radius=10");
*****

Cheers
Jan

>
>
> On 16.06.2016 16:44, Gabriel Landini wrote:
>> On Thursday 16 Jun 2016 14:33:13 you wrote:
>>> Dear ImageJ list,
>>>
>>> I am trying to call "Colocalization test" function from a Macro but I
>>> am not
>>> able to.
>>>
>>> "Colocalization test" function is working fine, I get expected
>>> results when
>>> I use it manually (Analyze > Colocalization > Colocalization test).
>>> But if
>>> the Macro recorder is open, in order to get the macro command line,
>>> when I
>>> run "colocalization test" function, I get an error message from the
>>> recorder :
>>>
>>> Duplicate keyword :
>>> Command "Colocalization Test"
>>> Keyword "Channel"
>>
>> I think that this is because there are several "Channel" parameters in
>> the
>> dialog, so it becomes ambiguous. Change the names of the parameters so
>> there
>> are no clashes.
>>
>> Cheers
>>
>> Gabriel
>>

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