Display intensity bit depth (Options>Appearance)

[PEARSON Matthew]

Hi all,

There is a setting in imageJ whereby you can set the default display intensity bit depth, found in Edit>Options>Appearance

By default its set to Automatic.  I've noticed that when i open Micro-Manager ome tiffs in ImageJ/FIJI that the automatic option clips the intensities to the data.  i.e. if my image has a minimum of 120 and a max of 5000 the brightness contrast can only be adjusted within that range.  I assume this is the correct behaviour of the "Automatic" clip to data min/max?

If i always acquire images on a 14bit camera and i want to set the display intensity bit depth to 14bit by default, how can i make ImageJ/FIJI remember this even when i quit the application?

Thanks for the help,

Matt


--
Matt Pearson
Microscopy Facility
MRC Human Genetics Unit
IGMM
University of Edinburgh
Crewe Road
EH4 2XU




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[dparrell]

Hi Matt,

I use the "startup..." feature to run a macro that automatically opens some plugins I use frequently on start-up. If you could write or record a macro to set imageJ to 14-bit you could paste it into the start up window and I think that could do what you are looking for. It is under Edit->Options->start up in plain imageJ, not sure about fiji. Hope that idea helps.

Daniel

[PEARSON Matthew]

Hi Daniel,

Thanks for that, for some reason i thought i wouldn't be able to call this feature from a macro.  It was also mean that every users installation would require this addition to the startup macro but i can live with that.  I think it would be nice if it could just remember how it was set last and remain that when on application quit, but i can see that this could also cause issues for some people if they didn't know how to access the appearance settings.

Thanks,

Matt






On 18 Sep 2015, at 13:47, dparrell <[hidden email]>
 wrote:

> Hi Matt,
>
> I use the "startup..." feature to run a macro that automatically opens some
> plugins I use frequently on start-up. If you could write or record a macro
> to set imageJ to 14-bit you could paste it into the start up window and I
> think that could do what you are looking for. It is under
> Edit->Options->start up in plain imageJ, not sure about fiji. Hope that idea
> helps.
>
> Daniel
>
>
>
> --
> View this message in context: http://imagej.1557.x6.nabble.com/Display-intensity-bit-depth-Options-Appearance-tp5014360p5014361.html
> Sent from the ImageJ mailing list archive at Nabble.com.
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html