[ome-devel] Storage format for 'fitted' parameter (FLIM) images?

[Melissa Linkert]

Hi Ian,

> I've finally managed to get back to looking at this  problem & in the absence of any feedback on here,
> I've started looking at openEXR as an open floating-point  image format for holding processed parameter images.
>
> As far as I can tell this is already compatible with bio-formats.

I can't speak to the suitability of OpenEXR for storing FLIM data, but
do note that OpenEXR files are not currently supported in
OMERO/Bio-Formats.  There are plans to support these files, as noted here:

http://trac.openmicroscopy.org.uk/ome/ticket/4125

...but the work has not been done yet, and realistically will not be
done until after the 4.4 release of OMERO/Bio-Formats.

Regards,
-Melissa

On Tue, Mar 13, 2012 at 02:20:18PM +0000, Munro, Ian wrote:
> Hi Again.
> 
> I've finally managed to get back to looking at this  problem & in the absence of any feedback on here,
> I've started looking at openEXR as an open floating-point  image format for holding processed parameter images.
> 
> As far as I can tell this is already compatible with bio-formats.
> 
> Does anyone have any thoughts or objections?
> 
> Regards
> 
> 
> Ian
> 
> 
> On 22 Feb 2012, at 12:16,  wrote:
> 
> > HI all
> > 
> > At the recent Dundee meeting I described 3 categories of data required to make OMERO compatible with 
> > fluorescence lifetime imaging  (FLIM).
> > 
> > 1) 'raw'  time-resolved intensity data		 (as acquired by the microscope)
> > 2) fitted (floating point) parameter 'images'	(generated by fitting software)
> > 3) merged RGB maps.					(for inclusion in papers etc)
> > 
> > Currently the 2nd type is stored as a .csv image by the fitting code that Donald has already included in OMERO.
> > There is concern here over this for two reasons:
> > 
> > 1) iIt is inefficient  in terms of storage.
> > 2) There will inevitably be a loss of precision.
> > 
> > Could we change to another format for this (assuming it isn't too late) ?
> > If so what format?
> > 
> > Any thoughts welcome.
> > 
> > Regards
> > 
> > Ian
> 
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