[ome-users] Lif file - pre-set colours issue

[Kim Linton]

Hi Will,

I had a look at the Trac issue - it shows that it is going to be worked on
in the 13/12/2011 sprint. Does this mean it will be fixed early next year?

Cheers,

Kim


On 25 November 2011 20:47, Will Moore <will at lifesci.dundee.ac.uk> wrote:

> Hi Kim,
>
>  Currently, our strategy for setting colours is based on wavelength
> metadata for each channel.
> This kinda works in many cases, but there are always edge cases where it
> fails.
> I forget the cut-offs at the moment, but it's possible that any excitation
> wavelength of 500 or below is blue.
> We have attempted to update the cut-offs etc several times, and always
> find that some file renders incorrectly.
> Yours are 484 and 500nm.
>
> We are attempting to address this problem for file formats that explicitly
> specify colours in their metadata:
> http://trac.openmicroscopy.org.uk/ome/ticket/3651
> This includes LIF, LEI & LSM files.
>
> You might be interested in a script, submitted to us by Pierre Pouchin,
> that does this same job after import, based on the Original Metadata:
> http://www.openmicroscopy.org/community/viewtopic.php?f=16&t=920
>
>  Cheers,
>
>    Will.
>
>
> On 25 Nov 2011, at 00:46, Kim Linton wrote:
>
> Hi There,
>
> I've provided a link to a lif file that has the 2 channels. One should be
> a grey and the other should be green. When I loaded it into OMERO it is not
> bringing the pre-set colours across - it defaults to blue. Is this normal
> functionality or an issue?
>
> The file can be located on Cloudstor -
> https://cloudstor.aarnet.edu.au/filesender/?vid=9B547F3D-666B-0B81-1B09-D82F8FF24253
> .
>
> Cheers,
>
> Kim
>
> --
>   Kim Linton
> Senior Research Systems Facilitator
> Monash e-Research Centre
> Building 75
> Monash University
> Clayton Victoria 3800, Australia
> Ph:      +61 3 99020712
> Fax:    +61 3 9902-0193
> Email:  kim.linton at monash.edu
> Web:    http://www.monash.edu.au/eresearch
> Part time: Mon, Tues, Thurs & Fri
>
>
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>
>


-- 
Kim Linton
Senior Research Systems Facilitator
Monash e-Research Centre
Building 75
Monash University
Clayton Victoria 3800, Australia
Ph:      +61 3 99020712
Fax:    +61 3 9902-0193
Email:  kim.linton at monash.edu
Web:    http://www.monash.edu.au/eresearch
Part time: Mon, Tues, Thurs & Fri
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