[ome-devel] CZI white balance / offset

[Manuel Stritt]

Hi Sebastien,

thanks a lot for the promt help!

Regards,
Manuel

Hi Manuel,
>
> On 17 Jul 2017, at 15:32, Manuel Stritt <manuel.stritt at idorsia.com> wrote:
>
> Dear all,
>
> I've been informed by the vendor that in BF images the white point (the
> gray values to be skipped for visualization) is stored by the machine and
> it should be possible to read it via the CZIReader.
> (Not sure if 'white balance' is the correct wording here.)
>
> So far I did not find a specific meta data for that. Do you know anything
> about this value and can tell me how to read it out?
>
>
> Looking at a couple of example CZI files, I would think the following
> key/value pairs in the original
> metadata table populate at the reader initialisation would contain the
> information you need:
>
> $ ~/bftools-5.5.3/showinf -nopix 2015_08_21__16_09__0954.czi  | grep
> WhiteBalance
> Experiment|AcquisitionBlock|AcquisitionModeSetup|Camera|WhiteBalance #1:
> 0.40944686621105,0.50887655000016,1
> Experiment|AcquisitionBlock|AcquisitionModeSetup|Camera|WhiteBalanceOffset
> #1: 0
> Experiment|AcquisitionBlock|AcquisitionModeSetup|Camera|WhiteBalanceOffset|Status
> #1: Valid
> Experiment|AcquisitionBlock|AcquisitionModeSetup|Camera|WhiteBalance|Status
> #1: Valid
> HardwareSetting|ParameterCollection|WhiteBalance #1: 0.55201666149549,1,0.
> 79661143765063
> HardwareSetting|ParameterCollection|WhiteBalance #2: 0.40944686621105,0.
> 50887655000016,1
> HardwareSetting|ParameterCollection|WhiteBalance.Default #1: 1.01,0.8,0.5
> HardwareSetting|ParameterCollection|WhiteBalance.Default #2: 1,1,1
> …
>
> Or maybe even more in general - is there a white balance meta data field
> even for other formats?
>
>
> It is certainly possible other formats store the same information. Note
> however that
> this information will be available via the Original Metadata and not the
> OME metadata.
> This means that both the existence and the nomenclature will be vendor
> specific with no
> cross-format naming consistency [1].
>
> Best,
> Sebastien
>
> [1] https://www.openmicroscopy.org/site/support/bio-formats5.5/about/
> index.html#bio-formats-metadata-processing
>
> Thanks for your help!
>
> Regards,
> Manuel
>
>
>
>
>
> The information of this email and in any file transmitted with it is
> strictly confidential and may be legally privileged.
> It is intended solely for the addressee. If you are not the intended
> recipient, any copying, distribution or any other use of this email is
> prohibited and may be unlawful. In such case, you should please notify the
> sender immediately and destroy this email.
> The content of this email is not legally binding unless confirmed by
> letter.
> Any views expressed in this message are those of the individual sender,
> except where the message states otherwise and the sender is authorized to
> state them to be the views of the sender's company.
> _______________________________________________
> ome-devel mailing list
> ome-devel at lists.openmicroscopy.org.uk
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel
>
>
>
> The University of Dundee is a registered Scottish Charity, No: SC015096
>
> _______________________________________________
> ome-devel mailing list
> ome-devel at lists.openmicroscopy.org.uk
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel
>
>

-- 

The information of this email and in any file transmitted with it is 
strictly confidential and may be legally privileged.
It is intended solely for the addressee. If you are not the intended 
recipient, any copying, distribution or any other use of this email is 
prohibited and may be unlawful. In such case, you should please notify the 
sender immediately and destroy this email.
The content of this email is not legally binding unless confirmed by letter.
Any views expressed in this message are those of the individual sender, 
except where the message states otherwise and the sender is authorized to 
state them to be the views of the sender's company.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.openmicroscopy.org.uk/pipermail/ome-devel/attachments/20170719/74cf7461/attachment.html>