[ome-users] PNG images being auto-scaled upon BioFormats import

[Balaji Ramalingam]

Dear Paul,

Please follow the following Trac ticket,
https://trac.openmicroscopy.org.uk/ome/ticket/3187

This covers the whole scope of work, planned for the rendering engine (it also covers the issue that we are discussing).

The only work around I can think of, is via the client,
Import all the images into a dataset, then edit the rendering settings manually for one of the images (For R,G,B separately) and 'apply to all' the images within the dataset.
This can be used as a short-term work around.

Hope that helps.

Best,
Balaji

__________________

Mr Balaji Ramalingam

Software Developer

OME Team

College of Life Sciences

University of Dundee

From: Paul van Schayck <paul at vanschayck.nl<mailto:paul at vanschayck.nl>>
Date: Wednesday, 13 August 2014 08:38
To: Balaji Ramalingam <b.ramalingam at dundee.ac.uk<mailto:b.ramalingam at dundee.ac.uk>>, "ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>" <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Subject: Re: [ome-users] PNG images being auto-scaled upon BioFormats import

Dear Balaji,

Thank you for your response. I noticed the problem is not limited to PNG images, but also present in JPEG or other RGB images. Am I correct in assuming this is a general problem with RGB images?

Is a trac issue that I can keep an eye on? Is there a work around possible?

Thanks,

Paul




On Tue, Aug 12, 2014 at 4:17 PM, Balaji Ramalingam <b.ramalingam at dundee.ac.uk<mailto:b.ramalingam at dundee.ac.uk>> wrote:
Dear Paul,

Thank you for reporting your issue.
We have already noticed this issue with our rendering engine , which definitely does affect the display of images.
We are working on ways to improve the algorithm and will keep you posted once there is an update on this regard.

Best,
Balaji

__________________

Mr Balaji Ramalingam

Software Developer

OME Team

College of Life Sciences

University of Dundee

From: Paul van Schayck <paul at vanschayck.nl<mailto:paul at vanschayck.nl>>
Date: Monday, 11 August 2014 07:28
To: "ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>" <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Subject: [ome-users] PNG images being auto-scaled upon BioFormats import

Dear all,

I'm having trouble with the import of PNG images into OMERO. It seems like they are being autoscaled, causing the colors to look quite different then when viewed in the Windows image viewer. I've uploaded a sample image to:

http://qa.openmicroscopy.org.uk/qa/feedback/9442/?token=2168adf9151f1ca565a5bb3eeb36c635

The orange in the image will nearly turn pink upon import. I can replicate this problem when using the BioFormats importer in ImageJ and selecting the Autoscale option. When not selecting the autoscale option the colors remain as in the Windows image viewer.

Where is this problem coming from? Is this a problem with autoscaling, is this a problem with the image? Can the autoscaling in the OMERO importer be turned off somehow?

Thank you,

Paul



The University of Dundee is a registered Scottish Charity, No: SC015096


The University of Dundee is a registered Scottish Charity, No: SC015096
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