We're Hiring!

iScan Coreo BIF support

Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats
Please note:
Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats

If you are having trouble with image files, there is information about reporting bugs in the Bio-Formats documentation. Please send us the data and let us know what version of Bio-Formats you are using. For issues with your code, please provide a link to a public repository, ideally GitHub.

iScan Coreo BIF support

Postby lucalianas » Tue May 19, 2015 3:35 pm

Hi everyone,
we are trying to use our OMERO.server installation (version 5.1.1) to handle images produced using an iScan Coreo Slide Scanner http://www.ventana.com/product/page?view=iscan but it seems that BioFormat is not supporting this file format.
Files are stored as *.bif files and OMERO is only able to properly display the full preview of the slide but zoom is not working (it handles the zoom levels as T-axis elements).
Are you going to introduce support for this images format soon?
If you need some sample images to reproduce the problem we are facing, let me know, I'll send something ASAP.
Cheers,

Luca
lucalianas
 
Posts: 7
Joined: Wed Feb 19, 2014 1:40 pm

Re: iScan Coreo BIF support

Postby mlinkert » Wed May 20, 2015 12:14 am

Hi Luca,

We can certainly look into adding support for Ventana .bif files. If you could upload at least one example, that would be much appreciated - we don't have any files of this type yet.

If the file(s) are smaller than 2GB when compressed in a Zip file, then they can be uploaded here:

http://qa.openmicroscopy.org.uk/qa/upload/

For anything larger than 2GB, let us know and we'll send alternate upload instructions privately.

-Melissa
User avatar
mlinkert
Team Member
 
Posts: 353
Joined: Fri May 29, 2009 2:12 pm
Location: Southwest Wisconsin

Re: iScan Coreo BIF support

Postby lucalianas » Wed May 20, 2015 1:13 pm

Hi Melissa,
I sent a ZIP archive with 3 BIF images using the upload module (you'll find the archive as COREO_BIF_imgs.zip), let me know it the upload was OK and if you need more images.
Thanks!

Luca
lucalianas
 
Posts: 7
Joined: Wed Feb 19, 2014 1:40 pm

Re: iScan Coreo BIF support

Postby mlinkert » Mon May 25, 2015 4:29 pm

Hi Luca,

Thank you for uploading the files. There is now a ticket on our issue tracking system:

https://trac.openmicroscopy.org/ome/ticket/12899

You have been CC'd, so you should receive an automatic email each time the ticket is updated (if you prefer not to be notified, just let us know).

-Melissa
User avatar
mlinkert
Team Member
 
Posts: 353
Joined: Fri May 29, 2009 2:12 pm
Location: Southwest Wisconsin


Return to User Discussion [Legacy]

Who is online

Users browsing this forum: Google [Bot] and 1 guest