[ome-users] Crop on import with Nikon ND2 image files - Only works with x-origin=1

[Sebastien Besson]

Hi Enno,

which version of Bio-Formats are you using? The upcoming 5.0.3 release of Bio-Formats
will include a large set of bug fixes for the ND2 format.
Could you upload a sample file to http://qa.openmicroscopy.org.uk/qa/upload/ for us to check
this release also addresses your issues?

Best regards,
Sebastien

On 28 Jul 2014, at 12:19, Enno R. Oldewurtel <enno.oldewurtel at uni-koeln.de> wrote:

> Dear all,
> 
> I just tried to read in ND2 files via matlab (either using r.openBytes directly or bfopen.m). However, when specifying a sub-image with x-origin>=2, the resulting image is skewed along a diagonal with slope depending on the x-origin, i.e. slope=1 for x-origin=2. The y-origin works with all values.
> 
> This is the command I use:
> test=bfopen(f,2,1,400,300);
> 
> Using bfopen on a tif-file returns a correctly cropped image. Thus this might be a nd2 specific problem.
> 
> Has anyone experienced the same problem?
> 
> These are images obtained with x-origin=1 and x-origin=2:<x-originEquals1.png><x-originEquals2.png>
> 
> Thanks,
> Enno
> 
> 
> 
> -- 
> Enno R. Oldewurtel
> AG Prof. B. Maier / Biophysics Group
> Biozentrum
> Universitaet zu Koeln
> Zuelpicher Str. 47b
> 50674 Koeln
> 
> enno.oldewurtel at uni-koeln.de
> http://www.biophysics.uni-koeln.de/
> _______________________________________________
> ome-users mailing list
> ome-users at lists.openmicroscopy.org.uk
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.openmicroscopy.org.uk/pipermail/ome-users/attachments/20140728/4f1f034b/attachment.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: signature.asc
Type: application/pgp-signature
Size: 455 bytes
Desc: Message signed with OpenPGP using GPGMail
URL: <http://lists.openmicroscopy.org.uk/pipermail/ome-users/attachments/20140728/4f1f034b/attachment.asc>