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

[Enno R. Oldewurtel]

Hey Sebastien,

I used the 5.0.2 release. I uploaded a nd2 file as requested
http://qa.openmicroscopy.org.uk/qa/feedback/9422/?token=f74e8565db4a90d1b876660e6b2e3e21

Thanks for the quick reply,
Enno


On Mon, Jul 28, 2014 at 1:44 PM, Sebastien Besson <seb.besson at gmail.com>
wrote:

> 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/
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>
>
>


-- 
Enno R. Oldewurtel
AG Prof. B. Maier / Biophysics Group
Biozentrum
Universitaet zu Koeln
Zuelpicher Str. 47b
50674 Koeln

enno.oldewurtel at uni-koeln.de
Tel: +49-221-470-8048
Fax: +49-221-470-6230
http://www.biophysics.uni-koeln.de/
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