[ome-users] ndpi file pixels are not read correctly

[David Gault (Staff)]

Hi Felix,

Thank you for reporting the issue and submitting files to be used for testing.
We were able to reproduce the issue and I have submitted a fix for review.

You can view and track the changes at the Pull Request below:
https://github.com/openmicroscopy/bioformats/pull/2028

With Thanks,
David Gault

On 14 Oct 2015, at 16:39, MEYENHOFER Felix <felix.meyenhofer at unifr.ch<mailto:felix.meyenhofer at unifr.ch>> wrote:

Hi

this is to report that the bio-formats reader seems to mix up the pixels when reading certain series (magnifications) of the Hamamatsu NDPI files. A screen shot of the pixel pattern can be found here:
https://drive.switch.ch/public.php?service=files&t=f0bd77f7c4a96898c339b3cd5b408515

The file that lead to this can be found here
https://drive.switch.ch/public.php?service=files&t=f006627509d481a9af386e1b90efb1eb
To reproduce:
Plugins > Bio-Formats > Bio-Formats Importer
(Hyperstack, XYCZT, split channels)
select series 2 (the others are read correctly)

Best,

Felix
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