[ome-users] Z-dimension bug with Andor TIFF

[David Gault (Staff)]

Hi James,

Thanks for reporting this and providing a dataset to test with.

I have opened a pull request to resolve this issue which can be tracked below:
https://github.com/openmicroscopy/bioformats/pull/1997

With Thanks,
David Gault


On 29 Sep 2015, at 14:58, James Wainwright <jimboesq at gmail.com<mailto:jimboesq at gmail.com>> wrote:

Hi again,

A user has pointed out, and I have confirmed, that the Z dimension is incorrectly sized when opening an Andor TIFF with Bioformats. I guess this is similar to Bug 12964, which I previously reported.

Basically, Bioformats seems to ignore the actual Z-step used and uses the frame number instead - i.e. 1um Z-step for everything.

I've uploaded a dataset created by the latest version of Andor iQ (3.3.2) here:

http://www.andor.com/ftp/8670/Protocol1.zip

The text file should show the correct metadata, namely:

XY (pixels) = 0.696
Z (Z-step) = 0.86

Let me know if it helps or if you need more!

Thanks a lot!

James
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