[ome-users] Bio-Formats, Metamorph TIFF z-stack

[Melissa Linkert]

Hi Pang,

> The slice thickness or z spatial calibration is missing when a Metamorph
> TIFF is loaded with the LOCI plugins for ImageJ.  Looks like it can be
> derived from <prop id="z-position" type="float" value="nnnn.nn"></prop> for
> each slice.
> 
> I am using Fiji with the 7 May 2013 version of LOCI plugins
> (loci_plugins-4.4.9-SNAPSHOT.jar).  There is a small sample file and a pdf
> of the metadata as reported by Metamorph on our website.
> 
> http://depts.washington.edu/if/files/z-stack.zip

Thank you for the bug report.  There is now a ticket for this on our
issue tracking system:

https://trac.openmicroscopy.org.uk/ome/ticket/10884

If you wish to be automatically notified of updates to that ticket,
please let me know and I will CC you.

Regards,
-Melissa

On Fri, May 10, 2013 at 12:21:13PM -0700, Wai Pang Chan wrote:
> Hi
> 
> The slice thickness or z spatial calibration is missing when a Metamorph
> TIFF is loaded with the LOCI plugins for ImageJ.  Looks like it can be
> derived from <prop id="z-position" type="float" value="nnnn.nn"></prop> for
> each slice.
> 
> I am using Fiji with the 7 May 2013 version of LOCI plugins
> (loci_plugins-4.4.9-SNAPSHOT.jar).  There is a small sample file and a pdf
> of the metadata as reported by Metamorph on our website.
> 
> http://depts.washington.edu/if/files/z-stack.zip
> 
> Thanks.
> 
> --
> Pang (Wai Pang Chan, wpchan at uw.edu, PAA A087, 206-685-1519)
> The Biology Imaging Facility (http://depts.washington.edu/if/)

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