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As @mabruce noticed, after import to OMERO the PhysicalSizeZ is rounded to 0.0dm for display. That's not fully representative of the true value, and incorrectly suggests that the physical Z size is missing.
The Z positions being used to calculate PhysicalSizeZ are:
With https://downloads.openmicroscopy.org/images/PerkinElmer-Operetta/omer/:
As @mabruce noticed, after import to OMERO the
PhysicalSizeZ
is rounded to 0.0dm for display. That's not fully representative of the true value, and incorrectly suggests that the physical Z size is missing.The Z positions being used to calculate
PhysicalSizeZ
are:and the relevant logic is:
https://github.com/ome/bioformats/blob/develop/components/formats-gpl/src/loci/formats/in/OperettaReader.java#L726
https://github.com/ome/bioformats/blob/develop/components/formats-gpl/src/loci/formats/in/OperettaReader.java#L1043
I suspect that simply performing the calculations in micrometers instead of meters will give a more useful result.
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