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CellSens format (.vsi) file and physical pixel size

Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats
Please note:
Historical discussions about the Bio-Formats library. Please look for and ask new questions at https://forum.image.sc/tags/bio-formats

If you are having trouble with image files, there is information about reporting bugs in the Bio-Formats documentation. Please send us the data and let us know what version of Bio-Formats you are using. For issues with your code, please provide a link to a public repository, ideally GitHub.
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CellSens format (.vsi) file and physical pixel size

Postby kazak » Thu Mar 19, 2015 5:33 pm

Hello everybody,

I use ome.​xml.​meta.​MetadataRetrieve getPixelsPhysicalSizeX() on a .vsi file and it returns null, whereas it works fine with a .svs file.

It looks like this feature is not available on this particular format.

Does someone knows if it is technically possible or planned in a future release?

Thank you

Gilles
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Re: CellSens format (.vsi) file and physical pixel size

Postby sbesson » Thu Mar 19, 2015 6:06 pm

Hi Gilles,

you are correct. Bio-Formats 5.0.x does note read the physical pixels size from the .vsi format as documented here.

However, the upcoming Bio-Formats 5.1.0 should add support for the physical pixel size as well as many many other metadata fields.

Best,
Sebastien
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Re: CellSens format (.vsi) file and physical pixel size

Postby kazak » Fri Mar 20, 2015 8:12 am

Ok very good news!

Thank you Sebastien
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