[ome-users] Python support for OME Tiff files

[Curtis Rueden]

Hi Tjelvar,

> Does anyone know if there is a "Java free" Python library for working
> with OME Tiff files?

OME-TIFF is just XML inside a TIFF file [1]. So you could use Pillow [2]
and ElementTree [3].

Longer term, an OME-XML library for Python would probably be handy.
Fortunately, the current approach is to autogenerate the OME-XML library
classes from the XML schema via a Python script [4]. The autogenerator
currently supports Java and C++; I'm guessing that adding Python too would
be feasible.

Regards,
Curtis

[1]
https://www.openmicroscopy.org/site/support/ome-model/ome-tiff/specification.html
[2] https://github.com/python-pillow/Pillow
[3] https://docs.python.org/2/library/xml.etree.elementtree.html
[4]
https://github.com/openmicroscopy/bioformats/tree/v5.0.5/components/xsd-fu

On Mon, Oct 27, 2014 at 4:13 AM, Tjelvar Olsson (JIC) <
Tjelvar.Olsson at jic.ac.uk> wrote:

> Dear all,
>
> Is anyone aware of a Python library for working with OME Tiff files?
>
> I noticed that there is a Python BioFormats project, which provides a
> wrapper around the BioFormats Java libraries.
> https://github.com/CellProfiler/python-bioformats
>
> However, I have not managed to find a Python library that can read and
> manipulate OME Tiff files without the need for Java.
>
> Does anyone know if there is a "Java free" Python library for working
> with OME Tiff files?
>
> Thanks,
>
> Tjelvar
> _______________________________________________
> ome-users mailing list
> ome-users at lists.openmicroscopy.org.uk
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>
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