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thewtex / ngff-zarr

A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.
https://ngff-zarr.readthedocs.io
MIT License
21 stars 4 forks source link

Enable kvikio GDSStore in cli #70

Open thewtex opened 7 months ago

thewtex commented 7 months ago

Provide as a option to enable in the cli.

See test/test_to_ngff_zarr_kvikio.py.

More interesting once the serialized result is compatible with other zarr implementations.

In the kvikio zarr notebook, it mentions:

Some algorithms, such as LZ4, can be used interchangeably on CPU and GPU but Zarr will always use the compressor used to write the Zarr file. We are working with the Zarr team to fix this shortcoming but for now, we will use a workaround where we patch the metadata manually.

xref:

CC @madsbk @ivirshup @jakirkham @joshmoore

thewtex commented 7 months ago

We can also write to kvikio GDSStore, when the input is a numpy array.