Reading OME-NGFF (Zarr) datasets from local filesystem

[mmiranda-Riken]

I have read OME-TIFF files from my local filesystem with Avivator and viv library. However I want to know if is it possible to read a OME NGFF (Zarr) dataset in the same way. My OME-NGFF Zarr dataset was written with the OME-NGFF version 2 of the Zarr specification in a directory with name 088044_L1.zarr as follow:
088044_L1.zarr
├── 0
├── 1
├── 2
├── .zattrs
├── .zgroup
└── .zmetadata

I tried the Avivator app button "Choose a file" but I couldn't select my directory 088044_L1.zarr. With the viv library I read the manual at the loadBioformatsZarr component "Opens root directory generated via bioformats2raw --file_type=zarr. Uses OME-XML metadata, and assumes first image. This function is the zarr-equivalent to using loadOmeTiff."
How to read a OME-NGFF Zarr dataset from the local filesystem?

[ilan-gold]

Hmm @manzt do you know the status of OMENGFF directories?

[mmiranda-Riken]

Yes, I loaded and visualized correctly with Napari.

[manzt]

I think we need to just wire this up... OME-NGFF is supported via HTTP stores, but I think the feature detection for local file system isn't currently supported in Avivator.

[mmiranda-Riken]

Thank you!!