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I wonder if it's possible to support sparse array to some degree in Labels. If it's a mask then the sparse format could save quite a lot of disk space.
Sparse array status in xarray: pydata/xarray#…
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A part inspired from
- #1281
and current problem of presumably having LOTS of non-compliant zarrs in the archive:
- https://github.com/dandisets/000108/issues/14
For any .zarr we encounter we s…
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# Compare formats (on disk)
To compare the performance of NGFF data (ZarrReader) with other formats (both on disk), we want to compare NGFF version of the data alongside the same data in it's origi…
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Is there a way to validate a ome.zarr file with the python library to check if it follows the spec?
I checked the documentation, but could not find a dedicated function for it.
The closest I fou…
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When you use bioformats2raw it produces one or more images at the root:
https://ngff.openmicroscopy.org/0.4/#bf2raw
When I try to open one of these zarrs:
```
from pydantic_ome_ngff.v04.multisca…
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Within #671, it appears that the MIP-images zattrs do not include `wavelength_id` in the `omero` metadata.
Here is how this leads to a cellpose-task error:
```python traceback
TASK ERROR: Task na…
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When I export an image using a specific id for the first time, it works fine:
omero zarr export Image:xx
But if I try to export it again using the same id, I get the error message at the end of t…
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I don't know if this is a well-defined "biological image analysis code" task, but ensuring that images produced by LLM are saved in ome/ome-ngff format to be compatible with other scripts may be somet…
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`omero zarr export` can write OME-NGFF from OMERO images using either `bioformats2raw` or `ome-zarr-py` depending on whether the `--bf` flag is passed.
As of the 0.3.0 release, `omero-cli-zarr` wil…
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A tool to validate whether a dataset follows the NGFF spec. Per-version validation. Generate a visual and programmatic summary required and optional features and any errors related to types, etc.