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On idr0125-pilot, going to test import of METADATA.ome.xml and then use mkngff to replace the fileset with full NGFF plate mounted on s3.
```
sudo cp idr0125/SQ00015207__2016-04-24T05_39_26-Meas…
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idr0001 has 192 x 96-Well Plates, 6 acquisitions each.
1 Plate converted [below](https://github.com/IDR/idr-metadata/issues/683#issuecomment-1886903270) is 47 GB.
Approx 4.5 TB in total.
bioformats…
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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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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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https://www.glencoesoftware.com/products/ngff-converter/
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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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# 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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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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This is a placeholder issue for reports on testing of NGFF IDR datasets
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Steps needed on idr-next for NGFF upgrade.
NB: current checklist is for actions on idr-testing (newly redeployed on 10th Oct)
Detailed workflow is at https://github.com/IDR/omero-mkngff/issues/2 but …