Save omezarr collection - #9
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will-moore wants to merge 3 commits into
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will-moore wants to merge 3 commits into
will-moore wants to merge 3 commits into
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Just starting to experiment with exporting figures as RFC-8 collections, as defined at https://ngff.openmicroscopy.org/rfc/8/versions/v1-2026-08/index.html
We only support panels that are OME-Zarr v0.5 since these are Zarr v3.
For each multiscale image, we create a list of "singlescale" nodes, each with a "zarr" path being a full URL to the zarr array.
This allows us to include the zarr arrays from v0.5 data into RFC-8 collection without moving any data.
NB: currently a "scene" is not included. I'm not sure whether the top-level figure "coordinateSystem" that contains all the panels is 2D, 3D, 4D or 5D and how to create coordinateTransformations that transform each image into that space.
All the images within the figure can have different dimensions e.g. 2D up to 5D, and with a single Z and/or T index chosen for display (actually figure also supports Z-projections!). I don't want to "projectAxes" to e.g. collapse the Z/T index of each image, but I also don't think the figure itself has a Z or T dimension. We just want to slice a Z/T plane from each panel for display in the figure.