feat: Add zarr v3 format support with zarr-python v3 library #125
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Migrate from zarr-python v2 to v3 library (zarr>=3) and add support for reading/writing both zarr v2 and v3 on-disk formats. Adds backend="zarr3" option with Zarr3Reader/Zarr3Writer classes, detect_zarr_format() utility for auto-detection, and filesystem-based _list_zarr_children() fallback for v2 store enumeration under the new library. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
zarr-python v3's Group.__getitem__ requires string keys, not integers. This fixes TypeError when using level parameter with BioReader. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Migrate from zarr-python v2 to v3 library (zarr>=3) and add support for reading/writing both zarr v2 and v3 on-disk formats. Adds backend="zarr3" option with Zarr3Reader/Zarr3Writer classes, detect_zarr_format() utility for auto-detection, and filesystem-based _list_zarr_children() fallback for v2 store enumeration under the new library.