Zarr3#30

Merged

pattonw merged 38 commits intomainfrom

Feb 13, 2026

Commits on Feb 11, 2026

Fix __roi_query: check roi.end instead of roi.begin for upper-bound-only case

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Fix __roi_query: use half-open interval [begin, end) instead of BETWEEN

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Fix read_nodes: remove duplicate attr_filter application

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Fix read_edges: remove duplicate attr_filter application

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Fix write_nodes to pass through caller's fail_if_exists value

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fix fail_if_exists flag on write_nodes
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remove duplicate file
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move code into a src directory to modernize this package
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update git ignore to ignore daisy logs
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ruff formatting and linting
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add flag and tests for symetric edge fetching
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add symetric edge fetching to SQLGraphProviders
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throw error when both roi and nodes passed to read edges.
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handle read edges cases better.
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add uv.lock to gitignore
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Connect to postgresql db with environment variables if available.
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Add bulk write api and tests
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Generalize the bulk write api to all graph providers
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make tests more reliable with a context manager to handle closing connections.
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add and use a `bulk_write_mode` context manager for bulk writes
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add test for node exclusion on upper bound of ROI
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ints should be stored as bigint. cost is small and makes dealing with large numbers like fragment ids much easier
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ruff formatting and linting
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fix mypy errors
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fix mypy workflow file
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Pass ty checks
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pass ty linting on arrays
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switch from mypy to ty
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pass tests on zarr v3

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use `tmp_path` fixture over legacy `tmpdir`

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get rid of zarr.attrs import
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Commits on Feb 12, 2026

remove num_codecs pin
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fix ty checks
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