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Ome zarr v0.5 writing#413

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will-moore wants to merge 36 commits intoome:masterome/ome-zarr-py:masterfrom will-moore:ome-zarr-v0.5_writingwill-moore/ome-zarr-py:ome-zarr-v0.5_writingCopy head branch name to clipboard

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Commits on Oct 26, 2024

• Basic read example working (no labels)

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Commits on Oct 30, 2024

• cli_tests passing

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Commits on Oct 31, 2024

• Passing all 6 test_io.py

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Commits on Nov 4, 2024

• Passing tests/test_io.py and test_node.py

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• Include dtype in group.create_array()

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• Uncomment labels spec. Fixes test_ome_zarr.py download

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• Fix test_scaler

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• Add dimension_separator to existing v2 data .zarray to fix test_upgrade.py v2

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• Fixed test_write_image_dask

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Commits on Nov 7, 2024

• Pin zarr==v3.0.0-beta.1

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• [pre-commit.ci] auto fixes from pre-commit.com hooks

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• Remove python 3.9 and 3.10 from build.yml

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• Remove unused imports

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• remove fsspec from .isort.cfg

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• mypy fix

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Commits on Nov 11, 2024

• Use Blosc compression by default

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• Black formatting fixes

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• Use group.array_values() for iterating arrays

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• Use zarr_format=2 for zarr.open() in test_writer.py

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Commits on Nov 12, 2024

• Fix return type RemoteStore | LocalStore

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• Support reading of Zarr v3 data

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• Hard-code zarr_version=2 in parse_url()

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Commits on Nov 13, 2024

• Use read_only instead of mode when creating Stores

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• Pin zarr-python to specific commit on main branch

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• Fix test_write_image_compressed

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Commits on Dec 9, 2024

• Support READING of zarr v3 data

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• Merge remote-tracking branch 'origin/master' into zarr_v3. Use zarr v3.0.0-beta.3

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• Check that PR is green IF we skip test_writer with 3D-scale-True-from_array

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• Bump dependencies including zarr==v3.0.0-beta.3 in docs/requirements.txt

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• Specify python 3.12 in .readthedocs.yml

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Commits on Dec 17, 2024

• Merge remote-tracking branch 'origin/master' into zarr_v3

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• Add CurrentFormat = FormatV05 and tweak writing to give valid v0.5 image

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• Fix test_cli.py test_io.py and test_node.py

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• Fix test_ome_zarr.py using FormatV04

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• Fix test_reader.py

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• Fix test_write_image_current()

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