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fix: handle zero-length dimensions in HDFParser for zarr-python 3.2.0 #977

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Merged
TomNicholas merged 1 commit into from
Apr 22, 2026
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fix: handle zero-length dimensions in HDFParser for zarr-python 3.2.0 #977

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3 changes: 3 additions & 0 deletions docs/releases.md
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Expand Up @@ -8,6 +8,9 @@

### Bug fixes

- Fix `HDFParser` failing on HDF5 datasets with a zero-length dimension under `zarr-python >= 3.2.0`, which forbids zero-length chunk dimensions. Chunk dimensions are now clamped to a minimum of 1 when falling back from dataset shape.
By [Tom Nicholas](https://github.com/TomNicholas).

### Documentation

### Internal changes
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5 changes: 4 additions & 1 deletion virtualizarr/parsers/hdf/hdf.py
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Expand Up @@ -56,7 +56,10 @@ def _construct_manifest_array(
-------
ManifestArray
"""
chunks = dataset.chunks or dataset.shape
# Clamp each dim to >= 1: zarr v3 allows shape=(0,) but forbids zero-length
# chunk dimensions (enforced by zarr-python >= 3.2.0). See
# https://github.com/zarr-developers/zarr-python/issues/3711.
chunks = dataset.chunks or tuple(max(s, 1) for s in dataset.shape)
codecs = codecs_from_dataset(dataset)
attrs = _extract_attrs(dataset)
dtype = dataset.dtype
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