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Ensure chunking is not excessive in samples dimension. #943

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Merged
merged 1 commit into from
Oct 25, 2022

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tomwhite
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From #941.

For VCFs with a small number of samples, a Zarr chunk size of 1000 was being used by default which was wasteful and slow. This change limits the chunk size to the number of samples.

For VCFs with a small number of samples, a Zarr chunk size of 1000
was being used by default which was wasteful and slow. This change
limits the chunk size to the number of samples.
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@jeromekelleher jeromekelleher left a comment

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LGTM

@tomwhite tomwhite merged commit 82aa817 into sgkit-dev:main Oct 25, 2022
@tomwhite tomwhite deleted the vcf-samples-chunking branch October 25, 2022 14:48
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2 participants