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partition_into_regions: tabix index returns illegal region with multiple contigs #1203

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jeromekelleher opened this issue Mar 3, 2024 · 0 comments

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jeromekelleher commented Mar 3, 2024

With multiple contigs, Tabix indexed VCFs sometimes return regions with an end coordinate of 0 (which is illegal). See here for a test case: https://github.com/jeromekelleher/bio2zarr/blob/880c3afee4465b4b94b921c815d436f3e4a78a46/tests/test_vcf_utils.py#L135

The fix is pretty easy (I think): https://github.com/jeromekelleher/bio2zarr/blob/880c3afee4465b4b94b921c815d436f3e4a78a46/bio2zarr/vcf_utils.py#L505

jeromekelleher added the bug label

jeromekelleher added this to the 0.8.0 release milestone

jeromekelleher modified the milestones: 0.8.0 release, 0.8.1

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