[query] Warn in export_vcf if info field names are invalid in VCF v4.3 #9766
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nawatts
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tpoterba
approved these changes
Dec 3, 2020
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gnomAD v3.1 VCFs have many fields containing "-" ("AC-non_neuro-nfe-XX", etc). Someone pointed out that those are invalid in VCF v4.3. Item 8 of section 1.6.1 of the specification says:
VCFs created by
hl.export_vcfare marked as v4.2. However, it may still be useful to warn about these fields as it seems some tools expect the v4.3 pattern (samtools/bcftools#1335).