c8ed0bfc4c
--handle entirely missing GT in a sample in decodeGenotypeAlleles --Create MAX_ALLELES_IN_GENOTYPES constant in BCF2Utils, and extracted its use inline from the code -- Generalized genotype writing code to handle ploidy != 2 and variable ploidy among samples -- Remove special case inline treatment of case where all samples have no GT field values, and moved this into calcVCFGenotypeKeys -- Removed restriction on getPloidy requiring ploidy > 1. It's logically find to return 0 for a no called sample -- getMaxPloidy() in VC that does what it says -- Support for padding / depadding of generic genotype fields |
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