549293b6f7
-- MLAC and MLAF in PoolCaller now use standard MLE_AC and MLE_AF -- VCFDiffableReader disables onTheFly fixing of VCF header fields so comparisons are easier when headers are changing -- Flag fields with FLAG_KEY=0 are parsed as though FLAG_KEY were entirely absent in AbstractVCFCodec to fix bug where FLAG_KEY=0 was being translated into FLAG_KEY in output VCF, making a false flag value a true one -- Fix the GT field value in VariantContextTestProviders so it isn't fixed 1000s of times during testing -- Keys whose value is null are put into the VariantContext info attributes now |
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