fill-tags VAF and VAF1 not working for multi-allelic sites

[bartcharbon]

When using fill-tags VAF, multiallelic genotypes like 1/2 get skipped.
Could support for these kind of ALT1/ALT2 cases be added?

[pd3]

I don't think that's true. In fact, when filling VAF, the program does not look at genotypes (GT field) at all, it just converts FORMAT/AD into FORMAT/VAF. See the test in the bcftools test suite

$ bcftools +fill-tags test/fill-tags-VAF.vcf -- -t VAF,VAF1 | grep -v ^#
chr1	10153	.	AC	A,C,G	.	.	.	AD:VAF:VAF1	1,1,1,1:0.25,0.25,0.25:0.75
chr1	10153	.	AC	A,C,G	.	.	.	AD	.