[Vcftools-help] error with VCF version VCFv4.2(angsd version)

[Ellie A. <ell...@gm...>]

Hi all,

I am trying to analyze snp density of a vcfoutput from angsd, but have run
into some issues.

Here is my code:

vcftools --gzvcf VCF_subset.vcf.gz --SNPdensity 50000 --out SNP_density_test

It throws the error:

Using zlib version: 1.2.8

Error: VCF version must be v4.0, v4.1 or v4.2:

You are using version VCFv4.2(angsd version)

Has anyone encountered this? I tried updating pretty much everything I
could, but to no avail. It also seems like it is recognizing it as v4.2,
but then still rejecting it. Any help is appreciated...

Thanks very much and sorry for the potentially juvenile question!



-- 
Ellie Armstrong
Petrov & Hadly Labs | Biology Department
Stanford University
Herrin T260
el...@st...