Error in snpgdsVCF2GDS......Genotype code is out of range

[gaochengPRC]

Hi,

When I run the code below,

library("SNPRelate")
snpgdsVCF2GDS("xxxx.vcf", "ccm.gds", method="biallelic.only")
genofile <- openfn.gds("ccm.gds")
ccm_pca<-snpgdsPCA(genofile)

I get the following error.

---

Loading required package: gdsfmt
SNPRelate -- supported by Streaming SIMD Extensions 2 (SSE2)
Start file conversion from VCF to SNP GDS ...
Method: extracting biallelic SNPs
Number of samples: xxx
Parsing "xxxx.vcf" ...
Error in snpgdsVCF2GDS("xxxx.vcf", :
Genotype code is out of range "2".
FILE: xxxx.vcf
LINE: 46, COLUMN: 20, 2
Execution halted

---

I feel very confused. The (imputed) genotypes are all in the range [0, 2], why does it say that genotype code is out of range?

Thank you in advance!