I am now trying to generate
.map files from a .dose.vcf.gz file that I have gotten from Michigan's Imputation Server. I've tried the following command:
vcftools --gzvcf chr21.dose.vcf.gz --plink --out chr21.dose
but all I get is the following:
VCFtools - v0.1.13 (C) Adam Auton and Anthony Marcketta 2009 Parameters as interpreted: --gzvcf chr21.dose.vcf.gz --out chr21.dose --plink Using zlib version: 1.2.3 Versions of zlib >= 1.2.4 will be *much* faster when reading zipped VCF files. After filtering, kept 2441 out of 2441 Individuals Writing PLINK PED and MAP files ... **Error: Could not open temporary file.**
Can anyone please help me figure out how to generate these files?
chr21.dose.vcf.gz file also comes with the following files: