Issue with bcftools annotate

[HVHunt]

I am trying to use bcftools annotate to rename all positions in a vcf (basically, they all need to be smaller numbers to enable the vcf to be .tbi-indexed).

I have a tab-delimited file key.txt.gz formatted like this:
CM022211.1 2329174 1
CM022211.1 2329175 2
CM022211.1 2329176 3
CM022211.1 2329177 4
…

And I have tried the command bcftools annotate -a key.txt.gz -c CHROM,POS,~POS in.vcf.gz after reading this thread #1545.
However, the positions remain unchanged in the output file.
Please could you advise what I’m doing wrong as after a lot of searching and trying various syntaxes, I cannot figure this out?

[pd3]

Which version of bcftools are you running? The notation ~POS was deprecated in favor of -POS in the latest version 1.21.