bcftools consensus -S not subsetting samples

[RebekahMohn]

Greetings,

The bcftools consensus -S setting is not working for me.

I am running:
samtools faidx reference.fa -r regions.txt | bcftools consensus samples.vcf.gz -S subsamples.txt -o consensus.fasta
my samples.vcf.gz file has 347 samples
my subsamples.txt has 2 samples formatted as follows:
sample1
sample2

However the stream says, "Note: applying IUPAC codes based on FORMAT/GT in 347 samples
Applied 37 variants" instead of two samples

If I write out the samples as in
samtools faidx reference.fa -r regions.txt | bcftools consensus samples.vcf.gz -s sample1,sample2 -o consensus2.fasta

the stream correctly says, "Note: applying IUPAC codes based on FORMAT/GT in 2 samples
Applied 30 variants."

Am I missing something about using -S or the formatting of the subsamples.txt? Or is this an issue with bcftools?

Thanks!

[pd3]

Thank you for reporting the bug, it is fixed now