--ploidy 2 function not working?

[officialnaturalist]

I am not able to generate variants for my diploid organism. The script I ran looks something like this:

bcftools call --threads 10 --ploidy 2 -m -v -o ../vcf/CapricornB1_11_S11_variants.vcf CapricornB1_11_S11_raw.bcf

I don't get any errors, but I don't get any files generated either. The output of this code is:

`PRE-DEFINED PLOIDY FILES

• Columns are: CHROM,FROM,TO,SEX,PLOIDY
• Coordinates are 1-based inclusive.
• A '*' means any value not otherwise defined.

GRCh37 .. Human Genome reference assembly GRCh37 / hg19

GRCh38 .. Human Genome reference assembly GRCh38 / hg38

X .. Treat male samples as haploid and female as diploid regardless of the chromosome name

Y .. Treat male samples as haploid and female as no-copy, regardless of the chromosome name

1 .. Treat all samples as haploid

Run as --ploidy (e.g. --ploidy GRCh37). To see the detailed ploidy definition, append a question mark (e.g. --ploidy GRCh37?).`

I feel like I probably don't know how to use the ploidy function? Do I have to generate a ploidy file??

[pd3]

This looks like a bug fixed two years ago by https://github.com/samtools/bcftools/commit/5105724d8b05a82094cbc0f461dba2539f9a4a50. Note the bug only prevented from explicitly stating --ploidy 2, but it is the default setting and does not need to be given explicitly