ValueError: could not convert string to float: '.'

[JTnmn2000]

Hi there!

I'm trying to use vireo to demultiplex samples of a 10x scRNAseq dataset in which there are 24 cell lines. I am missing the vcf files for 3 of them, so I am trying to run vireo while providing the merged vcf file for the 21 cell lines I did have the files for. My vcf is already filtered for biallelic SNPs and maf>0.1

After running cellSNP-lite, I tried running vireo like this, with the DONOR_GT_file being my partial vcf:
vireo -c CELL_DATA -d DONOR_GT_FILE -o OUT_DIR -N n_donor --genoTag GT

But I keep getting the following error:

[vireo] Loading cell folder ...
[vireo] Loading donor VCF file ...
[vireo] 11735 out 59108 variants matched to donor VCF
Traceback (most recent call last):
  File "/home/rstudio/miniconda3/envs/Vireo_venv/bin/vireo", line 10, in <module>
    sys.exit(main())
             ~~~~^^
  File "/home/rstudio/miniconda3/envs/Vireo_venv/lib/python3.14/site-packages/vireoSNP/vireo.py", line 172, in main
    donor_GPb = parse_donor_GPb(donor_vcf['GenoINFO'][options.geno_tag],
        options.geno_tag)
  File "/home/rstudio/miniconda3/envs/Vireo_venv/lib/python3.14/site-packages/vireoSNP/utils/vcf_utils.py", line 331, in parse_donor_GPb
    GT_prob[i, j, :] = parse_GT_code(GT_dat[i][j], tag)
                       ~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^
  File "/home/rstudio/miniconda3/envs/Vireo_venv/lib/python3.14/site-packages/vireoSNP/utils/vcf_utils.py", line 313, in parse_GT_code
    _prob[int(float(code[0]) + float(code[-1]))] = 1
              ~~~~~^^^^^^^^^
ValueError: could not convert string to float: '.'

It's true that for many variants, the GT info for cell lines is missing and thus ./. in the vcf file. However, I retain too little variants if I filter the vcf for variants that have GT information for all 21 cell lines. Is vireo not able to handle the ./. at all? And is that the only issue for why vireo is not running properly?

Thanks in advance!
J