josephlalli / pimaker Goto Github PK

python .\PiMaker\pimaker\pimaker.py -v vcf.vcf -g NC_gff3.gff3 -r NC_refseq.fasta --mutation_rates file.csv
Welcome to PiMaker!
Traceback (most recent call last):
File "D:\Python\PiMaker\pimaker\pimaker.py", line 303, in
main()
File "D:\Python\PiMaker\pimaker\pimaker.py", line 278, in main
parser = args.get_parser()
^^^^^^^^^^^^^^^
AttributeError: 'NoneType' object has no attribute 'get_parser'

i created a vc file using: snp-sites [this tool converts a multifasta file into vcf format.

snp-sites -v aligned_curated_phylogeny.fasta -o vcf.vcf

I tried to comment on everything below line 272 in Pimaker then this error was not being shown, I never got any output file and with these lines in, I can not run it.

Kindly help