Entering edit mode
12 months ago
sooni
▴
20
Hello. I'm trying to create a .tab file using a function called 'tidy_vcf' (see link).
tidy_vcf -v GWAS.vcf -o GWAS_sites.vcf -g GWAS_genotypes.vcf
However, when I run the above code, the following error continues to occur.
neither --sites (-s) or --thin (-t) were given. Using all VCF sites. This might take a while.
Traceback (most recent call last):
File "C:\Users\ssu97\anaconda3\lib\runpy.py", line 196, in _run_module_as_main
return _run_code(code, main_globals, None,
File "C:\Users\ssu97\anaconda3\lib\runpy.py", line 86, in _run_code
exec(code, run_globals)
File "C:\Users\ssu97\anaconda3\Scripts\tidy_vcf.exe\__main__.py", line 7, in <module>
File "C:\Users\ssu97\anaconda3\lib\site-packages\tidy_vcf\tidy_vcf.py", line 179, in main
parse_file(args.vcf, args.sites)
File "C:\Users\ssu97\anaconda3\lib\site-packages\tidy_vcf\tidy_vcf.py", line 160, in parse_file
info_headers = build_info(INFO, vcf_keys['info'], True)
File "C:\Users\ssu97\anaconda3\lib\site-packages\tidy_vcf\tidy_vcf.py", line 62, in build_info
values = [i[1] for i in info_pairs]
File "C:\Users\ssu97\anaconda3\lib\site-packages\tidy_vcf\tidy_vcf.py", line 62, in <listcomp>
values = [i[1] for i in info_pairs]
IndexError: list index out of range
What does this error mean? How can I solve this? Please help me. Thank you.