Writer ImportError: cannot import name 'Reader' from 'parser'

[zezhuo]

Hi @giovanniquinones,

I am quiet interested in scAllele. But I got a few errors when installing this package. I was stuck by the error below. Looking forward to your help.

scAllele --help
Traceback (most recent call last):
File "/home/zezhuo/.conda/envs/snp/bin/scAllele", line 5, in
from scAllele.scAllele import main
File "/home/zezhuo/.conda/envs/snp/lib/python3.8/site-packages/scAllele/scAllele.py", line 21, in
from . import gqv_glm
File "/home/zezhuo/.conda/envs/snp/lib/python3.8/site-packages/scAllele/gqv_glm.py", line 23, in
import vcf
File "/home/zezhuo/.conda/envs/snp/lib/python3.8/site-packages/vcf/init.py", line 166, in
from parser import Reader, Writer
ImportError: cannot import name 'Reader' from 'parser' (/home/zezhuo/.conda/envs/snp/lib/python3.8/lib-dynload/parser.cpython-38-x86_64-linux-gnu.so)

By the way, I tried to install scAllele with python 3.8-3.10. Only 3.8 works for me.

Regards,
Nelson

[giovanniquinones]

Please make sure you are using the latest version of PyVCF module.
If the error persists, please provide the full command and bam file to reproduce the error