When I run python Helixer.py, met: "ImportError: cannot import name 'where' from 'certifi' (unknown location"

[kuangzhuoran]

I just installed Helixer like:
pip install -r requirements.3.10.txt
pip install .

Then I run "python Helixer.py -h", I met error: "ImportError: cannot import name 'where' from 'certifi' (unknown location"

(zhuoran) [kuangzhuoran@mu01 Helixer]$ python ./Helixer.py
Traceback (most recent call last):
File "/beegfs/home/kuangzhuoran/software/Helixer/./Helixer.py", line 13, in
from helixer.core.data import prioritized_models, report_if_current_not_best, identify_current, MODEL_PATH
File "/beegfs/home/kuangzhuoran/software/Helixer/helixer/core/data.py", line 5, in
import requests
File "/beegfs/home/kuangzhuoran/miniconda3/envs/zhuoran/lib/python3.10/site-packages/requests/init.py", line 147, in
from . import packages, utils
File "/beegfs/home/kuangzhuoran/miniconda3/envs/zhuoran/lib/python3.10/site-packages/requests/utils.py", line 24, in
from . import certs
File "/beegfs/home/kuangzhuoran/miniconda3/envs/zhuoran/lib/python3.10/site-packages/requests/certs.py", line 14, in
from certifi import where
ImportError: cannot import name 'where' from 'certifi' (unknown location)

[alisandra]

Not sure on why this error is coming up, but using singularity (now named apptainer) is surely an easier way to install Helixer:

get apptainer installed: https://apptainer.org/docs/admin/main/installation.html

run like this (except replace 'singularity' with 'apptainer') https://github.com/gglyptodon/helixer-docker#running-via-singularity