Closed tkcaccia closed 2 years ago
The omnia channel is obsolete. Install with
conda install -c conda-forge pdbfixer
The installation of pdffixer seems to go well but then I get an error when I try to run Alphafold Could you please help me to understand?
python3 run_alphafold.py /media/user/Cheeta/Data/Alphafold/Input/cytC.fasta**
Traceback (most recent call last):
File "run_alphafold.py", line 39, in
from alphafold.relax import relax
File "/home/user/alphafold/alphafold/relax/relax.py", line 18, in
from alphafold.relax import amber_minimize
File "/home/user/alphafold/alphafold/relax/amber_minimize.py", line 25, in
from alphafold.relax import cleanup
File "/home/user/alphafold/alphafold/relax/cleanup.py", line 22, in
import pdbfixer
ModuleNotFoundError: No module named 'pdbfixer'
I am trying to install pdbfixer without success
conda install -c omnia openmm
conda install -c omnia/label/beta pdbfixer
python3 -m pip install openmm
python3 -m pip install pdbfixer