1 #Run alphafold2 2 # conda activate af2 3 # run_alphafold.py --fasta_paths=Test.fasta --max_template_date=2020-05-14 4 5 #Changelog 6 1. vim /home/wangq/Programs/miniconda3/envs/af2/lib/python3.8/site-packages/absl/flags/_validators.py 7 # annotate line 202-206 8 2. vim ~/Programs/alphafold2/run_alphafold.py 9 # add !/usr/bin/env python3 10 3. chmod +x ~/Programs/alphafold2/run_alphafold.py 11 4. vim ~/Programs/alphafold2/run_alphafold.py 12 # add time module 13 5. vim ./alphafold/data/tools/jackhmmer.py 14 # change cpu:8 to cpu:20 15 6. vim ./alphafold/data/tools/hhblits.py 16 # change cpu:4 to cpu:20 17 7. vim alphafold/common/residue_constants.py 18 #change line 23 28 409 19 import subprocess 20 AF2_PATH = subprocess.getoutput("echo $alphafold2") 21 stereo_chemical_props_path = (f‘{AF2_PATH}/alphafold/common/stereo_chemical_props.txt‘)