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alphafold2 docker run error. Unknown command line flag 'models_to_relax'. Did you mean: model_preset ? #1058

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tomlongcool opened this issue Jan 16, 2025 · 0 comments

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@tomlongcool
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run:
python run_docker.py
--fasta_paths=$af2_fasta_dir/P09601.fasta
--max_template_date=2021-11-01
--db_preset=full_dbs
--model_preset=monomer
--data_dir=$af2_database
--output_dir=$af2_output_dir

error:
(af2) tom@tom-7920-tower:/media/tom/ex8/af2/alphafold2.3.2/docker$ ./run_af2.sh
I0116 11:49:15.439172 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/fasta_input -> /mnt/fasta_path_0
I0116 11:49:15.439306 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database/uniref90 -> /mnt/uniref90_database_path
I0116 11:49:15.439398 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database/mgnify -> /mnt/mgnify_database_path
I0116 11:49:15.439456 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database -> /mnt/data_dir
I0116 11:49:15.439520 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database/pdb_mmcif -> /mnt/template_mmcif_dir
I0116 11:49:15.439583 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database/pdb_mmcif -> /mnt/obsolete_pdbs_path
I0116 11:49:15.439637 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database/pdb70/pdb70 -> /mnt/pdb70_database_path
I0116 11:49:15.439696 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database/uniref30 -> /mnt/uniref30_database_path
I0116 11:49:15.439757 140612487418112 run_docker.py:116] Mounting /media/tom/ex8/af2/af2_database/bfd -> /mnt/bfd_database_path
I0116 11:49:18.096810 140612487418112 run_docker.py:258] FATAL Flags parsing error: Unknown command line flag 'models_to_relax'. Did you mean: model_preset ?
I0116 11:49:18.097167 140612487418112 run_docker.py:258] Pass --helpshort or --helpfull to see help on flags.

sos!!

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