Gustaf Ahdritz

If you ran the download scripts, you probably already have the Protein Data Bank mmCIF files. If not, you can run `scripts/download_pdb_mmcif.sh` to fetch them. The `uniclust30` MSAs are bundled...

I can't reproduce this. ``` (openfold_venv) [d@rustyamd1 openfold]$ python run_pretrained_openfold.py ~/gustaf_stuff/OpenFold/casp/casp_fastas/subtasks/t1159/ ~/gustaf_stuff/OpenFold/pdb_mmcif/mmcif_files/ --use_precomputed_alignments ~/gustaf_stuff/OpenFold/casp/alignments/ --output_dir ./lma_test_o utputs --model_device "cuda:0" --config_preset "model_1" --obsolete_pdbs_path ~/gustaf_stuff/OpenFold/pdb_mmcif/obsolete.dat --output_postfix "epoch_94_recycle_10_templates_4_dimer" --skip_relaxation --jax_param_path openfold/resources/params/params_model_1.npz --trace_model INFO:run_pretrained_openfold.py:Successfully...

Not in the default configuration, but if you disable the custom CUDA kernels, it's technically possible to run the model on CPU. Of course, that would cause a slowdown so...

I just merged a PR that should make this possible. LMK if this still doesn't run.

Do you have CUDA installed + GPUs available?

@player1321 Could you share your training command, training data, etc.?

Could you share the file structure of /openfold_data/pdb/?

I see what's happening. Check out my response on #258. You need to reformat the OpenProteinSet data a little bit in order to feed it to OpenFold. Right now you're...

Is it every protein sequence, or just some?