Commit 26d555d5 authored by Jennifer's avatar Jennifer
Browse files

readme and small updates for soloseq support on multimer

parent 30195c4a
...@@ -351,7 +351,7 @@ python3 run_pretrained_openfold.py \ ...@@ -351,7 +351,7 @@ python3 run_pretrained_openfold.py \
--output_dir ./ \ --output_dir ./ \
--model_device "cuda:0" \ --model_device "cuda:0" \
--config_preset "seq_model_esm1b_ptm" \ --config_preset "seq_model_esm1b_ptm" \
--openfold_checkpoint_path openfold/resources/openfold_params/seq_model_esm1b_ptm.pt \ --openfold_checkpoint_path openfold/resources/openfold_soloseq-params/seq_model_esm1b_ptm.pt \
--uniref90_database_path data/uniref90/uniref90.fasta \ --uniref90_database_path data/uniref90/uniref90.fasta \
--pdb70_database_path data/pdb70/pdb70 \ --pdb70_database_path data/pdb70/pdb70 \
--jackhmmer_binary_path lib/conda/envs/openfold_venv/bin/jackhmmer \ --jackhmmer_binary_path lib/conda/envs/openfold_venv/bin/jackhmmer \
......
...@@ -101,8 +101,8 @@ def empty_template_feats(n_res): ...@@ -101,8 +101,8 @@ def empty_template_feats(n_res):
"template_all_atom_positions": np.zeros( "template_all_atom_positions": np.zeros(
(0, n_res, residue_constants.atom_type_num, 3), np.float32 (0, n_res, residue_constants.atom_type_num, 3), np.float32
), ),
"template_domain_names": np.array([''.encode()], dtype=np.object), "template_domain_names": np.array([''.encode()], dtype=object),
"template_sequence": np.array([''.encode()], dtype=np.object), "template_sequence": np.array([''.encode()], dtype=object),
"template_sum_probs": np.zeros((0, 1), dtype=np.float32), "template_sum_probs": np.zeros((0, 1), dtype=np.float32),
} }
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment