RFdiffusion2/.yapf_exclude at main · RosettaCommons/RFdiffusion2 · GitHub

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rf_diffusion/nucleic_compatibility_utils.py
rf_diffusion/seq_diffusion.py
rf_diffusion/config/config_format.py
rf_diffusion/config/flatten_config.py
rf_diffusion/contigs.py
rf_diffusion/conditions/ss_adj/sec_struct_adjacency.py
rf_diffusion/datahub_pipelines/rf_diffusion.py
rf_diffusion/dev/show_tip_pa.py
rf_diffusion/dev/graft_native_motif.py
rf_diffusion/dev/show_basic.py
rf_diffusion/dev/renumber_chains.py
rf_diffusion/dev/show_bench.py
rf_diffusion/dev/pymol.py
rf_diffusion/dev/idealize_backbone.py
rf_diffusion/dev/add_covalent_bond.py
rf_diffusion/dev/analyze.py
rf_diffusion/dev/benchmark.py
rf_diffusion/dev/show_tip_row.py
rf_diffusion/atomization_primitives.py
rf_diffusion/test_pyrosetta.py
rf_diffusion/test_transform.py
rf_diffusion/test_utils.py
rf_diffusion/guide_posts.py
rf_diffusion/train_data/fast_filters.py
rf_diffusion/train_data/exceptions.py
rf_diffusion/save_forward_diffusion.py
rf_diffusion/util_module.py
rf_diffusion/benchmark/score_designs.py
rf_diffusion/benchmark/add_metrics.py
rf_diffusion/benchmark/pipeline.py
rf_diffusion/benchmark/pair_tmalign.py
rf_diffusion/benchmark/pymol_align.py
rf_diffusion/benchmark/util/blast_list.py
rf_diffusion/benchmark/util/hydra_utils.py
rf_diffusion/benchmark/util/parse_multiple_chains_v2.py
rf_diffusion/benchmark/util/parse_multiple_chains_ligand.py
rf_diffusion/benchmark/util/slurm_tools.py
rf_diffusion/benchmark/util/af2_metrics.py
rf_diffusion/benchmark/util/rosetta_ligand_metrics.py
rf_diffusion/benchmark/util/tmalign_list.py
rf_diffusion/benchmark/util/pyrosetta_metrics.py
rf_diffusion/benchmark/util/parse_multiple_chains.py
rf_diffusion/benchmark/util/analysis_util.py
rf_diffusion/benchmark/util/pdb2fasta.py
rf_diffusion/benchmark/cluster_pipeline_outputs.py
rf_diffusion/benchmark/pdb_to_params.py
rf_diffusion/benchmark/foldseek_pdb.py
rf_diffusion/benchmark/mpnn_designs.py
rf_diffusion/benchmark/pair_blast.py
rf_diffusion/benchmark/per_sequence_metrics.py
rf_diffusion/benchmark/mpnn_designs_v2.py
rf_diffusion/benchmark/chunkify_foldseek_pdb.py
rf_diffusion/benchmark/parse_blast.py
rf_diffusion/benchmark/thread_mpnn.py
rf_diffusion/benchmark/sweep_hyperparam.py
rf_diffusion/benchmark/sweep_hyperparam_inpaint.py
rf_diffusion/benchmark/parse_tmalign.py
rf_diffusion/benchmark/per_design_metrics.py
rf_diffusion/benchmark/foldseek_clustering.py
rf_diffusion/benchmark/compile_metrics.py
rf_diffusion/SE3_network.py
rf_diffusion/aa_model.py
rf_diffusion/slurm.py
rf_diffusion/metrics.py
rf_diffusion/perturbations.py
rf_diffusion/test_apptainer.py
rf_diffusion/run_inference.py
rf_diffusion/RoseTTAFoldModel.py
rf_diffusion/diff_util.py
rf_diffusion/Attention_module.py
rf_diffusion/frame_diffusion/rf_score/model.py
rf_diffusion/frame_diffusion/data/all_atom.py
rf_diffusion/frame_diffusion/data/residue_constants.py
rf_diffusion/frame_diffusion/data/r3_diffuser.py
rf_diffusion/frame_diffusion/data/so3_diffuser.py
rf_diffusion/frame_diffusion/data/se3_diffuser.py
rf_diffusion/frame_diffusion/data/utils.py
rf_diffusion/test_diffusion.py
rf_diffusion/model_input_logger.py
rf_diffusion/show_dataset.py
rf_diffusion/import_pyrosetta.py
rf_diffusion/write_file.py
rf_diffusion/reshape_weights.py
rf_diffusion/potentials/manager.py
rf_diffusion/potentials/potentials.py
rf_diffusion/arguments.py
rf_diffusion/Track_module.py
rf_diffusion/test_features.py
rf_diffusion/inference/model_runners.py
rf_diffusion/inference/centering.py
rf_diffusion/inference/scaffold.py
rf_diffusion/inference/data_loader.py
rf_diffusion/inference/__init__.py
rf_diffusion/inference/utils.py
rf_diffusion/conftest.py
rf_diffusion/master_addr.py
rf_diffusion/test_guidepost.py
rf_diffusion/show.py
rf_diffusion/AuxiliaryPredictor.py
rf_diffusion/noisers.py
rf_diffusion/test_pipeline.py
rf_diffusion/test_aa_model.py
rf_diffusion/estimate_likelihood.py
rf_diffusion/restart_training.py
rf_diffusion/tip_atoms.py
rf_diffusion/kinematics.py
rf_diffusion/ppi.py
rf_diffusion/data_loader.py
rf_diffusion/test_training_regression.py
rf_diffusion/conditioning.py
rf_diffusion/apply_masks.py
rf_diffusion/test_dataset.py
rf_diffusion/coords6d.py
rf_diffusion/test_atomize.py
rf_diffusion/datahub_dataset_interface.py
rf_diffusion/test_metrics_regression.py
rf_diffusion/idealize.py
rf_diffusion/partials_from_training.py
rf_diffusion/rotation_conversions.py
rf_diffusion/diffusion_ve.py
rf_diffusion/test_loss.py
rf_diffusion/blosum62.py
rf_diffusion/util.py
rf_diffusion/manual_test_mpnn.py
rf_diffusion/Embeddings.py
rf_diffusion/features.py
rf_diffusion/sasa.py
rf_diffusion/atomize.py
rf_diffusion/test_seq_diff/train.py
rf_diffusion/test_seq_diff/inference.py
rf_diffusion/test_seq_diff/seq_diff_util.py
rf_diffusion/test_seq_diff/network.py
rf_diffusion/test_seq_diff/__init__.py
rf_diffusion/test_contigs.py
rf_diffusion/__init__.py
rf_diffusion/parsers.py
rf_diffusion/igso3.py
rf_diffusion/bond_geometry.py
rf_diffusion/error.py
rf_diffusion/mask_generator.py
rf_diffusion/conditions/v2.py
rf_diffusion/conditions/ideal_ss.py
rf_diffusion/conditions/util.py
rf_diffusion/tests/integration/test_sym_inference.py
rf_diffusion/loss.py
rf_diffusion/chemical.py
rf_diffusion/scheduler.py
rf_diffusion/test_inference_mini.py
rf_diffusion/loss_aa.py
rf_diffusion/scoring.py
rf_diffusion/distributions.py
rf_diffusion/structure.py
rf_diffusion/train_multi_deep.py
rf_diffusion/test_idealize.py
rf_diffusion/silent_files.py
rf_diffusion/test_inference.py
rf_diffusion/build_coords.py
rf_diffusion/test_build_coords.py