LICENSE
README.md
pyproject.toml
opendde/__init__.py
opendde/version.py
opendde.egg-info/PKG-INFO
opendde.egg-info/SOURCES.txt
opendde.egg-info/dependency_links.txt
opendde.egg-info/entry_points.txt
opendde.egg-info/requires.txt
opendde.egg-info/top_level.txt
opendde/config/__init__.py
opendde/config/config.py
opendde/config/data.py
opendde/config/dependency_url.py
opendde/config/extend_types.py
opendde/config/inference.py
opendde/config/inference_defaults.py
opendde/config/model_base.py
opendde/config/model_registry.py
opendde/config/schema.py
opendde/data/__init__.py
opendde/data/constants.py
opendde/data/tokenizer.py
opendde/data/utils.py
opendde/data/core/__init__.py
opendde/data/core/ccd.py
opendde/data/core/featurizer.py
opendde/data/core/filter.py
opendde/data/core/geometry_featurizer.py
opendde/data/core/parser.py
opendde/data/core/substructure_perms.py
opendde/data/inference/__init__.py
opendde/data/inference/infer_dataloader.py
opendde/data/inference/json_maker.py
opendde/data/inference/json_parser.py
opendde/data/inference/json_to_feature.py
opendde/data/msa/__init__.py
opendde/data/msa/msa_featurizer.py
opendde/data/msa/msa_service_client.py
opendde/data/msa/msa_utils.py
opendde/data/template/__init__.py
opendde/data/template/template_featurizer.py
opendde/data/template/template_parser.py
opendde/data/template/template_utils.py
opendde/data/tools/__init__.py
opendde/data/tools/common.py
opendde/data/tools/kalign.py
opendde/data/tools/logger.py
opendde/data/tools/rewrite_biotite.py
opendde/data/tools/search.py
opendde/distributed/__init__.py
opendde/distributed/foldcp/__init__.py
opendde/distributed/foldcp/atom_window.py
opendde/distributed/foldcp/comm.py
opendde/distributed/foldcp/confidence.py
opendde/distributed/foldcp/config.py
opendde/distributed/foldcp/distogram.py
opendde/distributed/foldcp/launch.py
opendde/distributed/foldcp/layout.py
opendde/distributed/foldcp/mesh.py
opendde/distributed/foldcp/metrics.py
opendde/distributed/foldcp/msa_pair_weighted.py
opendde/distributed/foldcp/online_softmax.py
opendde/distributed/foldcp/opm.py
opendde/distributed/foldcp/pair_sharding.py
opendde/distributed/foldcp/real_pairformer.py
opendde/distributed/foldcp/structural_pair.py
opendde/distributed/foldcp/triangle_attention.py
opendde/distributed/foldcp/triangular_mult.py
opendde/distributed/foldcp/trunk_init.py
opendde/metrics/__init__.py
opendde/metrics/clash.py
opendde/model/__init__.py
opendde/model/generator.py
opendde/model/msa_sampling.py
opendde/model/opendde.py
opendde/model/sample_confidence.py
opendde/model/shape_complementarity.py
opendde/model/utils.py
opendde/model/layer_norm/__init__.py
opendde/model/layer_norm/layer_norm.py
opendde/model/layer_norm/torch_ext_compile.py
opendde/model/layer_norm/kernel/compat.h
opendde/model/layer_norm/kernel/layer_norm_cuda.cpp
opendde/model/layer_norm/kernel/layer_norm_cuda_kernel.cu
opendde/model/layer_norm/kernel/type_shim.h
opendde/model/modules/__init__.py
opendde/model/modules/confidence.py
opendde/model/modules/diffusion.py
opendde/model/modules/embedders.py
opendde/model/modules/head.py
opendde/model/modules/pairformer.py
opendde/model/modules/primitives.py
opendde/model/modules/structural_tokens.py
opendde/model/modules/transformer.py
opendde/model/triangular/__init__.py
opendde/model/triangular/layers.py
opendde/model/triangular/triangular.py
opendde/tfg/__init__.py
opendde/tfg/config.py
opendde/tfg/engine.py
opendde/tfg/potentials.py
opendde/utils/__init__.py
opendde/utils/distributed.py
opendde/utils/download.py
opendde/utils/environment.py
opendde/utils/file_io.py
opendde/utils/geometry.py
opendde/utils/logger.py
opendde/utils/logging_config.py
opendde/utils/scatter_utils.py
opendde/utils/seed.py
opendde/utils/torch_utils.py
runner/__init__.py
runner/batch_inference.py
runner/dumper.py
runner/inference.py
runner/msa_search.py
runner/rna_msa_search.py
runner/template_search.py
tests/test_atom_array_annotations.py
tests/test_atom_attention_decoder.py
tests/test_attention_pair_bias.py
tests/test_condition_transition.py
tests/test_config.py
tests/test_config_schema.py
tests/test_data_config_roots.py
tests/test_dependency_url.py
tests/test_diffusion_transformer.py
tests/test_distogram_bins.py
tests/test_featurizer_optimizations.py
tests/test_fetch_remote_cif.py
tests/test_file_io.py
tests/test_foldcp_confidence_launch_policy.py
tests/test_generator_tfg.py
tests/test_inference_config.py
tests/test_input_validation.py
tests/test_installation.py
tests/test_local_rearrange.py
tests/test_msa_config.py
tests/test_msa_encoding.py
tests/test_msa_service_client.py
tests/test_preprocess_helpers.py
tests/test_search_database_downloads.py
tests/test_shape_complementarity.py
tests/test_structural_frame_inheritance.py
tests/test_structural_token_expander.py
tests/test_structural_tokenizer.py
tests/test_structure_output.py
tests/test_triton_compatibility.py
tests/test_utils.py