LICENSE
LICENSES_THIRD_PARTY
MANIFEST.in
README.md
pyproject.toml
ovo/__init__.py
ovo/run_app.py
ovo.egg-info/PKG-INFO
ovo.egg-info/SOURCES.txt
ovo.egg-info/dependency_links.txt
ovo.egg-info/entry_points.txt
ovo.egg-info/requires.txt
ovo.egg-info/top_level.txt
ovo/app/__init__.py
ovo/app/assets/ovo-favicons16x16.png
ovo/app/assets/ovo-favicons32x32.png
ovo/app/assets/ovo-favicons48x48.png
ovo/app/assets/ovo-favicons96x96.png
ovo/app/assets/ovo-logo.svg
ovo/app/assets/styles.css
ovo/app/components/__init__.py
ovo/app/components/acceptance_thresholds_components.py
ovo/app/components/create_new_pool.py
ovo/app/components/custom_elements.py
ovo/app/components/descriptor_dialog.py
ovo/app/components/descriptor_explorer.py
ovo/app/components/descriptor_job_components.py
ovo/app/components/descriptor_scatterplot.py
ovo/app/components/descriptor_table.py
ovo/app/components/descriptor_tiles.py
ovo/app/components/download_component.py
ovo/app/components/history_components.py
ovo/app/components/input_components.py
ovo/app/components/navigation.py
ovo/app/components/preview_components.py
ovo/app/components/scheduler_components.py
ovo/app/components/sidebar.py
ovo/app/components/submission_components.py
ovo/app/components/trim_components.py
ovo/app/components/workflow_visualization_components.py
ovo/app/components/contigs_organizer/README.md
ovo/app/components/contigs_organizer/__init__.py
ovo/app/components/contigs_organizer/main.py
ovo/app/components/contigs_organizer/frontend/.prettierrc
ovo/app/components/contigs_organizer/frontend/build.js
ovo/app/components/contigs_organizer/frontend/bun.lock
ovo/app/components/contigs_organizer/frontend/index.html
ovo/app/components/contigs_organizer/frontend/package.json
ovo/app/components/contigs_organizer/frontend/tsconfig.json
ovo/app/components/contigs_organizer/frontend/build/chunk-970xrmwa.css
ovo/app/components/contigs_organizer/frontend/build/chunk-he4v5vpn.js
ovo/app/components/contigs_organizer/frontend/build/index.html
ovo/app/components/contigs_organizer/frontend/public/bootstrap.min.css
ovo/app/components/contigs_organizer/frontend/src/AddSegmentButton.tsx
ovo/app/components/contigs_organizer/frontend/src/ContigPart.tsx
ovo/app/components/contigs_organizer/frontend/src/ContigsOrganizer.tsx
ovo/app/components/contigs_organizer/frontend/src/ContigsOrganizerItem.tsx
ovo/app/components/contigs_organizer/frontend/src/StreamlitWrapper.tsx
ovo/app/components/contigs_organizer/frontend/src/index.tsx
ovo/app/components/contigs_organizer/frontend/src/react-app-env.d.ts
ovo/app/components/contigs_organizer/frontend/src/types.ts
ovo/app/components/contigs_organizer/frontend/src/utils.ts
ovo/app/components/contigs_organizer/frontend/src/assets/style.css
ovo/app/components/contigs_organizer/frontend/src/components/SortableList/SortableList.css
ovo/app/components/contigs_organizer/frontend/src/components/SortableList/SortableList.tsx
ovo/app/components/contigs_organizer/frontend/src/components/SortableList/components/SortableItem/SortableItem.css
ovo/app/components/contigs_organizer/frontend/src/components/SortableList/components/SortableItem/SortableItem.tsx
ovo/app/components/contigs_organizer/frontend/src/components/SortableList/components/SortableOverlay/SortableOverlay.tsx
ovo/app/components/molstar_custom_component/__init__.py
ovo/app/components/molstar_custom_component/color_picker.py
ovo/app/components/molstar_custom_component/contigs_parser.py
ovo/app/components/molstar_custom_component/dataclasses.py
ovo/app/components/molstar_custom_component/main.py
ovo/app/components/molstar_custom_component/frontend/.prettierrc
ovo/app/components/molstar_custom_component/frontend/README.md
ovo/app/components/molstar_custom_component/frontend/build.js
ovo/app/components/molstar_custom_component/frontend/bun.lock
ovo/app/components/molstar_custom_component/frontend/index.html
ovo/app/components/molstar_custom_component/frontend/package.json
ovo/app/components/molstar_custom_component/frontend/tsconfig.json
ovo/app/components/molstar_custom_component/frontend/build/chunk-c18v6xe5.css
ovo/app/components/molstar_custom_component/frontend/build/chunk-hnqz3mkm.js
ovo/app/components/molstar_custom_component/frontend/build/index.html
ovo/app/components/molstar_custom_component/frontend/public/bootstrap.min.css
ovo/app/components/molstar_custom_component/frontend/public/molstar.css
ovo/app/components/molstar_custom_component/frontend/src/MolstarCustomComponent.tsx
ovo/app/components/molstar_custom_component/frontend/src/StreamlitWrapper.tsx
ovo/app/components/molstar_custom_component/frontend/src/index.tsx
ovo/app/components/molstar_custom_component/frontend/src/react-app-env.d.ts
ovo/app/components/molstar_custom_component/frontend/src/types.ts
ovo/app/components/molstar_custom_component/frontend/src/utils.ts
ovo/app/components/molstar_custom_component/frontend/src/assets/style.css
ovo/app/pages/__init__.py
ovo/app/pages/debug.py
ovo/app/pages/import_export.py
ovo/app/pages/welcome.py
ovo/app/pages/bindcraft/bindcraft_binder_design.py
ovo/app/pages/designs/designs.py
ovo/app/pages/designs/explorer.py
ovo/app/pages/designs/interface.py
ovo/app/pages/designs/proteinqc.py
ovo/app/pages/designs/refolding.py
ovo/app/pages/jobs/design_job_detail.py
ovo/app/pages/jobs/jobs.py
ovo/app/pages/rfdiffusion/binder_design.py
ovo/app/pages/rfdiffusion/binder_diversification.py
ovo/app/pages/rfdiffusion/scaffold_design.py
ovo/app/utils/__init__.py
ovo/app/utils/bindcraft_utils.py
ovo/app/utils/cached_db.py
ovo/app/utils/page_init.py
ovo/app/utils/protein_qc_plots.py
ovo/app/utils/testing.py
ovo/cli/__init__.py
ovo/cli/app.py
ovo/cli/common.py
ovo/cli/init.py
ovo/cli/main.py
ovo/cli/module.py
ovo/cli/scheduler_cli.py
ovo/core/__init__.py
ovo/core/auth.py
ovo/core/aws.py
ovo/core/configuration.py
ovo/core/plugins.py
ovo/core/storage.py
ovo/core/database/__init__.py
ovo/core/database/base_db.py
ovo/core/database/cache_clearing.py
ovo/core/database/db_proxy.py
ovo/core/database/descriptors.py
ovo/core/database/descriptors_bindcraft.py
ovo/core/database/descriptors_proteinqc.py
ovo/core/database/descriptors_refolding.py
ovo/core/database/descriptors_rfdiffusion.py
ovo/core/database/encoder.py
ovo/core/database/models.py
ovo/core/database/models_bindcraft.py
ovo/core/database/models_proteinqc.py
ovo/core/database/models_refolding.py
ovo/core/database/models_rfdiffusion.py
ovo/core/database/sql_db.py
ovo/core/logic/__init__.py
ovo/core/logic/descriptor_logic.py
ovo/core/logic/design_logic.py
ovo/core/logic/design_logic_bindcraft.py
ovo/core/logic/design_logic_rfdiffusion.py
ovo/core/logic/filtering_logic.py
ovo/core/logic/import_export_logic.py
ovo/core/logic/job_logic.py
ovo/core/logic/project_logic.py
ovo/core/logic/proteinqc_logic.py
ovo/core/logic/round_logic.py
ovo/core/logic/user_settings_logic.py
ovo/core/scheduler/__init__.py
ovo/core/scheduler/base_scheduler.py
ovo/core/scheduler/healthomics_scheduler.py
ovo/core/scheduler/nextflow_scheduler.py
ovo/core/scheduler/simple_queue_mixin.py
ovo/core/utils/__init__.py
ovo/core/utils/colors.py
ovo/core/utils/export.py
ovo/core/utils/formatting.py
ovo/core/utils/param_validation.py
ovo/core/utils/pdb.py
ovo/core/utils/residue_selection.py
ovo/core/utils/resources.py
ovo/core/utils/seq.py
ovo/core/utils/tests.py
ovo/envs/boltz.cpu.yml
ovo/envs/boltz.yml
ovo/envs/colabdesign.cpu.yml
ovo/envs/colabdesign.yml
ovo/envs/dssp.yml
ovo/envs/esm.yml
ovo/envs/huggingface-transformers.yml
ovo/envs/ligandmpnn.yml
ovo/envs/proteinmpnn-fastrelax.yml
ovo/envs/proteinsol.yml
ovo/envs/python-structure.yml
ovo/envs/rfdiffusion.cpu.yml
ovo/envs/rfdiffusion.yml
ovo/pipelines/nextflow_default.config
ovo/pipelines/alphafold-initial-guess/main.nf
ovo/pipelines/alphafold-initial-guess/nextflow.config
ovo/pipelines/alphafold-initial-guess/bin/af2_initial_guess_binder_eval.py
ovo/pipelines/alphafold-initial-guess/bin/af2_initial_guess_scaffold_eval.py
ovo/pipelines/backbone-metrics/main.nf
ovo/pipelines/backbone-metrics/nextflow.config
ovo/pipelines/backbone-metrics/bin/backbone_metrics.py
ovo/pipelines/backbone-metrics/bin/pydssp_numpy.py
ovo/pipelines/backbone-metrics/bin/utils.py
ovo/pipelines/bindcraft/main.nf
ovo/pipelines/bindcraft/nextflow.config
ovo/pipelines/bindcraft/nextflow_schema.json
ovo/pipelines/bindcraft/bin/timeout.sh
ovo/pipelines/boltz/main.nf
ovo/pipelines/boltz/nextflow.config
ovo/pipelines/boltz/nextflow_schema.json
ovo/pipelines/esmfold/main.nf
ovo/pipelines/esmfold/nextflow.config
ovo/pipelines/esmfold/nextflow_schema.json
ovo/pipelines/esmfold/bin/esm_fold.py
ovo/pipelines/jupyterlab/main.nf
ovo/pipelines/jupyterlab/nextflow.config
ovo/pipelines/jupyterlab/nextflow_schema.json
ovo/pipelines/ligandmpnn-sequence-design/main.nf
ovo/pipelines/ligandmpnn-sequence-design/nextflow.config
ovo/pipelines/ligandmpnn-sequence-design/bin/copy_remarks.sh
ovo/pipelines/ligandmpnn-sequence-design/bin/prepare_json.py
ovo/pipelines/ligandmpnn-single/main.nf
ovo/pipelines/ligandmpnn-single/nextflow.config
ovo/pipelines/ligandmpnn-single/nextflow_schema.json
ovo/pipelines/proteinmpnn-fastrelax/main.nf
ovo/pipelines/proteinmpnn-fastrelax/nextflow.config
ovo/pipelines/proteinmpnn-fastrelax/bin/RosettaFastRelaxUtil.xml
ovo/pipelines/proteinmpnn-fastrelax/bin/dl_interface_design_extended.py
ovo/pipelines/proteinqc/main.nf
ovo/pipelines/proteinqc/nextflow.config
ovo/pipelines/proteinqc/nextflow_schema.json
ovo/pipelines/proteinqc-dssp/main.nf
ovo/pipelines/proteinqc-dssp/nextflow.config
ovo/pipelines/proteinqc-dssp/bin/dssp.py
ovo/pipelines/proteinqc-esm1v/main.nf
ovo/pipelines/proteinqc-esm1v/nextflow.config
ovo/pipelines/proteinqc-esm1v/bin/esm1v.py
ovo/pipelines/proteinqc-esmif/main.nf
ovo/pipelines/proteinqc-esmif/nextflow.config
ovo/pipelines/proteinqc-esmif/bin/esmif.py
ovo/pipelines/proteinqc-pep-patch/main.nf
ovo/pipelines/proteinqc-pep-patch/nextflow.config
ovo/pipelines/proteinqc-pep-patch/bin/feature_generation.py
ovo/pipelines/proteinqc-pep-patch/bin/get_atom_buriedness.py
ovo/pipelines/proteinqc-pep-patch/bin/lambda_function.py
ovo/pipelines/proteinqc-pep-patch/bin/peppatch.py
ovo/pipelines/proteinqc-pep-patch/bin/peppatch_postprocess.py
ovo/pipelines/proteinqc-proteinsol/main.nf
ovo/pipelines/proteinqc-proteinsol/nextflow.config
ovo/pipelines/proteinqc-proteinsol/bin/protein_sol_api.py
ovo/pipelines/proteinqc-proteinsol/bin/proteinsol.py
ovo/pipelines/proteinqc-seq-composition/main.nf
ovo/pipelines/proteinqc-seq-composition/nextflow.config
ovo/pipelines/proteinqc-seq-composition/bin/seq_composition.py
ovo/pipelines/pyrosetta-interface-metrics/main.nf
ovo/pipelines/pyrosetta-interface-metrics/nextflow.config
ovo/pipelines/pyrosetta-interface-metrics/nextflow_schema.json
ovo/pipelines/pyrosetta-interface-metrics/bin/interface_metrics_rfdesign.xml
ovo/pipelines/pyrosetta-interface-metrics/bin/pyrosetta_interface_metrics.py
ovo/pipelines/refolding/main.nf
ovo/pipelines/refolding/nextflow.config
ovo/pipelines/refolding/nextflow_schema.json
ovo/pipelines/refolding/lib/NO_FILE
ovo/pipelines/rfdiffusion-backbone/main.nf
ovo/pipelines/rfdiffusion-backbone/nextflow.config
ovo/pipelines/rfdiffusion-backbone/nextflow_schema.json
ovo/pipelines/rfdiffusion-backbone/bin/standardize_pdb.py
ovo/pipelines/rfdiffusion-backbone/bin/validate_input.py
ovo/pipelines/rfdiffusion-backbone/tests/test_backbone_scaffold_hairpin.py
ovo/pipelines/rfdiffusion-end-to-end/main.nf
ovo/pipelines/rfdiffusion-end-to-end/nextflow.config
ovo/pipelines/rfdiffusion-end-to-end/nextflow_schema.json
ovo/pipelines/rfdiffusion-end-to-end/tests/test_binder_fastrelax.py
ovo/pipelines/rfdiffusion-end-to-end/tests/test_binder_ligandmpnn.py
ovo/pipelines/rfdiffusion-end-to-end/tests/test_partial_diffusion.py
ovo/pipelines/rfdiffusion-end-to-end/tests/test_scaffold_cli.py
ovo/pipelines/rfdiffusion-end-to-end/tests/test_scaffold_hairpin.py
ovo/pipelines/rfdiffusion-end-to-end/tests/test_scaffold_with_filters.py
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer.json
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer_flexible.json
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer_flexible_hardtarget.json
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer_hardtarget.json
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer_mpnn.json
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer_mpnn_flexible.json
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer_mpnn_flexible_hardtarget.json
ovo/resources/bindcraft/settings_advanced/betasheet_4stage_multimer_mpnn_hardtarget.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer_flexible.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer_flexible_hardtarget.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer_hardtarget.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer_mpnn.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer_mpnn_flexible.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer_mpnn_flexible_hardtarget.json
ovo/resources/bindcraft/settings_advanced/default_4stage_multimer_mpnn_hardtarget.json
ovo/resources/bindcraft/settings_advanced/peptide_3stage_multimer.json
ovo/resources/bindcraft/settings_advanced/peptide_3stage_multimer_flexible.json
ovo/resources/bindcraft/settings_advanced/peptide_3stage_multimer_mpnn.json
ovo/resources/bindcraft/settings_advanced/peptide_3stage_multimer_mpnn_flexible.json
ovo/resources/bindcraft/settings_filters/default_filters.json
ovo/resources/bindcraft/settings_filters/no_filters.json
ovo/resources/bindcraft/settings_filters/peptide_filters.json
ovo/resources/bindcraft/settings_filters/peptide_relaxed_filters.json
ovo/resources/bindcraft/settings_filters/relaxed_filters.json
ovo/resources/examples/inputs/5ELI_A.pdb
ovo/resources/examples/inputs/ovo_buv_0789_cycle02_trimmed.pdb
ovo/resources/histograms/pdb/dssp_q01_q99.json
ovo/resources/histograms/pdb/esm_1v_q01_q99.json
ovo/resources/histograms/pdb/esm_if_q01_q99.json
ovo/resources/histograms/pdb/length_q01_q99.json
ovo/resources/histograms/pdb/mdanalysis_q01_q99.json
ovo/resources/histograms/pdb/peppatch_q01_q99.json
ovo/resources/histograms/pdb/proteinsol_q01_q99.json
ovo/resources/histograms/pdb/protparams_q01_q99.json
ovo/resources/histograms/pdb/sequence_composition_q01_q99.json