Python Module Index

p


	p
	`pyrosetta`
	`pyrosetta.bindings`
	`pyrosetta.bindings.energies`
	`pyrosetta.bindings.homogeneous_transform`
	`pyrosetta.bindings.pose`
	`pyrosetta.bindings.rt`
	`pyrosetta.bindings.utility`
	`pyrosetta.distributed`
	`pyrosetta.distributed.dask`
	`pyrosetta.distributed.docs`
	`pyrosetta.distributed.io`
	`pyrosetta.distributed.packed_pose`
	`pyrosetta.distributed.packed_pose.core`
	`pyrosetta.distributed.tasks`
	`pyrosetta.distributed.utility`
	`pyrosetta.distributed.utility.pickle`
	`pyrosetta.io`
	`pyrosetta.io.silent_file_map`
	`pyrosetta.logging_support`
	`pyrosetta.network`
	`pyrosetta.network.rosetta_udp_to_tcp_bridge`
	`pyrosetta.numeric`
	`pyrosetta.numeric.alignment`
	`pyrosetta.protocols`
	`pyrosetta.protocols.h5_fragment_store_provider`
	`pyrosetta.protocols.h5_importer`
	`pyrosetta.protocols.h5_structure_store_provider`
	`pyrosetta.rosetta`
	`pyrosetta.rosetta.basic`
	`pyrosetta.rosetta.basic.citation_manager`
	`pyrosetta.rosetta.basic.database`
	`pyrosetta.rosetta.basic.database.insert_statement_generator`
	`pyrosetta.rosetta.basic.database.schema_generator`
	`pyrosetta.rosetta.basic.datacache`
	`pyrosetta.rosetta.basic.gpu`
	`pyrosetta.rosetta.basic.mpi`
	`pyrosetta.rosetta.basic.options`
	`pyrosetta.rosetta.basic.random`
	`pyrosetta.rosetta.basic.resource_manager`
	`pyrosetta.rosetta.basic.resource_manager.locator`
	`pyrosetta.rosetta.basic.sampling`
	`pyrosetta.rosetta.basic.sampling.orientations`
	`pyrosetta.rosetta.basic.svd`
	`pyrosetta.rosetta.basic.tensorflow_manager`
	`pyrosetta.rosetta.basic.thread_manager`
	`pyrosetta.rosetta.core`
	`pyrosetta.rosetta.core.chemical`
	`pyrosetta.rosetta.core.chemical.bcl`
	`pyrosetta.rosetta.core.chemical.carbohydrates`
	`pyrosetta.rosetta.core.chemical.element`
	`pyrosetta.rosetta.core.chemical.gasteiger`
	`pyrosetta.rosetta.core.chemical.io`
	`pyrosetta.rosetta.core.chemical.mainchain_potential`
	`pyrosetta.rosetta.core.chemical.mmCIF`
	`pyrosetta.rosetta.core.chemical.modifications`
	`pyrosetta.rosetta.core.chemical.NucleotideTools`
	`pyrosetta.rosetta.core.chemical.orbitals`
	`pyrosetta.rosetta.core.chemical.rdkit`
	`pyrosetta.rosetta.core.chemical.rings`
	`pyrosetta.rosetta.core.chemical.rna`
	`pyrosetta.rosetta.core.chemical.rotamers`
	`pyrosetta.rosetta.core.chemical.sdf`
	`pyrosetta.rosetta.core.conformation`
	`pyrosetta.rosetta.core.conformation.carbohydrates`
	`pyrosetta.rosetta.core.conformation.membrane`
	`pyrosetta.rosetta.core.conformation.membrane.membrane_geometry`
	`pyrosetta.rosetta.core.conformation.orbitals`
	`pyrosetta.rosetta.core.conformation.parametric`
	`pyrosetta.rosetta.core.conformation.residue_datacache`
	`pyrosetta.rosetta.core.conformation.RotamerSetCacheableDataType`
	`pyrosetta.rosetta.core.conformation.signals`
	`pyrosetta.rosetta.core.conformation.symmetry`
	`pyrosetta.rosetta.core.energy_methods`
	`pyrosetta.rosetta.core.energy_methods.dfire`
	`pyrosetta.rosetta.core.environment`
	`pyrosetta.rosetta.core.enzymes`
	`pyrosetta.rosetta.core.fragment`
	`pyrosetta.rosetta.core.fragment.picking_old`
	`pyrosetta.rosetta.core.fragment.picking_old.concepts`
	`pyrosetta.rosetta.core.fragment.picking_old.vall`
	`pyrosetta.rosetta.core.fragment.picking_old.vall.eval`
	`pyrosetta.rosetta.core.fragment.picking_old.vall.gen`
	`pyrosetta.rosetta.core.fragment.picking_old.vall.scores`
	`pyrosetta.rosetta.core.fragment.rna`
	`pyrosetta.rosetta.core.grid`
	`pyrosetta.rosetta.core.id`
	`pyrosetta.rosetta.core.import_pose`
	`pyrosetta.rosetta.core.import_pose.atom_tree_diffs`
	`pyrosetta.rosetta.core.import_pose.libraries`
	`pyrosetta.rosetta.core.import_pose.options`
	`pyrosetta.rosetta.core.import_pose.pose_stream`
	`pyrosetta.rosetta.core.init`
	`pyrosetta.rosetta.core.io`
	`pyrosetta.rosetta.core.io.carbohydrates`
	`pyrosetta.rosetta.core.io.external`
	`pyrosetta.rosetta.core.io.mmcif`
	`pyrosetta.rosetta.core.io.mmtf`
	`pyrosetta.rosetta.core.io.nmr`
	`pyrosetta.rosetta.core.io.pdb`
	`pyrosetta.rosetta.core.io.pose_from_sfr`
	`pyrosetta.rosetta.core.io.pose_to_sfr`
	`pyrosetta.rosetta.core.io.PositionDdGInfo`
	`pyrosetta.rosetta.core.io.raw_data`
	`pyrosetta.rosetta.core.io.rcsb`
	`pyrosetta.rosetta.core.io.rna`
	`pyrosetta.rosetta.core.io.sequence_comparation`
	`pyrosetta.rosetta.core.io.serialization`
	`pyrosetta.rosetta.core.io.silent`
	`pyrosetta.rosetta.core.kinematics`
	`pyrosetta.rosetta.core.kinematics.inverse`
	`pyrosetta.rosetta.core.kinematics.jacobian`
	`pyrosetta.rosetta.core.kinematics.tree`
	`pyrosetta.rosetta.core.membrane`
	`pyrosetta.rosetta.core.optimization`
	`pyrosetta.rosetta.core.optimization.symmetry`
	`pyrosetta.rosetta.core.pack`
	`pyrosetta.rosetta.core.pack.annealer`
	`pyrosetta.rosetta.core.pack.dunbrack`
	`pyrosetta.rosetta.core.pack.dunbrack.cenrot`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms.approximate_buried_unsat_penalty`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms.buried_unsat_penalty`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms.buried_unsat_penalty.graph`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms.hbnet_energy`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms.lk_dome`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms.sap`
	`pyrosetta.rosetta.core.pack.guidance_scoreterms.voids_penalty_energy`
	`pyrosetta.rosetta.core.pack.hbonds`
	`pyrosetta.rosetta.core.pack.interaction_graph`
	`pyrosetta.rosetta.core.pack.palette`
	`pyrosetta.rosetta.core.pack.rotamer_set`
	`pyrosetta.rosetta.core.pack.rotamer_set.symmetry`
	`pyrosetta.rosetta.core.pack.rotamers`
	`pyrosetta.rosetta.core.pack.scmin`
	`pyrosetta.rosetta.core.pack.task`
	`pyrosetta.rosetta.core.pack.task.operation`
	`pyrosetta.rosetta.core.pack.task.residue_selector`
	`pyrosetta.rosetta.core.pack.task.rna`
	`pyrosetta.rosetta.core.pack_basic`
	`pyrosetta.rosetta.core.pose`
	`pyrosetta.rosetta.core.pose.carbohydrates`
	`pyrosetta.rosetta.core.pose.copydofs`
	`pyrosetta.rosetta.core.pose.datacache`
	`pyrosetta.rosetta.core.pose.full_model_info`
	`pyrosetta.rosetta.core.pose.metrics`
	`pyrosetta.rosetta.core.pose.metrics.simple_calculators`
	`pyrosetta.rosetta.core.pose.motif`
	`pyrosetta.rosetta.core.pose.ncbb`
	`pyrosetta.rosetta.core.pose.reference_pose`
	`pyrosetta.rosetta.core.pose.rna`
	`pyrosetta.rosetta.core.pose.rna.secstruct_legacy`
	`pyrosetta.rosetta.core.pose.signals`
	`pyrosetta.rosetta.core.pose.symmetry`
	`pyrosetta.rosetta.core.pose.toolbox`
	`pyrosetta.rosetta.core.scoring`
	`pyrosetta.rosetta.core.scoring.aa_composition_energy`
	`pyrosetta.rosetta.core.scoring.annealing`
	`pyrosetta.rosetta.core.scoring.atomic_depth`
	`pyrosetta.rosetta.core.scoring.bin_transitions`
	`pyrosetta.rosetta.core.scoring.carbohydrates`
	`pyrosetta.rosetta.core.scoring.carbon_hbonds`
	`pyrosetta.rosetta.core.scoring.constraints`
	`pyrosetta.rosetta.core.scoring.cryst`
	`pyrosetta.rosetta.core.scoring.custom_pair_distance`
	`pyrosetta.rosetta.core.scoring.disulfides`
	`pyrosetta.rosetta.core.scoring.dna`
	`pyrosetta.rosetta.core.scoring.dssp`
	`pyrosetta.rosetta.core.scoring.elec`
	`pyrosetta.rosetta.core.scoring.elec.electrie`
	`pyrosetta.rosetta.core.scoring.electron_density`
	`pyrosetta.rosetta.core.scoring.electron_density_atomwise`
	`pyrosetta.rosetta.core.scoring.EnergiesCacheableDataType`
	`pyrosetta.rosetta.core.scoring.epr_deer`
	`pyrosetta.rosetta.core.scoring.epr_deer.metrics`
	`pyrosetta.rosetta.core.scoring.etable`
	`pyrosetta.rosetta.core.scoring.etable.coulomb`
	`pyrosetta.rosetta.core.scoring.etable.count_pair`
	`pyrosetta.rosetta.core.scoring.etable.etrie`
	`pyrosetta.rosetta.core.scoring.facts`
	`pyrosetta.rosetta.core.scoring.fiber_diffraction`
	`pyrosetta.rosetta.core.scoring.func`
	`pyrosetta.rosetta.core.scoring.geometric_solvation`
	`pyrosetta.rosetta.core.scoring.hbonds`
	`pyrosetta.rosetta.core.scoring.hbonds.graph`
	`pyrosetta.rosetta.core.scoring.hbonds.hbtrie`
	`pyrosetta.rosetta.core.scoring.interface_`
	`pyrosetta.rosetta.core.scoring.lkball`
	`pyrosetta.rosetta.core.scoring.lkball.lkbtrie`
	`pyrosetta.rosetta.core.scoring.loop_graph`
	`pyrosetta.rosetta.core.scoring.loop_graph.evaluator`
	`pyrosetta.rosetta.core.scoring.magnesium`
	`pyrosetta.rosetta.core.scoring.membrane`
	`pyrosetta.rosetta.core.scoring.methods`
	`pyrosetta.rosetta.core.scoring.methods.dfire`
	`pyrosetta.rosetta.core.scoring.mhc_epitope_energy`
	`pyrosetta.rosetta.core.scoring.mm`
	`pyrosetta.rosetta.core.scoring.mm.mmtrie`
	`pyrosetta.rosetta.core.scoring.motif`
	`pyrosetta.rosetta.core.scoring.netcharge_energy`
	`pyrosetta.rosetta.core.scoring.nmr`
	`pyrosetta.rosetta.core.scoring.nmr.pcs`
	`pyrosetta.rosetta.core.scoring.nmr.pre`
	`pyrosetta.rosetta.core.scoring.nmr.rdc`
	`pyrosetta.rosetta.core.scoring.nv`
	`pyrosetta.rosetta.core.scoring.orbitals`
	`pyrosetta.rosetta.core.scoring.packing`
	`pyrosetta.rosetta.core.scoring.packstat`
	`pyrosetta.rosetta.core.scoring.packstat.old`
	`pyrosetta.rosetta.core.scoring.power_diagram`
	`pyrosetta.rosetta.core.scoring.rna`
	`pyrosetta.rosetta.core.scoring.rna.chemical_shift`
	`pyrosetta.rosetta.core.scoring.rna.data`
	`pyrosetta.rosetta.core.scoring.sasa`
	`pyrosetta.rosetta.core.scoring.saxs`
	`pyrosetta.rosetta.core.scoring.sc`
	`pyrosetta.rosetta.core.scoring.solid_surface`
	`pyrosetta.rosetta.core.scoring.sym_e`
	`pyrosetta.rosetta.core.scoring.symmetry`
	`pyrosetta.rosetta.core.scoring.trie`
	`pyrosetta.rosetta.core.scoring.vdwaals`
	`pyrosetta.rosetta.core.select`
	`pyrosetta.rosetta.core.select.jump_selector`
	`pyrosetta.rosetta.core.select.movemap`
	`pyrosetta.rosetta.core.select.residue_selector`
	`pyrosetta.rosetta.core.select.residue_selector.slice_enums`
	`pyrosetta.rosetta.core.select.util`
	`pyrosetta.rosetta.core.sequence`
	`pyrosetta.rosetta.core.simple_metrics`
	`pyrosetta.rosetta.core.simple_metrics.composite_metrics`
	`pyrosetta.rosetta.core.simple_metrics.metrics`
	`pyrosetta.rosetta.core.simple_metrics.per_residue_metrics`
	`pyrosetta.rosetta.core.util`
	`pyrosetta.rosetta.cppdb`
	`pyrosetta.rosetta.cppdb.backend`
	`pyrosetta.rosetta.numeric`
	`pyrosetta.rosetta.numeric.alignment`
	`pyrosetta.rosetta.numeric.conversions`
	`pyrosetta.rosetta.numeric.crick_equations`
	`pyrosetta.rosetta.numeric.expression_parser`
	`pyrosetta.rosetta.numeric.fourier`
	`pyrosetta.rosetta.numeric.geometry`
	`pyrosetta.rosetta.numeric.geometry.hashing`
	`pyrosetta.rosetta.numeric.histograms`
	`pyrosetta.rosetta.numeric.interpolation`
	`pyrosetta.rosetta.numeric.interpolation.spline`
	`pyrosetta.rosetta.numeric.kdtree`
	`pyrosetta.rosetta.numeric.kinematic_closure`
	`pyrosetta.rosetta.numeric.kinematic_closure.radians`
	`pyrosetta.rosetta.numeric.linear_algebra`
	`pyrosetta.rosetta.numeric.model_quality`
	`pyrosetta.rosetta.numeric.nls`
	`pyrosetta.rosetta.numeric.random`
	`pyrosetta.rosetta.numeric.statistics`
	`pyrosetta.rosetta.ObjexxFCL`
	`pyrosetta.rosetta.ObjexxFCL.bit`
	`pyrosetta.rosetta.ObjexxFCL.format`
	`pyrosetta.rosetta.ObjexxFCL.Fortran`
	`pyrosetta.rosetta.ObjexxFCL.internal`
	`pyrosetta.rosetta.ObjexxFCL.internal.ObserverMediator`
	`pyrosetta.rosetta.protocols`
	`pyrosetta.rosetta.protocols.aa_composition`
	`pyrosetta.rosetta.protocols.abinitio`
	`pyrosetta.rosetta.protocols.abinitio.abscript`
	`pyrosetta.rosetta.protocols.analysis`
	`pyrosetta.rosetta.protocols.analysis.burial_metrics`
	`pyrosetta.rosetta.protocols.analysis.simple_metrics`
	`pyrosetta.rosetta.protocols.anchored_design`
	`pyrosetta.rosetta.protocols.antibody`
	`pyrosetta.rosetta.protocols.antibody.clusters`
	`pyrosetta.rosetta.protocols.antibody.constraints`
	`pyrosetta.rosetta.protocols.antibody.design`
	`pyrosetta.rosetta.protocols.antibody.grafting`
	`pyrosetta.rosetta.protocols.antibody.residue_selector`
	`pyrosetta.rosetta.protocols.antibody.snugdock`
	`pyrosetta.rosetta.protocols.antibody.task_operations`
	`pyrosetta.rosetta.protocols.antibody_legacy`
	`pyrosetta.rosetta.protocols.backbone_moves`
	`pyrosetta.rosetta.protocols.backbone_moves.local_backbone_mover`
	`pyrosetta.rosetta.protocols.backbone_moves.local_backbone_mover.free_peptide_movers`
	`pyrosetta.rosetta.protocols.backbone_moves.local_backbone_mover.gap_solution_pickers`
	`pyrosetta.rosetta.protocols.backrub`
	`pyrosetta.rosetta.protocols.branch_angle`
	`pyrosetta.rosetta.protocols.buns`
	`pyrosetta.rosetta.protocols.calc_taskop_filters`
	`pyrosetta.rosetta.protocols.calc_taskop_movers`
	`pyrosetta.rosetta.protocols.canonical_sampling`
	`pyrosetta.rosetta.protocols.canonical_sampling.mc_convergence_checks`
	`pyrosetta.rosetta.protocols.carbohydrates`
	`pyrosetta.rosetta.protocols.cartesian`
	`pyrosetta.rosetta.protocols.checkpoint`
	`pyrosetta.rosetta.protocols.chemically_conjugated_docking`
	`pyrosetta.rosetta.protocols.chemistries`
	`pyrosetta.rosetta.protocols.chromophore`
	`pyrosetta.rosetta.protocols.cluster`
	`pyrosetta.rosetta.protocols.cluster.calibur`
	`pyrosetta.rosetta.protocols.comparative_modeling`
	`pyrosetta.rosetta.protocols.comparative_modeling.features`
	`pyrosetta.rosetta.protocols.constel`
	`pyrosetta.rosetta.protocols.constraint_filters`
	`pyrosetta.rosetta.protocols.constraint_generator`
	`pyrosetta.rosetta.protocols.constraint_movers`
	`pyrosetta.rosetta.protocols.constraints_additional`
	`pyrosetta.rosetta.protocols.contact_map`
	`pyrosetta.rosetta.protocols.coupled_moves`
	`pyrosetta.rosetta.protocols.cryst`
	`pyrosetta.rosetta.protocols.cutoutdomain`
	`pyrosetta.rosetta.protocols.cyclic_peptide`
	`pyrosetta.rosetta.protocols.cyclic_peptide.crosslinker`
	`pyrosetta.rosetta.protocols.cyclic_peptide_predict`
	`pyrosetta.rosetta.protocols.ddG`
	`pyrosetta.rosetta.protocols.ddg`
	`pyrosetta.rosetta.protocols.ddg.CartesianddG`
	`pyrosetta.rosetta.protocols.denovo_design`
	`pyrosetta.rosetta.protocols.denovo_design.architects`
	`pyrosetta.rosetta.protocols.denovo_design.calculators`
	`pyrosetta.rosetta.protocols.denovo_design.components`
	`pyrosetta.rosetta.protocols.denovo_design.connection`
	`pyrosetta.rosetta.protocols.denovo_design.constraints`
	`pyrosetta.rosetta.protocols.denovo_design.filters`
	`pyrosetta.rosetta.protocols.denovo_design.movers`
	`pyrosetta.rosetta.protocols.denovo_design.residue_selectors`
	`pyrosetta.rosetta.protocols.denovo_design.task_operations`
	`pyrosetta.rosetta.protocols.design_opt`
	`pyrosetta.rosetta.protocols.dna`
	`pyrosetta.rosetta.protocols.dna_dock`
	`pyrosetta.rosetta.protocols.docking`
	`pyrosetta.rosetta.protocols.docking.membrane`
	`pyrosetta.rosetta.protocols.docking.stateless`
	`pyrosetta.rosetta.protocols.domain_assembly`
	`pyrosetta.rosetta.protocols.drug_design`
	`pyrosetta.rosetta.protocols.drug_design.bcl`
	`pyrosetta.rosetta.protocols.electron_density`
	`pyrosetta.rosetta.protocols.energy_based_clustering`
	`pyrosetta.rosetta.protocols.environment`
	`pyrosetta.rosetta.protocols.environment.claims`
	`pyrosetta.rosetta.protocols.enzdes`
	`pyrosetta.rosetta.protocols.enzdes.enzutil`
	`pyrosetta.rosetta.protocols.enzymatic_movers`
	`pyrosetta.rosetta.protocols.esm_perplexity`
	`pyrosetta.rosetta.protocols.evaluation`
	`pyrosetta.rosetta.protocols.evolution`
	`pyrosetta.rosetta.protocols.evolution.AlignmentCleanerTools`
	`pyrosetta.rosetta.protocols.farnesyl`
	`pyrosetta.rosetta.protocols.features`
	`pyrosetta.rosetta.protocols.features.helixAssembly`
	`pyrosetta.rosetta.protocols.features.RelevantResiduesMode`
	`pyrosetta.rosetta.protocols.features.strand_assembly`
	`pyrosetta.rosetta.protocols.fibril`
	`pyrosetta.rosetta.protocols.filters`
	`pyrosetta.rosetta.protocols.fldsgn`
	`pyrosetta.rosetta.protocols.fldsgn.filters`
	`pyrosetta.rosetta.protocols.fldsgn.potentials`
	`pyrosetta.rosetta.protocols.fldsgn.potentials.sspot`
	`pyrosetta.rosetta.protocols.fldsgn.topology`
	`pyrosetta.rosetta.protocols.flexpack`
	`pyrosetta.rosetta.protocols.flexpack.annealer`
	`pyrosetta.rosetta.protocols.flexpack.interaction_graph`
	`pyrosetta.rosetta.protocols.flexpack.rotamer_set`
	`pyrosetta.rosetta.protocols.flexpep_docking`
	`pyrosetta.rosetta.protocols.floppy_tail`
	`pyrosetta.rosetta.protocols.flxbb`
	`pyrosetta.rosetta.protocols.fold_from_loops`
	`pyrosetta.rosetta.protocols.fold_from_loops.constraint_generator`
	`pyrosetta.rosetta.protocols.fold_from_loops.filters`
	`pyrosetta.rosetta.protocols.fold_from_loops.movers`
	`pyrosetta.rosetta.protocols.fold_from_loops.selectors`
	`pyrosetta.rosetta.protocols.fold_from_loops.utils`
	`pyrosetta.rosetta.protocols.forge`
	`pyrosetta.rosetta.protocols.forge.build`
	`pyrosetta.rosetta.protocols.forge.build.BuildInstructionState`
	`pyrosetta.rosetta.protocols.forge.build.SegmentInsertConnectionScheme`
	`pyrosetta.rosetta.protocols.forge.components`
	`pyrosetta.rosetta.protocols.forge.components.VLB_VallMemoryUsage`
	`pyrosetta.rosetta.protocols.forge.constraints`
	`pyrosetta.rosetta.protocols.forge.methods`
	`pyrosetta.rosetta.protocols.forge.remodel`
	`pyrosetta.rosetta.protocols.frag_picker`
	`pyrosetta.rosetta.protocols.frag_picker.quota`
	`pyrosetta.rosetta.protocols.frag_picker.scores`
	`pyrosetta.rosetta.protocols.frags`
	`pyrosetta.rosetta.protocols.generalized_kinematic_closure`
	`pyrosetta.rosetta.protocols.generalized_kinematic_closure.filter`
	`pyrosetta.rosetta.protocols.generalized_kinematic_closure.perturber`
	`pyrosetta.rosetta.protocols.generalized_kinematic_closure.selector`
	`pyrosetta.rosetta.protocols.genetic_algorithm`
	`pyrosetta.rosetta.protocols.geometry`
	`pyrosetta.rosetta.protocols.glycan_docking`
	`pyrosetta.rosetta.protocols.glycopeptide_docking`
	`pyrosetta.rosetta.protocols.grafting`
	`pyrosetta.rosetta.protocols.grafting.simple_movers`
	`pyrosetta.rosetta.protocols.hbnet`
	`pyrosetta.rosetta.protocols.helical_bundle`
	`pyrosetta.rosetta.protocols.helical_bundle.parameters`
	`pyrosetta.rosetta.protocols.helical_bundle_predict`
	`pyrosetta.rosetta.protocols.helix_capper`
	`pyrosetta.rosetta.protocols.hotspot_hashing`
	`pyrosetta.rosetta.protocols.hotspot_hashing.movers`
	`pyrosetta.rosetta.protocols.hybridization`
	`pyrosetta.rosetta.protocols.hydrate`
	`pyrosetta.rosetta.protocols.idealize`
	`pyrosetta.rosetta.protocols.indel`
	`pyrosetta.rosetta.protocols.indexed_structure_store`
	`pyrosetta.rosetta.protocols.indexed_structure_store.filters`
	`pyrosetta.rosetta.protocols.indexed_structure_store.movers`
	`pyrosetta.rosetta.protocols.indexed_structure_store.search`
	`pyrosetta.rosetta.protocols.init`
	`pyrosetta.rosetta.protocols.interface`
	`pyrosetta.rosetta.protocols.jd2`
	`pyrosetta.rosetta.protocols.jd2.archive`
	`pyrosetta.rosetta.protocols.jd2.JobInputterInputSource`
	`pyrosetta.rosetta.protocols.jd3`
	`pyrosetta.rosetta.protocols.jd3.chunk_library`
	`pyrosetta.rosetta.protocols.jd3.chunk_library_inputters`
	`pyrosetta.rosetta.protocols.jd3.dag_node_managers`
	`pyrosetta.rosetta.protocols.jd3.deallocation`
	`pyrosetta.rosetta.protocols.jd3.full_model`
	`pyrosetta.rosetta.protocols.jd3.full_model_inputters`
	`pyrosetta.rosetta.protocols.jd3.job_distributors`
	`pyrosetta.rosetta.protocols.jd3.job_results`
	`pyrosetta.rosetta.protocols.jd3.job_summaries`
	`pyrosetta.rosetta.protocols.jd3.jobs`
	`pyrosetta.rosetta.protocols.jd3.output`
	`pyrosetta.rosetta.protocols.jd3.pose_inputters`
	`pyrosetta.rosetta.protocols.jd3.pose_outputters`
	`pyrosetta.rosetta.protocols.jd3.standard`
	`pyrosetta.rosetta.protocols.jobdist`
	`pyrosetta.rosetta.protocols.jumping`
	`pyrosetta.rosetta.protocols.kinematic_closure`
	`pyrosetta.rosetta.protocols.kinematic_closure.perturbers`
	`pyrosetta.rosetta.protocols.kinematic_closure.pivot_pickers`
	`pyrosetta.rosetta.protocols.kinematic_closure.solution_pickers`
	`pyrosetta.rosetta.protocols.kinmatch`
	`pyrosetta.rosetta.protocols.legacy_sewing`
	`pyrosetta.rosetta.protocols.legacy_sewing.sampling`
	`pyrosetta.rosetta.protocols.legacy_sewing.sampling.requirements`
	`pyrosetta.rosetta.protocols.legacy_sewing.scoring`
	`pyrosetta.rosetta.protocols.ligand_docking`
	`pyrosetta.rosetta.protocols.ligand_docking.ga_ligand_dock`
	`pyrosetta.rosetta.protocols.ligand_docking.ligand_options`
	`pyrosetta.rosetta.protocols.ligand_docking.rdf`
	`pyrosetta.rosetta.protocols.loop_build`
	`pyrosetta.rosetta.protocols.loop_grower`
	`pyrosetta.rosetta.protocols.loop_modeler`
	`pyrosetta.rosetta.protocols.loop_modeler.perturbers`
	`pyrosetta.rosetta.protocols.loop_modeling`
	`pyrosetta.rosetta.protocols.loop_modeling.refiners`
	`pyrosetta.rosetta.protocols.loop_modeling.samplers`
	`pyrosetta.rosetta.protocols.loop_modeling.utilities`
	`pyrosetta.rosetta.protocols.loophash`
	`pyrosetta.rosetta.protocols.loops`
	`pyrosetta.rosetta.protocols.loops.filters`
	`pyrosetta.rosetta.protocols.loops.loop_closure`
	`pyrosetta.rosetta.protocols.loops.loop_closure.ccd`
	`pyrosetta.rosetta.protocols.loops.loop_closure.jacobi`
	`pyrosetta.rosetta.protocols.loops.loop_closure.kinematic_closure`
	`pyrosetta.rosetta.protocols.loops.loop_mover`
	`pyrosetta.rosetta.protocols.loops.loop_mover.perturb`
	`pyrosetta.rosetta.protocols.loops.loop_mover.refine`
	`pyrosetta.rosetta.protocols.loops.loops_definers`
	`pyrosetta.rosetta.protocols.magnesium`
	`pyrosetta.rosetta.protocols.mainchain_potential`
	`pyrosetta.rosetta.protocols.make_rot_lib`
	`pyrosetta.rosetta.protocols.match`
	`pyrosetta.rosetta.protocols.match.downstream`
	`pyrosetta.rosetta.protocols.match.output`
	`pyrosetta.rosetta.protocols.match.upstream`
	`pyrosetta.rosetta.protocols.matdes`
	`pyrosetta.rosetta.protocols.md`
	`pyrosetta.rosetta.protocols.mean_field`
	`pyrosetta.rosetta.protocols.medal`
	`pyrosetta.rosetta.protocols.membrane`
	`pyrosetta.rosetta.protocols.membrane.benchmark`
	`pyrosetta.rosetta.protocols.membrane.geometry`
	`pyrosetta.rosetta.protocols.membrane.scoring`
	`pyrosetta.rosetta.protocols.membrane.symmetry`
	`pyrosetta.rosetta.protocols.membrane.visualize`
	`pyrosetta.rosetta.protocols.membrane_benchmark`
	`pyrosetta.rosetta.protocols.metal_interface`
	`pyrosetta.rosetta.protocols.minimization_packing`
	`pyrosetta.rosetta.protocols.minimization_packing.symmetry`
	`pyrosetta.rosetta.protocols.monte_carlo`
	`pyrosetta.rosetta.protocols.motif_grafting`
	`pyrosetta.rosetta.protocols.motif_grafting.movers`
	`pyrosetta.rosetta.protocols.motifs`
	`pyrosetta.rosetta.protocols.moves`
	`pyrosetta.rosetta.protocols.mpi_refinement`
	`pyrosetta.rosetta.protocols.multistage_rosetta_scripts`
	`pyrosetta.rosetta.protocols.multistage_rosetta_scripts.cluster`
	`pyrosetta.rosetta.protocols.multistage_rosetta_scripts.cluster.metrics`
	`pyrosetta.rosetta.protocols.multistate_design`
	`pyrosetta.rosetta.protocols.ncbb`
	`pyrosetta.rosetta.protocols.ncbb.oop`
	`pyrosetta.rosetta.protocols.neighbor`
	`pyrosetta.rosetta.protocols.network`
	`pyrosetta.rosetta.protocols.nmr`
	`pyrosetta.rosetta.protocols.nmr.pcs`
	`pyrosetta.rosetta.protocols.nmr.pre`
	`pyrosetta.rosetta.protocols.nmr.rdc`
	`pyrosetta.rosetta.protocols.noesy_assign`
	`pyrosetta.rosetta.protocols.normalmode`
	`pyrosetta.rosetta.protocols.optimize_weights`
	`pyrosetta.rosetta.protocols.pack_daemon`
	`pyrosetta.rosetta.protocols.pack_interface`
	`pyrosetta.rosetta.protocols.parser`
	`pyrosetta.rosetta.protocols.pb_potential`
	`pyrosetta.rosetta.protocols.pdbinfo_manipulations`
	`pyrosetta.rosetta.protocols.peptide_deriver`
	`pyrosetta.rosetta.protocols.pmut_scan`
	`pyrosetta.rosetta.protocols.pockets`
	`pyrosetta.rosetta.protocols.pose_creation`
	`pyrosetta.rosetta.protocols.pose_length_moves`
	`pyrosetta.rosetta.protocols.pose_metric_calculators`
	`pyrosetta.rosetta.protocols.pose_reporters`
	`pyrosetta.rosetta.protocols.pose_selectors`
	`pyrosetta.rosetta.protocols.pose_sewing`
	`pyrosetta.rosetta.protocols.pose_sewing.data_storage`
	`pyrosetta.rosetta.protocols.pose_sewing.filters`
	`pyrosetta.rosetta.protocols.pose_sewing.movers`
	`pyrosetta.rosetta.protocols.pose_sewing.simple_metrics`
	`pyrosetta.rosetta.protocols.protein_interface_design`
	`pyrosetta.rosetta.protocols.protein_interface_design.filters`
	`pyrosetta.rosetta.protocols.protein_interface_design.movers`
	`pyrosetta.rosetta.protocols.protein_mpnn`
	`pyrosetta.rosetta.protocols.ptm_prediction`
	`pyrosetta.rosetta.protocols.qsar`
	`pyrosetta.rosetta.protocols.qsar.scoring_grid`
	`pyrosetta.rosetta.protocols.quantum_annealing`
	`pyrosetta.rosetta.protocols.rbsegment_relax`
	`pyrosetta.rosetta.protocols.recces`
	`pyrosetta.rosetta.protocols.recces.options`
	`pyrosetta.rosetta.protocols.recces.params`
	`pyrosetta.rosetta.protocols.recces.sampler`
	`pyrosetta.rosetta.protocols.recces.sampler.rna`
	`pyrosetta.rosetta.protocols.recces.scratch`
	`pyrosetta.rosetta.protocols.recon_design`
	`pyrosetta.rosetta.protocols.relax`
	`pyrosetta.rosetta.protocols.relax.loop`
	`pyrosetta.rosetta.protocols.relax.membrane`
	`pyrosetta.rosetta.protocols.residue_optimization`
	`pyrosetta.rosetta.protocols.residue_selectors`
	`pyrosetta.rosetta.protocols.rigid`
	`pyrosetta.rosetta.protocols.rna`
	`pyrosetta.rosetta.protocols.rna.denovo`
	`pyrosetta.rosetta.protocols.rna.denovo.coarse`
	`pyrosetta.rosetta.protocols.rna.denovo.movers`
	`pyrosetta.rosetta.protocols.rna.denovo.output`
	`pyrosetta.rosetta.protocols.rna.movers`
	`pyrosetta.rosetta.protocols.rna.setup`
	`pyrosetta.rosetta.protocols.rosetta_scripts`
	`pyrosetta.rosetta.protocols.rotamer_recovery`
	`pyrosetta.rosetta.protocols.RotamerDump`
	`pyrosetta.rosetta.protocols.rpc`
	`pyrosetta.rosetta.protocols.sasa_scores`
	`pyrosetta.rosetta.protocols.score_filters`
	`pyrosetta.rosetta.protocols.scoring`
	`pyrosetta.rosetta.protocols.scoring.methods`
	`pyrosetta.rosetta.protocols.scoring.methods.pcs`
	`pyrosetta.rosetta.protocols.scoring.methods.pcs2`
	`pyrosetta.rosetta.protocols.scoring.methods.pcsTs1`
	`pyrosetta.rosetta.protocols.scoring.methods.pcsTs2`
	`pyrosetta.rosetta.protocols.scoring.methods.pcsTs3`
	`pyrosetta.rosetta.protocols.scoring.methods.pcsTs4`
	`pyrosetta.rosetta.protocols.scoring.methods.saxs`
	`pyrosetta.rosetta.protocols.seeded_abinitio`
	`pyrosetta.rosetta.protocols.sewing`
	`pyrosetta.rosetta.protocols.sewing.data_storage`
	`pyrosetta.rosetta.protocols.sewing.hashing`
	`pyrosetta.rosetta.protocols.sewing.movers`
	`pyrosetta.rosetta.protocols.sewing.requirements`
	`pyrosetta.rosetta.protocols.sewing.scoring`
	`pyrosetta.rosetta.protocols.sic_dock`
	`pyrosetta.rosetta.protocols.sic_dock.scores`
	`pyrosetta.rosetta.protocols.simple_ddg`
	`pyrosetta.rosetta.protocols.simple_filters`
	`pyrosetta.rosetta.protocols.simple_moves`
	`pyrosetta.rosetta.protocols.simple_moves.a3b_hbs`
	`pyrosetta.rosetta.protocols.simple_moves.asym_fold_and_dock`
	`pyrosetta.rosetta.protocols.simple_moves.bb_sampler`
	`pyrosetta.rosetta.protocols.simple_moves.bin_transitions`
	`pyrosetta.rosetta.protocols.simple_moves.chiral`
	`pyrosetta.rosetta.protocols.simple_moves.hbs`
	`pyrosetta.rosetta.protocols.simple_moves.oop`
	`pyrosetta.rosetta.protocols.simple_moves.rational_mc`
	`pyrosetta.rosetta.protocols.simple_moves.sidechain_moves`
	`pyrosetta.rosetta.protocols.simple_moves.triazolamer`
	`pyrosetta.rosetta.protocols.simple_pose_metric_calculators`
	`pyrosetta.rosetta.protocols.simple_task_operations`
	`pyrosetta.rosetta.protocols.sparta`
	`pyrosetta.rosetta.protocols.splice`
	`pyrosetta.rosetta.protocols.ss_prediction`
	`pyrosetta.rosetta.protocols.star`
	`pyrosetta.rosetta.protocols.stepwise`
	`pyrosetta.rosetta.protocols.stepwise.legacy`
	`pyrosetta.rosetta.protocols.stepwise.legacy.modeler`
	`pyrosetta.rosetta.protocols.stepwise.legacy.modeler.protein`
	`pyrosetta.rosetta.protocols.stepwise.legacy.modeler.rna`
	`pyrosetta.rosetta.protocols.stepwise.legacy.screener`
	`pyrosetta.rosetta.protocols.stepwise.modeler`
	`pyrosetta.rosetta.protocols.stepwise.modeler.align`
	`pyrosetta.rosetta.protocols.stepwise.modeler.movemap`
	`pyrosetta.rosetta.protocols.stepwise.modeler.options`
	`pyrosetta.rosetta.protocols.stepwise.modeler.packer`
	`pyrosetta.rosetta.protocols.stepwise.modeler.polar_hydrogens`
	`pyrosetta.rosetta.protocols.stepwise.modeler.precomputed`
	`pyrosetta.rosetta.protocols.stepwise.modeler.protein`
	`pyrosetta.rosetta.protocols.stepwise.modeler.protein.checker`
	`pyrosetta.rosetta.protocols.stepwise.modeler.protein.loop_close`
	`pyrosetta.rosetta.protocols.stepwise.modeler.rna`
	`pyrosetta.rosetta.protocols.stepwise.modeler.rna.bulge`
	`pyrosetta.rosetta.protocols.stepwise.modeler.rna.checker`
	`pyrosetta.rosetta.protocols.stepwise.modeler.rna.o2prime`
	`pyrosetta.rosetta.protocols.stepwise.modeler.rna.phosphate`
	`pyrosetta.rosetta.protocols.stepwise.modeler.rna.rigid_body`
	`pyrosetta.rosetta.protocols.stepwise.modeler.rna.sugar`
	`pyrosetta.rosetta.protocols.stepwise.modeler.working_parameters`
	`pyrosetta.rosetta.protocols.stepwise.monte_carlo`
	`pyrosetta.rosetta.protocols.stepwise.monte_carlo.mover`
	`pyrosetta.rosetta.protocols.stepwise.monte_carlo.mover.options`
	`pyrosetta.rosetta.protocols.stepwise.monte_carlo.options`
	`pyrosetta.rosetta.protocols.stepwise.monte_carlo.rna`
	`pyrosetta.rosetta.protocols.stepwise.monte_carlo.submotif`
	`pyrosetta.rosetta.protocols.stepwise.options`
	`pyrosetta.rosetta.protocols.stepwise.sampler`
	`pyrosetta.rosetta.protocols.stepwise.sampler.copy_dofs`
	`pyrosetta.rosetta.protocols.stepwise.sampler.input_streams`
	`pyrosetta.rosetta.protocols.stepwise.sampler.jump`
	`pyrosetta.rosetta.protocols.stepwise.sampler.protein`
	`pyrosetta.rosetta.protocols.stepwise.sampler.rigid_body`
	`pyrosetta.rosetta.protocols.stepwise.sampler.rna`
	`pyrosetta.rosetta.protocols.stepwise.sampler.screener`
	`pyrosetta.rosetta.protocols.stepwise.screener`
	`pyrosetta.rosetta.protocols.stepwise.setup`
	`pyrosetta.rosetta.protocols.struct_fragment`
	`pyrosetta.rosetta.protocols.surface_docking`
	`pyrosetta.rosetta.protocols.switches`
	`pyrosetta.rosetta.protocols.symmetric_docking`
	`pyrosetta.rosetta.protocols.symmetric_docking.membrane`
	`pyrosetta.rosetta.protocols.symmetry`
	`pyrosetta.rosetta.protocols.task_operations`
	`pyrosetta.rosetta.protocols.tcr`
	`pyrosetta.rosetta.protocols.testing`
	`pyrosetta.rosetta.protocols.toolbox`
	`pyrosetta.rosetta.protocols.toolbox.match_enzdes_util`
	`pyrosetta.rosetta.protocols.toolbox.pose_manipulation`
	`pyrosetta.rosetta.protocols.toolbox.py_inheritance_test`
	`pyrosetta.rosetta.protocols.toolbox.rigid_body`
	`pyrosetta.rosetta.protocols.toolbox.rotamer_set_operations`
	`pyrosetta.rosetta.protocols.toolbox.sample_around`
	`pyrosetta.rosetta.protocols.topology_broker`
	`pyrosetta.rosetta.protocols.topology_broker.claims`
	`pyrosetta.rosetta.protocols.topology_broker.weights`
	`pyrosetta.rosetta.protocols.trajectory`
	`pyrosetta.rosetta.protocols.trRosetta`
	`pyrosetta.rosetta.protocols.trRosetta_protocols`
	`pyrosetta.rosetta.protocols.trRosetta_protocols.constraint_generators`
	`pyrosetta.rosetta.protocols.trRosetta_protocols.movers`
	`pyrosetta.rosetta.protocols.ub_e2c`
	`pyrosetta.rosetta.protocols.unfolded_state_energy_calculator`
	`pyrosetta.rosetta.protocols.vardist_solaccess`
	`pyrosetta.rosetta.protocols.viewer`
	`pyrosetta.rosetta.protocols.viewer.graphics_states_param`
	`pyrosetta.rosetta.protocols.vip`
	`pyrosetta.rosetta.protocols.wum`
	`pyrosetta.rosetta.RDGeom`
	`pyrosetta.rosetta.RDKit`
	`pyrosetta.rosetta.std`
	`pyrosetta.rosetta.utility`
	`pyrosetta.rosetta.utility.CSI`
	`pyrosetta.rosetta.utility.excn`
	`pyrosetta.rosetta.utility.factory`
	`pyrosetta.rosetta.utility.file`
	`pyrosetta.rosetta.utility.graph`
	`pyrosetta.rosetta.utility.io`
	`pyrosetta.rosetta.utility.io.mpi_stream`
	`pyrosetta.rosetta.utility.json_spirit`
	`pyrosetta.rosetta.utility.json_spirit.internal_`
	`pyrosetta.rosetta.utility.keys`
	`pyrosetta.rosetta.utility.libsvm`
	`pyrosetta.rosetta.utility.options`
	`pyrosetta.rosetta.utility.pointer`
	`pyrosetta.rosetta.utility.py`
	`pyrosetta.rosetta.utility.signals`
	`pyrosetta.rosetta.utility.sql_database`
	`pyrosetta.rosetta.utility.tag`
	`pyrosetta.rosetta.utility.thread`
	`pyrosetta.rosetta.utility.tools`
	`pyrosetta.rosetta.utility.type_traits`
	`pyrosetta.rosetta.utility.type_traits.has_insertion_operator_implementation`
	`pyrosetta.rosetta.utility.xsd_util`
	`pyrosetta.rosetta.utility_exit_detail`
	`pyrosetta.teaching`
	`pyrosetta.tests`
	`pyrosetta.tests.bindings`
	`pyrosetta.tests.bindings.core`
	`pyrosetta.tests.bindings.core.test_pose`
	`pyrosetta.tests.distributed`
	`pyrosetta.tests.distributed.cluster`
	`pyrosetta.tests.distributed.test_dask_worker`
	`pyrosetta.tests.numeric`
	`pyrosetta.tests.protocols`
	`pyrosetta.tests.protocols.indexed_structure_store`
	`pyrosetta.toolbox`
	`pyrosetta.toolbox.atom_pair_energy`
	`pyrosetta.toolbox.cleaning`
	`pyrosetta.toolbox.extract_coords_pose`
	`pyrosetta.toolbox.generate_resfile`
	`pyrosetta.toolbox.mutants`
	`pyrosetta.toolbox.numpy_utils`
	`pyrosetta.toolbox.py_jobdistributor`
	`pyrosetta.toolbox.rcsb`
	`pyrosetta.utility`