- h -

• h1() : protocols::fldsgn::topology::HelixPairing
• h2() : protocols::fldsgn::topology::HelixPairing
• h3_base_type_enum_to_string() : protocols::antibody::AntibodyEnumManager
• h3_base_type_string_to_enum() : protocols::antibody::AntibodyEnumManager
• H3CterInsert() : protocols::antibody::H3CterInsert
• H3PerturbCCD() : protocols::antibody::H3PerturbCCD
• H3RefineCCD() : protocols::antibody::H3RefineCCD
• H_atom_id() : protocols::match::upstream::UpstreamResTypeGeometry
• H_pos() : protocols::match::upstream::ProteinBackboneBuildPoint
• HA_atom_id() : protocols::match::upstream::UpstreamResTypeGeometry
• HA_pos() : protocols::match::upstream::ProteinBackboneBuildPoint
• hack_assemble_next_loop_combination() : protocols::enzdes::EnzdesFlexBBProtocol
• hack_fillup_frag_designabilities() : protocols::enzdes::EnzdesFlexibleRegion
• HamiltonianExchange() : protocols::canonical_sampling::HamiltonianExchange
• handle_function_expression() : protocols::optimize_weights::WrappedOptEExpressionCreator , protocols::pack_daemon::EntityFuncExpressionCreator , protocols::pack_daemon::VectorExpressionCreator
• handle_interrupt() : protocols::jd2::archive::MPIArchiveJobDistributor , protocols::jd2::FileSystemJobDistributor , protocols::jd2::JobDistributor , protocols::jd2::MPIFileBufJobDistributor , protocols::jd2::MPIMultiCommJobDistributor , protocols::jd2::MPIWorkPartitionJobDistributor , protocols::jd2::MPIWorkPoolJobDistributor , protocols::jd2::MSDJobDistributor , protocols::jd2::ShuffleFileSystemJobDistributor
• handle_variable_expression() : protocols::optimize_weights::WrappedOptEExpressionCreator , protocols::pack_daemon::EntityFuncExpressionCreator , protocols::pack_daemon::VectorExpressionCreator
• handshake_stub_sets() : protocols::hotspot_hashing::HotspotStubSet
• has() : protocols::abinitio::StructureStore , protocols::loops::Loops , protocols::noesy_assign::PeakAssignmentResidueMap
• has_algorithm() : protocols::match::upstream::BuildSet
• has_another_job() : protocols::stepwise::setup::StepWiseCSA_JobDistributor , protocols::stepwise::setup::StepWiseJobDistributor , protocols::stepwise::setup::StepWiseMonteCarloJobDistributor
• has_another_pose() : protocols::stepwise::modeler::protein::InputStreamWithResidueInfo
• has_atom() : protocols::frag_picker::CSTalosIO , protocols::frag_picker::scores::AtomBasedConstraintsScore
• has_bulge() : protocols::fldsgn::topology::StrandPairing
• has_C_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_CA_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_CB_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_chainbreaks_to_close() : protocols::topology_broker::TopologyBroker
• has_chemical_shifts() : protocols::frag_picker::VallResidue
• has_cluster_for_cdr() : protocols::antibody::AntibodyInfo
• has_connected_resonances() : protocols::noesy_assign::Resonance
• has_constraints() : protocols::abinitio::Template
• has_dependencies() : protocols::forge::build::BuildInstruction
• has_domain() : protocols::toolbox::AllowInsert
• has_entry() : protocols::frag_picker::CSTalosIO , protocols::frag_picker::PhiPsiTalosIO
• has_evaluator() : protocols::jd2::archive::EvaluatedArchive
• has_exclude_residues_vector() : protocols::scoring::methods::pcs::PCS_Energy_parameters_manager , protocols::scoring::methods::pcsTs1::PCS_Energy_parameters_manager_Ts1 , protocols::scoring::methods::pcsTs2::PCS_Energy_parameters_manager_Ts2 , protocols::scoring::methods::pcsTs3::PCS_Energy_parameters_manager_Ts3 , protocols::scoring::methods::pcsTs4::PCS_Energy_parameters_manager_Ts4
• has_exclude_residues_vector_changed() : protocols::scoring::methods::pcs::PCS_Energy_parameters_manager , protocols::scoring::methods::pcsTs1::PCS_Energy_parameters_manager_Ts1 , protocols::scoring::methods::pcsTs2::PCS_Energy_parameters_manager_Ts2 , protocols::scoring::methods::pcsTs3::PCS_Energy_parameters_manager_Ts3 , protocols::scoring::methods::pcsTs4::PCS_Energy_parameters_manager_Ts4
• has_finished() : protocols::jd2::archive::Batch
• has_geometric_connection() : protocols::generalized_kinematic_closure::GeneralizedKIC
• has_H_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_HA_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_ideal_geometry() : protocols::simple_moves::MinimalRotamer
• has_label() : protocols::noesy_assign::CrossPeak3D , protocols::noesy_assign::CrossPeak4D , protocols::noesy_assign::CrossPeak , protocols::noesy_assign::CrossPeakInfo , protocols::noesy_assign::PeakAssignment
• has_model() : protocols::abinitio::PairingStatEntry
• has_N_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_next_level() : protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel
• has_nth_pose() : protocols::inputter::FastaInputter , protocols::inputter::Inputter , protocols::inputter::PDBInputter , protocols::inputter::SilentFileInputter
• has_O_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_open_slaves() : protocols::jd2::SingleFileBuffer
• has_open_status() : protocols::wum2::EndPoint
• has_option() : protocols::jd2::JD2ResourceManager
• has_orientation_and_pleating() : protocols::jumping::JumpSample
• has_pairings() : protocols::abinitio::Templates
• has_passport() : protocols::environment::ClientMover , protocols::environment::ProtectedConformation
• has_path() : protocols::motifs::Motif
• has_pose() : protocols::inputter::InputterStream
• has_precomputed_move() : protocols::stepwise::modeler::precomputed::PrecomputedLibraryMover
• has_profile() : protocols::frag_picker::VallResidue
• has_profile_struct() : protocols::frag_picker::VallResidue
• has_proton() : protocols::noesy_assign::CrossPeak , protocols::noesy_assign::PeakAssignment
• has_remark() : protocols::motifs::Motif
• has_residue() : protocols::noesy_assign::ResonanceList
• has_resnum() : protocols::stepwise::sampler::copy_dofs::ResidueAlternativeStepWiseSamplerComb
• has_resource_with_description() : protocols::jd2::JD2ResourceManager
• has_restype() : protocols::match::upstream::BuildSet
• has_score() : protocols::mpi_refinement::MultiObjective
• has_segment() : protocols::backrub::BackrubMover
• has_sequence_claimer() : protocols::topology_broker::TopologyBroker
• has_silent_in() : protocols::jd2::archive::Batch
• has_task() : protocols::toolbox::task_operations::STMStoredTask
• has_template() : protocols::abinitio::Templates
• has_type() : protocols::loops::loops_definers::LoopsDefinerFactory
• has_upstream_only_geomcsts() : protocols::match::Matcher
• has_value() : protocols::farna::BasePairStepLibrary
• has_vec_inconsistency() : protocols::antibody::AntibodyDatabaseManager
• hash() : protocols::environment::AutoCutData , protocols::genetic_algorithm::EntityElement , protocols::multistate_design::PosType
• hash_hits() : protocols::match::HitNeighborFinder
• hash_index() : protocols::loophash::LoopHashMap
• hash_sizes() : protocols::loophash::LoopHashLibrary
• hasNext() : protocols::viewer::triangleIterator
• have_edges_copy_alternate_to_current() : protocols::flexpack::interaction_graph::FlexbbNode
• have_edges_copy_alternate_to_current_following_flexbb_accept() : protocols::flexpack::interaction_graph::FlexbbNode
• have_mutated_residue() : protocols::simple_moves::sidechain_moves::SidechainMoverBase
• HbaGrid() : protocols::qsar::scoring_grid::HbaGrid
• HbdGrid() : protocols::qsar::scoring_grid::HbdGrid
• HBondAcceptorFilter() : protocols::ligand_docking::HBondAcceptorFilter
• HBondDonorFilter() : protocols::ligand_docking::HBondDonorFilter
• HBondFeatures() : protocols::features::HBondFeatures
• HBondFeaturesCreator() : protocols::features::HBondFeaturesCreator
• HBondParameterFeatures() : protocols::features::HBondParameterFeatures
• HBondParameterFeaturesCreator() : protocols::features::HBondParameterFeaturesCreator
• HbondsToAtomFilter() : protocols::protein_interface_design::filters::HbondsToAtomFilter
• HbondsToResidueFilter() : protocols::protein_interface_design::filters::HbondsToResidueFilter
• HbsPatcher() : protocols::simple_moves::hbs::HbsPatcher
• hConvergenceCheck() : protocols::abinitio::hConvergenceCheck , protocols::hybridization::hConvergenceCheck
• heat_after_cycles() : protocols::moves::MonteCarlo
• HeavyAtomFilter() : protocols::ligand_docking::HeavyAtomFilter
• HeavyAtomNormalization() : protocols::qsar::scoring_grid::HeavyAtomNormalization
• HedgeArchive() : protocols::abinitio::HedgeArchive
• HelicalFragment() : protocols::features::helixAssembly::HelicalFragment
• HelicalGaussianMover() : protocols::rbsegment_relax::HelicalGaussianMover
• helices() : protocols::fldsgn::topology::SS_Info2
• helix() : protocols::fldsgn::topology::BetaAlphaBetaMotif
• Helix() : protocols::fldsgn::topology::Helix
• helix() : protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::SS_Info2 , protocols::helical_bundle::MakeBundle
• helix_cop() : protocols::helical_bundle::MakeBundle
• helix_cycle() : protocols::fldsgn::topology::BetaAlphaBetaMotif
• helix_cycle_as_string() : protocols::fldsgn::topology::BetaAlphaBetaMotif
• helix_end() : protocols::fldsgn::potentials::sspot::HSPairPotential
• helix_id() : protocols::fldsgn::topology::SS_Info2
• helix_index() : protocols::helical_bundle::PerturbBundleOptions
• helix_length() : protocols::helical_bundle::MakeBundleHelix
• helix_not_defined() : protocols::helical_bundle::PerturbBundle
• helix_pairing() : protocols::fldsgn::topology::HelixPairingSet
• helix_pairings() : protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::topology::HelixPairingSet , protocols::jd2::parser::BluePrint
• HelixBundleFeatures() : protocols::features::helixAssembly::HelixBundleFeatures
• HelixBundleFeaturesCreator() : protocols::features::helixAssembly::HelixBundleFeaturesCreator
• HelixCapFeatures() : protocols::features::HelixCapFeatures
• HelixCapFeaturesCreator() : protocols::features::HelixCapFeaturesCreator
• helixjump_picks() : protocols::abinitio::Templates
• HelixKinkFilter() : protocols::fldsgn::filters::HelixKinkFilter
• HelixNCapperMover() : protocols::helix_capper::HelixNCapperMover
• HelixPairing() : protocols::fldsgn::topology::HelixPairing
• HelixPairingFilter() : protocols::fldsgn::filters::HelixPairingFilter
• HelixPairingSet() : protocols::fldsgn::topology::HelixPairingSet
• HelixRotate() : protocols::nonlocal::HelixRotate
• HelixScore() : protocols::sic_dock::HelixScore
• hetatm_prot_cst_weight() : protocols::hybridization::HybridizeSetup
• hetatm_self_cst_weight() : protocols::hybridization::HybridizeSetup
• HierarchicalLevel() : protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel
• highest_probability() : protocols::frag_picker::quota::ABEGO_SS_Config
• highres_reference_energy() : protocols::docking::DockingEnsemble
• HighResDocker() : protocols::ligand_docking::HighResDocker
• highval() : protocols::match::downstream::AtomGeometrySecMatchRPE
• hijack_loop_reading_code_set_loop_line_begin_token() : protocols::loops::PoseNumberedLoopFileReader
• hires_fpdock_protocol() : protocols::flexpep_docking::FlexPepDockingProtocol
• Histogram() : protocols::canonical_sampling::BiasEnergy::Histogram< T >
• histograms() : protocols::simple_moves::DOFHistogramRecorder
• hit() : protocols::match::downstream::TargetRotamerCoords
• hit_hash_begin() : protocols::match::HitHasher
• hit_hash_end() : protocols::match::HitHasher
• hit_list_begin() : protocols::match::Matcher
• hit_list_end() : protocols::match::Matcher
• HitHasher() : protocols::match::HitHasher
• HitNeighborFinder() : protocols::match::HitNeighborFinder
• hits() : protocols::match::Matcher
• hits_potentially_incompatible() : protocols::match::downstream::DownstreamBuilder , protocols::match::downstream::LigandConformerBuilder , protocols::match::downstream::RigidLigandBuilder
• hits_to_include_with_partial_match() : protocols::match::downstream::ClassicMatchAlgorithm , protocols::match::downstream::DownstreamAlgorithm , protocols::match::downstream::SecondaryMatcherToDownstreamResidue , protocols::match::downstream::SecondaryMatcherToUpstreamResidue , protocols::match::output::WriteUpstreamCoordinateKinemage
• HolesFilter() : protocols::simple_filters::HolesFilter
• host_chain() : protocols::protein_interface_design::movers::PlacementAuctionMover , protocols::protein_interface_design::movers::PlacementMinimizationMover , protocols::protein_interface_design::movers::PlaceSimultaneouslyMover
• hotspot_length() : protocols::hotspot_hashing::HotspotStubSet
• HotspotDisjointedFoldTreeMover() : protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover
• HotspotHasherMover() : protocols::protein_interface_design::movers::HotspotHasherMover
• HotspotStub() : protocols::hotspot_hashing::HotspotStub
• HotspotStubSet() : protocols::hotspot_hashing::HotspotStubSet
• hpairset() : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• HPatchCalculator() : protocols::toolbox::pose_metric_calculators::HPatchCalculator
• HPool_RMSD() : protocols::canonical_sampling::mc_convergence_checks::HPool_RMSD
• hs1_dist() : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HSSTriplet
• hs1_orient() : protocols::fldsgn::topology::HSSTriplet
• hs2_dist() : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HSSTriplet
• hs2_orient() : protocols::fldsgn::topology::HSSTriplet
• hs_angle() : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HSSTriplet
• hsheet_dist() : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HSSTriplet
• hsheet_elev_angle() : protocols::fldsgn::topology::BetaAlphaBetaMotif
• HSPairPotential() : protocols::fldsgn::potentials::sspot::HSPairPotential
• hss_triplet() : protocols::fldsgn::topology::HSSTripletSet
• hss_triplet_set() : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hss_triplets() : protocols::fldsgn::topology::HSSTripletSet , protocols::jd2::parser::BluePrint
• HSSTriplet() : protocols::fldsgn::topology::HSSTriplet
• HSSTripletFilter() : protocols::fldsgn::filters::HSSTripletFilter
• HSSTripletSet() : protocols::fldsgn::topology::HSSTripletSet
• ht_for_chitip_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• ht_for_chitip_atoms() : protocols::match::upstream::UpstreamResTypeGeometry
• hurry() : protocols::protein_interface_design::movers::LoopRemodel , protocols::symmetric_docking::SymDockProtocol
• hybridize() : protocols::seeded_abinitio::SegmentHybridizer
• HybridizeFoldtreeDynamic() : protocols::hybridization::HybridizeFoldtreeDynamic
• HybridizeProtocol() : protocols::hybridization::HybridizeProtocol
• HybridizeSetup() : protocols::hybridization::HybridizeSetup
• HybridizeSetupMover() : protocols::hybridization::HybridizeSetupMover
• HydrophobicityProfileSimilarity() : protocols::frag_picker::scores::HydrophobicityProfileSimilarity
• HydrophobicitySimilarity() : protocols::frag_picker::scores::HydrophobicitySimilarity