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• same_dimensions() : IMP::em::DensityMap
• same_origin() : IMP::em::DensityMap
• same_shape() : IMP::algebra::MultiArray< T, D >
• same_size() : IMP::algebra::MultiArray< T, D >
• same_start() : IMP::algebra::MultiArray< T, D >
• same_voxel_size() : IMP::em::DensityMap
• SampledDensityMap() : IMP::em::SampledDensityMap
• save_configuration() : IMP::ConfigurationSet
• scale() : IMP::saxs::RadialDistributionFunction , IMP::saxs::Profile
• Score() : IMP::saxs::Score
• score_combinations() : IMP::domino::DominoOptimizer
• set_added_and_removed_containers() : IMP::QuadContainer , IMP::SingletonContainer , IMP::TripletContainer , IMP::PairContainer
• set_after_evaluate_modifier() : IMP::container::PairsConstraint , IMP::container::QuadsConstraint , IMP::container::SingletonsConstraint , IMP::container::TripletsConstraint , IMP::core::PairConstraint , IMP::core::QuadConstraint , IMP::core::SingletonConstraint , IMP::core::TripletConstraint
• set_angle() : IMP::algebra::Rotation2D
• set_atom_type() : IMP::atom::Atom
• set_before_evaluate_modifier() : IMP::container::TripletsConstraint , IMP::core::PairConstraint , IMP::core::QuadConstraint , IMP::core::SingletonConstraint , IMP::core::TripletConstraint , IMP::container::PairsConstraint , IMP::container::QuadsConstraint , IMP::container::SingletonsConstraint
• set_bounding_box() : IMP::algebra::Grid3D< VT > , IMP::core::MCCGSampler
• set_component_name() : IMP::domino::JunctionTree
• set_configuration() : IMP::ConfigurationSet
• set_coordinate() : IMP::core::XYZ
• set_coordinates() : IMP::core::XYZ , IMP::core::RigidMember
• set_coordinates_are_optimized() : IMP::core::XYZ , IMP::core::RigidBody
• set_D_from_radius_in_angstroms() : IMP::atom::Diffusion
• set_data() : IMP::em::Image< T >
• set_dimensions() : IMP::em::ImageHeader
• set_enclosing_radius() : IMP::core::XYZR
• set_enclosing_sphere() : IMP::core::XYZR
• set_fAngle1() : IMP::em::ImageHeader
• set_fFlag() : IMP::em::ImageHeader
• set_file_name() : IMP::display::Writer
• set_float_keys() : IMP::core::MoverBase
• set_header() : IMP::em::ImageHeader
• set_id() : IMP::atom::Chain
• set_identity() : IMP::algebra::Matrix2D< T >
• set_image_type() : IMP::em::ImageHeader
• set_int_keys() : IMP::core::MoverBase
• set_internal_coordinates() : IMP::core::RigidMember
• set_internal_transformation() : IMP::core::RigidMember
• set_is_incremental() : IMP::Model
• set_k() : IMP::core::Harmonic , IMP::helper::SimpleConnectivity , IMP::helper::SimpleDistance , IMP::helper::SimpleDiameter
• set_log_level() : IMP::Object
• set_max_change() : IMP::core::ConjugateGradients
• set_max_monte_carlo_step_size() : IMP::core::MCCGSampler
• set_maximum_score() : IMP::Sampler
• set_mean() : IMP::core::Harmonic , IMP::helper::SimpleConnectivity , IMP::helper::SimpleDistance , IMP::helper::SimpleDiameter
• set_minimum_feature_size() : IMP::atom::BrownianDynamics
• set_model() : IMP::Optimizer , IMP::Restraint , IMP::ScoreState
• set_move_probability() : IMP::core::MonteCarlo
• set_movers() : IMP::core::MonteCarlo
• set_n() : IMP::container::MaximumPairRestraint , IMP::container::MaximumQuadRestraint , IMP::container::MaximumSingletonRestraint , IMP::container::MaximumTripletRestraint , IMP::container::MinimumPairRestraint , IMP::container::MinimumQuadRestraint , IMP::container::MinimumSingletonRestraint , IMP::container::MinimumTripletRestraint
• set_name() : IMP::example::ExampleDecorator
• set_nodes() : IMP::domino::JunctionTree
• set_number_of_attempts() : IMP::core::MCCGSampler
• set_number_of_columns() : IMP::em::ImageHeader
• set_number_of_conjugate_gradient_steps() : IMP::core::MCCGSampler
• set_number_of_monte_carlo_steps() : IMP::core::MCCGSampler
• set_number_of_rows() : IMP::em::ImageHeader
• set_number_of_slices() : IMP::em::ImageHeader
• set_number_of_voxels() : IMP::em::DensityHeader
• set_old_rot() : IMP::em::ImageHeader
• set_optimizer_states() : IMP::Optimizer
• set_origin() : IMP::em::DensityMap
• set_pair_containers() : IMP::container::PairContainerSet
• set_pair_filters() : IMP::container::CloseBipartitePairContainer , IMP::container::ClosePairContainer
• set_pair_score() : IMP::core::TypedPairScore
• set_parameters() : IMP::em::FilterByThreshold< T, D > , IMP::em::MapFilterByThreshold
• set_params() : IMP::em::KernelParameters
• set_particle() : IMP::core::TableRefiner
• set_particle_type() : IMP::core::TypedPairScore
• set_particles() : IMP::atom::VelocityScalingOptimizerState , IMP::em::SampledDensityMap
• set_quad_containers() : IMP::container::QuadContainerSet
• set_residue_indexes() : IMP::atom::Fragment
• set_residue_type() : IMP::atom::Residue
• set_residues() : IMP::atom::CHARMMSegmentTopology
• set_resolution() : IMP::em::DensityHeader
• set_restraint_file() : IMP::domino::RestraintEvaluatorFromFile
• set_restraints() : IMP::Model , IMP::RestraintSet
• set_return_best() : IMP::core::MonteCarlo
• set_reversed() : IMP::em::ImageHeader
• set_score_states() : IMP::Model
• set_segments() : IMP::atom::CHARMMTopology
• set_singleton_containers() : IMP::container::SingletonContainerSet
• set_skip_steps() : IMP::atom::VelocityScalingOptimizerState
• set_slack() : IMP::core::CoverRefined
• set_sphere() : IMP::core::XYZR
• set_start() : IMP::algebra::MultiArray< T, D >
• set_stddev() : IMP::helper::SimpleConnectivity , IMP::helper::SimpleDistance , IMP::helper::SimpleDiameter
• set_step_size() : IMP::core::SteepestDescent
• set_stop_score() : IMP::gsl::GSLOptimizer
• set_surface_shell() : IMP::em::SurfaceShellDensityMap
• set_temperature() : IMP::atom::VelocityScalingOptimizerState
• set_threshold() : IMP::core::SteepestDescent , IMP::gsl::ConjugateGradients , IMP::core::ConjugateGradients
• set_time_step() : IMP::atom::MolecularDynamics
• set_title() : IMP::em::ImageHeader
• set_total_score() : IMP::domino::CombState
• set_transformation() : IMP::core::TransformedDistancePairScore , IMP::core::RigidBody
• set_translation() : IMP::algebra::Transformation2D
• set_triplet_containers() : IMP::container::TripletContainerSet
• set_value() : IMP::em::DensityMap
• set_velocity_cap() : IMP::atom::MolecularDynamics
• set_was_used() : IMP::Object
• set_xorigin() : IMP::em::DensityHeader
• set_yorigin() : IMP::em::DensityHeader
• set_zero() : IMP::algebra::Matrix2D< T >
• set_zorigin() : IMP::em::DensityHeader
• SetLogState() : IMP::SetLogState
• setup_as_rigid_body() : IMP::core::RigidBody
• setup_particle() : IMP::atom::CHARMMAtom , IMP::atom::Domain , IMP::atom::LennardJones , IMP::core::XYZR , IMP::core::RigidBody , IMP::atom::Charged , IMP::atom::Domain , IMP::atom::Atom , IMP::atom::Charged , IMP::atom::Diffusion , IMP::atom::Atom , IMP::atom::Residue , IMP::atom::SimulationParameters , IMP::atom::Dihedral , IMP::Decorator , IMP::core::XYZR , IMP::atom::Diffusion , IMP::example::ExampleDecorator , IMP::atom::Fragment , IMP::atom::Hierarchy , IMP::core::RigidBody , IMP::em::Voxel , IMP::domino::Transformation , IMP::core::XYZ , IMP::core::Hierarchy , IMP::core::XYZR , IMP::core::Hierarchy , IMP::atom::Angle
• show() : IMP::saxs::RadialDistributionFunction , IMP::saxs::FormFactorTable , IMP::algebra::LinearFit , IMP::saxs::DeltaDistributionFunction , IMP::core::Hierarchy , IMP::algebra::Transformation2D , IMP::VersionInfo , IMP::Optimizer , IMP::Object , IMP::Refiner , IMP::atom::Hierarchy , IMP::domino::RestraintGraph , IMP::algebra::Rotation2D , IMP::atom::Hierarchy , IMP::algebra::ParabolicFit
• show_all() : IMP::KeyBase< ID, LazyAdd >
• show_projection_params() : IMP::em::ImageHeader
• show_sampling_space() : IMP::domino::RestraintGraph
• show_space() : IMP::domino::DiscreteSampler , IMP::domino::PermutationSampler
• simulate() : IMP::atom::BrownianDynamics
• SingletonConstraint() : IMP::core::SingletonConstraint
• SingletonContainerSet() : IMP::container::SingletonContainerSet
• SingletonFunctor() : IMP::SingletonFunctor
• SingletonRestraint() : IMP::core::SingletonRestraint
• SingletonsConstraint() : IMP::container::SingletonsConstraint
• SingletonsOptimizerState() : IMP::container::SingletonsOptimizerState
• SingletonsRestraint() : IMP::container::SingletonsRestraint
• size() : IMP::saxs::Profile
• sort() : IMP::VectorOfRefCounted< RC, Policy >
• SpherePatch3D() : IMP::algebra::SpherePatch3D
• SphericalVector3D() : IMP::algebra::SphericalVector3D
• SpiderImageReaderWriter() : IMP::em::SpiderImageReaderWriter< T >
• SpiderMapReaderWriter() : IMP::em::SpiderMapReaderWriter
• squared_difference() : IMP::algebra::MultiArray< T, D >
• StateAdaptor() : IMP::misc::StateAdaptor
• std_normalize() : IMP::em::DensityMap
• sum_elements() : IMP::algebra::MultiArray< T, D >
• sum_partial_profiles() : IMP::saxs::Profile
• sum_squared_elements() : IMP::algebra::MultiArray< T, D >
• SurfaceShellDensityMap() : IMP::em::SurfaceShellDensityMap
• SymmetrySampler() : IMP::domino::SymmetrySampler