| add_mover(MonteCarloMover *obj) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| add_movers(const MonteCarloMovers &objs) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| add_optimizer_state(OptimizerState *obj) (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| add_optimizer_states(const OptimizerStates &objs) (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| clear_caches() | IMP::base::Object | virtual |
| clear_movers() (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| clear_optimizer_states() (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| clear_range_cache() | IMP::kernel::Optimizer | |
| do_accept_or_reject_move(double score, double last, double proposal_ratio) | IMP::core::MonteCarlo | protected |
| do_accept_or_reject_move(double score, double proposal_ratio) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | protected |
| do_destroy() | IMP::base::Object | virtual |
| do_evaluate(const kernel::ParticleIndexes &) const | IMP::isd::HybridMonteCarlo | virtual |
| do_get_inputs() const | IMP::kernel::Optimizer | protectedvirtual |
| do_get_interactions() const | IMP::kernel::ModelObject | protectedvirtual |
| do_get_outputs() const | IMP::kernel::Optimizer | protectedvirtual |
| do_move() (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | protected |
| do_optimize(unsigned int max_steps) | IMP::core::MonteCarlo | protectedvirtual |
| do_step() | IMP::isd::HybridMonteCarlo | virtual |
| get_best_accepted_energy() const | IMP::core::MonteCarlo | |
| get_check_level() const (defined in IMP::base::Object) | IMP::base::Object | |
| get_derivative(FloatIndex fi) const | IMP::kernel::Optimizer | |
| get_has_dependencies() const | IMP::kernel::ModelObject | |
| get_has_movers() (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_has_optimizer_states() (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| get_has_required_score_states() const | IMP::kernel::ModelObject | |
| get_incremental_scoring_function() const (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_inputs() const | IMP::kernel::ModelObject | |
| get_interactions() const | IMP::kernel::ModelObject | |
| get_is_part_of_model() const | IMP::kernel::ModelObject | |
| get_kinetic_energy() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| get_kt() const (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_last_accepted_energy() const | IMP::core::MonteCarlo | |
| get_last_score() const | IMP::kernel::Optimizer | |
| get_log_level() const (defined in IMP::base::Object) | IMP::base::Object | |
| get_maximum_difference() const (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_md() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| get_model() const (defined in IMP::kernel::ModelObject) | IMP::kernel::ModelObject | |
| get_movable_particles() const | IMP::core::MonteCarlo | protected |
| get_mover(unsigned int i) const (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_movers() const (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_name() const (defined in IMP::base::Object) | IMP::base::Object | |
| get_number_of_accepted_steps() const | IMP::core::MonteCarlo | |
| get_number_of_forward_steps() const | IMP::core::MonteCarlo | |
| get_number_of_md_steps() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| get_number_of_movers() const (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_number_of_optimizer_states() const (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| get_number_of_proposed_steps() const | IMP::core::MonteCarlo | |
| get_number_of_upward_steps() const | IMP::core::MonteCarlo | |
| get_optimized_attributes() const | IMP::kernel::Optimizer | |
| get_optimizer_state(unsigned int i) const (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| get_optimizer_state_inputs() const (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | protected |
| get_optimizer_states() const (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| get_outputs() const | IMP::kernel::ModelObject | |
| get_persistence() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| get_potential_energy() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| get_required_score_states() const | IMP::kernel::ModelObject | |
| get_restraints() const | IMP::kernel::Optimizer | |
| get_scaled_derivative(FloatIndex fi) const | IMP::kernel::Optimizer | |
| get_scaled_value(FloatIndex fi) const | IMP::kernel::Optimizer | |
| get_score_threshold() const | IMP::kernel::Optimizer | |
| get_scoring_function() const | IMP::kernel::Optimizer | |
| get_stop_on_good_score() const (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| get_timestep() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| get_total_energy() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| get_type_name() const (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | virtual |
| get_use_incremental_scoring_function() const (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| get_value(FloatIndex fi) const | IMP::kernel::Optimizer | |
| get_version_info() const | IMP::isd::HybridMonteCarlo | virtual |
| get_width(FloatKey k) const | IMP::kernel::Optimizer | |
| handle_set_has_required_score_states(bool) | IMP::kernel::ModelObject | protectedvirtual |
| HybridMonteCarlo(kernel::Model *m, Float kT=1.0, unsigned steps=100, Float timestep=1.0, unsigned persistence=1) (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| ModelObject(kernel::Model *m, std::string name) (defined in IMP::kernel::ModelObject) | IMP::kernel::ModelObject | |
| ModelObject(std::string name) | IMP::kernel::ModelObject | |
| MonteCarlo(kernel::Model *m) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| MonteCarlo() | IMP::core::MonteCarlo | |
| NonCopyable() (defined in IMP::base::NonCopyable) | IMP::base::NonCopyable | protected |
| Object(std::string name) | IMP::base::Object | protected |
| Object() | IMP::base::Object | protected |
| optimize(unsigned int max_steps) | IMP::kernel::Optimizer | |
| Optimizer(kernel::Model *m, std::string name="Optimizer %1%") (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| Optimizer() | IMP::kernel::Optimizer | |
| remove_mover(MonteCarloMover *d) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| remove_movers(const MonteCarloMovers &d) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| remove_optimizer_state(OptimizerState *d) (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| remove_optimizer_states(const OptimizerStates &d) (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| reserve_movers(unsigned int sz) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| reserve_optimizer_states(unsigned int sz) (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| reset_statistics() (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| set_check_level(CheckLevel l) | IMP::base::Object | |
| set_has_dependencies(bool tf) | IMP::kernel::ModelObject | |
| set_has_required_score_states(bool tf) | IMP::kernel::ModelObject | |
| set_incremental_scoring_function(IncrementalScoringFunction *isf) | IMP::core::MonteCarlo | |
| set_kt(Float t) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| set_log_level(LogLevel l) | IMP::base::Object | |
| set_maximum_difference(double d) | IMP::core::MonteCarlo | |
| set_model(kernel::Model *m) | IMP::kernel::ModelObject | virtual |
| set_movers(const MonteCarloMovers &ps) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| set_movers_order(const MonteCarloMovers &objs) (defined in IMP::core::MonteCarlo) | IMP::core::MonteCarlo | |
| set_name(std::string name) (defined in IMP::base::Object) | IMP::base::Object | |
| set_number_of_md_steps(unsigned nsteps) (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| set_optimizer_states(const OptimizerStates &ps) (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| set_optimizer_states_order(const OptimizerStates &objs) (defined in IMP::kernel::Optimizer) | IMP::kernel::Optimizer | |
| set_persistence(unsigned persistence=1) (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| set_restraints(const RestraintsTemp &rs) | IMP::kernel::Optimizer | |
| set_return_best(bool tf) | IMP::core::MonteCarlo | |
| set_scaled_value(FloatIndex fi, Float v) const | IMP::kernel::Optimizer | |
| set_score_threshold(double s) | IMP::kernel::Optimizer | |
| set_scoring_function(ScoringFunctionAdaptor sf) | IMP::kernel::Optimizer | virtual |
| set_stop_on_good_score(bool tf) | IMP::kernel::Optimizer | |
| set_timestep(Float ts) (defined in IMP::isd::HybridMonteCarlo) | IMP::isd::HybridMonteCarlo | |
| set_value(FloatIndex fi, double v) const | IMP::kernel::Optimizer | |
| set_was_used(bool tf) const | IMP::base::Object | |
| show(std::ostream &out=std::cout) const (defined in IMP::base::Object) | IMP::base::Object | |
| update_states() const | IMP::kernel::Optimizer | protected |
| width(FloatKey k) const | IMP::kernel::Optimizer | |
| ~ModelObject() (defined in IMP::kernel::ModelObject) | IMP::kernel::ModelObject | |
