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IMP Reference Guide
develop.63b38c487d,2024/12/30
The Integrative Modeling Platform
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This is the complete list of members for IMP::isd::CysteineCrossLinkRestraint, including all inherited members.
| add_contribution(ParticleIndexAdaptor p1, ParticleIndexAdaptor p2) (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| add_contribution(ParticleIndexes p1, ParticleIndexes p2) (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| clear_caches() | IMP::Object | virtual |
| create_current_decomposition() const | IMP::Restraint | |
| create_decomposition() const | IMP::Restraint | |
| create_scoring_function(double weight=1.0, double max=NO_MAX) const | IMP::Restraint | virtual |
| CysteineCrossLinkRestraint(Model *m, ParticleIndexAdaptor beta, ParticleIndexAdaptor sigma, ParticleIndexAdaptor epsilon, ParticleIndexAdaptor weight, CrossLinkData *data, double fexp) | IMP::isd::CysteineCrossLinkRestraint | |
| CysteineCrossLinkRestraint(Model *m, ParticleIndexAdaptor beta, ParticleIndexAdaptor sigma, ParticleIndexAdaptor epsilon, ParticleIndexAdaptor weight, CrossLinkData *data, CysteineCrossLinkData *ccldata) (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| CysteineCrossLinkRestraint() (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| do_add_score_and_derivatives(ScoreAccumulator sa) const (defined in IMP::Restraint) | IMP::Restraint | protectedvirtual |
| do_add_score_and_derivatives_moved(ScoreAccumulator sa, const ParticleIndexes &moved_pis, const ParticleIndexes &reset_pis) const (defined in IMP::Restraint) | IMP::Restraint | protectedvirtual |
| do_create_current_decomposition() const | IMP::Restraint | protectedvirtual |
| do_create_decomposition() const | IMP::Restraint | protectedvirtual |
| do_destroy() | IMP::Object | protectedvirtual |
| do_get_inputs() const override | IMP::isd::CysteineCrossLinkRestraint | virtual |
| do_get_interactions() const | IMP::ModelObject | protectedvirtual |
| do_get_outputs() const override | IMP::Restraint | protectedvirtual |
| evaluate(bool calc_derivs) const | IMP::Restraint | |
| evaluate_if_below(bool calc_derivatives, double max) const | IMP::Restraint | |
| evaluate_if_good(bool calc_derivatives) const | IMP::Restraint | |
| evaluate_moved(bool calc_derivs, const ParticleIndexes &moved_pis, const ParticleIndexes &reset_pis) const | IMP::Restraint | |
| evaluate_moved_if_below(bool calc_derivatives, const ParticleIndexes &moved_pis, const ParticleIndexes &reset_pis, double max) const | IMP::Restraint | |
| evaluate_moved_if_good(bool calc_derivatives, const ParticleIndexes &moved_pis, const ParticleIndexes &reset_pis) const | IMP::Restraint | |
| get_CB_coordinates(const ParticleIndexes &ps) const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_check_level() const (defined in IMP::Object) | IMP::Object | |
| get_distances() const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_dynamic_info() const | IMP::Restraint | virtual |
| get_frequencies() const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_has_dependencies() const | IMP::ModelObject | |
| get_has_required_score_states() const | IMP::ModelObject | |
| get_inputs() const | IMP::ModelObject | |
| get_interactions() const | IMP::ModelObject | |
| get_is_aggregate() const | IMP::Restraint | |
| get_last_last_score() const | IMP::Restraint | |
| get_last_score() const | IMP::Restraint | virtual |
| get_log_level() const (defined in IMP::Object) | IMP::Object | |
| get_maximum_score() const (defined in IMP::Restraint) | IMP::Restraint | |
| get_model() const (defined in IMP::ModelObject) | IMP::ModelObject | |
| get_model_frequency() const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_name() const (defined in IMP::Object) | IMP::Object | |
| get_normal_pdf(double mean, double sigma, double x) const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_number_of_contributions() const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_outputs() const | IMP::ModelObject | |
| get_probability() const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_required_score_states() const | IMP::ModelObject | |
| get_score() const | IMP::Restraint | |
| get_standard_error() const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_static_info() const | IMP::Restraint | virtual |
| get_truncated_normalization(double mean, double sigma) const (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | |
| get_type_name() const override (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | virtual |
| get_version_info() const override | IMP::isd::CysteineCrossLinkRestraint | virtual |
| get_was_good() const | IMP::Restraint | |
| get_weight() const (defined in IMP::Restraint) | IMP::Restraint | |
| handle_set_has_required_score_states(bool) | IMP::ModelObject | protectedvirtual |
| is_aggregate_ (defined in IMP::Restraint) | IMP::Restraint | protected |
| ModelObject(Model *m, std::string name) (defined in IMP::ModelObject) | IMP::ModelObject | |
| ModelObject() (defined in IMP::ModelObject) | IMP::ModelObject | |
| NonCopyable() (defined in IMP::NonCopyable) | IMP::NonCopyable | protected |
| Object(std::string name) | IMP::Object | protected |
| Restraint(Model *m, std::string name) | IMP::Restraint | |
| Restraint() | IMP::Restraint | |
| set_check_level(CheckLevel l) | IMP::Object | |
| set_has_dependencies(bool tf) | IMP::ModelObject | |
| set_has_required_score_states(bool tf) | IMP::ModelObject | |
| set_log_level(LogLevel l) | IMP::Object | |
| set_maximum_score(double s) (defined in IMP::Restraint) | IMP::Restraint | |
| set_name(std::string name) (defined in IMP::Object) | IMP::Object | |
| set_was_used(bool tf) const | IMP::Object | |
| set_weight(Float weight) (defined in IMP::Restraint) | IMP::Restraint | |
| show(std::ostream &out=std::cout) const (defined in IMP::Object) | IMP::Object | |
| unprotected_evaluate(IMP::DerivativeAccumulator *accum) const override | IMP::isd::CysteineCrossLinkRestraint | virtual |
| unprotected_evaluate_if_below(DerivativeAccumulator *da, double max) const | IMP::Restraint | virtual |
| unprotected_evaluate_if_good(DerivativeAccumulator *da, double max) const | IMP::Restraint | virtual |
| unprotected_evaluate_moved(DerivativeAccumulator *da, const ParticleIndexes &moved_pis, const ParticleIndexes &reset_pis) const | IMP::Restraint | virtual |
| unprotected_evaluate_moved_if_below(DerivativeAccumulator *da, const ParticleIndexes &moved_pis, const ParticleIndexes &reset_pis, double max) const (defined in IMP::Restraint) | IMP::Restraint | virtual |
| unprotected_evaluate_moved_if_good(DerivativeAccumulator *da, const ParticleIndexes &moved_pis, const ParticleIndexes &reset_pis, double max) const (defined in IMP::Restraint) | IMP::Restraint | virtual |
| ~CysteineCrossLinkRestraint() (defined in IMP::isd::CysteineCrossLinkRestraint) | IMP::isd::CysteineCrossLinkRestraint | virtual |
| ~ModelObject() (defined in IMP::ModelObject) | IMP::ModelObject | |
| ~Object() (defined in IMP::Object) | IMP::Object | virtual |