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IMP Reference Guide
2.18.0
The Integrative Modeling Platform
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This variant of Monte Carlo uses basis hopping. More...
#include <IMP/core/MonteCarlo.h>
Inheritance diagram for IMP::core::MonteCarloWithBasinHopping:This variant of Monte Carlo uses basis hopping.
Basin hopping is where, after a move, a local optimizer is used to relax the model before the energy computation. However, the pre-relaxation state of the model is used as the starting point for the next step. The idea is that models are accepted or rejected based on the score of the nearest local minima, but they can still climb the barriers in between as the model is not reset to the minima after each step.
Definition at line 261 of file MonteCarlo.h.
Public Member Functions | |
| MonteCarloWithBasinHopping (Optimizer *opt, unsigned int ns) | |
| virtual std::string | get_type_name () const override |
| virtual ::IMP::VersionInfo | get_version_info () const override |
| Get information about the module and version of the object. More... | |
| Public Member Functions inherited from IMP::core::MonteCarloWithLocalOptimization | |
| MonteCarloWithLocalOptimization (Optimizer *opt, unsigned int steps) | |
| Optimizer * | get_local_optimizer () const |
| unsigned int | get_number_of_steps () const |
| Public Member Functions inherited from IMP::core::MonteCarlo | |
| MonteCarlo (Model *m) | |
| double | get_best_accepted_energy () const |
| If return best is on, returns the best energy found so far. More... | |
| IncrementalScoringFunction * | get_incremental_scoring_function () const |
| double | get_last_accepted_energy () const |
| Return the energy of the last accepted state. More... | |
| double | get_maximum_difference () const |
| double | get_score_threshold () const |
| Get the score threshold. More... | |
| bool | get_use_incremental_scoring_function () const |
| void | set_incremental_scoring_function (IncrementalScoringFunction *isf) |
| void | set_maximum_difference (double d) |
| void | set_return_best (bool tf) |
| void | set_score_moved (bool mv) |
| If set true (default false), only rescore moved particles. More... | |
| void | set_score_threshold (double s) |
| Set the score threshold. More... | |
| void | set_kt (Float t) |
| Float | get_kt () const |
| unsigned int | get_number_of_downward_steps () const |
| Return how many times the optimizer has stepped to lower score. More... | |
| unsigned int | get_number_of_upward_steps () const |
| Return how many times the optimizer has stepped to higher score. More... | |
| unsigned int | get_number_of_proposed_steps () const |
| Get number of proposed moves. More... | |
| unsigned int | get_number_of_accepted_steps () const |
| Get number of accepted moves. More... | |
| void | reset_statistics () |
| void | remove_mover (MonteCarloMover *d) |
| void | remove_movers (const MonteCarloMovers &d) |
| void | set_movers (const MonteCarloMovers &ps) |
| void | set_movers_order (const MonteCarloMovers &objs) |
| unsigned int | add_mover (MonteCarloMover *obj) |
| void | add_movers (const MonteCarloMovers &objs) |
| void | clear_movers () |
| unsigned int | get_number_of_movers () const |
| bool | get_has_movers () |
| MonteCarloMover * | get_mover (unsigned int i) const |
| MonteCarloMovers | get_movers () const |
| void | erase_mover (unsigned int i) |
| void | reserve_movers (unsigned int sz) |
| Public Member Functions inherited from IMP::Optimizer | |
| Optimizer (Model *m, std::string name="Optimizer %1%") | |
| double | get_last_score () const |
| Return the score found in the last evaluate. More... | |
| ScoringFunction * | get_scoring_function () const |
| Return the scoring function that is being used. More... | |
| bool | get_stop_on_good_score () const |
| double | optimize (unsigned int max_steps) |
| Optimize the model for up to max_steps iterations. More... | |
| virtual void | set_scoring_function (ScoringFunctionAdaptor sf) |
| Set the scoring function to use. More... | |
| void | set_stop_on_good_score (bool tf) |
| void | remove_optimizer_state (OptimizerState *d) |
| void | remove_optimizer_states (const OptimizerStates &d) |
| void | set_optimizer_states (const OptimizerStates &ps) |
| void | set_optimizer_states_order (const OptimizerStates &objs) |
| unsigned int | add_optimizer_state (OptimizerState *obj) |
| void | add_optimizer_states (const OptimizerStates &objs) |
| void | clear_optimizer_states () |
| unsigned int | get_number_of_optimizer_states () const |
| bool | get_has_optimizer_states () |
| OptimizerState * | get_optimizer_state (unsigned int i) const |
| OptimizerStates | get_optimizer_states () const |
| void | erase_optimizer_state (unsigned int i) |
| void | reserve_optimizer_states (unsigned int sz) |
| Public Member Functions inherited from IMP::ModelObject | |
| ModelObject (Model *m, std::string name) | |
| bool | get_has_dependencies () const |
| Return whether this object has dependencies computed. More... | |
| bool | get_has_required_score_states () const |
| Return whether score states are computed. More... | |
| ModelObjectsTemp | get_inputs () const |
| ModelObjectsTemps | get_interactions () const |
| Get the interacting sets induced by this ModelObject. More... | |
| Model * | get_model () const |
| ModelObjectsTemp | get_outputs () const |
| const ScoreStatesTemp & | get_required_score_states () const |
| Get the score states that are ancestors of this in the dependency graph. More... | |
| void | set_has_dependencies (bool tf) |
| Either invalidate the dependencies or ensure they are correct. More... | |
| void | set_has_required_score_states (bool tf) |
| Compute the required score states. More... | |
| Public Member Functions inherited from IMP::Object | |
| virtual void | clear_caches () |
| CheckLevel | get_check_level () const |
| LogLevel | get_log_level () const |
| void | set_check_level (CheckLevel l) |
| void | set_log_level (LogLevel l) |
| Set the logging level used in this object. More... | |
| void | set_was_used (bool tf) const |
| void | show (std::ostream &out=std::cout) const |
| const std::string & | get_name () const |
| void | set_name (std::string name) |
Protected Member Functions | |
| virtual void | do_step () override |
| a class that inherits from this should override this method More... | |
| Protected Member Functions inherited from IMP::core::MonteCarlo | |
| bool | do_accept_or_reject_move (double score, double last, const MonteCarloMoverResult &moved) |
| bool | do_accept_or_reject_move (double score, const MonteCarloMoverResult &moved) |
| virtual double | do_evaluate (const ParticleIndexes &moved, bool force_full_score) const |
| Get the current energy. More... | |
| MonteCarloMoverResult | do_move () |
| virtual Float | do_optimize (unsigned int max_steps) override |
| override this function to do actual optimization More... | |
| ParticleIndexes | get_movable_particles () const |
| Protected Member Functions inherited from IMP::Optimizer | |
| virtual ModelObjectsTemp | do_get_inputs () const override |
| virtual ModelObjectsTemp | do_get_outputs () const override |
| don't return anything here to avoid pointless dependencies More... | |
| ModelObjectsTemp | get_optimizer_state_inputs () const |
| void | update_states () const |
| Update optimizer states, should be called at each successful step. More... | |
| Protected Member Functions inherited from IMP::ModelObject | |
| virtual ModelObjectsTemps | do_get_interactions () const |
| virtual void | handle_set_has_required_score_states (bool) |
| Protected Member Functions inherited from IMP::Object | |
| Object (std::string name) | |
| Construct an object with the given name. More... | |
| virtual void | do_destroy () |
Additional Inherited Members | |
| Public Attributes inherited from IMP::core::MonteCarlo | |
| list | movers |
| A Python list of Movers More... | |
| Public Attributes inherited from IMP::Optimizer | |
| list | optimizer_states |
| A Python list of OptimizerStates More... | |
| Protected Attributes inherited from IMP::core::MonteCarlo | |
| ParticleIndexes | reset_pis_ |
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overrideprotectedvirtual |
a class that inherits from this should override this method
Reimplemented from IMP::core::MonteCarloWithLocalOptimization.
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overridevirtual |
Get information about the module and version of the object.
Reimplemented from IMP::core::MonteCarloWithLocalOptimization.
Definition at line 268 of file MonteCarlo.h.