core::scoring::aa_composition_energy Namespace Reference

Classes
class	AACompositionConstraint
class	AACompositionEnergy
	AACompositionEnergy, an energy function to penalize stretches of the same residue, derived from base class for EnergyMethods, which are meaningful only on entire structures. These EnergyMethods do all of their work in the "finalize_total_energy" section of score function evaluation. More...
class	AACompositionEnergyCreator
class	AACompositionEnergySetup
	AACompositionEnergySetup, a helper class for the AACompositionEnergy energy method that stores all of its setup data. More...
class	AACompositionPropertiesSet
	AACompositionPropertiesSet, a helper class that stores: More...
class	SequenceConstraint

Typedefs
typedef utility::pointer::shared_ptr < AACompositionEnergy >	AACompositionEnergyOP
typedef utility::pointer::shared_ptr < AACompositionConstraint >	AACompositionConstraintOP
typedef utility::pointer::shared_ptr < AACompositionConstraint const >	AACompositionConstraintCOP
typedef utility::pointer::shared_ptr < AACompositionPropertiesSet >	AACompositionPropertiesSetOP
typedef utility::pointer::shared_ptr < AACompositionPropertiesSet const >	AACompositionPropertiesSetCOP
typedef utility::pointer::shared_ptr < AACompositionEnergySetup >	AACompositionEnergySetupOP
typedef utility::pointer::shared_ptr < AACompositionEnergySetup const >	AACompositionEnergySetupCOP
typedef utility::pointer::shared_ptr < SequenceConstraint >	SequenceConstraintOP
typedef utility::pointer::shared_ptr < SequenceConstraint const >	SequenceConstraintCOP

Enumerations
enum	TailFunction {   tf_linear = 1, tf_quadratic, tf_constant, tf_unknown,   tf_end_of_list =tf_unknown }
	The different types of behaviour for the penalty values past the defined range. More...

Functions
static basic::Tracer	TR ("core.scoring.aa_composition_energy.AACompositionEnergy")
static basic::Tracer	TR ("core.scoring.aa_composition_energy.AACompositionConstraint")
static basic::Tracer	TR ("core.scoring.aa_composition_energy.AACompositionEnergySetup")
static basic::Tracer	TR ("core.scoring.aa_composition_energy.SequenceConstraint")

Typedef Documentation

typedef utility::pointer::shared_ptr< AACompositionConstraint const > core::scoring::aa_composition_energy::AACompositionConstraintCOP

typedef utility::pointer::shared_ptr< AACompositionConstraint > core::scoring::aa_composition_energy::AACompositionConstraintOP

typedef utility::pointer::shared_ptr< AACompositionEnergy > core::scoring::aa_composition_energy::AACompositionEnergyOP

typedef utility::pointer::shared_ptr< AACompositionEnergySetup const > core::scoring::aa_composition_energy::AACompositionEnergySetupCOP

typedef utility::pointer::shared_ptr< AACompositionEnergySetup > core::scoring::aa_composition_energy::AACompositionEnergySetupOP

typedef utility::pointer::shared_ptr< AACompositionPropertiesSet const > core::scoring::aa_composition_energy::AACompositionPropertiesSetCOP

typedef utility::pointer::shared_ptr< AACompositionPropertiesSet > core::scoring::aa_composition_energy::AACompositionPropertiesSetOP

typedef utility::pointer::shared_ptr< SequenceConstraint const > core::scoring::aa_composition_energy::SequenceConstraintCOP

typedef utility::pointer::shared_ptr< SequenceConstraint > core::scoring::aa_composition_energy::SequenceConstraintOP

Enumeration Type Documentation

enum core::scoring::aa_composition_energy::TailFunction

The different types of behaviour for the penalty values past the defined range.

When values are added to this enum, they should also be added to the AACompositionEnergySetup::get_tailfunction_name() function.

Enumerator
tf_linear
tf_quadratic
tf_constant
tf_unknown
tf_end_of_list

Function Documentation

static basic::Tracer core::scoring::aa_composition_energy::TR ( "core.scoring.aa_composition_energy.SequenceConstraint"  )

static

static basic::Tracer core::scoring::aa_composition_energy::TR ( "core.scoring.aa_composition_energy.AACompositionConstraint"  )

static

static basic::Tracer core::scoring::aa_composition_energy::TR ( "core.scoring.aa_composition_energy.AACompositionEnergy"  )

static

Referenced by core::scoring::aa_composition_energy::AACompositionEnergySetup::check_data(), core::scoring::aa_composition_energy::AACompositionEnergySetup::initialize_from_file(), and core::scoring::aa_composition_energy::AACompositionEnergySetup::initialize_from_file_contents().

static basic::Tracer core::scoring::aa_composition_energy::TR ( "core.scoring.aa_composition_energy.AACompositionEnergySetup"  )

static