protocols::rotamer_recovery::RRComparerAutomorphicRMSD Class Reference

#include <RRComparerAutomorphicRMSD.hh>

Inheritance diagram for protocols::rotamer_recovery::RRComparerAutomorphicRMSD:

Public Member Functions
	RRComparerAutomorphicRMSD ()
	~RRComparerAutomorphicRMSD () override
std::string	get_name () const override
std::string	get_parameters () const override
bool	measure_rotamer_recovery (core::pose::Pose const &pose1, core::pose::Pose const &pose2, core::conformation::Residue const &res1, core::conformation::Residue const &res2, core::Real &score, bool &recovered) override
virtual void	set_include_backbone_atoms (bool const include_backbone_atoms)
virtual bool	get_include_backbone_atoms () const
void	set_recovery_threshold (core::Real const recovery_threshold) override
virtual core::Real	get_recovery_threshold () const
void	set_absolute_threshold (core::Real const absolute_threshold) override
virtual core::Real	get_absolute_threshold () const
Public Member Functions inherited from protocols::rotamer_recovery::RRComparer
	~RRComparer () override
	Automatically generated virtual destructor for class deriving directly from VirtualBase. More...
virtual void	parse_attributes_from_tag (utility::tag::TagCOP tag)

Private Attributes
bool	include_backbone_atoms_
core::Real	recovery_threshold_
core::Real	absolute_threshold_

Constructor & Destructor Documentation

RRComparerAutomorphicRMSD()

protocols::rotamer_recovery::RRComparerAutomorphicRMSD::RRComparerAutomorphicRMSD

(

)

~RRComparerAutomorphicRMSD()

protocols::rotamer_recovery::RRComparerAutomorphicRMSD::~RRComparerAutomorphicRMSD ( )

overridedefault

Member Function Documentation

get_absolute_threshold()

Real protocols::rotamer_recovery::RRComparerAutomorphicRMSD::get_absolute_threshold ( ) const

virtual

References absolute_threshold_.

get_include_backbone_atoms()

bool protocols::rotamer_recovery::RRComparerAutomorphicRMSD::get_include_backbone_atoms ( ) const

virtual

References include_backbone_atoms_.

Referenced by get_parameters(), and measure_rotamer_recovery().

get_name()

string protocols::rotamer_recovery::RRComparerAutomorphicRMSD::get_name ( ) const

overridevirtual

Implements protocols::rotamer_recovery::RRComparer.

get_parameters()

string protocols::rotamer_recovery::RRComparerAutomorphicRMSD::get_parameters ( ) const

overridevirtual

Implements protocols::rotamer_recovery::RRComparer.

References get_include_backbone_atoms(), and get_recovery_threshold().

get_recovery_threshold()

Real protocols::rotamer_recovery::RRComparerAutomorphicRMSD::get_recovery_threshold ( ) const

virtual

References recovery_threshold_.

Referenced by get_parameters(), and measure_rotamer_recovery().

measure_rotamer_recovery()

bool protocols::rotamer_recovery::RRComparerAutomorphicRMSD::measure_rotamer_recovery ( core::pose::Pose const &  pose1, core::pose::Pose const &  pose2, core::conformation::Residue const &  res1, core::conformation::Residue const &  res2, core::Real &  score, bool &  recovered  )

overridevirtual

Implements protocols::rotamer_recovery::RRComparer.

References core::conformation::Residue::aa(), core::scoring::automorphic_rmsd(), core::pose::Pose::conformation(), core::conformation::copy_residue_coordinates_and_rebuild_missing_atoms(), core::conformation::ResidueFactory::create_residue(), get_include_backbone_atoms(), get_recovery_threshold(), core::chemical::ResidueTypeBase::mode(), core::chemical::ResidueTypeBase::name(), core::conformation::Residue::name(), core::conformation::Residue::nheavyatoms(), core::chemical::num_canonical_aas, core::pose::Pose::residue_type_set_for_pose(), protocols::hybridization::score, core::conformation::Residue::seqpos(), protocols::rotamer_recovery::TR(), core::conformation::Residue::type(), and core::chemical::VIRTUAL_BB.

set_absolute_threshold()

void protocols::rotamer_recovery::RRComparerAutomorphicRMSD::set_absolute_threshold ( core::Real const  absolute_threshold )

overridevirtual

Implements protocols::rotamer_recovery::RRComparer.

References absolute_threshold_.

set_include_backbone_atoms()

void protocols::rotamer_recovery::RRComparerAutomorphicRMSD::set_include_backbone_atoms ( bool const  include_backbone_atoms )

virtual

References include_backbone_atoms_.

set_recovery_threshold()

void protocols::rotamer_recovery::RRComparerAutomorphicRMSD::set_recovery_threshold ( core::Real const  recovery_threshold )

overridevirtual

Implements protocols::rotamer_recovery::RRComparer.

References recovery_threshold_.

Member Data Documentation

absolute_threshold_

core::Real protocols::rotamer_recovery::RRComparerAutomorphicRMSD::absolute_threshold_

private

Referenced by get_absolute_threshold(), and set_absolute_threshold().

include_backbone_atoms_

bool protocols::rotamer_recovery::RRComparerAutomorphicRMSD::include_backbone_atoms_

private

Referenced by get_include_backbone_atoms(), and set_include_backbone_atoms().

recovery_threshold_

core::Real protocols::rotamer_recovery::RRComparerAutomorphicRMSD::recovery_threshold_

private

Referenced by get_recovery_threshold(), and set_recovery_threshold().

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The documentation for this class was generated from the following files:

• src/protocols/rotamer_recovery/RRComparerAutomorphicRMSD.hh
• src/protocols/rotamer_recovery/RRComparerAutomorphicRMSD.cc