protocols::environment::Environment Class Reference

#include <Environment.hh>

Public Member Functions
	Environment (std::string name)
virtual	~Environment ()
void	register_mover (ClaimingMoverOP)
template<class Iterator >
void	register_movers (Iterator start, Iterator end)
void	register_loop_closer (ClaimingMoverOP)
bool	is_registered (ClaimingMoverOP) const
core::pose::Pose	start (core::pose::Pose const &)
core::pose::Pose	end (core::pose::Pose const &)
EnvironmentCAP	superenv () const
EnvClaimBrokerCOP	broker () const
void	pconf_destruction (ProtectedConformationAP ptr) const
void	pconf_creation (ProtectedConformationAP ptr) const
Public Member Functions inherited from core::environment::EnvCore
	EnvCore (std::string const &env_name)
virtual	~EnvCore ()
std::string const &	name () const
EnvCoreCAP	superenv () const
core::Size const &	id () const

Private Types
typedef core::environment::EnvCore	Parent
typedef core::conformation::Conformation	Conformation
typedef core::conformation::ConformationOP	ConformationOP
typedef core::conformation::ConformationCOP	ConformationCOP

Private Member Functions
core::conformation::ConformationOP	end (ProtectedConformationCOP)
core::pose::Pose	broker (core::pose::Pose const &)
void	remove_nonpermenant_features (core::pose::Pose &)
	ENV OPEN/CLOSING. More...
void	assign_passport (ClaimingMoverOP, core::environment::DofPassportCOP)
void	cancel_passports ()
void	remove_chainbreak_variants (core::pose::Pose &, core::Size up_res, core::Size down_res) const

Private Attributes
EnvClaimBrokerOP	broker_
core::kinematics::FoldTreeCOP	input_ft_
ClaimingMoverOP	loop_closer_
std::set< ClaimingMoverOP >	registered_movers_
std::set< ProtectedConformationAP >	pconfs_

Additional Inherited Members
Protected Member Functions inherited from core::environment::EnvCore
DofPassportOP	issue_passport (std::string const &mover_name) const
void	set_superenv (EnvCoreCAP)

Member Typedef Documentation

typedef core::conformation::Conformation protocols::environment::Environment::Conformation

private

typedef core::conformation::ConformationCOP protocols::environment::Environment::ConformationCOP

private

typedef core::conformation::ConformationOP protocols::environment::Environment::ConformationOP

private

typedef core::environment::EnvCore protocols::environment::Environment::Parent

private

Constructor & Destructor Documentation

protocols::environment::Environment::Environment

(

std::string

name

)

protocols::environment::Environment::~Environment ( )

virtual

References pconfs_.

Member Function Documentation

void protocols::environment::Environment::assign_passport ( ClaimingMoverOP  mover, core::environment::DofPassportCOP  passport  )

private

Referenced by broker().

EnvClaimBrokerCOP protocols::environment::Environment::broker ( ) const

inline

References broker_.

Referenced by remove_nonpermenant_features(), and start().

core::pose::Pose protocols::environment::Environment::broker ( core::pose::Pose const &  in_pose )

private

References assign_passport(), broker_, cancel_passports(), core::pose::Pose::fold_tree(), input_ft_, core::environment::EnvCore::issue_passport(), core::environment::EnvCore::name(), registered_movers_, and tr.

void protocols::environment::Environment::cancel_passports ( )

private

References registered_movers_, and tr.

Referenced by broker(), and end().

core::pose::Pose protocols::environment::Environment::end

(

core::pose::Pose const &

pose

)

References core::pose::Pose::annotated_sequence(), broker_, core::pose::Pose::conformation(), core::pose::Pose::data(), core::pose::Pose::fold_tree(), basic::datacache::BasicDataCache::get_raw_ptr(), basic::datacache::BasicDataCache::has(), core::environment::EnvCore::name(), basic::datacache::BasicDataCache::set(), core::pose::Pose::set_new_conformation(), tr, and core::pose::datacache::CacheableDataType::WRITEABLE_DATA.

Referenced by register_movers().

core::conformation::ConformationOP protocols::environment::Environment::end ( ProtectedConformationCOP  conf )

private

References cancel_passports(), core::pose::Pose::conformation(), input_ft_, core::environment::EnvCore::name(), remove_nonpermenant_features(), core::pose::Pose::set_new_conformation(), superenv(), and tr.

bool protocols::environment::Environment::is_registered

(

ClaimingMoverOP

mover

)

const

References registered_movers_.

Referenced by register_mover().

void protocols::environment::Environment::pconf_creation ( ProtectedConformationAP  ptr ) const

inline

References pconfs_.

void protocols::environment::Environment::pconf_destruction ( ProtectedConformationAP  ptr ) const

inline

References pconfs_.

void protocols::environment::Environment::register_loop_closer

(

ClaimingMoverOP

closer

)

References loop_closer_, core::environment::EnvCore::name(), register_mover(), and tr.

Referenced by register_mover().

void protocols::environment::Environment::register_mover

(

ClaimingMoverOP

mover

)

References is_registered(), register_loop_closer(), register_movers(), and registered_movers_.

Referenced by register_loop_closer(), and register_movers().

template<class Iterator >

void protocols::environment::Environment::register_movers ( Iterator  start, Iterator  end  )

inline

References end(), and register_mover().

Referenced by register_mover().

void protocols::environment::Environment::remove_chainbreak_variants ( core::pose::Pose &  pose, core::Size  up_res, core::Size  down_res  ) const

private

References core::pose::Pose::conformation(), copy_residue_coordinates_and_rebuild_missing_atoms(), CUTPOINT_LOWER, and CUTPOINT_UPPER.

Referenced by remove_nonpermenant_features().

void protocols::environment::Environment::remove_nonpermenant_features ( core::pose::Pose &  pose )

private

ENV OPEN/CLOSING.

References core::pose::Pose::annotated_sequence(), broker(), loop_closer_, remove_chainbreak_variants(), and tr.

Referenced by end().

core::pose::Pose protocols::environment::Environment::start

(

core::pose::Pose const &

in_pose

)

References broker(), core::pose::Pose::conformation(), protocols::environment::ProtectedConformation::environment(), utility::pointer::owning_ptr< T >::get(), utility::pointer::access_ptr< T >::get(), core::environment::EnvCore::name(), core::environment::EnvCore::set_superenv(), and tr.

EnvironmentCAP protocols::environment::Environment::superenv

(

)

const

References env, utility::pointer::access_ptr< T >::get(), and core::environment::EnvCore::superenv().

Referenced by end().

Member Data Documentation

EnvClaimBrokerOP protocols::environment::Environment::broker_

private

Referenced by broker(), and end().

core::kinematics::FoldTreeCOP protocols::environment::Environment::input_ft_

private

Referenced by broker(), and end().

ClaimingMoverOP protocols::environment::Environment::loop_closer_

private

Referenced by register_loop_closer(), and remove_nonpermenant_features().

std::set< ProtectedConformationAP > protocols::environment::Environment::pconfs_

mutableprivate

Referenced by pconf_creation(), pconf_destruction(), and ~Environment().

std::set<ClaimingMoverOP> protocols::environment::Environment::registered_movers_

private

Referenced by broker(), cancel_passports(), is_registered(), and register_mover().

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

• symlinks/rosetta/src/protocols/environment/Environment.hh
• symlinks/rosetta/src/protocols/environment/Environment.cc