protocols::abinitio::abscript Namespace Reference

Classes
class	AbscriptLoopCloserCM
class	AbscriptMover
class	AbscriptMoverCreator
class	AbscriptStageMover
class	ConstraintPreparer
class	ConstraintPreparerCreator
class	FragmentCM
class	FragmentJumpCM
class	FragmentJumpCMCreator
class	JumpSampleData
class	JumpSampleDataCreator
class	StagePreparer

Typedefs
typedef utility::pointer::owning_ptr < AbscriptLoopCloserCM >	AbscriptLoopCloserCMOP
typedef utility::pointer::owning_ptr < AbscriptLoopCloserCM const >	AbscriptLoopCloserCMCOP
typedef utility::pointer::owning_ptr < AbscriptMover >	AbscriptMoverOP
typedef utility::pointer::owning_ptr < AbscriptMover const >	AbscriptMoverCOP
typedef utility::pointer::owning_ptr < AbscriptStageMover >	AbscriptStageMoverOP
typedef utility::pointer::owning_ptr < AbscriptStageMover const >	AbscriptStageMoverCOP
typedef utility::pointer::owning_ptr < ConstraintPreparer >	ConstraintPreparerOP
typedef utility::pointer::owning_ptr < ConstraintPreparer const >	ConstraintPreparerCOP
typedef utility::pointer::owning_ptr < FragmentCM >	FragmentCMOP
typedef utility::pointer::owning_ptr < FragmentCM const >	FragmentCMCOP
typedef utility::pointer::owning_ptr < FragmentJumpCM >	FragmentJumpCMOP
typedef utility::pointer::owning_ptr < FragmentJumpCM const >	FragmentJumpCMCOP
typedef utility::pointer::owning_ptr < JumpSampleData >	JumpSampleDataOP
typedef utility::pointer::owning_ptr < JumpSampleData const >	JumpSampleDataCOP
typedef utility::vector1< StageID >	StageIDs
typedef utility::pointer::owning_ptr < StagePreparer >	StagePreparerOP
typedef utility::pointer::owning_ptr < StagePreparer const >	StagePreparerCOP

Enumerations
enum	StageID {   I = 1, II, IIIa, IIIb,   IVa, IVb, END }

Functions
StageID &	increment_stageid (StageID &id)
core::scoring::ScoreFunctionOP	setup_score (std::string const &scorename, basic::options::FileVectorOptionKey optkey)
core::Real	score_cst (core::pose::Pose &pose, core::scoring::ScoreFunction const &scfxn)
bool	loop_stop_comp (loops::Loop const &lhs, loops::Loop const &rhs)

Variables
core::Real const	DEFAULT_TEMP = 2.0

Typedef Documentation

typedef utility::pointer::owning_ptr< AbscriptLoopCloserCM const > protocols::abinitio::abscript::AbscriptLoopCloserCMCOP

typedef utility::pointer::owning_ptr< AbscriptLoopCloserCM > protocols::abinitio::abscript::AbscriptLoopCloserCMOP

typedef utility::pointer::owning_ptr< AbscriptMover const > protocols::abinitio::abscript::AbscriptMoverCOP

typedef utility::pointer::owning_ptr< AbscriptMover > protocols::abinitio::abscript::AbscriptMoverOP

typedef utility::pointer::owning_ptr< AbscriptStageMover const > protocols::abinitio::abscript::AbscriptStageMoverCOP

typedef utility::pointer::owning_ptr< AbscriptStageMover > protocols::abinitio::abscript::AbscriptStageMoverOP

typedef utility::pointer::owning_ptr< ConstraintPreparer const > protocols::abinitio::abscript::ConstraintPreparerCOP

typedef utility::pointer::owning_ptr< ConstraintPreparer > protocols::abinitio::abscript::ConstraintPreparerOP

typedef utility::pointer::owning_ptr< FragmentCM const > protocols::abinitio::abscript::FragmentCMCOP

typedef utility::pointer::owning_ptr< FragmentCM > protocols::abinitio::abscript::FragmentCMOP

typedef utility::pointer::owning_ptr< FragmentJumpCM const > protocols::abinitio::abscript::FragmentJumpCMCOP

typedef utility::pointer::owning_ptr< FragmentJumpCM > protocols::abinitio::abscript::FragmentJumpCMOP

typedef utility::pointer::owning_ptr< JumpSampleData const > protocols::abinitio::abscript::JumpSampleDataCOP

typedef utility::pointer::owning_ptr< JumpSampleData > protocols::abinitio::abscript::JumpSampleDataOP

typedef utility::vector1< StageID > protocols::abinitio::abscript::StageIDs

typedef utility::pointer::owning_ptr< StagePreparer const > protocols::abinitio::abscript::StagePreparerCOP

typedef utility::pointer::owning_ptr< StagePreparer > protocols::abinitio::abscript::StagePreparerOP

Enumeration Type Documentation

enum protocols::abinitio::abscript::StageID

Enumerator
I
II
IIIa
IIIb
IVa
IVb
END

Function Documentation

StageID& protocols::abinitio::abscript::increment_stageid

(

StageID &

id

)

References END.

Referenced by protocols::abinitio::abscript::AbscriptMover::add_default_frags(), and protocols::abinitio::abscript::AbscriptMover::parse_stage_id().

bool protocols::abinitio::abscript::loop_stop_comp	(	loops::Loop const &	lhs,
		loops::Loop const &	rhs
	)

References protocols::loops::Loop::stop().

Referenced by protocols::abinitio::abscript::ConstraintPreparer::combine_exclude_file().

core::Real protocols::abinitio::abscript::score_cst	(	core::pose::Pose &	pose,
		core::scoring::ScoreFunction const &	scfxn
	)

References core::scoring::angle_constraint, core::scoring::atom_pair_constraint, core::scoring::coordinate_constraint, core::scoring::dihedral_constraint, core::pose::Pose::energies(), and core::scoring::Energies::total_energies().

Referenced by protocols::rbsegment_relax::OptimizeThreadingMover::apply(), and protocols::abinitio::abscript::AbscriptStageMover::setup_stage().

core::scoring::ScoreFunctionOP protocols::abinitio::abscript::setup_score	(	std::string const &	scorename,
		basic::options::FileVectorOptionKey	optkey
	)

References core::scoring::atom_pair_constraint, core::scoring::ScoreFunctionFactory::create_score_function(), option, and user.

Referenced by protocols::abinitio::abscript::AbscriptMover::AbscriptMover().

Variable Documentation

core::Real const protocols::abinitio::abscript::DEFAULT_TEMP = 2.0

Referenced by protocols::abinitio::abscript::AbscriptMover::AbscriptMover().