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protocols::rotamer_recovery Namespace Reference

Classes

class  PerNativeRRReporterHuman
 
class  RotamerRecovery
 
class  RotamerRecoveryFactory
 Create Rotamer_Recovery Reporters. More...
 
class  RotamerRecoveryMover
 
class  RotamerRecoveryMoverCreator
 
class  RotamerRecoveryRegistrator
 This templated class will register an instance of an RotamerRecoveryCreator (class T) with the RotamerRecoveryFactory. It will ensure that no RotamerRecoveryCreator is registered twice, and, centralizes this registration logic so that thread safety issues can be handled in one place. More...
 
class  RRComparer
 The comparison functionality for the rotamer recovery test. More...
 
class  RRComparerAutomorphicRMSD
 
class  RRComparerAutomorphicRMSDCreator
 
class  RRComparerChiDiff
 
class  RRComparerChiDiffCreator
 
class  RRComparerCreator
 The Creator class is responsible for creating a particular mover class. More...
 
class  RRComparerElecDensDiff
 
class  RRComparerElecDensDiffCreator
 
class  RRComparerRotBins
 
class  RRComparerRotBinsCreator
 
class  RRProtocol
 The protocol to run to compute the rotamer recovery the rotamer recovery test. More...
 
class  RRProtocolCreator
 The Creator class is responsible for creating a particular mover class. More...
 
class  RRProtocolMinPack
 
class  RRProtocolMinPackCreator
 
class  RRProtocolMover
 
class  RRProtocolMoverCreator
 
class  RRProtocolPackRotamers
 
class  RRProtocolPackRotamersCreator
 
class  RRProtocolReferenceStructure
 
class  RRProtocolReferenceStructureCreator
 
class  RRProtocolRelax
 
class  RRProtocolRelaxCreator
 
class  RRProtocolRotamerTrials
 
class  RRProtocolRotamerTrialsCreator
 
class  RRProtocolRTMin
 
class  RRProtocolRTMinCreator
 
class  RRReporter
 The reporting functionality for the rotamer recovery test. More...
 
class  RRReporterCreator
 The Creator class is responsible for creating a particular mover class. More...
 
class  RRReporterHuman
 The reporting functionality for the rotamer recovery test in a human readable format. More...
 
class  RRReporterHumanCreator
 
class  RRReporterSimple
 
class  RRReporterSimpleCreator
 
class  RRReporterSQLite
 
class  RRReporterSQLiteCreator
 

Typedefs

typedef
utility::pointer::shared_ptr
< RotamerRecovery
RotamerRecoveryOP
 
typedef
utility::pointer::shared_ptr
< RotamerRecovery const > 
RotamerRecoveryCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolCreator
RRProtocolCreatorOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolCreator const > 
RRProtocolCreatorCOP
 
typedef
utility::pointer::shared_ptr
< RRComparerCreator
RRComparerCreatorOP
 
typedef
utility::pointer::shared_ptr
< RRComparerCreator const > 
RRComparerCreatorCOP
 
typedef
utility::pointer::shared_ptr
< RRReporterCreator
RRReporterCreatorOP
 
typedef
utility::pointer::shared_ptr
< RRReporterCreator const > 
RRReporterCreatorCOP
 
typedef
utility::pointer::shared_ptr
< RotamerRecoveryFactory
RotamerRecoveryFactoryOP
 
typedef
utility::pointer::shared_ptr
< RotamerRecoveryFactory const > 
RotamerRecoveryFactoryCOP
 
typedef
utility::pointer::shared_ptr
< RotamerRecoveryMover
RotamerRecoveryMoverOP
 
typedef
utility::pointer::shared_ptr
< RotamerRecoveryMover const > 
RotamerRecoveryMoverCOP
 
typedef
utility::pointer::shared_ptr
< RRComparer
RRComparerOP
 
typedef
utility::pointer::shared_ptr
< RRComparer const > 
RRComparerCOP
 
typedef
utility::pointer::shared_ptr
< RRComparerRotBins
RRComparerRotBinsOP
 
typedef
utility::pointer::shared_ptr
< RRComparerRotBins const > 
RRComparerRotBinsCOP
 
typedef
utility::pointer::shared_ptr
< RRComparerChiDiff
RRComparerChiDiffOP
 
typedef
utility::pointer::shared_ptr
< RRComparerChiDiff const > 
RRComparerChiDiffCOP
 
typedef
utility::pointer::shared_ptr
< RRComparerAutomorphicRMSD
RRComparerAutomorphicRMSDOP
 
typedef
utility::pointer::shared_ptr
< RRComparerAutomorphicRMSD
const > 
RRComparerAutomorphicRMSDCOP
 
typedef
utility::pointer::shared_ptr
< RRComparerElecDensDiff
RRComparerElecDensDiffOP
 
typedef
utility::pointer::shared_ptr
< RRComparerElecDensDiff const > 
RRComparerElecDensDiffCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocol
RRProtocolOP
 
typedef
utility::pointer::shared_ptr
< RRProtocol const > 
RRProtocolCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolMinPack
RRProtocolMinPackOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolMinPack const > 
RRProtocolMinPackCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolMover
RRProtocolMoverOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolMover const > 
RRProtocolMoverCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolPackRotamers
RRProtocolPackRotamersOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolPackRotamers const > 
RRProtocolPackRotamersCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolReferenceStructure
RRProtocolReferenceStructureOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolReferenceStructure
const > 
RRProtocolReferenceStructureCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolRelax
RRProtocolRelaxOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolRelax const > 
RRProtocolRelaxCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolRotamerTrials
RRProtocolRotamerTrialsOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolRotamerTrials
const > 
RRProtocolRotamerTrialsCOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolRTMin
RRProtocolRTMinOP
 
typedef
utility::pointer::shared_ptr
< RRProtocolRTMin const > 
RRProtocolRTMinCOP
 
typedef
utility::pointer::shared_ptr
< RRReporter
RRReporterOP
 
typedef
utility::pointer::shared_ptr
< RRReporter const > 
RotamerReporterCOP
 
typedef
utility::pointer::shared_ptr
< RRReporterSimple
RRReporterSimpleOP
 
typedef
utility::pointer::shared_ptr
< RRReporterSimple const > 
RotamerReporterSimpleCOP
 
typedef
utility::pointer::shared_ptr
< PerNativeRRReporterHuman
PerNativeRRReporterHumanOP
 
typedef
utility::pointer::shared_ptr
< PerNativeRRReporterHuman
const > 
PerNativeRRReporterHumanCOP
 
typedef
utility::pointer::shared_ptr
< RRReporterHuman
RRReporterHumanOP
 
typedef
utility::pointer::shared_ptr
< RRReporterHuman const > 
RRReporterHumanCOP
 
typedef
utility::pointer::shared_ptr
< RRReporterSQLite
RRReporterSQLiteOP
 
typedef
utility::pointer::shared_ptr
< RRReporterSQLite const > 
RotamerReporterSQLiteCOP
 

Enumerations

enum  OutputLevel { OL_full = 1, OL_features, OL_none }
 

Functions

static Tracer TR ("protocol.rotamer_recovery.RotamerRecovery")
 
static basic::Tracer tr ("protocols.rotamer_recovery.RotamerRecoveryFactory")
 
static Tracer TR ("protocol.rotamer_recovery.RotamerRecoveryMover")
 
static Tracer TR ("protocol.moves.RRComparer")
 
static Tracer TR ("protocol.moves.RRComparerAutomorphicRMSD")
 
static Tracer TR ("protocol.moves.RRComparerElecDensDiff")
 
static Tracer TR ("protocol.moves.RRProtocol")
 
static Tracer TR ("protocol.moves.RRProtocolMinPack")
 
static Tracer TR ("protocol.rotamer_recovery.RRProtocolMover")
 
static Tracer TR ("protocol.moves.RRProtocolPackRotamers")
 
static Tracer TR ("protocol.rotamer_recovery.RRProtocolReferenceStructure")
 
static Tracer TR ("protocol.moves.RRProtocolRelax")
 
static Tracer TR ("protocol.moves.RRProtocolRotamerTrials")
 
static Tracer TR ("protocol.moves.RRProtocolRTMin")
 
static Tracer TR ("protocol.rotamer_recovery.RRReporter")
 
static Tracer TR ("protocol.rotamer_recovery.RRReporterHuman")
 
static Tracer TR ("protocols.rotamer_recovery.RRReporterSQLite")
 

Typedef Documentation

typedef utility::pointer::shared_ptr< RotamerRecovery const > protocols::rotamer_recovery::RotamerRecoveryCOP
typedef utility::pointer::shared_ptr< RotamerRecoveryMover const > protocols::rotamer_recovery::RotamerRecoveryMoverCOP
typedef utility::pointer::shared_ptr< RotamerRecovery > protocols::rotamer_recovery::RotamerRecoveryOP
typedef utility::pointer::shared_ptr< RRReporter const > protocols::rotamer_recovery::RotamerReporterCOP
typedef utility::pointer::shared_ptr< RRReporterSimple const > protocols::rotamer_recovery::RotamerReporterSimpleCOP
typedef utility::pointer::shared_ptr< RRReporterSQLite const > protocols::rotamer_recovery::RotamerReporterSQLiteCOP
typedef utility::pointer::shared_ptr< RRComparerChiDiff const > protocols::rotamer_recovery::RRComparerChiDiffCOP
typedef utility::pointer::shared_ptr< RRComparer const > protocols::rotamer_recovery::RRComparerCOP
typedef utility::pointer::shared_ptr< RRComparerCreator const > protocols::rotamer_recovery::RRComparerCreatorCOP
typedef utility::pointer::shared_ptr< RRComparer > protocols::rotamer_recovery::RRComparerOP
typedef utility::pointer::shared_ptr< RRComparerRotBins const > protocols::rotamer_recovery::RRComparerRotBinsCOP
typedef utility::pointer::shared_ptr< RRProtocol const > protocols::rotamer_recovery::RRProtocolCOP
typedef utility::pointer::shared_ptr< RRProtocolCreator const > protocols::rotamer_recovery::RRProtocolCreatorCOP
typedef utility::pointer::shared_ptr< RRProtocolMinPack const > protocols::rotamer_recovery::RRProtocolMinPackCOP
typedef utility::pointer::shared_ptr< RRProtocolMover const > protocols::rotamer_recovery::RRProtocolMoverCOP
typedef utility::pointer::shared_ptr< RRProtocolMover > protocols::rotamer_recovery::RRProtocolMoverOP
typedef utility::pointer::shared_ptr< RRProtocol > protocols::rotamer_recovery::RRProtocolOP
typedef utility::pointer::shared_ptr< RRProtocolRelax const > protocols::rotamer_recovery::RRProtocolRelaxCOP
typedef utility::pointer::shared_ptr< RRProtocolRelax > protocols::rotamer_recovery::RRProtocolRelaxOP
typedef utility::pointer::shared_ptr< RRProtocolRTMin const > protocols::rotamer_recovery::RRProtocolRTMinCOP
typedef utility::pointer::shared_ptr< RRProtocolRTMin > protocols::rotamer_recovery::RRProtocolRTMinOP
typedef utility::pointer::shared_ptr< RRReporterCreator const > protocols::rotamer_recovery::RRReporterCreatorCOP
typedef utility::pointer::shared_ptr< RRReporterHuman const > protocols::rotamer_recovery::RRReporterHumanCOP
typedef utility::pointer::shared_ptr< RRReporterHuman > protocols::rotamer_recovery::RRReporterHumanOP
typedef utility::pointer::shared_ptr< RRReporter > protocols::rotamer_recovery::RRReporterOP
typedef utility::pointer::shared_ptr< RRReporterSimple > protocols::rotamer_recovery::RRReporterSimpleOP
typedef utility::pointer::shared_ptr< RRReporterSQLite > protocols::rotamer_recovery::RRReporterSQLiteOP

Enumeration Type Documentation

Enumerator
OL_full 
OL_features 
OL_none 

Function Documentation

static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRProtocol"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.rotamer_recovery.RRReporter"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRProtocolMinPack"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRProtocolPackRotamers"  )
static
static basic::Tracer protocols::rotamer_recovery::tr ( "protocols.rotamer_recovery.RotamerRecoveryFactory"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.rotamer_recovery.RRProtocolMover"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRProtocolRotamerTrials"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.rotamer_recovery.RotamerRecovery"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRProtocolRelax"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRProtocolRTMin"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.rotamer_recovery.RRProtocolReferenceStructure"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRComparer"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRComparerAutomorphicRMSD"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.moves.RRComparerElecDensDiff"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.rotamer_recovery.RRReporterHuman"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocols.rotamer_recovery.RRReporterSQLite"  )
static
static Tracer protocols::rotamer_recovery::TR ( "protocol.rotamer_recovery.RotamerRecoveryMover"  )
static