Classes
class	ABEGO_SS_Score
class	MakeABEGO_SS_Score
	Maker class that produces a new ABEGO_SS_Score object. More...
class	AdaptiveScoreHistogram
class	AmbigCSScore
	scores a fragment by the root mean square deviation of Phi and Psi angles. More...
class	MakeAmbigCSScore
	Maker class that produces a new AmbigCSScore object. More...
class	AtomBasedConstraintsScore
	A base class for all scoring methods that need atom coordinates. More...
class	AtomPairConstraintsScore
	Scores a fragment with a set of AtomPair constraints. More...
class	AtomPairConstraintsData
	Holds data about a single distance constraint in the form AtomPairConstraintsScore needs. More...
class	MakeAtomPairConstraintsScore
	Maker class that produces a new AtomPairConstraintsScore object. More...
class	BFactor
	BFactor score counts identical residues. More...
class	MakeBFactor
	Maker class that produces a new BFactor object. More...
class	CachingScoringMethod
class	ConstScore
	ConstScore adds a constant to the total score for each position. More...
class	MakeConstScore
	Maker class that produces a new ConstScore object. More...
class	CSScore
	scores a fragment by the root mean square deviation of Phi and Psi angles. More...
class	MakeCSScore
	Maker class that produces a new CSScore object. More...
class	DihedralConstraintsScore
	Scores a fragment with a set of Dihedral constraints. More...
class	MakeDihedralConstraintsScore
	Maker class that produces a new DihedralConstraintsScore object. More...
class	DisulfideDistance
	scores a fragment by the root mean square deviation of Phi and Psi angles. More...
class	MakeDisulfideDistance
	Matker class that produces a new DisulfideDistance object. More...
class	DisulfideIdentity
	DisulfideIdentity score counts identical residues. More...
class	MakeDisulfideIdentity
	Maker class that produces a new DisulfideIdentity object. More...
class	FourAtomsConstraintData
	Holds data about a single four-body constraint in the form usefull for InterbondAngleScore and DihedralConstraintsScore classes. More...
class	FragmentAllAtomCrmsd
	scores a fragment by its crmsd to the given reference structure More...
class	MakeFragmentAllAtomCrmsd
	Maker class that produces a new FragmentAllAtomCrmsd object. More...
class	FragmentCrmsd
	scores a fragment by its crmsd to the given reference structure More...
class	MakeFragmentCrmsd
	Maker class that produces a new FragmentCrmsd object. More...
class	FragmentCrmsdResDepth
	scores a fragment by its crmsd to the given reference structure More...
class	MakeFragmentCrmsdResDepth
	Maker class that produces a new FragmentCrmsdResDepth object. More...
class	FragmentDME
	scores a fragment by its DME to the given reference structure More...
class	MakeFragmentDME
	Maker class that produces a new FragmentDME object. More...
class	FragmentScoreManager
	holds particular score components, weights and calculates the total score for a fragment candidate More...
class	FragmentScoreMap
	holds all small scores (score components) for a given fragment More...
class	FragmentScoringMethod
	a fragment candidate score More...
class	MakeFragmentScoringMethod
	a fragment candidate More...
struct	GunnTuple
class	GunnCost
class	GunnCostScore
	scores a fragment by its crmsd to the given reference structure More...
class	MakeGunnCostScore
	Maker class that produces a new GunnCostScore object. More...
class	HydrophobicityProfileSimilarity
	scores a fragment by its hydrophobicity similarity More...
class	MakeHydrophobicityProfileSimilarity
	Maker class that produces a new HydrophobicityProfileSimilarity object. More...
class	HydrophobicitySimilarity
	scores a fragment by its hydrophobicity similarity More...
class	MakeHydrophobicitySimilarity
	Maker class that produces a new HydrophobicitySimilarity object. More...
class	InterbondAngleScore
	Scores a fragment with a set of Dihedral constraints. More...
class	MakeInterbondAngleScore
	Maker class that produces a new InterbondAngleScore object. More...
class	JCoupling
	scores a fragment by the JCouplings More...
class	MakeJCoupling
	Matker class that produces a new JCoupling object. More...
class	LAMBEGO_Similarity
	scores a fragment by torsion bin similarity More...
class	MakeLAMBEGO_Similarity
	Maker class that produces a new TorsionBin object. More...
class	MidPhiOut
	scores a fragment by the root mean square deviation of Phi and Psi angles. More...
class	MakeMidPhiOut
	Matker class that produces a new MidPhiOut object. More...
class	MidPsiOut
	scores a fragment by the root mean square deviation of Psi and Psi angles. More...
class	MakeMidPsiOut
	Matker class that produces a new MidPsiOut object. More...
class	PartialSecondarySimilarity
	scores a fragment by secondary structure similarity The score for each position is P(H), P(L) or P(E) if a vall residue is within Helix, Loop or Extended secondary stucture element, respectively. P(H), P(L) and P(E) denotes the probability that a given residue in a query is within Helix, Loop or Extended secondary stucture element. The total score of a fragment is a simple sum of all positions; for N-mer fragment is a sum of N terms If P(H), P(L) and P(E) probabilities takes only 1.0 and 0.0 values, result of this scoring function should be the same as SecondaryIdentity, although the later one is faster. More...
class	MakePartialSecondarySimilarity
	Maker class that produces a new PartialSecondarySimilarity object. More...
class	PCS_FragDistance
	scores a fragment by the root mean square deviation of Phi and Psi angles. More...
class	MakePCS_FragDistance
	Matker class that produces a new PCS_FragDistance object. More...
class	Phi
	scores a fragment by its predicted phi similarity More...
class	MakePhi
	Maker class that produces a new Phi object. More...
class	PhiPsiRmsd
	scores a fragment by the root mean square deviation of Phi and Psi angles. More...
class	MakePhiPsiRmsd
	Matker class that produces a new PhiPsiRmsd object. More...
class	PhiPsiSquareWell
	scores a fragment by the root mean square deviation of Phi and Psi angles. More...
class	MakePhiPsiSquareWell
	Matker class that produces a new PhiPsiSquareWell object. More...
class	ProfileScore
	a fragment candidate More...
class	MakeProfileScore
class	ProfileScoreBlosum62
	a fragment candidate More...
class	MakeProfileScoreBlosum62
class	ProfileScoreDistWeight
	a fragment candidate More...
class	MakeProfileScoreDistWeight
class	ProfileScoreL1
	a fragment candidate More...
class	MakeProfileScoreL1
class	ProfileScoreStructL1
	a fragment candidate More...
class	MakeProfileScoreStructL1
class	ProfileScoreSubMatrix
	a fragment candidate More...
class	MakeProfileScoreSubMatrix
class	ProlinePhiScore
	ProlinePhiScore score counts identical residues. More...
class	MakeProlinePhiScore
	Maker class that produces a new ProlinePhiScore object. More...
class	Psi
	scores a fragment by its predicted psi similarity More...
class	MakePsi
	Maker class that produces a new Psi object. More...
class	PValuedFragmentScoreManager
	holds particular score components, weights and calculates the total score for a fragment candidate More...
class	RamaScore
	RamaScore score counts identical residues. More...
class	MakeRamaScore
	Maker class that produces a new RamaScore object. More...
class	RDCScore
	scores a fragment by its crmsd to the given reference structure More...
class	MakeRDCScore
	Maker class that produces a new RDCScore object. More...
class	ScoreEValuator
	Computes E-Value for a Profile object. More...
class	MakeScoreEValuator
class	SecondaryIdentity
	SequenceIdentity score counts how many residues share the same secondary structure. More...
class	MakeSecondaryIdentity
	Maker class that produces a new SecondaryIdentity object. More...
class	SecondarySimilarity
	scores a fragment by secondary structure similarity The score for each position is P(H), P(L) or P(E) if a vall residue is within Helix, Loop or Extended secondary stucture element, respectively. P(H), P(L) and P(E) denotes the probability that a given residue in a query is within Helix, Loop or Extended secondary stucture element. The total score of a fragment is a simple sum of all positions; for N-mer fragment is a sum of N terms If P(H), P(L) and P(E) probabilities takes only 1.0 and 0.0 values, result of this scoring function should be the same as SecondaryIdentity, although the later one is faster. More...
class	MakeSecondarySimilarity
	Maker class that produces a new SecondarySimilarity object. More...
class	SequenceIdentity
	SequenceIdentity score counts identical residues. More...
class	MakeSequenceIdentity
	Maker class that produces a new SequenceIdentity object. More...
class	SolventAccessibility
	scores a fragment by its predicted solvent accessibility More...
class	MakeSolventAccessibility
	Maker class that produces a new SolventAccessibility object. More...
class	TalosSSSimilarity
	scores a fragment by secondary structure similarity The score for each position is P(H), P(L) or P(E) if a vall residue is within Helix, Loop or Extended secondary stucture element, respectively. P(H), P(L) and P(E) denotes the probability that a given residue in a query is within Helix, Loop or Extended secondary stucture element. The total score of a fragment is a simple sum of all positions; for N-mer fragment is a sum of N terms If P(H), P(L) and P(E) probabilities takes only 1.0 and 0.0 values, result of this scoring function should be the same as SecondaryIdentity, although the later one is faster. More...
class	MakeTalosSSSimilarity
	Maker class that produces a new TalosSSSimilarity object. More...
class	TorsionBinSimilarity
	scores a fragment by torsion bin similarity More...
class	MakeTorsionBinSimilarity
	Maker class that produces a new TorsionBin object. More...
Typedefs
typedef utility::vector1 < utility::vector1< Real > >	Matrix
typedef utility::pointer::owning_ptr < AdaptiveScoreHistogram >	AdaptiveScoreHistogramOP
typedef utility::pointer::owning_ptr < AdaptiveScoreHistogram const >	AdaptiveScoreHistogramCOP
typedef utility::pointer::owning_ptr < AtomBasedConstraintsScore >	AtomBasedConstraintsScoreOP
typedef utility::pointer::owning_ptr < AtomBasedConstraintsScore const >	AtomBasedConstraintsScoreCOP
typedef utility::pointer::owning_ptr < AtomPairConstraintsScore >	AtomPairConstraintsScoreOP
typedef utility::pointer::owning_ptr < AtomPairConstraintsScore const >	AtomPairConstraintsScoreCOP
typedef utility::pointer::owning_ptr < AtomPairConstraintsData >	AtomPairConstraintsDataOP
typedef utility::pointer::owning_ptr < AtomPairConstraintsData const >	AtomPairConstraintsDataCOP
typedef utility::pointer::owning_ptr < DihedralConstraintsScore >	DihedralConstraintsScoreOP
typedef utility::pointer::owning_ptr < DihedralConstraintsScore const >	DihedralConstraintsScoreCOP
typedef utility::pointer::owning_ptr < FourAtomsConstraintData >	FourAtomsConstraintDataOP
typedef utility::pointer::owning_ptr < FourAtomsConstraintData const >	FourAtomsConstraintDataCOP
typedef utility::pointer::owning_ptr < FragmentScoreManager >	FragmentScoreManagerOP
typedef utility::pointer::owning_ptr < FragmentScoreManager const >	FragmentScoreManagerCOP
typedef utility::pointer::owning_ptr < FragmentScoreMap >	FragmentScoreMapOP
typedef utility::pointer::owning_ptr < FragmentScoreMap const >	FragmentScoreMapCOP
typedef utility::pointer::owning_ptr < FragmentScoringMethod >	FragmentScoringMethodOP
typedef utility::pointer::owning_ptr < FragmentScoringMethod const >	FragmentScoringMethodCOP
typedef utility::pointer::owning_ptr < MakeFragmentScoringMethod >	MakeFragmentScoringMethodOP
typedef utility::pointer::owning_ptr < MakeFragmentScoringMethod const >	MakeFragmentScoringMethodCOP
typedef utility::pointer::owning_ptr < InterbondAngleScore >	InterbondAngleScoreOP
typedef utility::pointer::owning_ptr < InterbondAngleScore const >	InterbondAngleScoreCOP
typedef utility::pointer::owning_ptr < ProfileScore >	ProfileScoreOP
typedef utility::pointer::owning_ptr < ProfileScore const >	ProfileScoreCOP
typedef utility::pointer::owning_ptr < RDCScore >	RDCScoreOP
typedef utility::pointer::owning_ptr < RDCScore const >	RDCScoreCOP
Functions
static basic::Tracer	trABEGO_SS_Score ("protocols.frag_picker.scores.ABEGO_SS_Score")
static basic::Tracer	trAdaptiveScoreHistogram ("fragment.picking.scores.AdaptiveScoreHistogram")
static basic::Tracer	trAmbigCSScore ("protocols.frag_picker.scores.AmbigCSScore")
static basic::Tracer	trAtomBasedConstraintsScore ("fragment.picking.scores.AtomBasedConstraintsScore")
static basic::Tracer	trAtomPairConstraintsScore ("fragment.picking.scores.AtomPairConstraintsScore")
static basic::Tracer	trCSScore ("protocols.frag_picker.scores.CSScore")
static basic::Tracer	trDihedralConstraintsScore ("fragment.picking.scores.DihedralConstraintsScore")
void	create_cache (utility::vector1< Size > &frag_sizes, Size query_len, Size longest_vall_chunk, utility::vector1< Matrix > &cache)
void	allocate_matrix (Size i_size, Size j_size, Matrix &dst)
void	do_one_line (Size start_i, Size start_j, Matrix &small_scores, Size frag_len, Matrix &frag_scores)
void	rolling_score (Matrix &small_scores, Size frag_len, Matrix &frag_scores)
static basic::Tracer	trRmsScore ("protocols.frag_picker.scores.FragmentAllAtomCrmsd")
static basic::Tracer	trRmsScore ("protocols.frag_picker.scores.FragmentCrmsd")
static basic::Tracer	trRmsScore ("protocols.frag_picker.scores.FragmentCrmsdResDepth")
static basic::Tracer	trDMEScore ("protocols.frag_picker.scores.FragmentDME")
bool	sort_scores (FragmentScoringMethodOP elem1, FragmentScoringMethodOP elem2)
static basic::Tracer	trGunnCost ("core.fragment.GunnCost")
static basic::Tracer	trGunnScore ("protocols.frag_picker.scores.GunnCostScore")
static basic::Tracer	trInterbondAngleScore ("fragment.picking.scores.InterbondAngleScore")
static basic::Tracer	trJCoupling ("protocols.frag_picker.scores.JCoupling")
static basic::Tracer	tr ("protocols.frag_picker.scores.LAMBEGO_Similarity")
static basic::Tracer	trPartialSecondarySimilarity ("protocols.frag_picker.scores.PartialSecondarySimilarity")
static basic::Tracer	trPhiPsiRmsd ("protocols.frag_picker.scores.PhiPsiRmsd")
static basic::Tracer	trPhiPsiSquareWell ("protocols.frag_picker.scores.PhiPsiSquareWell")
static basic::Tracer	trProfScore ("protocols.frag_picker.scores.ProfileScore")
static basic::Tracer	trProfScoreBlosum62 ("protocols.frag_picker.scores.ProfileScoreBlosum62")
static basic::Tracer	trProfScoreDistWeight ("protocols.frag_picker.scores.ProfileScoreDistWeight")
static basic::Tracer	trProfScoreL1 ("protocols.frag_picker.scores.ProfileScoreL1")
static basic::Tracer	trProfScoreL1 ("protocols.frag_picker.scores.ProfileScoreStructL1")
static basic::Tracer	trProfScoreSubMatrix ("protocols.frag_picker.scores.ProfileScoreSubMatrix")
static basic::Tracer	trRDCScore ("protocols.frag_picker.scores.RDCScore")
static basic::Tracer	trRDCScore ("fragment.picking.scores.RDCScore")
static basic::Tracer	trProfScore ("protocols.frag_picker.scores.ScoreEValuator")
static basic::Tracer	trSecondarySimilarity ("protocols.frag_picker.scores.SecondarySimilarity")
static basic::Tracer	trTalosSSSimilarity ("protocols.frag_picker.scores.TalosSSSimilarity")
static basic::Tracer	tr ("protocols.frag_picker.scores.TorsionBinSimilarity")
Variables
static const core::Real	PHI_MIN_CONF = 0.5
static const core::Real	PSI_MIN_CONF = 0.5

Typedef Documentation

Function Documentation

void protocols::frag_picker::scores::allocate_matrix	(	Size	i_size,
		Size	j_size,
		Matrix &	dst
	)

Referenced by create_cache().

void protocols::frag_picker::scores::create_cache	(	utility::vector1< Size > &	frag_sizes,
		Size	query_len,
		Size	longest_vall_chunk,
		utility::vector1< Matrix > &	cache
	)

References allocate_matrix().

Referenced by protocols::frag_picker::scores::ProfileScoreL1::ProfileScoreL1(), protocols::frag_picker::scores::ProfileScoreStructL1::ProfileScoreStructL1(), protocols::frag_picker::scores::SecondarySimilarity::SecondarySimilarity(), and protocols::frag_picker::scores::TalosSSSimilarity::TalosSSSimilarity().

void protocols::frag_picker::scores::do_one_line	(	Size	start_i,
		Size	start_j,
		Matrix &	small_scores,
		Size	frag_len,
		Matrix &	frag_scores
	)

Referenced by rolling_score().

void protocols::frag_picker::scores::rolling_score	(	Matrix &	small_scores,
		Size	frag_len,
		Matrix &	frag_scores
	)

References do_one_line().

Referenced by protocols::frag_picker::scores::TalosSSSimilarity::do_caching(), protocols::frag_picker::scores::SecondarySimilarity::do_caching(), protocols::frag_picker::scores::ProfileScoreStructL1::do_caching(), and protocols::frag_picker::scores::ProfileScoreL1::do_caching().

bool protocols::frag_picker::scores::sort_scores	(	FragmentScoringMethodOP	elem1,
		FragmentScoringMethodOP	elem2
	)

Referenced by protocols::frag_picker::scores::FragmentScoreManager::add_scoring_method(), and core::scoring::constraints::KofNConstraint::score().

static basic::Tracer protocols::frag_picker::scores::tr ( "protocols.frag_picker.scores.TorsionBinSimilarity" ) [static]

static basic::Tracer protocols::frag_picker::scores::tr ( "protocols.frag_picker.scores.LAMBEGO_Similarity" ) [static]

Referenced by protocols::frag_picker::scores::TorsionBinSimilarity::do_caching(), and protocols::frag_picker::scores::LAMBEGO_Similarity::do_caching().

static basic::Tracer protocols::frag_picker::scores::trABEGO_SS_Score ( "protocols.frag_picker.scores.ABEGO_SS_Score" ) [static]

static basic::Tracer protocols::frag_picker::scores::trAdaptiveScoreHistogram ( "fragment.picking.scores.AdaptiveScoreHistogram" ) [static]

static basic::Tracer protocols::frag_picker::scores::trAmbigCSScore ( "protocols.frag_picker.scores.AmbigCSScore" ) [static]

Referenced by protocols::frag_picker::scores::AmbigCSScore::AmbigCSScore(), and protocols::frag_picker::scores::AmbigCSScore::do_caching().

static basic::Tracer protocols::frag_picker::scores::trAtomBasedConstraintsScore ( "fragment.picking.scores.AtomBasedConstraintsScore" ) [static]

Referenced by protocols::frag_picker::scores::AtomBasedConstraintsScore::do_caching().

static basic::Tracer protocols::frag_picker::scores::trAtomPairConstraintsScore ( "fragment.picking.scores.AtomPairConstraintsScore" ) [static]

Referenced by protocols::frag_picker::scores::AtomPairConstraintsScore::cached_score(), and protocols::frag_picker::scores::MakeAtomPairConstraintsScore::make().

static basic::Tracer protocols::frag_picker::scores::trCSScore ( "protocols.frag_picker.scores.CSScore" ) [static]

Referenced by protocols::frag_picker::scores::CSScore::CSScore(), and protocols::frag_picker::scores::CSScore::do_caching().

static basic::Tracer protocols::frag_picker::scores::trDihedralConstraintsScore ( "fragment.picking.scores.DihedralConstraintsScore" ) [static]

Referenced by protocols::frag_picker::scores::DihedralConstraintsScore::cached_score(), and protocols::frag_picker::scores::MakeDihedralConstraintsScore::make().

static basic::Tracer protocols::frag_picker::scores::trDMEScore ( "protocols.frag_picker.scores.FragmentDME" ) [static]

Referenced by protocols::frag_picker::scores::FragmentDME::FragmentDME(), and protocols::frag_picker::scores::MakeFragmentDME::make().

static basic::Tracer protocols::frag_picker::scores::trGunnCost ( "core.fragment.GunnCost" ) [static]

static basic::Tracer protocols::frag_picker::scores::trGunnScore ( "protocols.frag_picker.scores.GunnCostScore" ) [static]

Referenced by protocols::frag_picker::scores::GunnCostScore::cached_score(), protocols::frag_picker::scores::GunnCostScore::computeGunnTuples(), protocols::frag_picker::scores::GunnCostScore::do_caching(), protocols::frag_picker::scores::GunnCostScore::GunnCostScore(), and protocols::frag_picker::scores::MakeGunnCostScore::make().

static basic::Tracer protocols::frag_picker::scores::trInterbondAngleScore ( "fragment.picking.scores.InterbondAngleScore" ) [static]

Referenced by protocols::frag_picker::scores::InterbondAngleScore::cached_score(), and protocols::frag_picker::scores::MakeInterbondAngleScore::make().

static basic::Tracer protocols::frag_picker::scores::trJCoupling ( "protocols.frag_picker.scores.JCoupling" ) [static]

Referenced by protocols::frag_picker::scores::MakeJCoupling::make().

static basic::Tracer protocols::frag_picker::scores::trPartialSecondarySimilarity ( "protocols.frag_picker.scores.PartialSecondarySimilarity" ) [static]

Referenced by protocols::frag_picker::scores::PartialSecondarySimilarity::do_caching().

static basic::Tracer protocols::frag_picker::scores::trPhiPsiRmsd ( "protocols.frag_picker.scores.PhiPsiRmsd" ) [static]

Referenced by protocols::frag_picker::scores::MakePhiPsiRmsd::make(), and protocols::frag_picker::scores::PhiPsiRmsd::PhiPsiRmsd().

static basic::Tracer protocols::frag_picker::scores::trPhiPsiSquareWell ( "protocols.frag_picker.scores.PhiPsiSquareWell" ) [static]

Referenced by protocols::frag_picker::scores::MakePhiPsiSquareWell::make(), and protocols::frag_picker::scores::PhiPsiSquareWell::PhiPsiSquareWell().

static basic::Tracer protocols::frag_picker::scores::trProfScore ( "protocols.frag_picker.scores.ScoreEValuator" ) [static]

static basic::Tracer protocols::frag_picker::scores::trProfScore ( "protocols.frag_picker.scores.ProfileScore" ) [static]

Referenced by protocols::frag_picker::scores::ProfileScore::do_caching(), protocols::frag_picker::scores::MakeScoreEValuator::make(), and protocols::frag_picker::scores::MakeProfileScore::make().

static basic::Tracer protocols::frag_picker::scores::trProfScoreBlosum62 ( "protocols.frag_picker.scores.ProfileScoreBlosum62" ) [static]

Referenced by protocols::frag_picker::scores::ProfileScoreBlosum62::do_caching(), and protocols::frag_picker::scores::MakeProfileScoreBlosum62::make().

static basic::Tracer protocols::frag_picker::scores::trProfScoreDistWeight ( "protocols.frag_picker.scores.ProfileScoreDistWeight" ) [static]

Referenced by protocols::frag_picker::scores::ProfileScoreDistWeight::do_caching(), and protocols::frag_picker::scores::MakeProfileScoreDistWeight::make().

static basic::Tracer protocols::frag_picker::scores::trProfScoreL1 ( "protocols.frag_picker.scores.ProfileScoreStructL1" ) [static]

static basic::Tracer protocols::frag_picker::scores::trProfScoreL1 ( "protocols.frag_picker.scores.ProfileScoreL1" ) [static]

static basic::Tracer protocols::frag_picker::scores::trProfScoreSubMatrix ( "protocols.frag_picker.scores.ProfileScoreSubMatrix" ) [static]

Referenced by protocols::frag_picker::scores::ProfileScoreSubMatrix::do_caching(), and protocols::frag_picker::scores::MakeProfileScoreSubMatrix::make().

static basic::Tracer protocols::frag_picker::scores::trRDCScore ( "protocols.frag_picker.scores.RDCScore" ) [static]

static basic::Tracer protocols::frag_picker::scores::trRDCScore ( "fragment.picking.scores.RDCScore" ) [static]

static basic::Tracer protocols::frag_picker::scores::trRmsScore ( "protocols.frag_picker.scores.FragmentAllAtomCrmsd" ) [static]

Referenced by protocols::frag_picker::scores::FragmentAllAtomCrmsd::FragmentAllAtomCrmsd(), protocols::frag_picker::scores::FragmentCrmsd::FragmentCrmsd(), protocols::frag_picker::scores::FragmentCrmsdResDepth::FragmentCrmsdResDepth(), protocols::frag_picker::scores::MakeFragmentCrmsdResDepth::make(), protocols::frag_picker::scores::MakeFragmentCrmsd::make(), and protocols::frag_picker::scores::MakeFragmentAllAtomCrmsd::make().

static basic::Tracer protocols::frag_picker::scores::trRmsScore ( "protocols.frag_picker.scores.FragmentCrmsdResDepth" ) [static]

static basic::Tracer protocols::frag_picker::scores::trRmsScore ( "protocols.frag_picker.scores.FragmentCrmsd" ) [static]

static basic::Tracer protocols::frag_picker::scores::trSecondarySimilarity ( "protocols.frag_picker.scores.SecondarySimilarity" ) [static]

Referenced by protocols::frag_picker::scores::SecondarySimilarity::do_caching(), and protocols::frag_picker::scores::SecondarySimilarity::do_caching_simple().

static basic::Tracer protocols::frag_picker::scores::trTalosSSSimilarity ( "protocols.frag_picker.scores.TalosSSSimilarity" ) [static]

Referenced by protocols::frag_picker::scores::TalosSSSimilarity::do_caching(), and protocols::frag_picker::scores::TalosSSSimilarity::do_caching_simple().

Variable Documentation

const core::Real protocols::frag_picker::scores::PHI_MIN_CONF = 0.5 [static]

const core::Real protocols::frag_picker::scores::PSI_MIN_CONF = 0.5 [static]

Classes

Typedefs

Functions

Variables

Typedef Documentation

Function Documentation

Variable Documentation