protocols::sewing::scoring::SubsetPartnerMotifScorer Class Reference

#include <SubsetPartnerMotifScorer.hh>

Inheritance diagram for protocols::sewing::scoring::SubsetPartnerMotifScorer:

Public Member Functions
	SubsetPartnerMotifScorer ()
	default construct More...
	~SubsetPartnerMotifScorer () override=default
	SubsetPartnerMotifScorer (SubsetPartnerMotifScorer const &)
core::Real	score (data_storage::SmartAssemblyCOP assembly) override
core::Real	interface_motif_score (data_storage::SmartAssemblyCOP assembly)
core::Real	get_weight () const override
void	set_weight (core::Real) override
std::string	get_starts_and_ends () const
void	set_starts_and_ends (std::string)
core::Size	get_region_start () const
core::Size	get_region_end () const
void	set_region_start (core::Size)
void	set_region_end (core::Size)
std::string	get_name () const override
void	set_options_from_tag (utility::tag::TagCOP scorer_tag, basic::datacache::DataMap &datamap) override
Public Member Functions inherited from protocols::sewing::scoring::MotifScorer
	MotifScorer ()
	default construct More...
	~MotifScorer () override=default
	MotifScorer (MotifScorer const &)
core::Real	norm_motif_score (data_storage::SmartAssemblyCOP assembly)
core::Real	full_motif_score (data_storage::SmartAssemblyCOP assembly)
numeric::xyzTransform< core::Real >	get_stub (data_storage::SmartSewingResidueCOP residue) const
core::Real	get_score (numeric::xyzTransform< core::Real > stub1, char ss1, char aa1, numeric::xyzTransform< core::Real > stub2, char ss2, char aa2) const
core::Real	get_last_score () const override
void	set_last_score (core::Real score) override
core::Real	get_old_last_score () const override
void	set_old_last_score (core::Real score) override
Public Member Functions inherited from protocols::sewing::scoring::AssemblyScorer
virtual	~AssemblyScorer ()=default
	Destructor. More...
	AssemblyScorer ()=default
	Prevent direct instantiation: No other constructors allowed. More...
	AssemblyScorer (AssemblyScorer const &)=default

Static Public Member Functions
static std::string	type_name ()
static void	provide_xml_schema (utility::tag::XMLSchemaDefinition &)
Static Public Member Functions inherited from protocols::sewing::scoring::MotifScorer
static std::string	type_name ()
static void	provide_xml_schema (utility::tag::XMLSchemaDefinition &)

Private Attributes
core::Real	weight_ =1
std::string	starts_and_ends_ =""
core::Size	region_start_ =1
core::Size	region_end_ =1

Additional Inherited Members
Protected Attributes inherited from protocols::sewing::scoring::MotifScorer
core::scoring::motif::MotifHashManager &	mman_
core::chemical::ResidueTypeSetCOP	res_type_set_
core::Real	last_score_ =1000
core::Real	old_last_score_ =1000

Constructor & Destructor Documentation

SubsetPartnerMotifScorer() [1/2]

protocols::sewing::scoring::SubsetPartnerMotifScorer::SubsetPartnerMotifScorer

(

)

default construct

~SubsetPartnerMotifScorer()

protocols::sewing::scoring::SubsetPartnerMotifScorer::~SubsetPartnerMotifScorer ( )

overridedefault

SubsetPartnerMotifScorer() [2/2]

protocols::sewing::scoring::SubsetPartnerMotifScorer::SubsetPartnerMotifScorer

(

SubsetPartnerMotifScorer const &

src

)

Member Function Documentation

get_name()

std::string protocols::sewing::scoring::SubsetPartnerMotifScorer::get_name ( ) const

inlineoverridevirtual

Reimplemented from protocols::sewing::scoring::MotifScorer.

get_region_end()

core::Size protocols::sewing::scoring::SubsetPartnerMotifScorer::get_region_end

(

)

const

References region_end_.

get_region_start()

core::Size protocols::sewing::scoring::SubsetPartnerMotifScorer::get_region_start

(

)

const

References region_start_.

get_starts_and_ends()

std::string protocols::sewing::scoring::SubsetPartnerMotifScorer::get_starts_and_ends

(

)

const

References starts_and_ends_.

get_weight()

core::Real protocols::sewing::scoring::SubsetPartnerMotifScorer::get_weight ( ) const

overridevirtual

Reimplemented from protocols::sewing::scoring::MotifScorer.

References weight_.

interface_motif_score()

core::Real protocols::sewing::scoring::SubsetPartnerMotifScorer::interface_motif_score

(

data_storage::SmartAssemblyCOP

assembly

)

use Will's Motif score to calculate the motif score for the entire Assembly

References protocols::simple_filters::dssp(), core::pose::motif::get_backbone_reference_frame(), protocols::sewing::scoring::MotifScorer::get_score(), protocols::sewing::scoring::MotifScorer::get_stub(), region_end_, region_start_, protocols::sewing::scoring::MotifScorer::res_type_set_, and score().

Referenced by score().

provide_xml_schema()

void protocols::sewing::scoring::SubsetPartnerMotifScorer::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd )

static

References protocols::sewing::scoring::AssemblyScorerFactory::assembly_scorer_ct_namer(), and type_name().

Referenced by protocols::sewing::scoring::SubsetPartnerMotifScorerCreator::provide_xml_schema().

score()

core::Real protocols::sewing::scoring::SubsetPartnerMotifScorer::score ( data_storage::SmartAssemblyCOP  assembly )

overridevirtual

Use the negative normalized motif score

Reimplemented from protocols::sewing::scoring::MotifScorer.

References protocols::sewing::scoring::MotifScorer::get_last_score(), interface_motif_score(), protocols::sewing::scoring::MotifScorer::set_last_score(), and protocols::sewing::scoring::MotifScorer::set_old_last_score().

Referenced by interface_motif_score().

set_options_from_tag()

void protocols::sewing::scoring::SubsetPartnerMotifScorer::set_options_from_tag ( utility::tag::TagCOP  scorer_tag, basic::datacache::DataMap &  datamap  )

overridevirtual

Reimplemented from protocols::sewing::scoring::MotifScorer.

References region_end_, region_start_, protocols::sewing::scoring::TR(), and weight_.

set_region_end()

void protocols::sewing::scoring::SubsetPartnerMotifScorer::set_region_end

(

core::Size

setting

)

References region_end_.

set_region_start()

void protocols::sewing::scoring::SubsetPartnerMotifScorer::set_region_start

(

core::Size

setting

)

References region_start_.

set_starts_and_ends()

void protocols::sewing::scoring::SubsetPartnerMotifScorer::set_starts_and_ends

(

std::string

starts_and_ends

)

References starts_and_ends_, and protocols::sewing::scoring::TR().

set_weight()

void protocols::sewing::scoring::SubsetPartnerMotifScorer::set_weight ( core::Real  weight )

overridevirtual

Reimplemented from protocols::sewing::scoring::MotifScorer.

References weight_.

type_name()

std::string protocols::sewing::scoring::SubsetPartnerMotifScorer::type_name ( )

static

Referenced by protocols::sewing::scoring::SubsetPartnerMotifScorerCreator::keyname(), and provide_xml_schema().

Member Data Documentation

region_end_

core::Size protocols::sewing::scoring::SubsetPartnerMotifScorer::region_end_ =1

private

Referenced by get_region_end(), interface_motif_score(), set_options_from_tag(), and set_region_end().

region_start_

core::Size protocols::sewing::scoring::SubsetPartnerMotifScorer::region_start_ =1

private

Referenced by get_region_start(), interface_motif_score(), set_options_from_tag(), and set_region_start().

starts_and_ends_

std::string protocols::sewing::scoring::SubsetPartnerMotifScorer::starts_and_ends_ =""

private

Referenced by get_starts_and_ends(), and set_starts_and_ends().

weight_

core::Real protocols::sewing::scoring::SubsetPartnerMotifScorer::weight_ =1

private

Referenced by get_weight(), set_options_from_tag(), and set_weight().

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

• src/protocols/sewing/scoring/SubsetPartnerMotifScorer.hh
• src/protocols/sewing/scoring/SubsetPartnerMotifScorer.cc