protocols::matdes::InterfacePackingFilter Class Reference

#include <InterfacePackingFilter.hh>

Inheritance diagram for protocols::matdes::InterfacePackingFilter:

Public Member Functions
	InterfacePackingFilter ()
	default ctor More...
bool	apply (core::pose::Pose const &pose) const override
	Returns true if the given pose passes the filter, false otherwise. More...
void	report (std::ostream &out, core::pose::Pose const &pose) const override
core::Real	report_sm (core::pose::Pose const &pose) const override
	used to report filter internals through a score or silent file More...
protocols::filters::FilterOP	clone () const override
protocols::filters::FilterOP	fresh_instance () const override
core::Real	compute (core::pose::Pose const &pose) const
	~InterfacePackingFilter () override
void	parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &, protocols::filters::Filters_map const &, protocols::moves::Movers_map const &, core::pose::Pose const &) override
core::Real	distance_cutoff () const
core::Real	contact_dist () const
core::Real	lower_threshold () const
core::Real	upper_threshold () const
bool	multicomp () const
std::string	sym_dof_names () const
void	distance_cutoff (core::Real const d)
void	contact_dist (core::Real const c)
void	lower_threshold (core::Real const l)
void	upper_threshold (core::Real const u)
void	sym_dof_names (std::string const s)
void	multicomp (bool const multicomp)
std::string	name () const override
Public Member Functions inherited from protocols::filters::Filter
	Filter ()
	Filter (std::string const &)
	Filter (Filter const &)
	~Filter () override
virtual std::string	get_type () const
std::string	get_user_defined_name () const
void	set_user_defined_name (std::string const &name)
virtual void	clear ()
	used to clear internal variables if needed. Using fresh_instance is preferred since it's a pure virtual More...
virtual core::Real	score (core::pose::Pose &pose)
virtual bool	filter_provides_citation_info () const
	Does this filter provide information about how to cite it? More...
virtual utility::vector1 < basic::citation_manager::CitationCollectionCOP >	provide_citation_info () const
	Provide the citation. More...
virtual bool	filter_is_unpublished () const
	Does this filter indicate that it is unpublished (and, by extension, that the author should be included in publications resulting from it)? More...
virtual utility::vector1 < basic::citation_manager::UnpublishedModuleInfoCOP >	provide_authorship_info_for_unpublished () const
	Provide a list of authors and their e-mail addresses, as strings. More...

Static Public Member Functions
static std::string	class_name ()
static void	provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)

Private Types
typedef protocols::filters::Filter	parent

Private Attributes
core::Real	distance_cutoff_
core::Real	contact_dist_
core::Real	lower_threshold_
core::Real	upper_threshold_
bool	multicomp_
std::string	sym_dof_names_

Additional Inherited Members
Protected Attributes inherited from protocols::filters::Filter
std::string	scorename_

Member Typedef Documentation

typedef protocols::filters::Filter protocols::matdes::InterfacePackingFilter::parent

private

Constructor & Destructor Documentation

protocols::matdes::InterfacePackingFilter::InterfacePackingFilter

(

)

default ctor

protocols::matdes::InterfacePackingFilter::~InterfacePackingFilter ( )

overridedefault

Member Function Documentation

bool protocols::matdes::InterfacePackingFilter::apply ( core::pose::Pose const &  pose ) const

overridevirtual

Returns true if the given pose passes the filter, false otherwise.

Implements protocols::filters::Filter.

References compute(), lower_threshold_, protocols::matdes::TR(), and upper_threshold_.

std::string protocols::matdes::InterfacePackingFilter::class_name ( )

static

Referenced by protocols::matdes::InterfacePackingFilterCreator::keyname(), name(), and provide_xml_schema().

protocols::filters::FilterOP protocols::matdes::InterfacePackingFilter::clone ( ) const

overridevirtual

Implements protocols::filters::Filter.

core::Real protocols::matdes::InterfacePackingFilter::compute

(

core::pose::Pose const &

pose

)

const

References core::scoring::packing::HolesResult::atom_scores, core::scoring::packing::compute_holes_score(), contact_dist_, distance_cutoff_, core::pose::Pose::fold_tree(), core::pose::symmetry::get_buildingblock_and_neighbor_subs(), core::pose::symmetry::get_intracomponent_and_neighbor_resis(), core::pose::symmetry::get_sym_aware_jump_num(), multicomp_, core::conformation::Residue::nheavyatoms(), core::kinematics::FoldTree::partition_by_jump(), core::pose::symmetry::partition_by_symm_jumps(), core::io::pose_from_pose(), core::pose::Pose::residue(), core::pose::Pose::size(), protocols::loops::start, core::pose::symmetry::sym_dof_jump_num(), sym_dof_names_, core::pose::symmetry::symmetry_info(), protocols::matdes::TR(), and core::conformation::Residue::xyz().

Referenced by apply(), report(), and report_sm().

core::Real protocols::matdes::InterfacePackingFilter::contact_dist

(

)

const

References contact_dist_.

Referenced by parse_my_tag().

void protocols::matdes::InterfacePackingFilter::contact_dist

(

core::Real const

c

)

References core::pack::dunbrack::c, and contact_dist_.

core::Real protocols::matdes::InterfacePackingFilter::distance_cutoff

(

)

const

References distance_cutoff_.

Referenced by parse_my_tag().

void protocols::matdes::InterfacePackingFilter::distance_cutoff

(

core::Real const

d

)

References distance_cutoff_.

protocols::filters::FilterOP protocols::matdes::InterfacePackingFilter::fresh_instance ( ) const

overridevirtual

Implements protocols::filters::Filter.

core::Real protocols::matdes::InterfacePackingFilter::lower_threshold

(

)

const

References lower_threshold_.

Referenced by parse_my_tag().

void protocols::matdes::InterfacePackingFilter::lower_threshold

(

core::Real const

l

)

References lower_threshold_.

bool protocols::matdes::InterfacePackingFilter::multicomp

(

)

const

References multicomp_.

Referenced by parse_my_tag().

void protocols::matdes::InterfacePackingFilter::multicomp

(

bool const

multicomp

)

References multicomp_.

std::string protocols::matdes::InterfacePackingFilter::name ( ) const

overridevirtual

Reimplemented from protocols::filters::Filter.

References class_name().

void protocols::matdes::InterfacePackingFilter::parse_my_tag ( utility::tag::TagCOP  tag, basic::datacache::DataMap &  , protocols::filters::Filters_map const &  , protocols::moves::Movers_map const &  , core::pose::Pose const &    )

overridevirtual

Reimplemented from protocols::filters::Filter.

References contact_dist(), distance_cutoff(), lower_threshold(), multicomp(), sym_dof_names(), protocols::matdes::TR(), and upper_threshold().

void protocols::matdes::InterfacePackingFilter::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd )

static

References class_name(), and protocols::filters::xsd_type_definition_w_attributes().

Referenced by protocols::matdes::InterfacePackingFilterCreator::provide_xml_schema().

void protocols::matdes::InterfacePackingFilter::report ( std::ostream &  out, core::pose::Pose const &  pose  ) const

overridevirtual

Reimplemented from protocols::filters::Filter.

References compute().

core::Real protocols::matdes::InterfacePackingFilter::report_sm ( core::pose::Pose const &  ) const

overridevirtual

used to report filter internals through a score or silent file

Reimplemented from protocols::filters::Filter.

References compute().

std::string protocols::matdes::InterfacePackingFilter::sym_dof_names

(

)

const

References sym_dof_names_.

Referenced by parse_my_tag().

void protocols::matdes::InterfacePackingFilter::sym_dof_names

(

std::string const

s

)

References sym_dof_names_.

core::Real protocols::matdes::InterfacePackingFilter::upper_threshold

(

)

const

References upper_threshold_.

Referenced by parse_my_tag().

void protocols::matdes::InterfacePackingFilter::upper_threshold

(

core::Real const

u

)

References protocols::hybridization::u, and upper_threshold_.

Member Data Documentation

core::Real protocols::matdes::InterfacePackingFilter::contact_dist_

private

Referenced by compute(), and contact_dist().

core::Real protocols::matdes::InterfacePackingFilter::distance_cutoff_

private

Referenced by compute(), and distance_cutoff().

core::Real protocols::matdes::InterfacePackingFilter::lower_threshold_

private

Referenced by apply(), and lower_threshold().

bool protocols::matdes::InterfacePackingFilter::multicomp_

private

Referenced by compute(), and multicomp().

std::string protocols::matdes::InterfacePackingFilter::sym_dof_names_

private

Referenced by compute(), and sym_dof_names().

core::Real protocols::matdes::InterfacePackingFilter::upper_threshold_

private

Referenced by apply(), and upper_threshold().

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

• src/protocols/matdes/InterfacePackingFilter.hh
• src/protocols/matdes/InterfacePackingFilter.cc