protocols::splice::FindEndpointsOperation Class Reference

#include <FindEndpointsOperation.hh>

Inheritance diagram for protocols::splice::FindEndpointsOperation:

Public Types
typedef RestrictOperationsBase	parent
Public Types inherited from protocols::task_operations::RestrictOperationsBase
typedef core::pack::task::operation::TaskOperation	TaskOperation
typedef core::pack::task::operation::TaskOperationOP	TaskOperationOP
typedef TaskOperation	parent
Public Types inherited from core::pack::task::operation::TaskOperation
typedef utility::tag::TagCOP	TagCOP
typedef basic::datacache::DataMap	DataMap
typedef pose::Pose	Pose

Public Member Functions
	FindEndpointsOperation ()
	~FindEndpointsOperation () override
TaskOperationOP	clone () const override
	Create another task operation of the type matching the most-derived version of the class. More...
void	apply (core::pose::Pose const &, core::pack::task::PackerTask &) const override
	restricts to repacking all residues outside of design_shell_ around each residue More...
void	parse_tag (TagCOP, DataMap &) override
	Used to parse an xml-like tag to load parameters and properties. More...
core::Size	Cterm_offset () const
void	Cterm_offset (core::Size const c)
core::Size	Nterm_offset () const
void	Nterm_offset (core::Size const n)
bool	even () const
void	even (bool const b)
bool	odd () const
void	odd (bool const b)
core::Real	distance_cutoff () const
void	distance_cutoff (core::Real const d)
core::Size	neighbors () const
void	neighbors (core::Size const s)
bool	point_inside () const
void	point_inside (bool const b)
core::Size	sequence_separation () const
void	sequence_separation (core::Size const s)
Public Member Functions inherited from protocols::task_operations::RestrictOperationsBase
	RestrictOperationsBase ()
	~RestrictOperationsBase () override
Public Member Functions inherited from core::pack::task::operation::TaskOperation
	~TaskOperation () override
virtual void	provide_citation_info (basic::citation_manager::CitationCollectionList &) const
	Provide citations to the passed CitationCollectionList Subclasses should add the info for themselves and any other classes they use. More...

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

Private Attributes
core::Size	Cterm_offset_
core::Size	Nterm_offset_
bool	even_
bool	odd_
core::Real	distance_cutoff_
core::Size	neighbors_
bool	point_inside_
core::Size	sequence_separation_

Additional Inherited Members
Protected Member Functions inherited from protocols::task_operations::RestrictOperationsBase
void	run_calculator (core::pose::Pose const &pose, std::string const &calculator, std::string const &calculation, utility::vector1_bool &residues) const
	this is the only real function - it takes a calculator name and calculation, and a PackerTask-compatible vector, and flips booleans in the vector according to the calculator More...

Detailed Description

Find the endpoints on a beta barrel

Member Typedef Documentation

typedef RestrictOperationsBase protocols::splice::FindEndpointsOperation::parent

Constructor & Destructor Documentation

protocols::splice::FindEndpointsOperation::FindEndpointsOperation

(

)

protocols::splice::FindEndpointsOperation::~FindEndpointsOperation ( )

overridedefault

Member Function Documentation

void protocols::splice::FindEndpointsOperation::apply ( core::pose::Pose const &  pose, core::pack::task::PackerTask &  task  ) const

overridevirtual

restricts to repacking all residues outside of design_shell_ around each residue

Implements protocols::task_operations::RestrictOperationsBase.

References distance_cutoff(), protocols::simple_filters::dssp(), core::scoring::dssp::Dssp::dssp_reduced(), even(), core::scoring::dssp::Dssp::get_dssp_secstruct(), core::conformation::Residue::name3(), neighbors(), protocols::splice::neighbors_in_vector(), odd(), protocols::task_operations::DesignAroundOperation::repack_shell(), core::pose::Pose::residue(), sequence_separation(), core::pose::Pose::size(), protocols::splice::TR(), and core::conformation::Residue::xyz().

core::pack::task::operation::TaskOperationOP protocols::splice::FindEndpointsOperation::clone ( ) const

overridevirtual

Create another task operation of the type matching the most-derived version of the class.

Implements protocols::task_operations::RestrictOperationsBase.

core::Size protocols::splice::FindEndpointsOperation::Cterm_offset ( ) const

inline

References Cterm_offset_.

Referenced by parse_tag().

void protocols::splice::FindEndpointsOperation::Cterm_offset ( core::Size const  c )

inline

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

core::Real protocols::splice::FindEndpointsOperation::distance_cutoff ( ) const

inline

References distance_cutoff_.

Referenced by apply(), and parse_tag().

void protocols::splice::FindEndpointsOperation::distance_cutoff ( core::Real const  d )

inline

References distance_cutoff_.

bool protocols::splice::FindEndpointsOperation::even ( ) const

inline

References even_.

Referenced by apply(), and parse_tag().

void protocols::splice::FindEndpointsOperation::even ( bool const  b )

inline

References protocols::match::upstream::b, and even_.

static std::string protocols::splice::FindEndpointsOperation::keyname ( )

inlinestatic

Referenced by protocols::splice::FindEndpointsOperationCreator::keyname(), and provide_xml_schema().

core::Size protocols::splice::FindEndpointsOperation::neighbors ( ) const

inline

References neighbors_.

Referenced by apply(), and parse_tag().

void protocols::splice::FindEndpointsOperation::neighbors ( core::Size const  s )

inline

References neighbors_.

core::Size protocols::splice::FindEndpointsOperation::Nterm_offset ( ) const

inline

References Nterm_offset_.

Referenced by parse_tag().

void protocols::splice::FindEndpointsOperation::Nterm_offset ( core::Size const  n )

inline

References Nterm_offset_.

bool protocols::splice::FindEndpointsOperation::odd ( ) const

inline

References odd_.

Referenced by apply(), and parse_tag().

void protocols::splice::FindEndpointsOperation::odd ( bool const  b )

inline

References protocols::match::upstream::b, and odd_.

void protocols::splice::FindEndpointsOperation::parse_tag ( TagCOP  tag, DataMap &    )

overridevirtual

Used to parse an xml-like tag to load parameters and properties.

Reimplemented from core::pack::task::operation::TaskOperation.

References Cterm_offset(), distance_cutoff(), even(), neighbors(), Nterm_offset(), odd(), point_inside(), sequence_separation(), and protocols::splice::TR().

bool protocols::splice::FindEndpointsOperation::point_inside ( ) const

inline

References point_inside_.

Referenced by parse_tag().

void protocols::splice::FindEndpointsOperation::point_inside ( bool const  b )

inline

References protocols::match::upstream::b, and point_inside_.

void protocols::splice::FindEndpointsOperation::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd )

static

References keyname(), and core::pack::task::operation::task_op_schema_w_attributes().

Referenced by protocols::splice::FindEndpointsOperationCreator::provide_xml_schema().

core::Size protocols::splice::FindEndpointsOperation::sequence_separation ( ) const

inline

References sequence_separation_.

Referenced by apply(), and parse_tag().

void protocols::splice::FindEndpointsOperation::sequence_separation ( core::Size const  s )

inline

References sequence_separation_.

Member Data Documentation

core::Size protocols::splice::FindEndpointsOperation::Cterm_offset_

private

Referenced by Cterm_offset().

core::Real protocols::splice::FindEndpointsOperation::distance_cutoff_

private

Referenced by distance_cutoff().

bool protocols::splice::FindEndpointsOperation::even_

private

Referenced by even().

core::Size protocols::splice::FindEndpointsOperation::neighbors_

private

Referenced by neighbors().

core::Size protocols::splice::FindEndpointsOperation::Nterm_offset_

private

Referenced by Nterm_offset().

bool protocols::splice::FindEndpointsOperation::odd_

private

Referenced by odd().

bool protocols::splice::FindEndpointsOperation::point_inside_

private

Referenced by point_inside().

core::Size protocols::splice::FindEndpointsOperation::sequence_separation_

private

Referenced by sequence_separation().

---

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

• src/protocols/splice/FindEndpointsOperation.hh
• src/protocols/splice/FindEndpointsOperation.cc