#include <SelectResiduesWithinChain.hh>

Inheritance diagram for protocols::task_operations::SelectResiduesWithinChainOperation:

[legend]

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
	SelectResiduesWithinChainOperation ()

	~SelectResiduesWithinChainOperation () 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	chain () const

void	chain (core::Size const c)

utility::vector1< core::Size >	resid ()

void	add_res (core::Size const resid)

void	allow_design (bool const b)

bool	allow_design () const

void	allow_repacking (bool const b)

bool	allow_repacking () const

void	modify_unselected_residues (bool const b)

bool	modify_unselected_residues () const

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 void	provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)

static std::string	keyname ()

Private Attributes
core::Size	chain_

utility::vector1< core::Size >	resid_

bool	allow_design_

bool	allow_repacking_

bool	modify_unselected_residues_

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

this class is a TaskOperation to prevent repacking of residues not near an interface.

Member Typedef Documentation

◆ parent

typedef RestrictOperationsBase protocols::task_operations::SelectResiduesWithinChainOperation::parent

Constructor & Destructor Documentation

◆ SelectResiduesWithinChainOperation()

protocols::task_operations::SelectResiduesWithinChainOperation::SelectResiduesWithinChainOperation ( )

References resid_.

◆ ~SelectResiduesWithinChainOperation()

protocols::task_operations::SelectResiduesWithinChainOperation::~SelectResiduesWithinChainOperation ( )

overridedefault

Member Function Documentation

◆ add_res()

void protocols::task_operations::SelectResiduesWithinChainOperation::add_res ( core::Size const resid )

inline

References resid(), and resid_.

◆ allow_design() [1/2]

bool protocols::task_operations::SelectResiduesWithinChainOperation::allow_design ( ) const

inline

References allow_design_.

Referenced by apply(), and parse_tag().

◆ allow_design() [2/2]

void protocols::task_operations::SelectResiduesWithinChainOperation::allow_design ( bool const b )

inline

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

◆ allow_repacking() [1/2]

bool protocols::task_operations::SelectResiduesWithinChainOperation::allow_repacking ( ) const

inline

References allow_repacking_.

Referenced by apply(), and parse_tag().

◆ allow_repacking() [2/2]

void protocols::task_operations::SelectResiduesWithinChainOperation::allow_repacking ( bool const b )

inline

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

◆ apply()

void protocols::task_operations::SelectResiduesWithinChainOperation::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 allow_design(), allow_repacking(), core::pack::task::operation::OperateOnCertainResidues::apply(), core::conformation::Residue::chain(), chain(), core::conformation::Conformation::chain_begin(), core::pose::Pose::conformation(), protocols::mean_field::max(), modify_unselected_residues(), core::conformation::Conformation::num_chains(), core::pack::task::operation::OperateOnCertainResidues::op(), resid_, core::pose::Pose::residue(), core::pack::task::operation::OperateOnCertainResidues::residue_indices(), core::pose::Pose::size(), and protocols::task_operations::TR().

◆ chain() [1/2]

core::Size protocols::task_operations::SelectResiduesWithinChainOperation::chain ( ) const

inline

References chain_.

Referenced by apply(), and parse_tag().

◆ chain() [2/2]

void protocols::task_operations::SelectResiduesWithinChainOperation::chain ( core::Size const c )

inline

References chain_.

◆ clone()

core::pack::task::operation::TaskOperationOP protocols::task_operations::SelectResiduesWithinChainOperation::clone ( ) const

overridevirtual

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

Implements protocols::task_operations::RestrictOperationsBase.

◆ keyname()

static std::string protocols::task_operations::SelectResiduesWithinChainOperation::keyname ( )

inlinestatic

Referenced by protocols::task_operations::SelectResiduesWithinChainOperationCreator::keyname(), and provide_xml_schema().

◆ modify_unselected_residues() [1/2]

bool protocols::task_operations::SelectResiduesWithinChainOperation::modify_unselected_residues ( ) const

inline

References modify_unselected_residues_.

Referenced by apply(), and parse_tag().

◆ modify_unselected_residues() [2/2]

void protocols::task_operations::SelectResiduesWithinChainOperation::modify_unselected_residues ( bool const b )

inline

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

◆ parse_tag()

void protocols::task_operations::SelectResiduesWithinChainOperation::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 allow_design(), allow_repacking(), chain(), modify_unselected_residues(), resid(), resid_, and protocols::task_operations::TR().

◆ provide_xml_schema()

void protocols::task_operations::SelectResiduesWithinChainOperation::provide_xml_schema ( utility::tag::XMLSchemaDefinition & xsd )

static

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

Referenced by protocols::task_operations::SelectResiduesWithinChainOperationCreator::provide_xml_schema().

◆ resid()

utility::vector1< core::Size > protocols::task_operations::SelectResiduesWithinChainOperation::resid ( )

inline

References resid_.

Referenced by add_res(), and parse_tag().

Member Data Documentation

◆ allow_design_

bool protocols::task_operations::SelectResiduesWithinChainOperation::allow_design_

private

Referenced by allow_design().

◆ allow_repacking_

bool protocols::task_operations::SelectResiduesWithinChainOperation::allow_repacking_

private

Referenced by allow_repacking().

◆ chain_

core::Size protocols::task_operations::SelectResiduesWithinChainOperation::chain_

private

Referenced by chain().

◆ modify_unselected_residues_

bool protocols::task_operations::SelectResiduesWithinChainOperation::modify_unselected_residues_

private

Referenced by modify_unselected_residues().

◆ resid_

utility::vector1< core::Size > protocols::task_operations::SelectResiduesWithinChainOperation::resid_

private

Referenced by add_res(), apply(), parse_tag(), resid(), and SelectResiduesWithinChainOperation().

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

src/protocols/task_operations/SelectResiduesWithinChain.hh
src/protocols/task_operations/SelectResiduesWithinChain.cc

Public Types

Public Member Functions

Static Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Member Typedef Documentation

◆ parent

Constructor & Destructor Documentation

◆ SelectResiduesWithinChainOperation()

◆ ~SelectResiduesWithinChainOperation()

Member Function Documentation

◆ add_res()

◆ allow_design() [1/2]

◆ allow_design() [2/2]

◆ allow_repacking() [1/2]

◆ allow_repacking() [2/2]

◆ apply()

◆ chain() [1/2]

◆ chain() [2/2]

◆ clone()

◆ keyname()

◆ modify_unselected_residues() [1/2]

◆ modify_unselected_residues() [2/2]

◆ parse_tag()

◆ provide_xml_schema()

◆ resid()

Member Data Documentation

◆ allow_design_

◆ allow_repacking_

◆ chain_

◆ modify_unselected_residues_

◆ resid_