#include <RestrictIdentitiesAtAlignedPositions.hh>

Inheritance diagram for protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation:

[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
	RestrictIdentitiesAtAlignedPositionsOperation ()

	~RestrictIdentitiesAtAlignedPositionsOperation () 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
	Change a packer task in some way. The input pose is the one to which the input task will be later applied. More...

void	parse_tag (TagCOP, DataMap &) override
	Used to parse an xml-like tag to load parameters and properties. More...

utility::vector1< core::Size >	res_ids () const

void	res_ids (utility::vector1< core::Size > const &s)

void	source_pose (std::string const &s)

void	chain (core::Size const c)

core::Size	chain () const

void	design_only_target_residues (bool const b)

bool	design_only_target_residues () const

bool	prevent_repacking () const

void	prevent_repacking (bool const b)

void	keep_aas (std::string const &s)

std::string	keep_aas () const

void	restrict_identities (bool const b)

bool	restrict_identities () const

void	repack_shell (core::Real r)

core::Real	repack_shell ()

core::Real	design_shell ()

void	design_shell (core::Real r)

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::pose::PoseOP	source_pose_

utility::vector1< core::Size >	res_ids_

core::Size	chain_

bool	design_only_target_residues_

bool	prevent_repacking_

std::string	keep_aas_

bool	restrict_identities_

core::Real	design_shell_

core::Real	repack_shell_

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::RestrictIdentitiesAtAlignedPositionsOperation::parent

Constructor & Destructor Documentation

◆ RestrictIdentitiesAtAlignedPositionsOperation()

protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::RestrictIdentitiesAtAlignedPositionsOperation ( )

References res_ids_, and source_pose_.

◆ ~RestrictIdentitiesAtAlignedPositionsOperation()

protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::~RestrictIdentitiesAtAlignedPositionsOperation ( )

override

Member Function Documentation

◆ apply()

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::apply	(	core::pose::Pose const &	,
		core::pack::task::PackerTask &
	)		const

overridevirtual

Change a packer task in some way. The input pose is the one to which the input task will be later applied.

Implements protocols::task_operations::RestrictOperationsBase.

References protocols::task_operations::DesignAroundOperation::apply(), core::pack::task::operation::OperateOnCertainResidues::apply(), chain(), design_only_target_residues(), protocols::task_operations::DesignAroundOperation::design_shell(), design_shell_, protocols::rosetta_scripts::find_nearest_res(), protocols::task_operations::DesignAroundOperation::include_residue(), keep_aas_, core::conformation::Residue::name1(), core::pack::task::operation::OperateOnCertainResidues::op(), prevent_repacking(), protocols::task_operations::DesignAroundOperation::repack_shell(), repack_shell_, res_ids_, core::pose::Pose::residue(), core::pack::task::operation::OperateOnCertainResidues::residue_indices(), restrict_identities(), source_pose_, and protocols::task_operations::TR().

◆ chain() [1/2]

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

inline

References chain_.

Referenced by apply(), and parse_tag().

◆ chain() [2/2]

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

inline

References chain_.

◆ clone()

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

overridevirtual

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

Implements protocols::task_operations::RestrictOperationsBase.

◆ design_only_target_residues() [1/2]

bool protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::design_only_target_residues ( ) const

inline

References design_only_target_residues_.

Referenced by apply(), and parse_tag().

◆ design_only_target_residues() [2/2]

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::design_only_target_residues ( bool const b )

inline

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

◆ design_shell() [1/2]

core::Real protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::design_shell ( )

inline

References design_shell_.

Referenced by parse_tag().

◆ design_shell() [2/2]

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::design_shell ( core::Real r )

inline

References design_shell_.

◆ keep_aas() [1/2]

std::string protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::keep_aas ( ) const

inline

References keep_aas_.

◆ keep_aas() [2/2]

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::keep_aas ( std::string const & s )

inline

References keep_aas_.

◆ keyname()

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

inlinestatic

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

◆ parse_tag()

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::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 chain(), design_only_target_residues(), design_shell(), keep_aas_, core::pose::parse_resnum(), prevent_repacking(), repack_shell(), res_ids_, restrict_identities(), source_pose(), source_pose_, and protocols::task_operations::TR().

◆ prevent_repacking() [1/2]

bool protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::prevent_repacking ( ) const

inline

References prevent_repacking_.

Referenced by apply(), and parse_tag().

◆ prevent_repacking() [2/2]

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::prevent_repacking ( bool const b )

inline

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

◆ provide_xml_schema()

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::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::RestrictIdentitiesAtAlignedPositionsOperationCreator::provide_xml_schema().

◆ repack_shell() [1/2]

core::Real protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::repack_shell ( )

inline

References repack_shell_.

Referenced by parse_tag().

◆ repack_shell() [2/2]

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::repack_shell ( core::Real r )

inline

References repack_shell_.

◆ res_ids() [1/2]

utility::vector1< core::Size > protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::res_ids ( ) const

inline

References res_ids_.

◆ res_ids() [2/2]

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::res_ids ( utility::vector1< core::Size > const & s )

inline

References res_ids_.

◆ restrict_identities() [1/2]

bool protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::restrict_identities ( ) const

inline

References restrict_identities_.

Referenced by apply(), and parse_tag().

◆ restrict_identities() [2/2]

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::restrict_identities ( bool const b )

inline

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

◆ source_pose()

void protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::source_pose ( std::string const & s )

References core::import_pose::PDB_file, core::import_pose::pose_from_file(), and source_pose_.

Referenced by parse_tag().

Member Data Documentation

◆ chain_

core::Size protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::chain_

private

Referenced by chain().

◆ design_only_target_residues_

bool protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::design_only_target_residues_

private

Referenced by design_only_target_residues().

◆ design_shell_

core::Real protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::design_shell_

private

Referenced by apply(), and design_shell().

◆ keep_aas_

std::string protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::keep_aas_

private

Referenced by apply(), keep_aas(), and parse_tag().

◆ prevent_repacking_

bool protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::prevent_repacking_

private

Referenced by prevent_repacking().

◆ repack_shell_

core::Real protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::repack_shell_

private

Referenced by apply(), and repack_shell().

◆ res_ids_

utility::vector1< core::Size > protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::res_ids_

private

Referenced by apply(), parse_tag(), res_ids(), and RestrictIdentitiesAtAlignedPositionsOperation().

◆ restrict_identities_

bool protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::restrict_identities_

private

Referenced by restrict_identities().

◆ source_pose_

core::pose::PoseOP protocols::task_operations::RestrictIdentitiesAtAlignedPositionsOperation::source_pose_

private

Referenced by apply(), parse_tag(), RestrictIdentitiesAtAlignedPositionsOperation(), and source_pose().

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

src/protocols/task_operations/RestrictIdentitiesAtAlignedPositions.hh
src/protocols/task_operations/RestrictIdentitiesAtAlignedPositions.cc

Public Types

Public Member Functions

Static Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Member Typedef Documentation

◆ parent

Constructor & Destructor Documentation

◆ RestrictIdentitiesAtAlignedPositionsOperation()

◆ ~RestrictIdentitiesAtAlignedPositionsOperation()

Member Function Documentation

◆ apply()

◆ chain() [1/2]

◆ chain() [2/2]

◆ clone()

◆ design_only_target_residues() [1/2]

◆ design_only_target_residues() [2/2]

◆ design_shell() [1/2]

◆ design_shell() [2/2]

◆ keep_aas() [1/2]

◆ keep_aas() [2/2]

◆ keyname()

◆ parse_tag()

◆ prevent_repacking() [1/2]

◆ prevent_repacking() [2/2]

◆ provide_xml_schema()

◆ repack_shell() [1/2]

◆ repack_shell() [2/2]

◆ res_ids() [1/2]

◆ res_ids() [2/2]

◆ restrict_identities() [1/2]

◆ restrict_identities() [2/2]

◆ source_pose()

Member Data Documentation

◆ chain_

◆ design_only_target_residues_

◆ design_shell_

◆ keep_aas_

◆ prevent_repacking_

◆ repack_shell_

◆ res_ids_

◆ restrict_identities_

◆ source_pose_