protocols::toolbox::task_operations::ThreadSequenceOperation Class Reference

#include <ThreadSequenceOperation.hh>

Inheritance diagram for protocols::toolbox::task_operations::ThreadSequenceOperation:

Collaboration diagram for protocols::toolbox::task_operations::ThreadSequenceOperation:

Public Types
typedef RestrictOperationsBase	parent
Public Types inherited from protocols::toolbox::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::TagPtr	TagPtr
typedef pose::Pose	Pose

Public Member Functions
	ThreadSequenceOperation ()
	ThreadSequenceOperation (std::string const seq)
virtual	~ThreadSequenceOperation ()
virtual TaskOperationOP	clone () const
	Create another task operation of the type matching the most-derived version of the class. More...
virtual void	target_sequence (std::string const seq)
virtual std::string	target_sequence () const
virtual void	apply (core::pose::Pose const &, core::pack::task::PackerTask &) const
	Change a packer task in some way. The input pose is the one to which the input task will be later applied. More...
virtual void	parse_tag (TagPtr)
	Used to parse an xml-like tag to load parameters and properties. More...
core::Size	start_res () const
void	start_res (core::Size const s)
bool	allow_design_around () const
void	allow_design_around (bool const b)
Public Member Functions inherited from protocols::toolbox::task_operations::RestrictOperationsBase
	RestrictOperationsBase ()
virtual	~RestrictOperationsBase ()
Public Member Functions inherited from core::pack::task::operation::TaskOperation
virtual	~TaskOperation ()
virtual void	parse_def (utility::lua::LuaObject const &def)

Private Attributes
std::string	target_sequence_
core::Size	start_res_
bool	allow_design_around_

Additional Inherited Members
Protected Member Functions inherited from protocols::toolbox::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.

Definition at line 41 of file ThreadSequenceOperation.hh.

Member Typedef Documentation

typedef RestrictOperationsBase protocols::toolbox::task_operations::ThreadSequenceOperation::parent

Definition at line 44 of file ThreadSequenceOperation.hh.

Constructor & Destructor Documentation

protocols::toolbox::task_operations::ThreadSequenceOperation::ThreadSequenceOperation

(

)

Definition at line 45 of file ThreadSequenceOperation.cc.

References start_res(), and target_sequence().

Referenced by clone().

protocols::toolbox::task_operations::ThreadSequenceOperation::ThreadSequenceOperation

(

std::string const

seq)

Definition at line 50 of file ThreadSequenceOperation.cc.

References target_sequence().

protocols::toolbox::task_operations::ThreadSequenceOperation::~ThreadSequenceOperation ( )

virtual

Definition at line 55 of file ThreadSequenceOperation.cc.

Member Function Documentation

bool protocols::toolbox::task_operations::ThreadSequenceOperation::allow_design_around ( ) const

inline

Definition at line 64 of file ThreadSequenceOperation.hh.

References allow_design_around_.

Referenced by apply(), and parse_tag().

void protocols::toolbox::task_operations::ThreadSequenceOperation::allow_design_around ( bool const  b)

inline

Definition at line 65 of file ThreadSequenceOperation.hh.

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

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

virtual

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

Implements protocols::toolbox::task_operations::RestrictOperationsBase.

Definition at line 69 of file ThreadSequenceOperation.cc.

References core::chemical::aa_from_oneletter_code(), allow_design_around(), core::pack::task::operation::RestrictAbsentCanonicalAAS::apply(), core::pack::task::operation::RestrictAbsentCanonicalAAS::include_residue(), core::pack::task::operation::RestrictAbsentCanonicalAAS::keep_aas(), core::chemical::num_canonical_aas, start_res(), target_sequence(), target_sequence_, and core::pose::Pose::total_residue().

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

virtual

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

Implements protocols::toolbox::task_operations::RestrictOperationsBase.

Definition at line 63 of file ThreadSequenceOperation.cc.

References ThreadSequenceOperation().

void protocols::toolbox::task_operations::ThreadSequenceOperation::parse_tag ( TagPtr  tag)

virtual

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

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

Definition at line 122 of file ThreadSequenceOperation.cc.

References allow_design_around(), start_res(), target_sequence(), and protocols::TR().

core::Size protocols::toolbox::task_operations::ThreadSequenceOperation::start_res

(

)

const

Definition at line 112 of file ThreadSequenceOperation.cc.

References start_res_.

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

void protocols::toolbox::task_operations::ThreadSequenceOperation::start_res

(

core::Size const

s)

Definition at line 117 of file ThreadSequenceOperation.cc.

References start_res_.

void protocols::toolbox::task_operations::ThreadSequenceOperation::target_sequence ( std::string const  seq)

virtual

Definition at line 100 of file ThreadSequenceOperation.cc.

References target_sequence_.

Referenced by protocols::protein_interface_design::movers::Splice::apply().

std::string protocols::toolbox::task_operations::ThreadSequenceOperation::target_sequence ( ) const

virtual

Definition at line 106 of file ThreadSequenceOperation.cc.

References target_sequence_.

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

Member Data Documentation

bool protocols::toolbox::task_operations::ThreadSequenceOperation::allow_design_around_

private

Definition at line 69 of file ThreadSequenceOperation.hh.

Referenced by allow_design_around().

core::Size protocols::toolbox::task_operations::ThreadSequenceOperation::start_res_

private

Definition at line 68 of file ThreadSequenceOperation.hh.

Referenced by start_res().

std::string protocols::toolbox::task_operations::ThreadSequenceOperation::target_sequence_

private

Definition at line 67 of file ThreadSequenceOperation.hh.

Referenced by apply(), and target_sequence().

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

• src/protocols/toolbox/task_operations/ThreadSequenceOperation.hh
• src/protocols/toolbox/task_operations/ThreadSequenceOperation.cc