protocols::task_operations::SelectBySASAOperation Class Reference

#include <SelectBySASAOperation.hh>

Inheritance diagram for protocols::task_operations::SelectBySASAOperation:

Public Member Functions
	SelectBySASAOperation (std::string const &mode="sc", std::string const &state="monomer", core::Real probe_radius=2.2, core::Real core_asa=0, core::Real surface_asa=30, std::string const &jump_nums="1", std::string const &sym_dof_names="", bool core=0, bool boundary=0, bool surface=0, bool verbose=0)
	~SelectBySASAOperation () override
core::pack::task::operation::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 tag, DataMap &) override
	Used to parse an xml-like tag to load parameters and properties. More...
Public Member Functions inherited from core::pack::task::operation::TaskOperation
	~TaskOperation () override
virtual bool	task_operation_provides_citation_info () const
	Does this task operation 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	task_operation_is_unpublished () const
	Does this task_operation indicate that it is unpublished (and, by extension, that the author should be included in publications resulting from it)?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 void	provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)
static std::string	keyname ()

Private Attributes
std::string	mode_
std::string	state_
core::Real	probe_radius_
core::Real	core_asa_
core::Real	surface_asa_
std::string	jump_nums_
std::string	sym_dof_names_
bool	core_
bool	boundary_
bool	surface_
bool	verbose_

Additional Inherited Members
Public Types inherited from core::pack::task::operation::TaskOperation
typedef utility::tag::TagCOP	TagCOP
typedef basic::datacache::DataMap	DataMap
typedef pose::Pose	Pose

Constructor & Destructor Documentation

protocols::task_operations::SelectBySASAOperation::SelectBySASAOperation	(	std::string const &	mode = "sc",
		std::string const &	state = "monomer",
		core::Real	probe_radius = 2.2,
		core::Real	core_asa = 0,
		core::Real	surface_asa = 30,
		std::string const &	jump_nums = "1",
		std::string const &	sym_dof_names = "",
		bool	core = 0,
		bool	boundary = 0,
		bool	surface = 0,
		bool	verbose = 0
	)

protocols::task_operations::SelectBySASAOperation::~SelectBySASAOperation ( )

overridedefault

Member Function Documentation

void protocols::task_operations::SelectBySASAOperation::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 core::pack::task::operation::TaskOperation.

References boundary_, core::scoring::calc_per_atom_sasa(), core::pose::Pose::conformation(), core_, core_asa_, core::pose::symmetry::extract_asymmetric_unit(), core::pose::symmetry::get_sym_aware_jump_num(), core::pose::initialize_atomid_map(), core::conformation::Residue::is_protein(), core::pose::symmetry::is_symmetric(), jump_nums_, mode_, core::conformation::Residue::name3(), core::conformation::Residue::nheavyatoms(), core::pack::task::PackerTask::nonconst_residue_task(), core::conformation::Conformation::num_chains(), core::pose::Pose::pdb_info(), core::pack::task::ResidueLevelTask::prevent_repacking(), probe_radius_, core::pose::Pose::residue(), core::id::AtomID_Map< T >::set(), core::pose::Pose::size(), core::pose::Pose::split_by_chain(), state_, surface_, surface_asa_, core::pose::symmetry::sym_dof_jump_num(), sym_dof_names_, core::pose::symmetry::symmetry_info(), protocols::task_operations::TR(), protocols::toolbox::rigid_body::translate(), and verbose_.

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

overridevirtual

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

Implements core::pack::task::operation::TaskOperation.

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

inlinestatic

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

void protocols::task_operations::SelectBySASAOperation::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 boundary_, core_, core_asa_, jump_nums_, mode_, probe_radius_, state_, surface_, surface_asa_, sym_dof_names_, and verbose_.

void protocols::task_operations::SelectBySASAOperation::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::SelectBySASAOperationCreator::provide_xml_schema().

Member Data Documentation

bool protocols::task_operations::SelectBySASAOperation::boundary_

private

Referenced by apply(), and parse_tag().

bool protocols::task_operations::SelectBySASAOperation::core_

private

Referenced by apply(), and parse_tag().

core::Real protocols::task_operations::SelectBySASAOperation::core_asa_

private

Referenced by apply(), and parse_tag().

std::string protocols::task_operations::SelectBySASAOperation::jump_nums_

private

Referenced by apply(), and parse_tag().

std::string protocols::task_operations::SelectBySASAOperation::mode_

private

Referenced by apply(), and parse_tag().

core::Real protocols::task_operations::SelectBySASAOperation::probe_radius_

private

Referenced by apply(), and parse_tag().

std::string protocols::task_operations::SelectBySASAOperation::state_

private

Referenced by apply(), and parse_tag().

bool protocols::task_operations::SelectBySASAOperation::surface_

private

Referenced by apply(), and parse_tag().

core::Real protocols::task_operations::SelectBySASAOperation::surface_asa_

private

Referenced by apply(), and parse_tag().

std::string protocols::task_operations::SelectBySASAOperation::sym_dof_names_

private

Referenced by apply(), and parse_tag().

bool protocols::task_operations::SelectBySASAOperation::verbose_

private

Referenced by apply(), and parse_tag().

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

• src/protocols/task_operations/SelectBySASAOperation.hh
• src/protocols/task_operations/SelectBySASAOperation.cc