protocols::toolbox::task_operations::SelectBySASAOperation Class Reference

#include <SelectBySASAOperation.hh>

Public Member Functions
	SelectBySASAOperation (std::string mode="sc", std::string state="monomer", core::Real probe_radius=2.2, core::Real core_asa=0, core::Real surface_asa=30, std::string jump_nums="1", std::string sym_dof_names="", bool core=0, bool boundary=0, bool surface=0, bool verbose=0)
virtual	~SelectBySASAOperation ()
virtual core::pack::task::operation::TaskOperationOP	clone () const
virtual void	apply (core::pose::Pose const &, core::pack::task::PackerTask &) const
void	parse_tag (TagCOP tag, DataMap &)
void	parse_def (utility::lua::LuaObject const &def)

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_

Constructor & Destructor Documentation

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

Referenced by clone().

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

virtual

Member Function Documentation

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

virtual

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

References atom_mask, 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::pose::Pose::n_residue(), core::conformation::Residue::name3(), core::conformation::Residue::nheavyatoms(), core::pack::task::PackerTask::nonconst_residue_task(), core::conformation::Conformation::num_chains(), basic::options::option, core::pose::Pose::pdb_info(), core::pack::task::ResidueLevelTask::prevent_repacking(), prevent_repacking, probe_radius_, basic::options::OptionKeys::out::file::renumber_pdb, core::pose::Pose::residue(), core::id::AtomID_Map< T >::set(), core::pose::Pose::split_by_chain(), state_, utility::string_split(), surface_, surface_asa_, core::pose::symmetry::sym_dof_jump_num(), sym_dof_names_, core::pose::symmetry::symmetry_info(), protocols::toolbox::task_operations::TR, protocols::stepwise::sampler::rigid_body::translate(), utility_exit_with_message, and verbose_.

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

virtual

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

References SelectBySASAOperation().

void protocols::toolbox::task_operations::SelectBySASAOperation::parse_def

(

utility::lua::LuaObject const &

def

)

References boundary_, core_, core_asa_, jump_nums_, mode_, probe_radius_, state_, surface_, surface_asa_, sym_dof_names_, utility::lua::LuaObject::to(), and verbose_.

void protocols::toolbox::task_operations::SelectBySASAOperation::parse_tag	(	TagCOP	tag,
		DataMap &
	)

References boundary_, core_, core_asa_, jump_nums_, mode_, probe_radius_, state_, surface_, surface_asa_, sym_dof_names_, and verbose_.

Member Data Documentation

bool protocols::toolbox::task_operations::SelectBySASAOperation::boundary_

private

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

bool protocols::toolbox::task_operations::SelectBySASAOperation::core_

private

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

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

private

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

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

private

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

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

private

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

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

private

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

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

private

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

bool protocols::toolbox::task_operations::SelectBySASAOperation::surface_

private

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

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

private

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

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

private

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

bool protocols::toolbox::task_operations::SelectBySASAOperation::verbose_

private

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

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

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