protocols::simple_filters::TaskAwareSASAFilter Class Reference

#include <TaskAwareSASAFilter.hh>

Public Types
typedef protocols::filters::Filter	Super
typedef protocols::filters::Filter	Filter
typedef protocols::filters::FilterOP	FilterOP
typedef core::Real	Real
typedef core::pose::Pose	Pose
typedef utility::tag::TagCOP	TagCOP
typedef protocols::filters::Filters_map	Filters_map
typedef basic::datacache::DataMap	DataMap
typedef protocols::moves::Movers_map	Movers_map

Public Member Functions
	TaskAwareSASAFilter ()
	TaskAwareSASAFilter (core::pack::task::TaskFactoryOP task_factory, core::Real const t, bool const d, bool const s, core::Real const r, core::Size const j)
	TaskAwareSASAFilter (TaskAwareSASAFilter const &rval)
virtual	~TaskAwareSASAFilter ()
virtual protocols::filters::FilterOP	clone () const
virtual protocols::filters::FilterOP	fresh_instance () const
virtual std::string	name () const
void	task_factory (core::pack::task::TaskFactoryOP task_factory)
void	threshold (core::Real const t)
void	designable_only (bool const d)
void	sc_only (bool const s)
void	probe_radius (core::Real const r)
void	jump_id (core::Size const j)
core::pack::task::TaskFactoryOP	task_factory () const
core::Real	threshold () const
bool	designable_only () const
bool	sc_only () const
core::Real	probe_radius () const
core::Size	jump_id () const
virtual void	parse_my_tag (TagCOP tag, basic::datacache::DataMap &, protocols::filters::Filters_map const &, Movers_map const &, Pose const &)
	parse xml More...
virtual bool	apply (core::pose::Pose const &pose) const
	Returns true if the given pose passes the filter, false otherwise. More...
virtual core::Real	report_sm (core::pose::Pose const &pose) const
	used to report filter internals through a score or silent file More...
virtual void	report (std::ostream &out, core::pose::Pose const &pose) const
core::Real	compute (core::pose::Pose const &pose, bool const verbose) const
	calc oligomeric AverageDegree More...
Public Member Functions inherited from protocols::filters::Filter
	Filter ()
	Filter (std::string const &)
	Filter (Filter const &)
virtual	~Filter ()
virtual std::string	get_type () const
std::string	get_user_defined_name () const
void	set_user_defined_name (std::string const &name)
virtual void	clear ()
	used to clear internal variables if needed. Using fresh_instance is preferred since it's a pure virtual More...
virtual void	apply (core::io::serialization::PipeMap &pmap)
virtual void	score (core::io::serialization::PipeMap &pmap)
virtual core::Real	score (core::pose::Pose &pose)
virtual void	parse_def (utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks)

Private Attributes
core::pack::task::TaskFactoryOP	task_factory_
core::Real	threshold_
bool	designable_only_
bool	sc_only_
core::Real	probe_radius_
core::Size	jump_id_

Additional Inherited Members
Protected Attributes inherited from protocols::filters::Filter
std::string	scorename_

Member Typedef Documentation

typedef basic::datacache::DataMap protocols::simple_filters::TaskAwareSASAFilter::DataMap

typedef protocols::filters::Filter protocols::simple_filters::TaskAwareSASAFilter::Filter

typedef protocols::filters::FilterOP protocols::simple_filters::TaskAwareSASAFilter::FilterOP

typedef protocols::filters::Filters_map protocols::simple_filters::TaskAwareSASAFilter::Filters_map

typedef protocols::moves::Movers_map protocols::simple_filters::TaskAwareSASAFilter::Movers_map

typedef core::pose::Pose protocols::simple_filters::TaskAwareSASAFilter::Pose

typedef core::Real protocols::simple_filters::TaskAwareSASAFilter::Real

typedef protocols::filters::Filter protocols::simple_filters::TaskAwareSASAFilter::Super

typedef utility::tag::TagCOP protocols::simple_filters::TaskAwareSASAFilter::TagCOP

Constructor & Destructor Documentation

protocols::simple_filters::TaskAwareSASAFilter::TaskAwareSASAFilter

(

)

Referenced by clone(), and fresh_instance().

protocols::simple_filters::TaskAwareSASAFilter::TaskAwareSASAFilter	(	core::pack::task::TaskFactoryOP	task_factory,
		core::Real const	t,
		bool const	d,
		bool const	s,
		core::Real const	r,
		core::Size const	j
	)

protocols::simple_filters::TaskAwareSASAFilter::TaskAwareSASAFilter

(

TaskAwareSASAFilter const &

rval

)

protocols::simple_filters::TaskAwareSASAFilter::~TaskAwareSASAFilter ( )

virtual

Member Function Documentation

bool protocols::simple_filters::TaskAwareSASAFilter::apply ( core::pose::Pose const &  pose ) const

virtual

Returns true if the given pose passes the filter, false otherwise.

Implements protocols::filters::Filter.

References compute(), and threshold().

protocols::filters::FilterOP protocols::simple_filters::TaskAwareSASAFilter::clone ( ) const

virtual

Implements protocols::filters::Filter.

References TaskAwareSASAFilter().

core::Real protocols::simple_filters::TaskAwareSASAFilter::compute	(	core::pose::Pose const &	pose,
		bool const	verbose
	)		const

calc oligomeric AverageDegree

References atom_mask, core::scoring::calc_per_atom_sasa(), designable_only(), core::pose::Pose::dump_pdb(), core::pose::symmetry::get_sym_aware_jump_num(), core::pose::initialize_atomid_map(), jump_id(), core::pose::Pose::n_residue(), core::conformation::Residue::name3(), core::conformation::Residue::nheavyatoms(), probe_radius(), resi, core::pose::Pose::residue(), runtime_assert, sc_only(), task_factory(), core::pose::Pose::total_residue(), protocols::simple_filters::TR, and protocols::stepwise::sampler::rigid_body::translate().

Referenced by apply(), report(), and report_sm().

void protocols::simple_filters::TaskAwareSASAFilter::designable_only

(

bool const

d

)

References designable_only_.

bool protocols::simple_filters::TaskAwareSASAFilter::designable_only

(

)

const

References designable_only_.

Referenced by compute(), and parse_my_tag().

protocols::filters::FilterOP protocols::simple_filters::TaskAwareSASAFilter::fresh_instance ( ) const

virtual

Implements protocols::filters::Filter.

References TaskAwareSASAFilter().

void protocols::simple_filters::TaskAwareSASAFilter::jump_id

(

core::Size const

j

)

References jump_id_.

core::Size protocols::simple_filters::TaskAwareSASAFilter::jump_id

(

)

const

References jump_id_.

Referenced by compute(), and parse_my_tag().

virtual std::string protocols::simple_filters::TaskAwareSASAFilter::name ( ) const

inlinevirtual

Reimplemented from protocols::filters::Filter.

void protocols::simple_filters::TaskAwareSASAFilter::parse_my_tag ( TagCOP  tag, basic::datacache::DataMap &  data, protocols::filters::Filters_map const &  , Movers_map const &  , Pose const &    )

virtual

parse xml

Reimplemented from protocols::filters::Filter.

References designable_only(), jump_id(), protocols::rosetta_scripts::parse_task_operations(), probe_radius(), sc_only(), task_factory(), and threshold().

void protocols::simple_filters::TaskAwareSASAFilter::probe_radius

(

core::Real const

r

)

References probe_radius_.

core::Real protocols::simple_filters::TaskAwareSASAFilter::probe_radius

(

)

const

References probe_radius_.

Referenced by compute(), and parse_my_tag().

void protocols::simple_filters::TaskAwareSASAFilter::report ( std::ostream &  out, core::pose::Pose const &  pose  ) const

virtual

Reimplemented from protocols::filters::Filter.

References compute().

core::Real protocols::simple_filters::TaskAwareSASAFilter::report_sm ( core::pose::Pose const &  ) const

virtual

used to report filter internals through a score or silent file

Reimplemented from protocols::filters::Filter.

References compute().

void protocols::simple_filters::TaskAwareSASAFilter::sc_only

(

bool const

s

)

References sc_only_.

bool protocols::simple_filters::TaskAwareSASAFilter::sc_only

(

)

const

References sc_only_.

Referenced by compute(), and parse_my_tag().

void protocols::simple_filters::TaskAwareSASAFilter::task_factory

(

core::pack::task::TaskFactoryOP

task_factory

)

References task_factory(), and task_factory_.

core::pack::task::TaskFactoryOP protocols::simple_filters::TaskAwareSASAFilter::task_factory

(

)

const

References task_factory_.

Referenced by compute(), parse_my_tag(), and task_factory().

void protocols::simple_filters::TaskAwareSASAFilter::threshold

(

core::Real const

t

)

References threshold_.

core::Real protocols::simple_filters::TaskAwareSASAFilter::threshold

(

)

const

References threshold_.

Referenced by apply(), and parse_my_tag().

Member Data Documentation

bool protocols::simple_filters::TaskAwareSASAFilter::designable_only_

private

Referenced by designable_only().

core::Size protocols::simple_filters::TaskAwareSASAFilter::jump_id_

private

Referenced by jump_id().

core::Real protocols::simple_filters::TaskAwareSASAFilter::probe_radius_

private

Referenced by probe_radius().

bool protocols::simple_filters::TaskAwareSASAFilter::sc_only_

private

Referenced by sc_only().

core::pack::task::TaskFactoryOP protocols::simple_filters::TaskAwareSASAFilter::task_factory_

private

Referenced by task_factory().

core::Real protocols::simple_filters::TaskAwareSASAFilter::threshold_

private

Referenced by threshold().

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

• src/protocols/simple_filters/TaskAwareSASAFilter.hh
• src/protocols/simple_filters/TaskAwareSASAFilter.cc