#include <StemFinderFilter.hh>

Inheritance diagram for protocols::simple_filters::StemFinder:

Public Member Functions
	StemFinder ()

virtual	~StemFinder ()

filters::FilterOP	clone () const

filters::FilterOP	fresh_instance () const

virtual bool	apply (core::pose::Pose const &pose) const
	Returns true if the given pose passes the filter, false otherwise. More...

virtual void	report (std::ostream &out, core::pose::Pose const &pose) const

virtual core::Real	report_sm (core::pose::Pose const &pose) const
	used to report filter internals through a score or silent file More...

void	parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &, filters::Filters_map const &filters, moves::Movers_map const &, core::pose::Pose const &)

core::Real	from_res () const

void	from_res (core::Real const r)

core::Real	to_res () const

void	to_res (core::Real const r)

core::Real	rmsd () const

void	rmsd (core::Real const c)

utility::vector1< std::string >	filenames () const

void	add_filename (std::string const s)

bool	stems_on_sse () const

void	stems_on_sse (bool const b)

core::Real	neighbor_distance () const

void	neighbor_distance (core::Real const n)

void	stems_are_neighbors (bool const b)

bool	stems_are_neighbors () const

void	neighbor_separation (core::Size const c)

core::Size	neighbor_separation () const

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 core::Real	score (core::pose::Pose &pose)

virtual std::string	name () const

Private Attributes
core::Size	from_res_

core::Size	to_res_

core::Real	rmsd_

utility::vector1< std::string >	filenames_

bool	stems_on_sse_

bool	stems_are_neighbors_

core::Real	neighbor_distance_

core::Size	neighbor_separation_

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

Constructor & Destructor Documentation

protocols::simple_filters::StemFinder::StemFinder ( )

References filenames_.

Referenced by clone(), and fresh_instance().

protocols::simple_filters::StemFinder::~StemFinder ( )

virtual

Member Function Documentation

void protocols::simple_filters::StemFinder::add_filename ( std::string const s )

References filenames_.

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

virtual

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

Implements protocols::filters::Filter.

References core::pose::Pose::conformation(), core::kinematics::distance(), protocols::simple_filters::dssp(), filenames_, protocols::rosetta_scripts::find_nearest_res(), from_res(), protocols::simple_filters::load_poses(), neighbor_distance(), neighbor_separation(), protocols::simple_filters::res_res_min_distance(), rmsd(), stems_are_neighbors(), stems_on_sse(), to_res(), core::pose::Pose::total_residue(), and protocols::simple_filters::TR().

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

inlinevirtual

Implements protocols::filters::Filter.

References StemFinder().

utility::vector1< std::string > protocols::simple_filters::StemFinder::filenames ( ) const

inline

References filenames_.

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

inlinevirtual

Implements protocols::filters::Filter.

References StemFinder().

core::Real protocols::simple_filters::StemFinder::from_res ( ) const

inline

References from_res_.

Referenced by apply(), and parse_my_tag().

void protocols::simple_filters::StemFinder::from_res ( core::Real const r )

inline

References from_res_.

core::Real protocols::simple_filters::StemFinder::neighbor_distance ( ) const

inline

References neighbor_distance_.

Referenced by apply(), and parse_my_tag().

void protocols::simple_filters::StemFinder::neighbor_distance ( core::Real const n )

inline

References neighbor_distance_.

void protocols::simple_filters::StemFinder::neighbor_separation ( core::Size const c )

inline

References core::pack::dunbrack::c, and neighbor_separation_.

core::Size protocols::simple_filters::StemFinder::neighbor_separation ( ) const

inline

References neighbor_separation_.

Referenced by apply(), and parse_my_tag().

void protocols::simple_filters::StemFinder::parse_my_tag	(	utility::tag::TagCOP	tag,
		basic::datacache::DataMap &	,
		filters::Filters_map const &	filters,
		moves::Movers_map const &	,
		core::pose::Pose const &	pose
	)