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protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter Class Reference

#include <RmsdFromResidueSelectorFilter.hh>

Inheritance diagram for protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter:
Inheritance graph
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Public Member Functions

 RmsdFromResidueSelectorFilter ()
 
 ~RmsdFromResidueSelectorFilter () override
 
protocols::filters::FilterOP clone () const override
 
protocols::filters::FilterOP fresh_instance () const override
 
void reference_pose (core::pose::PoseOP const &ref)
 
void reference_pose (core::pose::Pose const &ref)
 
void threshold (core::Real threshold)
 
void CA_only (bool pick)
 
void GDT (bool pick)
 
void superimpose (bool pick)
 
void count_residues (bool pick)
 
void reference_selector (core::select::residue_selector::ResidueSelectorCOP const &select)
 
void reference_selector (core::select::residue_selector::ResidueSelector const &select)
 
void query_selector (core::select::residue_selector::ResidueSelectorCOP const &select)
 
void query_selector (core::select::residue_selector::ResidueSelector const &select)
 
void selectors (core::select::residue_selector::ResidueSelectorCOP const &reference, core::select::residue_selector::ResidueSelectorCOP const &query)
 
void selectors (core::select::residue_selector::ResidueSelector const &reference, core::select::residue_selector::ResidueSelector const &query)
 
bool apply (core::pose::Pose const &pose) const override
 Returns true if the given pose passes the filter, false otherwise. More...
 
void report (std::ostream &out, core::pose::Pose const &pose) const override
 
core::Real report_sm (core::pose::Pose const &pose) const override
 used to report filter internals through a score or silent file More...
 
core::Real compute (core::pose::Pose const &pose) const
 
void parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data_map) override
 Called by FilterFactory when constructing new Filter. Takes care of the specific mover's parsing. More...
 
std::string name () const override
 
- Public Member Functions inherited from protocols::filters::Filter
 Filter ()
 
 Filter (std::string const &)
 
 Filter (Filter const &)
 
 ~Filter () override
 
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 bool filter_provides_citation_info () const
 Does this filter 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 filter_is_unpublished () const
 Does this filter 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 std::string class_name ()
 
static void provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)
 

Static Private Member Functions

static core::Real default_rmsd_threshold ()
 
static bool default_ca_selection ()
 
static bool default_gdt_selection ()
 
static bool default_superimpose_selection ()
 
static bool default_count_residues ()
 

Private Attributes

core::select::residue_selector::ResidueSelectorCOP reference_select_
 
core::select::residue_selector::ResidueSelectorCOP query_select_
 
core::Real threshold_
 
core::pose::PoseCOP reference_pose_
 
core::Real sensitivity_
 
bool CA_only_
 
bool gdt_
 
bool superimpose_
 
bool count_residues_
 

Additional Inherited Members

- Protected Attributes inherited from protocols::filters::Filter
std::string scorename_
 

Constructor & Destructor Documentation

protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::RmsdFromResidueSelectorFilter ( )
protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::~RmsdFromResidueSelectorFilter ( )
overridedefault

Member Function Documentation

bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::apply ( core::pose::Pose const &  pose) const
overridevirtual

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

Implements protocols::filters::Filter.

References compute(), threshold_, and protocols::fold_from_loops::filters::TR().

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::CA_only ( bool  pick)
inline

References CA_only_.

Referenced by parse_my_tag().

static std::string protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::class_name ( )
inlinestatic
protocols::filters::FilterOP protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::clone ( ) const
inlineoverridevirtual
core::Real protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::compute ( core::pose::Pose const &  pose) const
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::count_residues ( bool  pick)
inline

References count_residues_.

Referenced by parse_my_tag().

static bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::default_ca_selection ( )
inlinestaticprivate

Referenced by parse_my_tag(), and provide_xml_schema().

static bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::default_count_residues ( )
inlinestaticprivate

Referenced by parse_my_tag(), and provide_xml_schema().

static bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::default_gdt_selection ( )
inlinestaticprivate

Referenced by parse_my_tag(), and provide_xml_schema().

static core::Real protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::default_rmsd_threshold ( )
inlinestaticprivate

Referenced by parse_my_tag(), and provide_xml_schema().

static bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::default_superimpose_selection ( )
inlinestaticprivate

Referenced by parse_my_tag(), and provide_xml_schema().

protocols::filters::FilterOP protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::fresh_instance ( ) const
inlineoverridevirtual
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::GDT ( bool  pick)
inline

References gdt_.

Referenced by parse_my_tag().

std::string protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::name ( ) const
inlineoverridevirtual

Reimplemented from protocols::filters::Filter.

References class_name().

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::parse_my_tag ( utility::tag::TagCOP  ,
basic::datacache::DataMap &   
)
overridevirtual
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd)
static
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::query_selector ( core::select::residue_selector::ResidueSelectorCOP const &  select)
inline

References query_select_.

Referenced by parse_my_tag(), and selectors().

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::query_selector ( core::select::residue_selector::ResidueSelector const &  select)
inline
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::reference_pose ( core::pose::PoseOP const &  ref)

References reference_pose_.

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::reference_pose ( core::pose::Pose const &  ref)

References reference_pose_.

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::reference_selector ( core::select::residue_selector::ResidueSelectorCOP const &  select)
inline

References reference_select_.

Referenced by parse_my_tag(), and selectors().

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::reference_selector ( core::select::residue_selector::ResidueSelector const &  select)
inline
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::report ( std::ostream &  out,
core::pose::Pose const &  pose 
) const
overridevirtual

Reimplemented from protocols::filters::Filter.

References compute().

core::Real protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::report_sm ( core::pose::Pose const &  ) const
overridevirtual

used to report filter internals through a score or silent file

Reimplemented from protocols::filters::Filter.

References compute().

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::selectors ( core::select::residue_selector::ResidueSelectorCOP const &  reference,
core::select::residue_selector::ResidueSelectorCOP const &  query 
)
inline
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::selectors ( core::select::residue_selector::ResidueSelector const &  reference,
core::select::residue_selector::ResidueSelector const &  query 
)
inline
void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::superimpose ( bool  pick)
inline

References superimpose_.

Referenced by parse_my_tag().

void protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::threshold ( core::Real  threshold)
inline

References threshold(), and threshold_.

Referenced by parse_my_tag(), and threshold().

Member Data Documentation

bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::CA_only_
private

Referenced by CA_only(), and compute().

bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::count_residues_
private

Referenced by compute(), and count_residues().

bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::gdt_
private

Referenced by compute(), and GDT().

core::select::residue_selector::ResidueSelectorCOP protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::query_select_
private

Referenced by compute(), and query_selector().

core::pose::PoseCOP protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::reference_pose_
private
core::select::residue_selector::ResidueSelectorCOP protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::reference_select_
private

Referenced by compute(), and reference_selector().

core::Real protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::sensitivity_
private

Referenced by compute().

bool protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::superimpose_
private

Referenced by compute(), and superimpose().

core::Real protocols::fold_from_loops::filters::RmsdFromResidueSelectorFilter::threshold_
private

Referenced by apply(), and threshold().


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