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Public Member Functions | Static Public Member Functions | Private Attributes | List of all members
protocols::simple_filters::RepeatParameterFilter Class Reference

#include <RepeatParameterFilter.hh>

Inheritance diagram for protocols::simple_filters::RepeatParameterFilter:
Inheritance graph
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Public Member Functions

 RepeatParameterFilter ()
 
bool apply (core::pose::Pose const &pose) const override
 Returns true if the given pose passes the filter, false otherwise. More...
 
core::Real report_sm (core::pose::Pose const &pose) const override
 used to report filter internals through a score or silent file More...
 
void report (std::ostream &out, const core::pose::Pose &pose) const override
 
void calculate_helical_parameters (core::pose::Pose const &pose, std::string &handedness, core::Real &rise_out, core::Real &radius_out, core::Real &omega_out) const
 
void apply_transformation (core::pose::Pose &mod_pose, std::list< core::Size > const &residue_list, numeric::xyzMatrix< core::Real > const &R, numeric::xyzVector< core::Real > const &preT, numeric::xyzVector< core::Real > const &postT) const
 
void matrix3f_to_xyzMatrix (Eigen::Matrix3f const &Re, numeric::xyzMatrix< core::Real > &R) const
 
void identity_matrix (numeric::xyzMatrix< core::Real > &R) const
 
void calculate_helical_parameters_helper (core::pose::Pose const &pose, std::string &handedness, core::Real &rise_out, core::Real &radius_out, core::Real &omega_out) const
 
filters::FilterOP clone () const override
 
filters::FilterOP fresh_instance () const override
 
 ~RepeatParameterFilter () override
 
void parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &) 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)
 

Private Attributes

core::Size numb_repeats_
 
core::Size startAtRepeat_
 
std::string param_type_
 
core::Real min_
 
core::Real max_
 
bool filter_
 

Additional Inherited Members

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

Constructor & Destructor Documentation

protocols::simple_filters::RepeatParameterFilter::RepeatParameterFilter ( )
protocols::simple_filters::RepeatParameterFilter::~RepeatParameterFilter ( )
overridedefault

Member Function Documentation

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

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

Implements protocols::filters::Filter.

References calculate_helical_parameters(), filter_, max_, min_, core::scoring::omega, and param_type_.

void protocols::simple_filters::RepeatParameterFilter::apply_transformation ( core::pose::Pose mod_pose,
std::list< core::Size > const &  residue_list,
numeric::xyzMatrix< core::Real > const &  R,
numeric::xyzVector< core::Real > const &  preT,
numeric::xyzVector< core::Real > const &  postT 
) const
void protocols::simple_filters::RepeatParameterFilter::calculate_helical_parameters ( core::pose::Pose const &  pose,
std::string &  handedness,
core::Real rise_out,
core::Real radius_out,
core::Real omega_out 
) const
void protocols::simple_filters::RepeatParameterFilter::calculate_helical_parameters_helper ( core::pose::Pose const &  pose,
std::string &  handedness,
core::Real rise_out,
core::Real radius_out,
core::Real omega_out 
) const
std::string protocols::simple_filters::RepeatParameterFilter::class_name ( )
static
filters::FilterOP protocols::simple_filters::RepeatParameterFilter::clone ( ) const
inlineoverridevirtual
filters::FilterOP protocols::simple_filters::RepeatParameterFilter::fresh_instance ( ) const
inlineoverridevirtual
void protocols::simple_filters::RepeatParameterFilter::identity_matrix ( numeric::xyzMatrix< core::Real > &  R) const
void protocols::simple_filters::RepeatParameterFilter::matrix3f_to_xyzMatrix ( Eigen::Matrix3f const &  Re,
numeric::xyzMatrix< core::Real > &  R 
) const
std::string protocols::simple_filters::RepeatParameterFilter::name ( ) const
overridevirtual

Reimplemented from protocols::filters::Filter.

References class_name().

void protocols::simple_filters::RepeatParameterFilter::parse_my_tag ( utility::tag::TagCOP  ,
basic::datacache::DataMap &   
)
overridevirtual

Called by FilterFactory when constructing new Filter. Takes care of the specific mover's parsing.

Reimplemented from protocols::filters::Filter.

References filter_, max_, min_, numb_repeats_, param_type_, protocols::filters::Filter::set_user_defined_name(), and startAtRepeat_.

void protocols::simple_filters::RepeatParameterFilter::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd)
static
void protocols::simple_filters::RepeatParameterFilter::report ( std::ostream &  out,
const core::pose::Pose pose 
) const
overridevirtual
core::Real protocols::simple_filters::RepeatParameterFilter::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 calculate_helical_parameters(), core::scoring::omega, and param_type_.

Member Data Documentation

bool protocols::simple_filters::RepeatParameterFilter::filter_
private

Referenced by apply(), and parse_my_tag().

core::Real protocols::simple_filters::RepeatParameterFilter::max_
private

Referenced by apply(), and parse_my_tag().

core::Real protocols::simple_filters::RepeatParameterFilter::min_
private

Referenced by apply(), and parse_my_tag().

core::Size protocols::simple_filters::RepeatParameterFilter::numb_repeats_
private
std::string protocols::simple_filters::RepeatParameterFilter::param_type_
private

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

core::Size protocols::simple_filters::RepeatParameterFilter::startAtRepeat_
private

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