#include <AverageDegreeFilter.hh>
Public Member Functions | |
| AverageDegreeFilter () | |
| default ctor More... | |
| bool | apply (core::pose::Pose const &pose) const override |
| Constructor with a single target residue. 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... | |
| protocols::filters::FilterOP | clone () const override |
| protocols::filters::FilterOP | fresh_instance () const override |
| core::Real | compute (core::pose::Pose const &pose) const |
| ~AverageDegreeFilter () override | |
| core::pack::task::TaskFactoryOP | task_factory () const |
| void | task_factory (core::pack::task::TaskFactoryOP task_factory) |
| 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... | |
| core::Real | threshold () const |
| void | threshold (core::Real threshold) |
| core::Real | distance_threshold () const |
| void | distance_threshold (core::Real const d) |
| std::string | name () const override |
 Public Member Functions inherited from protocols::filters::Filter | |
| Filter () | |
| Filter (std::string 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 void | provide_citation_info (basic::citation_manager::CitationCollectionList &) const |
| Provide citations to the passed CitationCollectionList Subclasses should add the info for themselves and any other classes they use. More... | |
Static Public Member Functions | |
| static std::string | class_name () |
| static void | provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd) |
Private Types | |
| typedef protocols::filters::Filter | parent |
Private Attributes | |
| core::pack::task::TaskFactoryOP | task_factory_ |
| core::Real | threshold_ |
| core::Real | distance_threshold_ |
Additional Inherited Members | |
| Protected Attributes inherited from protocols::filters::Filter | |
| std::string | scorename_ |
Member Typedef Documentation
◆ parent
|
private |
Constructor & Destructor Documentation
◆ AverageDegreeFilter()
| protocols::protein_interface_design::filters::AverageDegreeFilter::AverageDegreeFilter | ( | ) |
default ctor
◆ ~AverageDegreeFilter()
|
overridedefault |
Member Function Documentation
◆ apply()
|
overridevirtual |
Constructor with a single target residue.
Implements protocols::filters::Filter.
References compute(), and threshold().
◆ class_name()
|
static |
◆ clone()
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overridevirtual |
Implements protocols::filters::Filter.
◆ compute()
| core::Real protocols::protein_interface_design::filters::AverageDegreeFilter::compute | ( | core::pose::Pose const & | pose | ) | const |
References core::conformation::Conformation::chain_begin(), core::conformation::Conformation::chain_end(), core::pose::Pose::conformation(), protocols::ligand_docking::ga_ligand_dock::count_neighbors(), core::kinematics::distance(), distance_threshold(), core::conformation::Residue::name3(), core::conformation::Residue::nbr_atom(), core::pose::Pose::residue(), core::conformation::Conformation::residue(), core::pose::Pose::size(), task_factory(), protocols::protein_interface_design::filters::TR(), and core::conformation::Residue::xyz().
Referenced by apply(), report(), and report_sm().
◆ distance_threshold() [1/2]
| core::Real protocols::protein_interface_design::filters::AverageDegreeFilter::distance_threshold | ( | ) | const |
References distance_threshold_.
Referenced by compute(), and parse_my_tag().
◆ distance_threshold() [2/2]
| void protocols::protein_interface_design::filters::AverageDegreeFilter::distance_threshold | ( | core::Real const | d | ) |
References distance_threshold_.
◆ fresh_instance()
|
overridevirtual |
Implements protocols::filters::Filter.
◆ name()
|
overridevirtual |
Reimplemented from protocols::filters::Filter.
References class_name().
◆ parse_my_tag()
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overridevirtual |
Called by FilterFactory when constructing new Filter. Takes care of the specific mover's parsing.
Reimplemented from protocols::filters::Filter.
References distance_threshold(), core::pack::task::parse_task_operations(), task_factory(), threshold(), and protocols::protein_interface_design::filters::TR().
◆ provide_xml_schema()
|
static |
◆ report()
|
overridevirtual |
Reimplemented from protocols::filters::Filter.
References compute(), and core::conformation::membrane::out.
◆ report_sm()
|
overridevirtual |
used to report filter internals through a score or silent file
Reimplemented from protocols::filters::Filter.
References compute().
◆ task_factory() [1/2]
| core::pack::task::TaskFactoryOP protocols::protein_interface_design::filters::AverageDegreeFilter::task_factory | ( | ) | const |
References task_factory_.
Referenced by compute(), parse_my_tag(), and task_factory().
◆ task_factory() [2/2]
| void protocols::protein_interface_design::filters::AverageDegreeFilter::task_factory | ( | core::pack::task::TaskFactoryOP | task_factory | ) |
References task_factory(), and task_factory_.
◆ threshold() [1/2]
| core::Real protocols::protein_interface_design::filters::AverageDegreeFilter::threshold | ( | ) | const |
References threshold_.
Referenced by apply(), and parse_my_tag().
◆ threshold() [2/2]
| void protocols::protein_interface_design::filters::AverageDegreeFilter::threshold | ( | core::Real | threshold | ) |
References protocols::hybridization::t, and threshold_.
Member Data Documentation
◆ distance_threshold_
|
private |
Referenced by distance_threshold().
◆ task_factory_
|
private |
Referenced by task_factory().
◆ threshold_
|
private |
Referenced by threshold().
The documentation for this class was generated from the following files:
- src/protocols/protein_interface_design/filters/AverageDegreeFilter.hh
- src/protocols/protein_interface_design/filters/AverageDegreeFilter.cc
