protocols::protein_interface_design::filters::ClashWithTargetFilter Class Reference

#include <ClashWithTargetFilter.hh>

Inheritance diagram for protocols::protein_interface_design::filters::ClashWithTargetFilter:

Public Member Functions
	ClashWithTargetFilter ()
bool	apply (core::pose::Pose const &pose) const override
	Returns true if the given pose passes the filter, false otherwise. More...
protocols::filters::FilterOP	clone () const override
protocols::filters::FilterOP	fresh_instance () const override
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::Size	compute (core::pose::Pose const &pose) const
	~ClashWithTargetFilter () 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 () 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 Attributes
std::string	align_to_pdbname_
std::string	context_pdbname_
core::Size	clash_score_cutoff_
std::string	clash_residues_
core::Size	ref_start_
core::Size	ref_end_
core::Size	pose_start_
core::Size	pose_end_

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

Constructor & Destructor Documentation

ClashWithTargetFilter()

protocols::protein_interface_design::filters::ClashWithTargetFilter::ClashWithTargetFilter

(

)

~ClashWithTargetFilter()

protocols::protein_interface_design::filters::ClashWithTargetFilter::~ClashWithTargetFilter ( )

overridedefault

Member Function Documentation

apply()

bool protocols::protein_interface_design::filters::ClashWithTargetFilter::apply ( core::pose::Pose const &  pose ) const

overridevirtual

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

Implements protocols::filters::Filter.

References clash_score_cutoff_, compute(), and protocols::protein_interface_design::filters::TR().

class_name()

std::string protocols::protein_interface_design::filters::ClashWithTargetFilter::class_name ( )

static

Referenced by protocols::protein_interface_design::filters::ClashWithTargetFilterCreator::keyname(), name(), and provide_xml_schema().

clone()

protocols::filters::FilterOP protocols::protein_interface_design::filters::ClashWithTargetFilter::clone ( ) const

overridevirtual

Implements protocols::filters::Filter.

compute()

core::Size protocols::protein_interface_design::filters::ClashWithTargetFilter::compute

(

core::pose::Pose const &

pose

)

const

References align_to_pdbname_, core::pose::Pose::append_pose_by_jump(), protocols::protein_interface_design::movers::BuildAlaPose::apply(), core::conformation::Conformation::chain_end(), clash_residues_, clash_score_cutoff_, protocols::simple_ddg::DdgFilter::compute(), core::pose::Pose::conformation(), context_pdbname_, core::scoring::ScoreFunctionFactory::create_score_function(), core::scoring::fa_atr, core::scoring::fa_rep, core::import_pose::PDB_file, pose_end_, core::import_pose::pose_from_file(), pose_start_, ref_end_, ref_start_, and protocols::filters::Filter::score().

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

fresh_instance()

protocols::filters::FilterOP protocols::protein_interface_design::filters::ClashWithTargetFilter::fresh_instance ( ) const

inlineoverridevirtual

Implements protocols::filters::Filter.

name()

std::string protocols::protein_interface_design::filters::ClashWithTargetFilter::name ( ) const

overridevirtual

Reimplemented from protocols::filters::Filter.

References class_name().

parse_my_tag()

void protocols::protein_interface_design::filters::ClashWithTargetFilter::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 align_to_pdbname_, clash_residues_, clash_score_cutoff_, context_pdbname_, pose_end_, pose_start_, ref_end_, ref_start_, and protocols::protein_interface_design::filters::TR().

provide_xml_schema()

void protocols::protein_interface_design::filters::ClashWithTargetFilter::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd )

static

References class_name(), and protocols::filters::xsd_type_definition_w_attributes().

Referenced by protocols::protein_interface_design::filters::ClashWithTargetFilterCreator::provide_xml_schema().

report()

void protocols::protein_interface_design::filters::ClashWithTargetFilter::report ( std::ostream &  out, core::pose::Pose const &  pose  ) const

overridevirtual

Reimplemented from protocols::filters::Filter.

References clash_score_cutoff_, compute(), and core::conformation::membrane::out.

report_sm()

core::Real protocols::protein_interface_design::filters::ClashWithTargetFilter::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().

Member Data Documentation

align_to_pdbname_

std::string protocols::protein_interface_design::filters::ClashWithTargetFilter::align_to_pdbname_

private

Referenced by compute(), and parse_my_tag().

clash_residues_

std::string protocols::protein_interface_design::filters::ClashWithTargetFilter::clash_residues_

private

Referenced by compute(), and parse_my_tag().

clash_score_cutoff_

core::Size protocols::protein_interface_design::filters::ClashWithTargetFilter::clash_score_cutoff_

private

Referenced by apply(), compute(), parse_my_tag(), and report().

context_pdbname_

std::string protocols::protein_interface_design::filters::ClashWithTargetFilter::context_pdbname_

private

Referenced by compute(), and parse_my_tag().

pose_end_

core::Size protocols::protein_interface_design::filters::ClashWithTargetFilter::pose_end_

private

Referenced by compute(), and parse_my_tag().

pose_start_

core::Size protocols::protein_interface_design::filters::ClashWithTargetFilter::pose_start_

private

Referenced by compute(), and parse_my_tag().

ref_end_

core::Size protocols::protein_interface_design::filters::ClashWithTargetFilter::ref_end_

private

Referenced by compute(), and parse_my_tag().

ref_start_

core::Size protocols::protein_interface_design::filters::ClashWithTargetFilter::ref_start_

private

Referenced by compute(), and parse_my_tag().

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

• src/protocols/protein_interface_design/filters/ClashWithTargetFilter.hh
• src/protocols/protein_interface_design/filters/ClashWithTargetFilter.cc