protocols::denovo_design::architects::PoseArchitect Class Reference

Design segments based on a pose. More...

#include <PoseArchitect.hh>

Inheritance diagram for protocols::denovo_design::architects::PoseArchitect:

Public Member Functions
	PoseArchitect (std::string const &id_value)
	~PoseArchitect () override
DeNovoArchitectOP	clone () const override
std::string	type () const override
	simply returns the name of this type of architect More...
components::StructureDataOP	design (core::pose::Pose const &pose, core::Real &random) const override
void	set_residue_selector (core::select::residue_selector::ResidueSelectorCOP selector)
	Sets the residue selector to be used to select Pose residues. More...
void	set_secstruct (std::string const &secstruct)
	Sets the secondary structure to be used for the pose. More...
void	set_add_padding (bool const pad)
	Sets whether a one-residue "padding" will be added. More...
Public Member Functions inherited from protocols::denovo_design::architects::DeNovoArchitect
	DeNovoArchitect (std::string const &id)
	~DeNovoArchitect () override
components::StructureDataOP	apply (core::pose::Pose const &pose) const
Public Member Functions inherited from protocols::denovo_design::architects::StructureArchitect
	StructureArchitect (std::string const &id)
	~StructureArchitect () override
void	parse_my_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data)
std::string const &	id () const
void	set_id (std::string const &new_id)

Static Public Member Functions
static std::string	architect_name ()
static void	provide_xml_schema (utility::tag::XMLSchemaDefinition &xsd)
Static Public Member Functions inherited from protocols::denovo_design::architects::DeNovoArchitect
static void	add_common_denovo_architect_attributes (utility::tag::AttributeList &attlist)
Static Public Member Functions inherited from protocols::denovo_design::architects::StructureArchitect
static void	attributes_for_parse_my_tag (utility::tag::AttributeList &attlist)

Protected Member Functions
void	parse_tag (utility::tag::TagCOP tag, basic::datacache::DataMap &data) override
	Configuration by XML. More...

Private Attributes
core::select::residue_selector::ResidueSelectorCOP	selector_
	selects which residues to add More...
std::string	secstruct_
	If set, this secondary structure will be used to override what is in the input pose. More...
bool	add_padding_
	if true, a one-residue "pad" will be added to the beginning and end of each chain if false, the pad will not be added More...

Additional Inherited Members
Public Types inherited from protocols::denovo_design::architects::DeNovoArchitect
typedef components::StructureDataOP	StructureDataOP
Static Public Attributes inherited from protocols::denovo_design::architects::DeNovoArchitect
static std::string const	DATA_MAP_NAME = "DeNovoArchitects"

Detailed Description

Design segments based on a pose.

Constructor & Destructor Documentation

protocols::denovo_design::architects::PoseArchitect::PoseArchitect

(

std::string const &

id_value

)

protocols::denovo_design::architects::PoseArchitect::~PoseArchitect ( )

overridedefault

Member Function Documentation

static std::string protocols::denovo_design::architects::PoseArchitect::architect_name ( )

inlinestatic

Referenced by protocols::denovo_design::architects::PoseArchitectCreator::keyname(), provide_xml_schema(), and type().

DeNovoArchitectOP protocols::denovo_design::architects::PoseArchitect::clone ( ) const

overridevirtual

Implements protocols::denovo_design::architects::DeNovoArchitect.

components::StructureDataOP protocols::denovo_design::architects::PoseArchitect::design ( core::pose::Pose const &  pose, core::Real &  random  ) const

overridevirtual

Implements protocols::denovo_design::architects::DeNovoArchitect.

References add_padding_, core::pose::Pose::clone(), protocols::denovo_design::components::Segment::delete_lower_padding(), protocols::denovo_design::components::Segment::delete_upper_padding(), secstruct_, selector_, protocols::loops::start, protocols::loops::stop, and protocols::TR().

void protocols::denovo_design::architects::PoseArchitect::parse_tag ( utility::tag::TagCOP  tag, basic::datacache::DataMap &  data  )

overrideprotectedvirtual

Configuration by XML.

Implements protocols::denovo_design::architects::DeNovoArchitect.

References add_padding_, core::select::residue_selector::parse_residue_selector(), secstruct_, set_add_padding(), set_residue_selector(), and set_secstruct().

void protocols::denovo_design::architects::PoseArchitect::provide_xml_schema ( utility::tag::XMLSchemaDefinition &  xsd )

static

References protocols::denovo_design::architects::DeNovoArchitect::add_common_denovo_architect_attributes(), architect_name(), core::select::residue_selector::attributes_for_parse_residue_selector(), and protocols::denovo_design::architects::DeNovoArchitectFactory::xsd_architect_type_definition_w_attributes().

Referenced by protocols::denovo_design::architects::PoseArchitectCreator::provide_xml_schema().

void protocols::denovo_design::architects::PoseArchitect::set_add_padding ( bool const  pad )

inline

Sets whether a one-residue "padding" will be added.

References add_padding_.

Referenced by parse_tag().

void protocols::denovo_design::architects::PoseArchitect::set_residue_selector

(

core::select::residue_selector::ResidueSelectorCOP

selector

)

Sets the residue selector to be used to select Pose residues.

Does not clone the residue selector; the ResidueSelectorCOP is stored.

References selector_.

Referenced by parse_tag().

void protocols::denovo_design::architects::PoseArchitect::set_secstruct ( std::string const &  secstruct )

inline

Sets the secondary structure to be used for the pose.

References secstruct_.

Referenced by parse_tag().

std::string protocols::denovo_design::architects::PoseArchitect::type ( ) const

overridevirtual

simply returns the name of this type of architect

Implements protocols::denovo_design::architects::DeNovoArchitect.

References architect_name().

Member Data Documentation

bool protocols::denovo_design::architects::PoseArchitect::add_padding_

private

if true, a one-residue "pad" will be added to the beginning and end of each chain if false, the pad will not be added

Referenced by design(), parse_tag(), and set_add_padding().

std::string protocols::denovo_design::architects::PoseArchitect::secstruct_

private

If set, this secondary structure will be used to override what is in the input pose.

Referenced by design(), parse_tag(), and set_secstruct().

core::select::residue_selector::ResidueSelectorCOP protocols::denovo_design::architects::PoseArchitect::selector_

private

selects which residues to add

Referenced by design(), and set_residue_selector().

---

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

• src/protocols/denovo_design/architects/PoseArchitect.hh
• src/protocols/denovo_design/architects/PoseArchitect.cc