a region of a Pose with secondary structures of known DSSP at either teminus More...

#include <PoseWithTerminalSegmentsOfKnownDSSP.hh>

Inheritance diagram for protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP:

Public Member Functions
	PoseWithTerminalSegmentsOfKnownDSSP ()

	PoseWithTerminalSegmentsOfKnownDSSP (PoseWithTerminalSegmentsOfKnownDSSP const &)

	~PoseWithTerminalSegmentsOfKnownDSSP () override

PoseWithTerminalSegmentsOfKnownDSSPOP	clone () const

void	set_N_term_DSSP (char)

char	get_N_term_DSSP () const

void	set_C_term_DSSP (char)

char	get_C_term_DSSP () const

void	set_N_term_length (core::Size)

core::Size	get_N_term_length () const

void	set_C_term_length (core::Size)

core::Size	get_C_term_length () const

void	set_filename (std::string const &filename)

std::string	get_filename () const

void	set_segfile_path (std::string const &segfile_path)

std::string	get_segfile_path () const

void	set_secstruct (std::string const &secstruct)

std::string	get_secstruct () const

void	set_source_pose (core::pose::PoseCOP)

void	store_source_pose_for_segment (std::string const &src_pose, bool store_mmTF=true, bool output_elements=true)

core::pose::PoseOP	create_source_pose_for_segment (bool add_elements)

void	store_reference_pdb (std::string)

core::pose::PoseCOP	get_source_pose (bool clone_if_new=true)
	Get the source pose by returning an already-loaded pose or loading a new pose. By default we clone this new pose and store it. Set clone_if_new to false if this is not desired (for speed) - such as is done during SewAnythingAddMover. More...

core::pose::PoseOP	get_source_pose_op (bool clone_if_new=true)
	Get the source pose by returning an already-loaded pose or loading a new pose. By default we clone this new pose and store it. Set clone_if_new to false if this is not desired (for speed) - such as is done during SewAnythingAddMover. More...

Private Attributes
char	N_term_DSSP_

char	C_term_DSSP_

core::Size	N_term_length_

core::Size	C_term_length_

std::string	filename_

std::string	secstruct_

std::string	segfile_path_ = "unknown"

core::pose::PoseCOP	source_pose_

Detailed Description

a region of a Pose with secondary structures of known DSSP at either teminus

Constructor & Destructor Documentation

◆ PoseWithTerminalSegmentsOfKnownDSSP() [1/2]

protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::PoseWithTerminalSegmentsOfKnownDSSP ( )

References C_term_DSSP_, and N_term_DSSP_.

Referenced by clone().

◆ PoseWithTerminalSegmentsOfKnownDSSP() [2/2]

protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::PoseWithTerminalSegmentsOfKnownDSSP ( PoseWithTerminalSegmentsOfKnownDSSP const & )

default

◆ ~PoseWithTerminalSegmentsOfKnownDSSP()

protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::~PoseWithTerminalSegmentsOfKnownDSSP ( )

override

Member Function Documentation

◆ clone()

PoseWithTerminalSegmentsOfKnownDSSPOP protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::clone ( ) const

References PoseWithTerminalSegmentsOfKnownDSSP().

◆ create_source_pose_for_segment()

core::pose::PoseOP protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::create_source_pose_for_segment ( bool add_elements )

References core::pose::make_pose_from_sequence(), and source_pose_.

Referenced by store_source_pose_for_segment().

◆ get_C_term_DSSP()

char protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_C_term_DSSP ( ) const

References C_term_DSSP_.

◆ get_C_term_length()

core::Size protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_C_term_length ( ) const

References C_term_length_.

◆ get_filename()

std::string protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_filename ( ) const

References filename_.

◆ get_N_term_DSSP()

char protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_N_term_DSSP ( ) const

References N_term_DSSP_.

◆ get_N_term_length()

core::Size protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_N_term_length ( ) const

References N_term_length_.

◆ get_secstruct()

std::string protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_secstruct ( ) const

References secstruct_.

◆ get_segfile_path()

std::string protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_segfile_path ( ) const

References segfile_path_.

◆ get_source_pose()

core::pose::PoseCOP protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_source_pose ( bool clone_if_new = true )

Get the source pose by returning an already-loaded pose or loading a new pose. By default we clone this new pose and store it. Set clone_if_new to false if this is not desired (for speed) - such as is done during SewAnythingAddMover.

References get_source_pose_op().

◆ get_source_pose_op()

core::pose::PoseOP protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::get_source_pose_op ( bool clone_if_new = true )

Get the source pose by returning an already-loaded pose or loading a new pose. By default we clone this new pose and store it. Set clone_if_new to false if this is not desired (for speed) - such as is done during SewAnythingAddMover.

This gives you an OP - the one just loaded or a clone of the stored one.

References filename_, core::chemical::LOWER_TERMINUS_VARIANT, core::import_pose::pose_from_file(), core::pose::remove_variant_type_from_pose_residue(), secstruct_, source_pose_, and core::chemical::UPPER_TERMINUS_VARIANT.

Referenced by get_source_pose().

◆ set_C_term_DSSP()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_C_term_DSSP ( char new_cterm_dssp )

References C_term_DSSP_.

◆ set_C_term_length()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_C_term_length ( core::Size new_cterm_length )

References C_term_length_.

◆ set_filename()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_filename ( std::string const & filename )

References filename_.

◆ set_N_term_DSSP()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_N_term_DSSP ( char new_nterm_dssp )

References N_term_DSSP_.

◆ set_N_term_length()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_N_term_length ( core::Size new_nterm_length )

References N_term_length_.

◆ set_secstruct()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_secstruct ( std::string const & secstruct )

References secstruct_.

◆ set_segfile_path()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_segfile_path ( std::string const & segfile_path )

References segfile_path_.

◆ set_source_pose()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::set_source_pose ( core::pose::PoseCOP new_source )

References source_pose_.

◆ store_reference_pdb()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::store_reference_pdb ( std::string pose_filename )

References core::pose::make_pose_from_sequence(), and source_pose_.

◆ store_source_pose_for_segment()

void protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::store_source_pose_for_segment	(	std::string const &	src_pose,
		bool	store_mmTF = `true`,
		bool	output_elements = `true`
	)

References create_source_pose_for_segment().

Member Data Documentation

◆ C_term_DSSP_

char protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::C_term_DSSP_

private

Referenced by get_C_term_DSSP(), PoseWithTerminalSegmentsOfKnownDSSP(), and set_C_term_DSSP().

◆ C_term_length_

core::Size protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::C_term_length_

private

Referenced by get_C_term_length(), and set_C_term_length().

◆ filename_

std::string protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::filename_

private

Referenced by get_filename(), get_source_pose_op(), and set_filename().

◆ N_term_DSSP_

char protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::N_term_DSSP_

private

Referenced by get_N_term_DSSP(), PoseWithTerminalSegmentsOfKnownDSSP(), and set_N_term_DSSP().

◆ N_term_length_

core::Size protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::N_term_length_

private

Referenced by get_N_term_length(), and set_N_term_length().

◆ secstruct_

std::string protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::secstruct_

private

Referenced by get_secstruct(), get_source_pose_op(), and set_secstruct().

◆ segfile_path_

std::string protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::segfile_path_ = "unknown"

private

Referenced by get_segfile_path(), and set_segfile_path().

◆ source_pose_

core::pose::PoseCOP protocols::pose_sewing::data_storage::PoseWithTerminalSegmentsOfKnownDSSP::source_pose_

private

Referenced by create_source_pose_for_segment(), get_source_pose_op(), set_source_pose(), and store_reference_pdb().

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

src/protocols/pose_sewing/data_storage/PoseWithTerminalSegmentsOfKnownDSSP.hh
src/protocols/pose_sewing/data_storage/PoseWithTerminalSegmentsOfKnownDSSP.cc

Public Member Functions

Private Attributes

Detailed Description

Constructor & Destructor Documentation

◆ PoseWithTerminalSegmentsOfKnownDSSP() [1/2]

◆ PoseWithTerminalSegmentsOfKnownDSSP() [2/2]

◆ ~PoseWithTerminalSegmentsOfKnownDSSP()

Member Function Documentation

◆ clone()

◆ create_source_pose_for_segment()

◆ get_C_term_DSSP()

◆ get_C_term_length()

◆ get_filename()

◆ get_N_term_DSSP()

◆ get_N_term_length()

◆ get_secstruct()

◆ get_segfile_path()

◆ get_source_pose()

◆ get_source_pose_op()

◆ set_C_term_DSSP()

◆ set_C_term_length()

◆ set_filename()

◆ set_N_term_DSSP()

◆ set_N_term_length()

◆ set_secstruct()

◆ set_segfile_path()

◆ set_source_pose()

◆ store_reference_pdb()

◆ store_source_pose_for_segment()

Member Data Documentation

◆ C_term_DSSP_

◆ C_term_length_

◆ filename_

◆ N_term_DSSP_

◆ N_term_length_

◆ secstruct_

◆ segfile_path_

◆ source_pose_