Rosetta Core  2014.35
Public Types | Public Member Functions | Private Types | Private Member Functions | Private Attributes | Friends | List of all members
core::conformation::symmetry::SymmData Class Reference

#include <SymmData.hh>

Public Types

typedef numeric::xyzVector
< core::Real > 		Vector
 
typedef numeric::xyzMatrix
< core::Real > 		Matrix
 

Public Member Functions

 SymmData ()
 
 SymmData (core::Size nres, core::Size njump)
 
 SymmData (SymmData const &)
 
SymmDataOP clone () const
 
virtual ~SymmData ()
 
void read_symmetry_data_from_file (std::string filename)
 
void read_symmetry_data_from_stream (std::istream &infile)
 
void sanity_check ()
 
void show ()
 
std::string const & get_symmetry_name () const
 
std::string const & get_symmetry_type () const
 
core::Size get_subunits () const
 
core::Size get_num_components () const
 
core::Size get_interfaces () const
 
core::Size get_score_subunit () const
 
std::string const & get_anchor_residue () const
 
bool get_recenter () const
 
core::Size get_root () const
 
utility::vector1< Size > const & get_score_multiply_subunit () const
 
utility::vector1< Size > const & get_include_subunit () const
 
utility::vector1< Size > const & get_output_subunit () const
 
std::vector
< numeric::xyzMatrix
< core::Real > > const & 		get_rotation_matrix () const
 
std::vector
< numeric::xyzMatrix
< core::Real > > const & 		get_translation_matrix () const
 
std::map< std::string,
VirtualCoordinate > const & 		get_virtual_coordinates () const
 
core::Size get_num_virtual () const
 
std::map< Size, SymDof > const & get_dofs () const
 
std::map< Size, WtedClones >
const & 		get_jump_clones () const
 
std::map< std::string, Size >
const & 		get_jump_string_to_jump_num () const
 
std::map< std::string, Size >
const & 		get_virtual_id_to_num () const
 
std::map< std::string, Size >
const & 		get_virt_id_to_subunit_num () const
 
std::map< std::string, char >
const & 		get_virt_id_to_subunit_chain () const
 
std::map< std::string,
std::string > const & 		get_virt_id_to_subunit_residue () const
 
std::map< Size, std::string >
const & 		get_subunit_num_to_virt_id () const
 
std::map< Size, std::string >
const & 		get_virtual_num_to_id () const
 
std::map< std::string,
std::pair< std::string,
std::string > > const & 		get_virtual_connects () const
 
SymSlideInfo const & get_slide_info () const
 
void set_symmetry_name (std::string symm_name)
 
void set_symmetry_type (std::string symm_type)
 
void set_subunits (core::Size num_subunits)
 
void set_interfaces (core::Size interfaces)
 
void set_anchor_residue (std::string anchor)
 
void set_score_multiply_subunit (utility::vector1< Size > &score_multiply_vector)
 
void set_slide_info (SymSlideInfo slide_info)
 
void set_rotation_matrix (std::vector< numeric::xyzMatrix< core::Real > > rotation_matrices)
 
void set_translation_matrix (std::vector< numeric::xyzMatrix< core::Real > > translation_matrices)
 
void set_symm_transforms (std::vector< std::vector< std::string > > symm_transforms)
 
utility::vector1< char > const & get_components () const
 
std::map< std::string, char >
const & 		get_subunit_name_to_component () const
 
std::map< std::string,
utility::vector1< char >
> const & 		get_jump_name_to_components () const
 
std::map< std::string,
utility::vector1< Size >
> const & 		get_jump_name_to_subunits () const
 
std::string const & get_parent_jump (std::string const &jname) const
 
std::string const & get_parent_virtual (std::string const &vname) const
 
bool is_ancestor_virtual (std::string const &ancestor, std::string const &child) const
 
std::string const & get_least_common_ancertor_jump (std::string const &jname1, std::string const &jname2) const
 
std::string const & get_least_common_ancertor_virtual (std::string const &vname1, std::string const &vname2) const
 
utility::vector1< char > components_moved_by_jump (std::string const &jname) const
 
utility::vector1< Size > subunits_moved_by_jump (std::string const &jname) const
 

Private Types

typedef utility::vector1
< std::pair< Size, Real > > 		WtedClones
 

Private Member Functions

utility::vector1< std::string > leaves_of_jump (std::string const &jname) const
 

Private Attributes

std::string symmetry_name_
 
std::string symmetry_type_
 
core::Size subunits_
 
core::Size num_components_
 
core::Size interfaces_
 
core::Size score_subunit_
 
std::string anchor_residue_
 
bool recenter_
 
core::Size root_
 
SymSlideInfo slide_info_
 
std::vector< std::string > slide_order_string_
 
std::vector< std::vector
< std::string > > 		symm_transforms_
 
std::vector
< numeric::xyzMatrix
< core::Real > > 		rotation_matrices_
 
std::vector
< numeric::xyzMatrix
< core::Real > > 		translation_matrices_
 
std::map< std::string,
VirtualCoordinate > 		virtual_coordinates_
 
std::map< std::string,
std::pair< std::string,
std::string > > 		jump_string_to_virtual_pair_
 
std::map< std::string, Size > jump_string_to_jump_num_
 
std::map< std::string, Size > virt_id_to_virt_num_
 
std::map< std::string, Size > virt_id_to_subunit_num_
 
std::map< std::string, char > virt_id_to_subunit_chain_
 
std::map< std::string,
std::string > 		virt_id_to_subunit_residue_
 
std::map< Size, std::string > virt_num_to_virt_id_
 
std::map< Size, std::string > subunit_num_to_virt_id_
 
std::map< Size, WtedClones > jump_clones_
 
std::map< Size, SymDof > dofs_
 
std::vector< Size > allow_virtual_
 
utility::vector1< Size > score_multiply_subunit_
 
utility::vector1< Size > include_subunit_
 
utility::vector1< Size > output_subunit_
 
core::Real cell_a_
 
core::Real cell_b_
 
core::Real cell_c_
 
core::Real cell_alfa_
 
core::Real cell_beta_
 
core::Real cell_gamma_
 
utility::vector1< char > components_
 
std::map< std::string, char > name2component_
 
std::map< std::string,
utility::vector1< char > > 		jname2components_
 
std::map< std::string,
utility::vector1< Size > > 		jname2subunits_
 

Friends

bool operator== (SymmData const &a, SymmData const &b)
 
bool operator!= (SymmData const &a, SymmData const &b)
 

Member Typedef Documentation

typedef numeric::xyzMatrix< core::Real > core::conformation::symmetry::SymmData::Matrix
typedef numeric::xyzVector< core::Real > core::conformation::symmetry::SymmData::Vector
typedef utility::vector1< std::pair<Size,Real> > core::conformation::symmetry::SymmData::WtedClones
private

Constructor & Destructor Documentation

core::conformation::symmetry::SymmData::SymmData ( )

Referenced by clone().

core::conformation::symmetry::SymmData::SymmData ( core::Size  nres,
core::Size  njump 
)
core::conformation::symmetry::SymmData::SymmData ( SymmData const &  src)
core::conformation::symmetry::SymmData::~SymmData ( )
virtual

Member Function Documentation

SymmDataOP core::conformation::symmetry::SymmData::clone ( ) const

References SymmData().

vector1< char > core::conformation::symmetry::SymmData::components_moved_by_jump ( std::string const &  jname) const

References leaves_of_jump(), and virt_id_to_subunit_chain_.

Referenced by read_symmetry_data_from_stream(), and core::conformation::symmetry::setup_symmetric_conformation().

string const & core::conformation::symmetry::SymmData::get_anchor_residue ( ) const

References anchor_residue_.

Referenced by read_symmetry_data_from_stream(), core::conformation::symmetry::recenter(), and core::conformation::symmetry::set_fold_tree_from_symm_data().

utility::vector1< char > const & core::conformation::symmetry::SymmData::get_components ( ) const

References components_.

Referenced by core::conformation::symmetry::setup_symmetric_conformation().

map< Size, SymDof > const & core::conformation::symmetry::SymmData::get_dofs ( ) const

References dofs_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

vector1< Size > const & core::conformation::symmetry::SymmData::get_include_subunit ( ) const

References include_subunit_.

core::Size core::conformation::symmetry::SymmData::get_interfaces ( ) const

References interfaces_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

map< Size, WtedClones > const & core::conformation::symmetry::SymmData::get_jump_clones ( ) const

References jump_clones_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

std::map< std::string, utility::vector1< char > > const & core::conformation::symmetry::SymmData::get_jump_name_to_components ( ) const

References jname2components_.

Referenced by core::conformation::symmetry::setup_symmetric_conformation().

std::map< std::string, utility::vector1< Size > > const & core::conformation::symmetry::SymmData::get_jump_name_to_subunits ( ) const

References jname2subunits_.

Referenced by core::conformation::symmetry::setup_symmetric_conformation().

map< string, Size > const & core::conformation::symmetry::SymmData::get_jump_string_to_jump_num ( ) const

References jump_string_to_jump_num_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

std::string const & core::conformation::symmetry::SymmData::get_least_common_ancertor_jump ( std::string const &  jname1,
std::string const &  jname2 
) const

References get_parent_jump(), and core::conformation::symmetry::NOPARENT.

std::string const & core::conformation::symmetry::SymmData::get_least_common_ancertor_virtual ( std::string const &  vname1,
std::string const &  vname2 
) const

References get_parent_virtual(), and core::conformation::symmetry::NOPARENT.

core::Size core::conformation::symmetry::SymmData::get_num_components ( ) const

References num_components_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data(), and core::conformation::symmetry::setup_symmetric_conformation().

core::Size core::conformation::symmetry::SymmData::get_num_virtual ( ) const

References virtual_coordinates_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

vector1< Size > const & core::conformation::symmetry::SymmData::get_output_subunit ( ) const

References output_subunit_.

std::string const & core::conformation::symmetry::SymmData::get_parent_jump ( std::string const &  jname) const

References jump_string_to_virtual_pair_, core::conformation::symmetry::NOPARENT, and utility_exit_with_message.

Referenced by get_least_common_ancertor_jump().

std::string const & core::conformation::symmetry::SymmData::get_parent_virtual ( std::string const &  vname) const

References jump_string_to_virtual_pair_, and core::conformation::symmetry::NOPARENT.

Referenced by get_least_common_ancertor_virtual(), and is_ancestor_virtual().

bool core::conformation::symmetry::SymmData::get_recenter ( ) const

References recenter_.

Referenced by core::conformation::symmetry::setup_symmetric_conformation().

core::Size core::conformation::symmetry::SymmData::get_root ( ) const

References root_.

Referenced by core::conformation::symmetry::setup_symmetric_conformation().

vector< numeric::xyzMatrix< core::Real > > const & core::conformation::symmetry::SymmData::get_rotation_matrix ( ) const

References rotation_matrices_.

vector1< Size > const & core::conformation::symmetry::SymmData::get_score_multiply_subunit ( ) const

References score_multiply_subunit_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

core::Size core::conformation::symmetry::SymmData::get_score_subunit ( ) const

References score_subunit_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

SymSlideInfo const & core::conformation::symmetry::SymmData::get_slide_info ( ) const

References slide_info_.

Referenced by core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

std::map< std::string, char > const & core::conformation::symmetry::SymmData::get_subunit_name_to_component ( ) const

References name2component_.

Referenced by core::conformation::symmetry::setup_symmetric_conformation().

map< Size, string > const & core::conformation::symmetry::SymmData::get_subunit_num_to_virt_id ( ) const

References subunit_num_to_virt_id_.

core::Size core::conformation::symmetry::SymmData::get_subunits ( ) const

References subunits_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data(), core::conformation::symmetry::setup_symmetric_conformation(), and core::conformation::symmetry::SymmetryInfo::SymmetryInfo().

string const & core::conformation::symmetry::SymmData::get_symmetry_name ( ) const

References symmetry_name_.

string const & core::conformation::symmetry::SymmData::get_symmetry_type ( ) const

References symmetry_type_.

vector< numeric::xyzMatrix< core::Real > > const & core::conformation::symmetry::SymmData::get_translation_matrix ( ) const

References translation_matrices_.

map< string, char > const & core::conformation::symmetry::SymmData::get_virt_id_to_subunit_chain ( ) const

References virt_id_to_subunit_chain_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data().

map< string, Size > const & core::conformation::symmetry::SymmData::get_virt_id_to_subunit_num ( ) const

References virt_id_to_subunit_num_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data().

map< string, string > const & core::conformation::symmetry::SymmData::get_virt_id_to_subunit_residue ( ) const

References virt_id_to_subunit_residue_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data().

map< string, pair< string, string > > const & core::conformation::symmetry::SymmData::get_virtual_connects ( ) const

References jump_string_to_virtual_pair_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data(), and core::conformation::symmetry::setup_symmetric_conformation().

map< string, VirtualCoordinate > const & core::conformation::symmetry::SymmData::get_virtual_coordinates ( ) const

References virtual_coordinates_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data(), and core::conformation::symmetry::setup_symmetric_conformation().

map< string, Size > const & core::conformation::symmetry::SymmData::get_virtual_id_to_num ( ) const

References virt_id_to_virt_num_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data().

map< Size, string > const & core::conformation::symmetry::SymmData::get_virtual_num_to_id ( ) const

References virt_num_to_virt_id_.

Referenced by core::conformation::symmetry::set_fold_tree_from_symm_data(), core::conformation::symmetry::setup_symmetric_conformation(), and core::conformation::symmetry::show_foldtree().

bool core::conformation::symmetry::SymmData::is_ancestor_virtual ( std::string const &  ancestor,
std::string const &  child 
) const

References get_parent_virtual(), and core::conformation::symmetry::NOPARENT.

Referenced by leaves_of_jump().

vector1< string > core::conformation::symmetry::SymmData::leaves_of_jump ( std::string const &  jname) const
private

References is_ancestor_virtual(), jump_string_to_virtual_pair_, utility_exit_with_message, and virt_id_to_subunit_num_.

Referenced by components_moved_by_jump(), and subunits_moved_by_jump().

void core::conformation::symmetry::SymmData::read_symmetry_data_from_file ( std::string  filename)

References read_symmetry_data_from_stream(), and utility_exit_with_message.

void core::conformation::symmetry::SymmData::read_symmetry_data_from_stream ( std::istream &  infile)

References core::conformation::symmetry::VirtualCoordinate::add_coordinate_from_string(), core::conformation::symmetry::SymDof::add_dof_from_string(), anchor_residue_, angle, core::conformation::symmetry::CEN_DOCK_SCORE, chain, numeric::xyzMatrix< Real >::cols(), components_, components_moved_by_jump(), core::conformation::symmetry::CONTACTS, numeric::xyzVector< class >::cross(), numeric::xyzVector< class >::distance(), numeric::xyzTransform< class >::distance(), dofs_, core::conformation::symmetry::FA_REP_SCORE, get_anchor_residue(), core::conformation::symmetry::VirtualCoordinate::get_origin(), core::conformation::symmetry::VirtualCoordinate::get_x(), core::conformation::symmetry::VirtualCoordinate::get_y(), getline(), include_subunit_, interfaces_, jname2components_, jname2subunits_, jump_clones_, jump_string_to_jump_num_, jump_string_to_virtual_pair_, core::chemical::element::N, name2component_, numeric::xyzVector< class >::normalized(), num_components_, core::conformation::symmetry::ORDERED_SEQUENTIAL, output_subunit_, core::conformation::symmetry::RANDOM, recenter_, root_, numeric::rotation_matrix_degrees(), runtime_assert, sanity_check(), score_subunit_, core::conformation::symmetry::SEQUENTIAL, set_score_multiply_subunit(), core::conformation::symmetry::SymSlideInfo::set_slide_order(), core::conformation::symmetry::SymSlideInfo::set_slide_type(), core::conformation::symmetry::SymSlideInfo::set_SlideCriteriaType(), core::conformation::symmetry::SymSlideInfo::set_SlideCriteriaVal(), show(), slide_info_, slide_order_string_, utility::split(), split(), utility::string2int(), utility::string_split(), subunit_num_to_virt_id_, subunits_, subunits_moved_by_jump(), symmetry_name_, tag, core::conformation::symmetry::TR, utility::trim(), utility_exit_with_message, virt_id_to_subunit_chain_, virt_id_to_subunit_num_, virt_id_to_subunit_residue_, virt_id_to_virt_num_, virt_num_to_virt_id_, and virtual_coordinates_.

Referenced by read_symmetry_data_from_file().

void core::conformation::symmetry::SymmData::sanity_check ( )

References interfaces_, jump_string_to_virtual_pair_, num_components_, score_multiply_subunit_, subunits_, utility_exit_with_message, virt_id_to_subunit_chain_, and virtual_coordinates_.

Referenced by read_symmetry_data_from_stream().

void core::conformation::symmetry::SymmData::set_anchor_residue ( std::string  anchor)

References anchor_residue_.

void core::conformation::symmetry::SymmData::set_interfaces ( core::Size  interfaces)

References interfaces_.

void core::conformation::symmetry::SymmData::set_rotation_matrix ( std::vector< numeric::xyzMatrix< core::Real > >  rotation_matrices)

References rotation_matrices_.

void core::conformation::symmetry::SymmData::set_score_multiply_subunit ( utility::vector1< Size > &  score_multiply_vector)

References score_multiply_subunit_.

Referenced by read_symmetry_data_from_stream().

void core::conformation::symmetry::SymmData::set_slide_info ( SymSlideInfo  slide_info)

References slide_info_.

void core::conformation::symmetry::SymmData::set_subunits ( core::Size  num_subunits)

References subunits_.

void core::conformation::symmetry::SymmData::set_symm_transforms ( std::vector< std::vector< std::string > >  symm_transforms)

References symm_transforms_.

void core::conformation::symmetry::SymmData::set_symmetry_name ( std::string  symm_name)

References symmetry_name_.

void core::conformation::symmetry::SymmData::set_symmetry_type ( std::string  symm_type)

References symmetry_type_.

void core::conformation::symmetry::SymmData::set_translation_matrix ( std::vector< numeric::xyzMatrix< core::Real > >  translation_matrices)

References translation_matrices_.

void core::conformation::symmetry::SymmData::show ( )

References core::conformation::symmetry::SymDof::allow_dof(), anchor_residue_, core::conformation::symmetry::CEN_DOCK_SCORE, core::conformation::symmetry::CONTACTS, dofs_, core::conformation::symmetry::FA_REP_SCORE, core::conformation::symmetry::VirtualCoordinate::get_origin(), core::conformation::symmetry::SymSlideInfo::get_slide_type(), core::conformation::symmetry::SymSlideInfo::get_SlideCriteriaType(), core::conformation::symmetry::SymSlideInfo::get_SlideCriteriaVal(), core::conformation::symmetry::VirtualCoordinate::get_x(), core::conformation::symmetry::VirtualCoordinate::get_y(), include_subunit_, interfaces_, core::conformation::symmetry::SymDof::jump_direction(), jump_string_to_virtual_pair_, core::conformation::symmetry::ORDERED_SEQUENTIAL, output_subunit_, core::conformation::symmetry::RANDOM, core::conformation::symmetry::SymDof::range1_lower(), core::conformation::symmetry::SymDof::range1_upper(), core::conformation::symmetry::SymDof::range2_lower(), core::conformation::symmetry::SymDof::range2_upper(), score_subunit_, core::conformation::symmetry::SEQUENTIAL, slide_info_, slide_order_string_, subunits_, symmetry_name_, core::conformation::symmetry::TR, virt_num_to_virt_id_, and virtual_coordinates_.

Referenced by read_symmetry_data_from_stream().

vector1< Size > core::conformation::symmetry::SymmData::subunits_moved_by_jump ( std::string const &  jname) const

References leaves_of_jump(), and virt_id_to_subunit_num_.

Referenced by read_symmetry_data_from_stream(), and core::conformation::symmetry::setup_symmetric_conformation().

Friends And Related Function Documentation

bool operator!= ( SymmData const &  a,
SymmData const &  b 
)
friend
bool operator== ( SymmData const &  a,
SymmData const &  b 
)
friend

Member Data Documentation

std::vector< Size > core::conformation::symmetry::SymmData::allow_virtual_
private

Referenced by core::conformation::symmetry::operator==().

std::string core::conformation::symmetry::SymmData::anchor_residue_
private

Referenced by get_anchor_residue(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), set_anchor_residue(), and show().

core::Real core::conformation::symmetry::SymmData::cell_a_
private
core::Real core::conformation::symmetry::SymmData::cell_alfa_
private
core::Real core::conformation::symmetry::SymmData::cell_b_
private
core::Real core::conformation::symmetry::SymmData::cell_beta_
private
core::Real core::conformation::symmetry::SymmData::cell_c_
private
core::Real core::conformation::symmetry::SymmData::cell_gamma_
private
utility::vector1<char> core::conformation::symmetry::SymmData::components_
private

Referenced by get_components(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::map< Size, SymDof > core::conformation::symmetry::SymmData::dofs_
private

Referenced by get_dofs(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and show().

utility::vector1< Size > core::conformation::symmetry::SymmData::include_subunit_
private

Referenced by get_include_subunit(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and show().

core::Size core::conformation::symmetry::SymmData::interfaces_
private

Referenced by get_interfaces(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), sanity_check(), set_interfaces(), and show().

std::map<std::string,utility::vector1<char> > core::conformation::symmetry::SymmData::jname2components_
private

Referenced by get_jump_name_to_components(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::map<std::string,utility::vector1<Size> > core::conformation::symmetry::SymmData::jname2subunits_
private

Referenced by get_jump_name_to_subunits(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::map< Size, WtedClones > core::conformation::symmetry::SymmData::jump_clones_
private

Referenced by get_jump_clones(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::map< std::string, Size > core::conformation::symmetry::SymmData::jump_string_to_jump_num_
private

Referenced by get_jump_string_to_jump_num(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::map< std::string, std::pair< std::string, std::string > > core::conformation::symmetry::SymmData::jump_string_to_virtual_pair_
private

Referenced by get_parent_jump(), get_parent_virtual(), get_virtual_connects(), leaves_of_jump(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), sanity_check(), and show().

std::map<std::string,char> core::conformation::symmetry::SymmData::name2component_
private

Referenced by get_subunit_name_to_component(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

core::Size core::conformation::symmetry::SymmData::num_components_
private

Referenced by get_num_components(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and sanity_check().

utility::vector1< Size > core::conformation::symmetry::SymmData::output_subunit_
private

Referenced by get_output_subunit(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and show().

bool core::conformation::symmetry::SymmData::recenter_
private

Referenced by get_recenter(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

core::Size core::conformation::symmetry::SymmData::root_
private

Referenced by get_root(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::vector< numeric::xyzMatrix< core::Real> > core::conformation::symmetry::SymmData::rotation_matrices_
private

Referenced by get_rotation_matrix(), core::conformation::symmetry::operator==(), and set_rotation_matrix().

utility::vector1< Size > core::conformation::symmetry::SymmData::score_multiply_subunit_
private

Referenced by get_score_multiply_subunit(), core::conformation::symmetry::operator==(), sanity_check(), and set_score_multiply_subunit().

core::Size core::conformation::symmetry::SymmData::score_subunit_
private

Referenced by get_score_subunit(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and show().

SymSlideInfo core::conformation::symmetry::SymmData::slide_info_
private

Referenced by get_slide_info(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), set_slide_info(), and show().

std::vector< std::string > core::conformation::symmetry::SymmData::slide_order_string_
private

Referenced by core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and show().

std::map< Size, std::string > core::conformation::symmetry::SymmData::subunit_num_to_virt_id_
private

Referenced by get_subunit_num_to_virt_id(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

core::Size core::conformation::symmetry::SymmData::subunits_
private

Referenced by get_subunits(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), sanity_check(), set_subunits(), and show().

std::vector< std::vector< std::string > > core::conformation::symmetry::SymmData::symm_transforms_
private

Referenced by core::conformation::symmetry::operator==(), and set_symm_transforms().

std::string core::conformation::symmetry::SymmData::symmetry_name_
private

Referenced by get_symmetry_name(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), set_symmetry_name(), and show().

std::string core::conformation::symmetry::SymmData::symmetry_type_
private

Referenced by get_symmetry_type(), core::conformation::symmetry::operator==(), and set_symmetry_type().

std::vector< numeric::xyzMatrix< core::Real> > core::conformation::symmetry::SymmData::translation_matrices_
private

Referenced by get_translation_matrix(), core::conformation::symmetry::operator==(), and set_translation_matrix().

std::map< std::string, char > core::conformation::symmetry::SymmData::virt_id_to_subunit_chain_
private

Referenced by components_moved_by_jump(), get_virt_id_to_subunit_chain(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and sanity_check().

std::map< std::string, Size > core::conformation::symmetry::SymmData::virt_id_to_subunit_num_
private

Referenced by get_virt_id_to_subunit_num(), leaves_of_jump(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and subunits_moved_by_jump().

std::map< std::string, std::string > core::conformation::symmetry::SymmData::virt_id_to_subunit_residue_
private

Referenced by get_virt_id_to_subunit_residue(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::map< std::string, Size > core::conformation::symmetry::SymmData::virt_id_to_virt_num_
private

Referenced by get_virtual_id_to_num(), core::conformation::symmetry::operator==(), and read_symmetry_data_from_stream().

std::map< Size, std::string > core::conformation::symmetry::SymmData::virt_num_to_virt_id_
private

Referenced by get_virtual_num_to_id(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), and show().

std::map< std::string, VirtualCoordinate > core::conformation::symmetry::SymmData::virtual_coordinates_
private

Referenced by get_num_virtual(), get_virtual_coordinates(), core::conformation::symmetry::operator==(), read_symmetry_data_from_stream(), sanity_check(), and show().

The documentation for this class was generated from the following files:
Generated on Wed Sep 10 2014 11:27:13 for Rosetta Core by   doxygen 1.8.7