Rosetta Core  2014.35
Functions | Variables
core::pose::symmetry Namespace Reference

Functions

bool is_symmetric (scoring::Energies const &energies)
 
bool is_symmetric (pose::Pose const &pose)
 
bool is_symmetric (scoring::ScoreFunction const &scorefxn)
 
void make_score_function_consistent_with_symmetric_state_of_pose (pose::Pose const &pose, scoring::ScoreFunctionOP &scorefxn)
 
conformation::symmetry::SymmetryInfoCOP symmetry_info (pose::Pose const &pose)
 
bool scorefxn_is_symmetric (conformation::Conformation const &conf)
 
bool scorefxn_is_symmetric (pose::Pose const &pose)
 
void make_symmetric_pose (pose::Pose &pose, conformation::symmetry::SymmetryInfo symmetry_info)
 
void make_symmetric_pose (pose::Pose &pose, conformation::symmetry::SymmData &symmdata)
 
void make_symmetric_pose (pose::Pose &pose, std::string symmdef_file)
 
void make_asymmetric_pose (pose::Pose &pose)
 
void extract_asymmetric_unit (core::pose::Pose const &pose_in, core::pose::Pose &pose_out, bool with_virtual_atoms=true)
 extract the asu from a pose... unlike previous function symmetric clones are thrown out More...
 
core::pose::Pose get_asymmetric_pose_copy_from_symmetric_pose (pose::Pose const &pose)
 
void make_symmetric_pdb_info (pose::Pose const &pose, pose::PDBInfoOP pdb_info_src, pose::PDBInfoOP pdb_info_target)
 
void extract_asymmetric_unit_pdb_info (pose::Pose const &pose, pose::PDBInfoCOP pdb_info_src, pose::PDBInfoOP pdb_info_target)
 
void make_symmetric_movemap (pose::Pose const &pose, kinematics::MoveMap &movemap)
 
int find_symmetric_basejump_anchor (pose::Pose &pose)
 
void find_new_symmetric_jump_residues (core::pose::Pose &pose)
 
void rotate_anchor_to_x_axis (core::pose::Pose &pose)
 
void symmetrize_fold_tree (core::pose::Pose const &p, kinematics::FoldTree &f)
 
void set_asymm_unit_fold_tree (core::pose::Pose &p, kinematics::FoldTree const &f)
 
void partition_by_symm_jumps (utility::vector1< int > jump_numbers, core::kinematics::FoldTree const &ft, conformation::symmetry::SymmetryInfoCOP symm_info, ObjexxFCL::FArray1D_bool &partner1)
 
numeric::xyzVector< core::Realget_symm_axis (core::pose::Pose &pose)
 
core::pose::Pose get_buildingblock_and_neighbor_subs (Pose const &pose_in, utility::vector1< Size > intra_subs)
 
core::pose::Pose get_subpose (Pose const &pose, utility::vector1< std::string > subs)
 
utility::vector1< Sizeget_resis (Pose const &pose, utility::vector1< std::string > subs)
 
utility::vector1< std::string > get_full_intracomponent_and_neighbor_subs (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_full_intracomponent_and_neighbor_subpose (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< Sizeget_full_intracomponent_and_neighbor_resis (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_full_intracomponent_subpose (Pose const &pose, std::string sym_dof_name)
 
utility::vector1< Sizeget_full_intracomponent_resis (Pose const &pose, std::string sym_dof_name)
 
utility::vector1< std::string > get_full_intracomponent_neighbor_subs (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_full_intracomponent_neighbor_subpose (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< Sizeget_full_intracomponent_neighbor_resis (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
bool intracomponent_contact (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< std::string > get_intracomponent_and_neighbor_subs (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_intracomponent_and_neighbor_subpose (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< Sizeget_intracomponent_and_neighbor_resis (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< std::string > get_intracomponent_subs (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_intracomponent_subpose (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< Sizeget_intracomponent_resis (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< std::string > get_neighbor_subs (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_neighbor_subpose (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< Sizeget_neighbor_resis (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< std::string > get_intracomponent_and_intraneighbor_subs (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_intracomponent_and_intraneighbor_subpose (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< Sizeget_intracomponent_and_intraneighbor_resis (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< std::string > get_intracomponent_and_interneighbor_subs (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
core::pose::Pose get_intracomponent_and_interneighbor_subpose (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
utility::vector1< Sizeget_intracomponent_and_interneighbor_resis (Pose const &pose, std::string sym_dof_name, Real contact_dist)
 
void make_residue_mask_symmetric (core::pose::Pose const &p, utility::vector1< bool > &msk)
 
kinematics::FoldTree sealed_symmetric_fold_tree (core::pose::Pose &pose)
 
int get_sym_aware_jump_num (core::pose::Pose const &pose, core::Size jump_num)
 
utility::vector1< std::string > sym_dof_names (core::pose::Pose const &pose)
 
int sym_dof_jump_num (core::pose::Pose const &pose, std::string const &jname)
 
std::string jump_num_sym_dof (core::pose::Pose const &pose, Size const &jnum)
 
utility::vector1< Sizeget_symdof_subunits (core::pose::Pose const &pose, std::string const &jname)
 
utility::vector1< char > symmetric_components (core::pose::Pose const &pose)
 
bool is_singlecomponent (core::pose::Pose const &pose)
 
bool is_multicomponent (core::pose::Pose const &pose)
 
Size get_component_lower_bound (core::pose::Pose const &pose, char c)
 
Size get_component_upper_bound (core::pose::Pose const &pose, char c)
 
char get_component_of_residue (core::pose::Pose const &pose, Size ir)
 
char get_subunit_name_to_component (core::pose::Pose const &pose, std::string const &vname)
 
utility::vector1< char > const & get_jump_name_to_components (core::pose::Pose const &pose, std::string const &jname)
 
utility::vector1< Size > const & get_jump_name_to_subunits (core::pose::Pose const &pose, std::string const &jname)
 
std::string get_resnum_to_subunit_component (core::pose::Pose const &pose, Size const &resnum)
 
utility::vector1< std::string > get_full_intracomponent_subs (core::pose::Pose const &pose, std::string const &jname)
 

Variables

static basic::Tracer TR ("core.pose.symmetry.util")
 
static
numeric::random::RandomGenerator 
RG (408539)
 

Function Documentation

void core::pose::symmetry::extract_asymmetric_unit ( core::pose::Pose const &  pose_in,
core::pose::Pose pose_out,
bool  with_virtual_atoms 
)
void core::pose::symmetry::extract_asymmetric_unit_pdb_info ( pose::Pose const &  pose,
pose::PDBInfoCOP  pdb_info_src,
pose::PDBInfoOP  pdb_info_target 
)
void core::pose::symmetry::find_new_symmetric_jump_residues ( core::pose::Pose pose)
int core::pose::symmetry::find_symmetric_basejump_anchor ( pose::Pose &  pose)
core::pose::Pose core::pose::symmetry::get_asymmetric_pose_copy_from_symmetric_pose ( pose::Pose const &  pose)
core::pose::Pose core::pose::symmetry::get_buildingblock_and_neighbor_subs ( Pose const &  pose_in,
utility::vector1< Size intra_subs 
)
Size core::pose::symmetry::get_component_lower_bound ( core::pose::Pose const &  pose,
char  c 
)

References symmetry_info().

char core::pose::symmetry::get_component_of_residue ( core::pose::Pose const &  pose,
Size  ir 
)

References symmetry_info().

Referenced by intracomponent_contact().

Size core::pose::symmetry::get_component_upper_bound ( core::pose::Pose const &  pose,
char  c 
)

References symmetry_info().

utility::vector1< Size > core::pose::symmetry::get_full_intracomponent_and_neighbor_resis ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
core::pose::Pose core::pose::symmetry::get_full_intracomponent_and_neighbor_subpose ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< std::string > core::pose::symmetry::get_full_intracomponent_and_neighbor_subs ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< Size > core::pose::symmetry::get_full_intracomponent_neighbor_resis ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
core::pose::Pose core::pose::symmetry::get_full_intracomponent_neighbor_subpose ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< std::string > core::pose::symmetry::get_full_intracomponent_neighbor_subs ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< Size > core::pose::symmetry::get_full_intracomponent_resis ( Pose const &  pose,
std::string  sym_dof_name 
)
core::pose::Pose core::pose::symmetry::get_full_intracomponent_subpose ( Pose const &  pose,
std::string  sym_dof_name 
)
utility::vector1< std::string > core::pose::symmetry::get_full_intracomponent_subs ( core::pose::Pose const &  pose,
std::string const &  jname 
)
utility::vector1< Size > core::pose::symmetry::get_intracomponent_and_interneighbor_resis ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
core::pose::Pose core::pose::symmetry::get_intracomponent_and_interneighbor_subpose ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< std::string > core::pose::symmetry::get_intracomponent_and_interneighbor_subs ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< Size > core::pose::symmetry::get_intracomponent_and_intraneighbor_resis ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
core::pose::Pose core::pose::symmetry::get_intracomponent_and_intraneighbor_subpose ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< std::string > core::pose::symmetry::get_intracomponent_and_intraneighbor_subs ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< Size > core::pose::symmetry::get_intracomponent_and_neighbor_resis ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
core::pose::Pose core::pose::symmetry::get_intracomponent_and_neighbor_subpose ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< std::string > core::pose::symmetry::get_intracomponent_and_neighbor_subs ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< Size > core::pose::symmetry::get_intracomponent_resis ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
core::pose::Pose core::pose::symmetry::get_intracomponent_subpose ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< std::string > core::pose::symmetry::get_intracomponent_subs ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< char > const & core::pose::symmetry::get_jump_name_to_components ( core::pose::Pose const &  pose,
std::string const &  jname 
)
utility::vector1< Size > const & core::pose::symmetry::get_jump_name_to_subunits ( core::pose::Pose const &  pose,
std::string const &  jname 
)

References symmetry_info().

Referenced by get_full_intracomponent_subs().

utility::vector1< Size > core::pose::symmetry::get_neighbor_resis ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)

References get_neighbor_subs(), and get_resis().

core::pose::Pose core::pose::symmetry::get_neighbor_subpose ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< std::string > core::pose::symmetry::get_neighbor_subs ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
utility::vector1< Size > core::pose::symmetry::get_resis ( Pose const &  pose,
utility::vector1< std::string >  subs 
)
std::string core::pose::symmetry::get_resnum_to_subunit_component ( core::pose::Pose const &  pose,
Size const &  resnum 
)
core::pose::Pose core::pose::symmetry::get_subpose ( Pose const &  pose,
utility::vector1< std::string >  subs 
)
char core::pose::symmetry::get_subunit_name_to_component ( core::pose::Pose const &  pose,
std::string const &  vname 
)

References symmetry_info().

int core::pose::symmetry::get_sym_aware_jump_num ( core::pose::Pose const &  pose,
core::Size  jump_num 
)
utility::vector1< Size > core::pose::symmetry::get_symdof_subunits ( core::pose::Pose const &  pose,
std::string const &  jname 
)
numeric::xyzVector< core::Real > core::pose::symmetry::get_symm_axis ( core::pose::Pose pose)
bool core::pose::symmetry::intracomponent_contact ( Pose const &  pose,
std::string  sym_dof_name,
Real  contact_dist 
)
bool core::pose::symmetry::is_multicomponent ( core::pose::Pose const &  pose)
bool core::pose::symmetry::is_singlecomponent ( core::pose::Pose const &  pose)
bool core::pose::symmetry::is_symmetric ( scoring::Energies const &  energies)

Referenced by core::pack::task::operation::NoRepackDisulfides::apply(), core::pack::rotamer_set::RotamerSets::build_rotamers(), core::scoring::CA_rmsd_symmetric(), core::scoring::MembranePotential::compute_membrane_embedding(), core::pack::rotamer_set::symmetry::SymmetricRotamerSet_::compute_one_body_energies(), core::pack::interaction_graph::SurfacePotential::compute_pose_surface_energy(), core::pack::interaction_graph::InteractionGraphFactory::create_interaction_graph(), core::scoring::electron_density::ElectronDensity::dCCdBs(), core::scoring::disulfides::FullatomDisulfideEnergyContainer::disulfides_changed(), core::scoring::methods::ChainbreakEnergy::eval_atom_derivative(), core::scoring::methods::RG_Energy_Fast::eval_atom_derivative(), core::scoring::electron_density::ElecDensAllAtomCenEnergy::eval_atom_derivative(), core::scoring::electron_density::PattersonCorrEnergy::eval_atom_derivative(), core::scoring::electron_density::ElecDensCenEnergy::eval_atom_derivative(), core::scoring::electron_density::ElecDensEnergy::eval_atom_derivative(), core::scoring::electron_density::FastDensEnergy::eval_atom_derivative(), core::scoring::methods::CartesianBondedEnergy::eval_residue_pair_derivatives(), extract_asymmetric_unit(), extract_asymmetric_unit_pdb_info(), core::io::silent::BinarySilentStruct::fill_pose(), core::io::silent::BinarySilentStruct::fill_struct(), core::scoring::methods::ChainbreakEnergy::finalize_total_energy(), core::scoring::methods::D2H_SA_Energy::finalize_total_energy(), core::scoring::methods::MembraneLipo::finalize_total_energy(), core::scoring::disulfides::FullatomDisulfideEnergyContainer::find_disulfides(), find_new_symmetric_jump_residues(), core::indexed_structure_store::FragmentLookup::get_fragment_residue_spans(), get_sym_aware_jump_num(), get_symdof_subunits(), get_symm_axis(), core::util::getMLweight(), core::util::getMLweight_cart(), core::scoring::SecondaryStructurePotential::hspair(), make_asymmetric_pose(), core::pack::make_new_symmetric_PackerTask_by_intersection(), core::pack::make_new_symmetric_PackerTask_by_requested_method(), core::pack::make_new_symmetric_PackerTask_by_truncation(), core::pack::make_new_symmetric_PackerTask_by_union(), make_residue_mask_symmetric(), make_score_function_consistent_with_symmetric_state_of_pose(), make_symmetric_movemap(), core::pack::make_symmetric_PackerTask_by_truncation(), make_symmetric_pdb_info(), make_symmetric_pose(), core::scoring::MembranePotential::non_helix_in_membrane_penalty(), core::scoring::symmetry::SymmetricScoreFunction::operator()(), core::scoring::ScoreFunction::operator()(), core::pack::pack_rotamers(), core::scoring::electron_density::ElectronDensity::rescale_fastscoring_temp_bins(), core::scoring::methods::MembraneCenPairEnergy::residue_pair_energy(), core::scoring::membrane::MPPairEnergy::residue_pair_energy(), core::scoring::electron_density::FastDensEnergy::residue_pair_energy(), core::scoring::electron_density::ElecDensEnergy::residue_pair_energy(), core::scoring::methods::CartesianBondedEnergy::residue_pair_energy_sorted(), core::pack::rotamer_trials(), core::optimization::AtomTreeMinimizer::run(), core::scoring::MembranePotential::score_normal_center(), sealed_symmetric_fold_tree(), core::scoring::methods::EnvSmoothEnergy::setup_for_derivatives(), core::scoring::electron_density::ElecDensEnergy::setup_for_derivatives(), core::scoring::electron_density::FastDensEnergy::setup_for_derivatives(), core::scoring::electron_density::ElecDensAllAtomCenEnergy::setup_for_derivatives(), core::scoring::electron_density::ElecDensCenEnergy::setup_for_derivatives(), core::scoring::methods::RG_Energy_Fast::setup_for_derivatives(), core::scoring::rna::RNA_SuiteEnergy::setup_for_scoring(), core::scoring::methods::Rama2BOffsetEnergy::setup_for_scoring(), core::scoring::electron_density::ElecDensAllAtomCenEnergy::setup_for_scoring(), core::scoring::electron_density::ElecDensCenEnergy::setup_for_scoring(), core::scoring::methods::CartesianBondedEnergy::setup_for_scoring(), core::scoring::SecondaryStructurePotential::sheets_from_dimers(), core::scoring::SecondaryStructurePotential::sspair(), core::util::switch_to_residue_type_set(), symmetry_info(), core::scoring::MembranePotential::termini_penalty(), and core::scoring::Energies::update_neighbor_links().

bool core::pose::symmetry::is_symmetric ( pose::Pose const &  pose)

Attempt to detect whether a pose is symmetric

References core::pose::Pose::conformation(), and core::conformation::symmetry::is_symmetric().

bool core::pose::symmetry::is_symmetric ( scoring::ScoreFunction const &  scorefxn)
std::string core::pose::symmetry::jump_num_sym_dof ( core::pose::Pose const &  pose,
Size const &  jnum 
)

References symmetry_info().

void core::pose::symmetry::make_asymmetric_pose ( pose::Pose &  pose)
void core::pose::symmetry::make_residue_mask_symmetric ( core::pose::Pose const &  p,
utility::vector1< bool > &  msk 
)
void core::pose::symmetry::make_score_function_consistent_with_symmetric_state_of_pose ( pose::Pose const &  pose,
scoring::ScoreFunctionOP &  scorefxn 
)

References is_symmetric().

void core::pose::symmetry::make_symmetric_movemap ( pose::Pose const &  pose,
kinematics::MoveMap &  movemap 
)
void core::pose::symmetry::make_symmetric_pdb_info ( pose::Pose const &  pose,
pose::PDBInfoOP  pdb_info_src,
pose::PDBInfoOP  pdb_info_target 
)
void core::pose::symmetry::make_symmetric_pose ( pose::Pose &  pose,
conformation::symmetry::SymmetryInfo  symmetry_info 
)

constructs a symmetric pose with a symmetric conformation and energies object from a monomeric pose and symmetryinfo object. Unlike the version of make_symmetric_pose from symmdata, this does not expand the pose; it assumes the symmetric fold tree and residues are already present For example, this is used to reconstruct a symm pose from a silent file

References core::pose::Pose::conformation(), basic::options::OptionKeys::symmetry::detect_bonds, core::conformation::Conformation::detect_bonds(), core::pose::Pose::energies(), is_symmetric(), basic::options::option, core::pose::Pose::pdb_info(), core::pose::Pose::set_new_conformation(), core::pose::Pose::set_new_energies_object(), symmetry_info(), and core::pose::Pose::total_residue().

Referenced by core::io::silent::BinarySilentStruct::fill_pose(), and make_symmetric_pose().

void core::pose::symmetry::make_symmetric_pose ( pose::Pose &  pose,
conformation::symmetry::SymmData &  symmdata 
)
void core::pose::symmetry::make_symmetric_pose ( pose::Pose &  pose,
std::string  symmdef_file 
)

constructs a symmetric pose with a symmetric conformation and energies object from a monomeric pose and symmetry definition file on command line. Requires the presence of a symmetry_definition file

References make_symmetric_pose(), core::pose::Pose::n_residue(), core::pose::Pose::num_jump(), and option.

void core::pose::symmetry::partition_by_symm_jumps ( utility::vector1< int jump_numbers,
core::kinematics::FoldTree const &  ft,
conformation::symmetry::SymmetryInfoCOP  symm_info,
ObjexxFCL::FArray1D_bool &  partner1 
)
void core::pose::symmetry::rotate_anchor_to_x_axis ( core::pose::Pose pose)
bool core::pose::symmetry::scorefxn_is_symmetric ( conformation::Conformation const &  conf)

Attempt to detect whether a conformation is symmetric

bool core::pose::symmetry::scorefxn_is_symmetric ( pose::Pose const &  pose)

Attempt to detect whether a pose is symmetric

References core::pose::Pose::conformation(), and core::conformation::symmetry::is_symmetric().

core::kinematics::FoldTree core::pose::symmetry::sealed_symmetric_fold_tree ( core::pose::Pose pose)
void core::pose::symmetry::set_asymm_unit_fold_tree ( core::pose::Pose p,
kinematics::FoldTree const &  f 
)
int core::pose::symmetry::sym_dof_jump_num ( core::pose::Pose const &  pose,
std::string const &  jname 
)
utility::vector1< std::string > core::pose::symmetry::sym_dof_names ( core::pose::Pose const &  pose)

References symmetry_info().

utility::vector1< char > core::pose::symmetry::symmetric_components ( core::pose::Pose const &  pose)

References symmetry_info().

void core::pose::symmetry::symmetrize_fold_tree ( core::pose::Pose const &  p,
kinematics::FoldTree &  f 
)
conformation::symmetry::SymmetryInfoCOP core::pose::symmetry::symmetry_info ( pose::Pose const &  pose)

Attempts to grab the symmetry info if the pose is symmetric

References core::pose::Pose::conformation(), is_symmetric(), runtime_assert, and core::conformation::symmetry::SymmetricConformation::Symmetry_Info().

Referenced by core::pack::task::operation::NoRepackDisulfides::apply(), core::pack::rotamer_set::RotamerSets::build_rotamers(), core::scoring::disulfides::FullatomDisulfideEnergyContainer::disulfides_changed(), core::scoring::methods::CartesianBondedEnergy::eval_residue_pair_derivatives(), core::io::silent::BinarySilentStruct::fill_struct(), core::scoring::disulfides::FullatomDisulfideEnergyContainer::find_disulfides(), get_buildingblock_and_neighbor_subs(), get_component_lower_bound(), get_component_of_residue(), get_component_upper_bound(), core::indexed_structure_store::FragmentLookup::get_fragment_residue_spans(), get_full_intracomponent_and_neighbor_subs(), get_full_intracomponent_neighbor_subs(), get_intracomponent_and_interneighbor_subs(), get_intracomponent_and_intraneighbor_subs(), get_intracomponent_and_neighbor_subs(), get_intracomponent_subs(), get_jump_name_to_components(), get_jump_name_to_subunits(), get_neighbor_subs(), get_resis(), get_resnum_to_subunit_component(), get_subpose(), get_subunit_name_to_component(), get_sym_aware_jump_num(), get_symdof_subunits(), intracomponent_contact(), is_multicomponent(), is_singlecomponent(), jump_num_sym_dof(), make_symmetric_pose(), core::scoring::methods::CartesianBondedEnergy::residue_pair_energy_sorted(), core::scoring::rna::RNA_SuiteEnergy::setup_for_scoring(), core::scoring::methods::Rama2BOffsetEnergy::setup_for_scoring(), core::scoring::methods::CartesianBondedEnergy::setup_for_scoring(), sym_dof_jump_num(), sym_dof_names(), and symmetric_components().

Variable Documentation

numeric::random::RandomGenerator core::pose::symmetry::RG(408539)
static
basic::Tracer core::pose::symmetry::TR("core.pose.symmetry.util")
static