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IMP Reference Guide
develop.63b38c487d,2024/12/21
The Integrative Modeling Platform
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This is the complete list of members for IMP::kinematics::ProteinKinematics, including all inherited members.
| add_dihedral_joint(const atom::Residue r, ProteinAngleType angle_type, const atom::Atoms &atoms) (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| add_dihedral_joints(const std::vector< atom::Residue > &residues, ProteinAngleType angle_type, const std::vector< atom::Atoms > &dihedral_angles) (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| build_rigid_bodies() | IMP::kinematics::ProteinKinematics | |
| build_topology_graph() (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| clear_caches() | IMP::Object | virtual |
| do_destroy() | IMP::Object | protectedvirtual |
| get_check_level() const (defined in IMP::Object) | IMP::Object | |
| get_chi1_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_chi2_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_chi3_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_chi4_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_chi5_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_joint(const atom::Residue r, ProteinAngleType angle) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_joints() | IMP::kinematics::ProteinKinematics | |
| get_kinematic_forest() | IMP::kinematics::ProteinKinematics | |
| get_log_level() const (defined in IMP::Object) | IMP::Object | |
| get_loop_joints() (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_name() const (defined in IMP::Object) | IMP::Object | |
| get_ordered_joints() | IMP::kinematics::ProteinKinematics | |
| get_other_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_phi(const atom::Residue r) const | IMP::kinematics::ProteinKinematics | |
| get_phi_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_psi(const atom::Residue r) const | IMP::kinematics::ProteinKinematics | |
| get_psi_joint(const atom::Residue r) const (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| get_rigid_bodies() | IMP::kinematics::ProteinKinematics | |
| get_type_name() const override (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | virtual |
| get_version_info() const override | IMP::kinematics::ProteinKinematics | virtual |
| mark_rotatable_angle(const std::vector< atom::Atom > &dihedral_angle) | IMP::kinematics::ProteinKinematics | |
| mark_rotatable_angles(const std::vector< atom::Atoms > &dihedral_angles) | IMP::kinematics::ProteinKinematics | |
| NonCopyable() (defined in IMP::NonCopyable) | IMP::NonCopyable | protected |
| Object(std::string name) | IMP::Object | protected |
| open_loop(atom::Atoms open_loop_bond_atoms) (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| order_rigid_bodies(const std::vector< atom::Atoms > &dihedral_angles, const std::vector< atom::Atoms > &phi_angles, const std::vector< atom::Atoms > &psi_angles, const std::vector< atom::Atoms > &chi1_angles, const std::vector< atom::Atoms > &chi2_angles, const std::vector< atom::Atoms > &chi3_angles, const std::vector< atom::Atoms > &chi4_angles, const std::vector< atom::Atoms > &chi5_angles, atom::Atoms open_loop_bond_atoms) (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| ProteinKinematics(atom::Hierarchy mhd, bool flexible_backbone=true, bool flexible_side_chains=false) | IMP::kinematics::ProteinKinematics | |
| ProteinKinematics(atom::Hierarchy mhd, const atom::Residues &flexible_residues, const ParticleIndexQuads custom_dihedral_angles, atom::Atoms open_loop_bond_atoms=atom::Atoms(), bool flexible_backbone=true, bool flexible_side_chains=false) | IMP::kinematics::ProteinKinematics | |
| ProteinKinematics(atom::Hierarchy mhd, const atom::Residues &flexible_residues, const std::vector< atom::Atoms > &custom_dihedral_atoms, atom::Atoms open_loop_bond_atoms=atom::Atoms(), bool flexible_backbone=true, bool flexible_side_chains=false) | IMP::kinematics::ProteinKinematics | |
| ProteinKinematics(atom::Hierarchy mhd, const atom::Residues &flexible_residues, const ParticleIndexQuads custom_dihedral_angles, const std::vector< ProteinAngleType > &custom_dihedral_angle_types, atom::Atoms open_loop_bond_atoms=atom::Atoms(), bool flexible_backbone=true, bool flexible_side_chains=false) | IMP::kinematics::ProteinKinematics | |
| set_check_level(CheckLevel l) | IMP::Object | |
| set_log_level(LogLevel l) | IMP::Object | |
| set_name(std::string name) (defined in IMP::Object) | IMP::Object | |
| set_phi(const atom::Residue r, double angle) (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| set_psi(const atom::Residue r, double angle) (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | |
| set_was_used(bool tf) const | IMP::Object | |
| show(std::ostream &out=std::cout) const (defined in IMP::Object) | IMP::Object | |
| ~Object() (defined in IMP::Object) | IMP::Object | virtual |
| ~ProteinKinematics() (defined in IMP::kinematics::ProteinKinematics) | IMP::kinematics::ProteinKinematics | virtual |