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Rosetta
2021.16
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Rosetta
2021.16
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This is the complete list of members for protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber, including all inherited members.
| add_atom_set(utility::vector1< core::id::NamedAtomID > const &atomset) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| add_inputvalue(core::Real const &inputvalue) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| add_residue(core::Size const residue_index) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| apply(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< core::Real > &torsions, utility::vector1< core::Real > &bondangles, utility::vector1< core::Real > &bondlengths) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| apply_copy_backbone_dihedrals(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< core::Real > &torsions, bool const mirror) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_perturb_backbone_by_bins(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< core::Real > &torsions) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_perturb_dihedral_bbg(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< core::Real > &torsions) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_randomize_alpha_backbone_by_rama(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< core::Real > &torsions) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_randomize_backbone_by_bins(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< core::Real > &torsions) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_randomize_backbone_by_rama_prepro(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< core::Real > &torsions) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_sample_cis_peptide_bond(core::pose::Pose const &loop_pose, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< core::Real > &torsions) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_set_backbone_bin(core::pose::Pose const &original_pose, core::pose::Pose const &loop_pose, utility::vector1< core::Size > const &residues, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< std::pair< core::Size, core::Size > > const &tail_residue_map, utility::vector1< core::Real > &torsions) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_set_bondangle(utility::vector1< utility::vector1< core::id::AtomID > > const &bondanglelist, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< core::Real > const &inputvalues_real, utility::vector1< core::Real > &bondangles, GenKICPerturberEffect const effect) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_set_bondlength(utility::vector1< utility::vector1< core::id::AtomID > > const &bondlengthlist, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< core::Real > const &inputvalues_real, utility::vector1< core::Real > &bondlengths, GenKICPerturberEffect const effect) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| apply_set_dihedral(utility::vector1< utility::vector1< core::id::AtomID > > const &dihedrallist, utility::vector1< std::pair< core::id::AtomID, numeric::xyzVector< core::Real > > > const &atomlist, utility::vector1< core::Real > const &inputvalues_real, utility::vector1< core::Real > &torsions, GenKICPerturberEffect const effect) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| atoms_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| attach_boinc_ghost_observer() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| attach_boinc_ghost_observer_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| bbgmover_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| bin() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| bin_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| bin_transition_calculator_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| clear_residues() | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| clone() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| custom_rama_table() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| custom_rama_table_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| define_valid_perturber_name_enumeration(utility::tag::XMLSchemaDefinition &xsd) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | static |
| effect_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| GeneralizedKICperturber() | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| GeneralizedKICperturber(GeneralizedKICperturber const &src) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| get_loop_index(core::Size const original_pose_index, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, bool const fail_if_not_found=true) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| get_name() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| get_perturber_effect() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| get_perturber_effect_from_name(std::string const &name) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | static |
| get_perturber_effect_name(core::Size &effect) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | static |
| init_bbgmover(core::pose::Pose const &loop_pose, utility::vector1< std::pair< core::Size, core::Size > > const &residue_map) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| inputvalues_real_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| is_in_list(core::Size const val, utility::vector1< core::Size > const &vect) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| iterations() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| iterations_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| load_bin_params(std::string const &bin_params_file) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| must_switch_bins() const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| must_switch_bins_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| reindex_AtomIDs(utility::vector1< std::pair< core::Size, core::Size > > const &residue_map, utility::vector1< utility::vector1< core::id::AtomID > > &AtomIDs_reindexed, core::pose::Pose const &original_pose) const | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| residues_ | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | private |
| set_attach_boinc_ghost_observer(bool const setting) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| set_bin(std::string const &bin) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| set_custom_rama_table(core::scoring::Rama_Table_Type const type) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| set_custom_rama_table(std::string const &name) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| set_iterations(core::Size const val) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| set_must_switch_bins(bool const val) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | inline |
| set_perturber_effect(perturber_effect const &effect) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| set_perturber_effect(std::string const &effectname) | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber | |
| ~GeneralizedKICperturber() override | protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber |
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