, including all inherited members.
| AddBackboneModel() | VIEW::AddBackboneModel | |
| AddBackboneModel(const AddBackboneModel &add_Backbone_model) | VIEW::AddBackboneModel | |
| AddCartoonModel() | VIEW::AddCartoonModel | |
| AddCartoonModel(const AddCartoonModel &cartoon_model) | VIEW::AddCartoonModel | |
| argument_pointer typedef (defined in UnaryFunctor< Composite, Processor::Result >) | UnaryFunctor< Composite, Processor::Result > | |
| argument_reference typedef (defined in UnaryFunctor< Composite, Processor::Result >) | UnaryFunctor< Composite, Processor::Result > | |
| argument_type typedef (defined in UnaryFunctor< Composite, Processor::Result >) | UnaryFunctor< Composite, Processor::Result > | |
| arrow_width_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| assignModelType(ModelPart &part) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected, virtual] |
| assignNucleotideAtoms_(Residue &r, Size nr_atoms, String atom_names[10], Atom *atoms[10]) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| backbone_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| calculateComplementaryBases_(const Composite &composite) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| calculateGuidePoints_() (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected, virtual] |
| calculateModelParts(Protein &protein) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected, virtual] |
| calculateRibbonEllipse_(float ribbon_width, float ribbon_height) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| calculateRibbonPoints_(Vector3 xn, Vector3 dir, vector< Vector3 > &points) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| calculateTubePoints_(Vector3 right, Vector3 dir, vector< Vector3 > &points) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| care_for_SS_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| clear() | VIEW::AddBackboneModel | [virtual] |
| clear_() (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected, virtual] |
| clearComposites() | VIEW::ModelProcessor | [virtual] |
| clearProperty(Property property) | PropertyManager | |
| clearProperty(const string &name) | PropertyManager | |
| collectPositions(vector< Residue * > residues) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected, virtual] |
| complementary_bases_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| const_argument_pointer typedef (defined in UnaryFunctor< Composite, Processor::Result >) | UnaryFunctor< Composite, Processor::Result > | |
| const_argument_reference typedef (defined in UnaryFunctor< Composite, Processor::Result >) | UnaryFunctor< Composite, Processor::Result > | |
| countNamedProperties() const | PropertyManager | |
| countProperties() const | PropertyManager | |
| create6Ring_(vector< Vector3 > positions) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| createDoubleRing_(const vector< Vector3 > &positions) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| createGeometricObjects() | VIEW::AddBackboneModel | [virtual] |
| createHelix_(Position set_first, Position part_pos) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| createModel_(Position set_pos, Position part_pos) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected, virtual] |
| createRibbon_(Position set_pos, Position model_pos) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected, virtual] |
| createSimpleNucleicAcid_(Position set_pos, Position part_pos) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| createStrand_(Position set_pos, Position part_pos) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| createTube_(Position set_pos, Position model_pos) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected, virtual] |
| createTubeHelix_(Position set_first, Position part_pos) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| createWatsonCrickModel_(Position set_pos, Position part_pos) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| destroy() | PropertyManager | [virtual] |
| DNA_base_radius_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| DNA_helix_radius_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| DNA_ladder_radius_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| draw_DNA_as_ladder_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| draw_ribbon_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| drawDNAAsLadderModel() (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| drawing_precision_ (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | [protected] |
| drawRiboseAtoms_(const Atom *atom1, const Atom *atom2, const Vector3 &v1, const Vector3 &v2) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| drawStrand_(const Vector3 &start, Vector3 &right, Vector3 &hn, float arrow_width, Position &last_vertices, Mesh &mesh) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| dummy_chain_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| dummy_protein_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| dummy_ss_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| dump(std::ostream &s=std::cout, Size depth=0) const | VIEW::AddBackboneModel | [virtual] |
| enableRibbons(bool state) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| evaluateBSpline(const Vector3 &v1, const Vector3 &v2, const Vector3 &v3, float x, Vector3 &result) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| finish() | UnaryProcessor< Composite > | [virtual] |
| geometric_objects_ (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | [protected] |
| get(PropertyManager &property_manager) const | PropertyManager | |
| getArrowWidth() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| getBitVector() | PropertyManager | |
| getBitVector() const | PropertyManager | |
| getDNABaseRadius() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| getDNAHelixRadius() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| getDNALadderRadius() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| getDrawingPrecision() const (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | |
| getGeometricObjects() | VIEW::ModelProcessor | |
| getGeometricObjects() const | VIEW::ModelProcessor | |
| getHelixRadius() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| getNamedProperty(Position index) const | PropertyManager | |
| getNamedProperty(Position index) | PropertyManager | |
| getProperty(const string &name) const | PropertyManager | |
| getStrandHeight() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| getStrandWidth() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| getSurfaceDrawingPrecision() const (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | |
| getTubeRadius() const (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | |
| guide_points_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| hasProperty(Property property) const | PropertyManager | |
| hasProperty(const string &name) const | PropertyManager | |
| HELIX enum value (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| helix_height_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| helix_radius_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| helix_width_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| insertTriangle_(Position v1, Position v2, Position v3, Mesh &mesh) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| interpolate_() (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected, virtual] |
| interpolated_points_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| interpolation_steps_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| isValid() const | VIEW::ModelProcessor | [virtual] |
| last_protein_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| middle_ribbon_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| middle_slide_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| model_parts_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| ModelProcessor() (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | |
| ModelProcessor(const ModelProcessor &model_processor) (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | |
| ModelTypes enum name (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| NUCLEIC_ACID enum value (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| number_of_ribbons_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| offsets_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| operator BitVector &() | PropertyManager | |
| operator!=(const PropertyManager &pm) const | PropertyManager | |
| operator()(Composite &composite) | VIEW::AddBackboneModel | [virtual] |
| operator=(const PropertyManager &property_manager) | PropertyManager | |
| operator==(const PropertyManager &pm) const | PropertyManager | |
| PropertyManager() | PropertyManager | |
| PropertyManager(const PropertyManager &property_manager) | PropertyManager | |
| read(PersistenceManager &pm) | PropertyManager | |
| refineGuidePoints_() (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected, virtual] |
| refineModelParts_() (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected, virtual] |
| renderNucleotideOutline_(const vector< Vector3 > &positions, Vector3 uv, Mesh &mesh) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| residues_to_be_rendered_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| residuesAreConnected_(Residue &residue1, Residue &residue2) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| result_type typedef (defined in UnaryFunctor< Composite, Processor::Result >) | UnaryFunctor< Composite, Processor::Result > | |
| RIBBON enum value (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| ribbon_height_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| ribbon_mode_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| ribbon_radius_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| ribbon_width_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| ribbonModeEnabled() const (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | |
| ribbonsEnabled() const (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| set(const PropertyManager &property_manager) | PropertyManager | |
| setArrowWidth(float width) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setDNABaseRadius(float r) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setDNAHelixRadius(float r) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setDNALadderRadius(float r) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setDrawDNAAsLadderModel(bool state) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setDrawingPrecision(Index precision) (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | |
| setHelixRadius(float radius) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setProperty(Property property) | PropertyManager | |
| setProperty(const NamedProperty &property) | PropertyManager | |
| setProperty(const string &name) | PropertyManager | |
| setProperty(const string &name, bool value) | PropertyManager | |
| setProperty(const string &name, int value) | PropertyManager | |
| setProperty(const string &name, unsigned int value) | PropertyManager | |
| setProperty(const string &name, float value) | PropertyManager | |
| setProperty(const string &name, double value) | PropertyManager | |
| setProperty(const string &name, const string &value) | PropertyManager | |
| setProperty(const string &name, const PersistentObject &value) | PropertyManager | |
| setRibbonMode(bool state) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | |
| setStrandHeight(float heigth) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setStrandWidth(float w) (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| setSurfaceDrawingPrecision(float precision) (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | |
| setTubeRadius(float radius) (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | |
| slides_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| slides_angle_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| ss_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| start() | VIEW::AddBackboneModel | [virtual] |
| STRAND enum value (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| strand_height_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| strand_width_ (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | [protected] |
| surface_drawing_precision_ (defined in VIEW::ModelProcessor) | VIEW::ModelProcessor | [protected] |
| swap(PropertyManager &property_manager) | PropertyManager | |
| temp_matrix_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| toggleProperty(Property property) | PropertyManager | |
| TUBE enum value (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| tube_radius_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| Types enum name (defined in VIEW::AddCartoonModel) | VIEW::AddCartoonModel | |
| UnaryProcessor() | UnaryProcessor< Composite > | |
| UnaryProcessor(const UnaryProcessor &) | UnaryProcessor< Composite > | |
| write(PersistenceManager &pm) const | PropertyManager | |
| xs_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| ys_ (defined in VIEW::AddBackboneModel) | VIEW::AddBackboneModel | [protected] |
| ~AddBackboneModel() | VIEW::AddBackboneModel | [virtual] |
| ~AddCartoonModel() | VIEW::AddCartoonModel | [virtual] |
| ~ModelProcessor() | VIEW::ModelProcessor | [virtual] |
| ~PropertyManager() | PropertyManager | [virtual] |
| ~UnaryProcessor() | UnaryProcessor< Composite > | [virtual] |