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