| ApplyAction(SequenceAlignmentState &s, SequenceAlignmentAction a) const | SequenceAlignment | virtual |
| bValidSearchGoal | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | protected |
| ClearGoal() | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| color | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | mutableprotected |
| d | SequenceAlignment | private |
| Draw(Graphics::Display &display) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| Draw(Graphics::Display &display, const SequenceAlignmentState &) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| DrawLine(Graphics::Display &display, const SequenceAlignmentState &x, const SequenceAlignmentState &y, float width=1.0) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GCost(const SequenceAlignmentState &node1, const SequenceAlignmentState &node2) const | SequenceAlignment | virtual |
| GCost(const SequenceAlignmentState &node, const SequenceAlignmentAction &act) const | SequenceAlignment | virtual |
| GetAction(const SequenceAlignmentState &s1, const SequenceAlignmentState &s2) const | SequenceAlignment | virtual |
| GetActionHash(SequenceAlignmentAction act) const | SequenceAlignment | virtual |
| GetActions(const SequenceAlignmentState &nodeID, std::vector< SequenceAlignmentAction > &actions) const | SequenceAlignment | virtual |
| GetColor(GLfloat &rr, GLfloat &g, GLfloat &b, GLfloat &t) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GetColor() const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GetMaxHash() const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GetNextState(const SequenceAlignmentState &, SequenceAlignmentAction, SequenceAlignmentState &) const | SequenceAlignment | virtual |
| GetNumSuccessors(const SequenceAlignmentState &stateID) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GetOccupancyInfo() | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GetPathLength(std::vector< SequenceAlignmentState > &neighbors) | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | virtual |
| GetPathLength(const SequenceAlignmentState &start, std::vector< SequenceAlignmentAction > &neighbors) | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | virtual |
| GetStateFromHash(uint64_t parent, SequenceAlignmentState &s) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GetStateHash(const SequenceAlignmentState &node) const | SequenceAlignment | virtual |
| GetSuccessors(const SequenceAlignmentState &nodeID, std::vector< SequenceAlignmentState > &neighbors) const | SequenceAlignment | virtual |
| GLDrawLine(const SequenceAlignmentState &x, const SequenceAlignmentState &y) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GLDrawPath(const std::vector< SequenceAlignmentState > &x) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | virtual |
| GLLabelState(const SequenceAlignmentState &, const char *) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| GoalTest(const SequenceAlignmentState &node, const SequenceAlignmentState &goal) const | SequenceAlignment | virtual |
| GoalTest(const SequenceAlignmentState &node) const | SequenceAlignment | inlinevirtual |
| HCost(const SequenceAlignmentState &node1, const SequenceAlignmentState &node2) const | SequenceAlignment | virtual |
| HCost(const SequenceAlignmentState &node) const | SequenceAlignment | inlinevirtual |
| SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction >::HCost(const SequenceAlignmentState &node1, const SequenceAlignmentState &node2, double parentHCost) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| Heuristic() | Heuristic< SequenceAlignmentState > | inline |
| heuristics | Heuristic< SequenceAlignmentState > | |
| histogram | Heuristic< SequenceAlignmentState > | mutable |
| InvertAction(SequenceAlignmentAction &a) const | SequenceAlignment | virtual |
| IsGoalStored() const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| lookups | Heuristic< SequenceAlignmentState > | |
| OpenGLDraw() const | SequenceAlignment | inlinevirtual |
| OpenGLDraw(const SequenceAlignmentState &) const | SequenceAlignment | inlinevirtual |
| OpenGLDraw(const SequenceAlignmentState &, const SequenceAlignmentState &, float) const | SequenceAlignment | inlinevirtual |
| OpenGLDraw(const SequenceAlignmentState &, const SequenceAlignmentAction &) const | SequenceAlignment | inlinevirtual |
| SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction >::OpenGLDraw() const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| searchGoal | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | protected |
| SequenceAlignment(int length) | SequenceAlignment | inline |
| SetColor(const rgbColor &r) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| SetColor(GLfloat rr, GLfloat g, GLfloat b, GLfloat t=1.0) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| SetOccupancyInfo(OccupancyInterface< SequenceAlignmentState, SequenceAlignmentAction > *) | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| StoreGoal(SequenceAlignmentState &s) | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| transparency | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | mutableprotected |
| UndoAction(SequenceAlignmentState &s, SequenceAlignmentAction a) const | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
| ~Heuristic() | Heuristic< SequenceAlignmentState > | inlinevirtual |
| ~SearchEnvironment() | SearchEnvironment< SequenceAlignmentState, SequenceAlignmentAction > | inlinevirtual |
