| add(ReactionPathDiagram &d) (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| addNode(size_t k, const std::string &nm, doublereal x=0.0) (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| arrow_hue (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| arrow_width (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| bold_color (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| bold_min (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| dashed_color (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| dashed_max (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| displayOnly(size_t k=npos) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| dot_options (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| element (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| exclude(const std::string &aaname) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| exclude(std::vector< std::string > &names) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| excluded() (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| exportToDot(std::ostream &s) | ReactionPathDiagram | |
| findMajorPaths(doublereal threshold, size_t lda, doublereal *a) (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| flow(size_t k1, size_t k2) | ReactionPathDiagram | inline |
| flow_type (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| hasNode(size_t k) | ReactionPathDiagram | inline |
| include(const std::string &aaname) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| include(std::vector< std::string > &names) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| included() (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| label_min (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| linkNodes(size_t k1, size_t k2, size_t rxn, doublereal value, std::string legend="") (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| m_exclude (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_flxmax (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_font (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| m_include (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_local (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_nodes (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_pathlist (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_paths (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_rxns (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| m_speciesNumber (defined in ReactionPathDiagram) | ReactionPathDiagram | protected |
| maxFlow() | ReactionPathDiagram | inline |
| name (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| netFlow(size_t k1, size_t k2) | ReactionPathDiagram | inline |
| nNodes() (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| node(size_t k) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| normal_color (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| nPaths() (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| path(size_t k1, size_t k2) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| path(size_t n) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| ReactionPathDiagram() (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| reactions() (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| scale (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| setFont(const std::string &font) (defined in ReactionPathDiagram) | ReactionPathDiagram | inline |
| show_details (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| species() (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| threshold (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| title (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| writeData(std::ostream &s) (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| x_size (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| y_size (defined in ReactionPathDiagram) | ReactionPathDiagram | |
| ~ReactionPathDiagram() | ReactionPathDiagram | virtual |
