| addToCentralPane(JComponent comp) | denoptim.gui.GUIModalDialog |  | 
  | addToNorthPane(JComponent comp) | denoptim.gui.GUIModalDialog |  | 
  | appendToCentralPanel(JComponent panel) | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | btnCanc | denoptim.gui.GUIModalDialog | protected | 
  | btnDone | denoptim.gui.GUIModalDialog | protected | 
  | btnExtra | denoptim.gui.GUIModalDialog | protected | 
  | buildCustomRulesTable(List< CuttingRule > customCuttingRules, String[] emptyRow) | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | centralPanel | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | chosenOnes | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | close() | denoptim.gui.GUIModalDialog | protected | 
  | cmbScaffoldingPolicy | denoptim.gui.MolToGraphParametersDialog | private | 
  | cmbTemplateContract | denoptim.gui.MolToGraphParametersDialog | private | 
  | customRulesTabModel | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | CuttingRulesSelectionDialog(List< CuttingRule > defaultCuttingRules, List< CuttingRule > customCuttingRules, boolean preselectDefault, Component refForPlacement, FragmenterParameters settings) | denoptim.gui.CuttingRulesSelectionDialog |  | 
  | defaultRulesTabModel | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | escapeCharactersForSMARTSViewer(String smarts) | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | frgParams | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | getEmbeddedRingsContract() | denoptim.gui.MolToGraphParametersDialog |  | 
  | getEmbedRingsInTemplate() | denoptim.gui.MolToGraphParametersDialog |  | 
  | getScaffoldingPolicy() | denoptim.gui.MolToGraphParametersDialog |  | 
  | getTmpFileForCuttingRules() | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | GUIModalDialog(Component refForPlacement) | denoptim.gui.GUIModalDialog |  | 
  | GUIModalDialog(Component refForPlacement, boolean useExtraButton) | denoptim.gui.GUIModalDialog |  | 
  | initialize(boolean useExtraButton) | denoptim.gui.GUIModalDialog | private | 
  | lastUsedCutRulFile | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | lblScaffoldingPolicy | denoptim.gui.MolToGraphParametersDialog | private | 
  | lblTemplateContract | denoptim.gui.MolToGraphParametersDialog | private | 
  | lineEmbTmpl | denoptim.gui.MolToGraphParametersDialog | private | 
  | lineScaffoldingPolicy | denoptim.gui.MolToGraphParametersDialog | private | 
  | lineTemplateContract | denoptim.gui.MolToGraphParametersDialog | private | 
  | MolToGraphParametersDialog(List< CuttingRule > defaultCuttingRules, List< CuttingRule > customCuttingRules, boolean preselectDefault, Component refForPlacement, FragmenterParameters settings) | denoptim.gui.MolToGraphParametersDialog |  | 
  | nextWrittenCutRulFile | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | pnlControls | denoptim.gui.GUIModalDialog | private | 
  | preferredHeight | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | rdbEmbTmpl | denoptim.gui.MolToGraphParametersDialog | private | 
  | rdbUseCustom | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | rdbUseDefault | denoptim.gui.CuttingRulesSelectionDialog | private | 
  | result | denoptim.gui.GUIModalDialog | protected | 
  | saveResults() | denoptim.gui.MolToGraphParametersDialog | protected | 
  | serialVersionUID | denoptim.gui.MolToGraphParametersDialog | privatestatic | 
  | showDialog() | denoptim.gui.GUIModalDialog |  | 
  | strFieldSize | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | txtLinearity | denoptim.gui.CuttingRulesSelectionDialog | protected | 
  | txtScaffoldingPolicy | denoptim.gui.MolToGraphParametersDialog | private |