Update on deprecated functions

HOW_TO_START_TTOOL

Makefile

modeling/DIPLODOCUS/SmartCardProtocol.xml

src/main/java/dseengine/DSESimulationResult.java

src/main/java/myutil/BoolExpressionEvaluator.java

src/main/java/myutil/GraphAlgorithms.java

src/main/java/tmltranslator/tonetwork/TranslatedRouter.java

src/main/java/ui/AttackTreePanelTranslator.java

src/main/java/ui/AvatarRequirementPanelTranslator.java

src/main/java/ui/FaultTreePanelTranslator.java

src/main/java/ui/FormatManager.java

...nteractivesimulation/AvatarSimulationStatisticsPanel.java

...ain/java/ui/interactivesimulation/LargeHTMLEditorKit.java

src/main/java/ui/interactivesimulation/MemTableModel.java

src/main/java/ui/window/JFrameDataElementStatistics.java

.../src/test/java/ui/TDiagramPanelCloneArchitectureTest.java