In this presentation I give a brief overview of C# and introduce plugin development for the SBW Simulation Tool.

1. Simulation Tool Plug-in Development Frank T. Bergmann Bloomington, 2010

2. C# Intro

3. C# Managed Language Designed by: Microsoft, appeared in 2001 Influenced by: Java, C++, Object Pascal

4. .NET Framework

5. Hello World using System; class Hello { static void Main() { Console.WriteLine ("Hello world"); } }

6. Program Structure Namespaces Contain types and other namespaces Type declarations Classes, structs, interfaces, enums, and delegates Members Constants, fields, methods, properties, indexers, events, operators, constructors, destructors Organization No header files, code written “in-line” No declaration order dependence

7. Type System Value types Primitives int i; EnumsenumState { Off, On } StructsstructPoint { int x, y; } Reference types Classes class Foo: Bar, IFoo {...} Interfaces interface IFoo: IBar {...} Arrays string[] a = new string[10]; Delegates delegate void Empty();

8. Classes Single inheritance Multiple interface implementation Class members Constants, fields, methods, properties, indexers, events, operators, constructors, destructors Static and instance members Nested types Member access public, protected, internal, private

9. Properties public class Button: Control { private string caption; public string Caption { get { return caption; } set { caption = value; Repaint(); } } } Button b = new Button(); b.Caption = "OK"; String s = b.Caption;

10. Events (sourcing) public class Button{ public event EventHandler Click; protected void OnClick(EventArgs e) { if (Click != null) Click(this, e); } }

11. Events (handling) public class MyForm: Form { Button okButton; public MyForm() { okButton = new Button(...); okButton.Caption = "OK"; okButton.Click += new EventHandler(OkButtonClick); } void OkButtonClick(object sender, EventArgs e) { ShowMessage("You pressed the OK button"); } }

12. More Information Wikibooks: http://en.wikibooks.org/wiki/C_Sharp_Programming

13. Overview SIMULATION TOOL API

15. Setting UP VISUAL STUDIO

16. The Template http://sourceforge.net/projects/sbwsimtool/files/visual-studio-templates/v1

17. Save in My Documents The template needs to be saved in: %USERPROFILE%y Documentsisual Studio 2010emplatesrojectTemplatesisual C# Or %USERPROFILE%y Documentsisual Studio 2008emplatesrojectTemplatesisual C#

18. Open Visual Studio

19. Projectimula… Properties

20. Projectimula… Properties

21. Visual Studio Express <?xml version="1.0" encoding="utf-8"?> <Project ToolsVersion="4.0" xmlns="http://schemas.microsoft.com/developer/msbuild/2003"> <PropertyGroup Condition="'$(Configuration)|$(Platform)' == 'Debug|AnyCPU'"> <StartAction>Program</StartAction> <StartProgram>C:rogram Files (x86)GIBWoadrunnerimDriverNET.exe</StartProgram> <StartWorkingDirectory>C:rogram Files (x86)GIBWoadrunner</StartWorkingDirectory> </PropertyGroup> </Project>

22. Debugun

23. Debugun

24. C O D E

25. RECAP

26. Hello World

27. SBML Viewer

28. Jarnac Editor

29. Access to the BioModels Database

30. Basic Stochastic Simulation

31. Source / Binaries The Visual Studio Projects + source code & binaries are available from: http://sourceforge.net/projects/sbwsimtool/files/tutorials/bloomington2010

32. Acknowledgements Funded through the generous support of ERATO, DARPA (contract number MIPR 03-M296-01) and the DOE (under Grand No. DE-FG02-04ER63804, “Computational Resources for GTL”).