I am wondering what the popular or best way to organise your build assets and source code within a project is?
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For me it depends on the project size. For small projects, I find that a project directory with a single Makefile, /src and /include directory works well.
For .NET projects check ProjectScaffold and discussion under this gist.
Personaly I use
It works fine for us but I don't think it's the best. If it's about .net you can also take a look at treesurgeon They describe it themselves as:
In general:
As I am working only on Java projects, and all of them are "Mavenized", I use the conventions defined by Maven for the project structure.
Basically:
I like the way the Netbeans IDE organizes projects. Just start a new project, and it will set-up a default development tree and an ant script.