Integrating Ralf's rebase into setup.exe

[Charles Wilson]

I needed to make the following changes before this would compile. 
Mostly namespace errors, but also a typo and main() void vs. int.

I figured the library files should explicitly call std::cout & friends, 
but the executables could go ahead and say 'using namespace std;'.

Oh, a few other niggles: why does Makefile have DOS line-endings, but 
all the other files have UNIX line-endings?  README needs a brief note 
about this 0.6 version.  And shouldn't there be a ChangeLog?

--Chuck
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