The C++ Reactor class doesn't own a reference to the Func object. To make
borrowing the reference safe, the Python Reactor class now owns a reference,
which is guaranteed to be valid for the lifetime of the C++ Reactor object.
Added libstringstream, which maps stdin and stdout to std::iostream.
Using this library means we no longer create either the temporary .py
file or the ct2ctml.log file.
This also eliminates the synchronization problems that motivated the
sleep commands around the system call, so cti to ctml conversions are
significantly faster now.
These changes make it unnecessary to copy header files around during
the build process, which tends to confuse IDEs and debuggers. The
headers which comprise Cantera's external C++ interface are now in
the 'include' directory.
All of the samples and demos are now in the 'samples' subdirectory.
