Alex Lin d491c86b84 Standardize directory names ...

Some linux specific include files got into our dependency files.

refs #63

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..

docs

Standardize directory names

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input_processor_ext.cpp

Standardize directory names

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InputProcessor.cpp

Standardize directory names

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IPPython.cpp

Standardize directory names

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IPPythonEvent.cpp

Standardize directory names

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Makefile

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Makefile_deps

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MTV_c_intf.cpp

Standardize directory names

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MTV.cpp

Standardize directory names

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