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Note the video below shows operation of an older MikroC version, however the basic principles, that it details, remain exactly the same - updating to the newer compiler version would be a cosmetic change only.
The main difference between the old and new version is that the new version generates loads of (useless?) files in the project directory. The fundamental fact is that you still only really need .c .h files and the project file because that is what creates a C program - all the rest is support data for the compiler.
Note: The new project file description has changed from .ppc to .mcppi - this is really to allow the new compiler to identify old projects and import them into its new format.
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Which pic programmer do you need? This page discusses PIC programmers and gives some essential information on choosing or building your own programmer.