error: Do not recognize Prototype.js library, or any othr .js file

[eluser]Unknown[/eluser]
Im doing an Ajax app, and Im using the Prototype library (in JavaScript) to comunicate with the server. When I include this library in my PHP pages, which are in the View folder of the framework(Codeigniter), I get a message saying that the functions in that library are not recognized, and the same happens with my custom .js libraries.
My question is, What changes do I have to do to the framework to fix this error?
Im adding my libraries in the same folder my pages are (the View folder, inside Application folder).


Plz someone cast some light on this subject. Thx.