functions, the best way to implement and arrange them..

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It might be a simple question for the local die-hards among here, but i'm
really wondering about how
developers arrange their scripts and keep their map structures.

today i was looking for the best way to keep my scripts clear and to put
them into maps so i have a clear overview.
the same thing i would do for the scripts, using the functions i have and
throwing them in 1 or more php documents.

i can not find it how it should be done. is it a good idea to put a couple
of functions in just 1 document?
like sessions and login/logout functions?

in my idea i would only need to include a document in the header of my
website and then i'm done, right?

some thoughts, ideas and tips would be appreciated.

kind regards

taco

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