beginner question

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Intro:
I have to port lots of projects to some environment
with own crosstools and even linker rools.
Till today i did it with manualy created makefiles.

1.
Now if i want to port somebodies project where autoconf
and automake used, where should i interfere.
configure.ac
configure.in
Makefile.in

2.
The additional problem that i need AR and ARFLAGS, which
can't find in autoconf docs.


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