autoconf & cvs problem

[l s]

Hi there,
I have one problem using autoconf with cvs. I use configure script to create 
makefiles for my sources and I run make then. Everything works fine.
If I import my sources into cvs and I perform check out and repeat "configure 
make" sequence, a problem apperars. configure finishes with no problem, but 
when I run make, no compilation is started but following runs:
project_dir/admin/missing --run aclocal-1.7

In both cases the source are the same! (I have compared all files) but 
configure script creates different Makefile in the respective cases. What is 
wrong? How can I correct it?
Thanks in advance.
sc.
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