Are you building a C/C++ project that should run on BSD, Gnu/Linux and other platforms? Then maybe use autotools. All distro tooling will easily be able to handle it.
Are you just building some small project that will never make it into a distro, maybe just use something simpler. Or even just a plain makefile.
I ran an XMPP network based on prosody and used snikket on android. Can recommend!