EMAN2 has lots of dependent libraries. To compile EMAN2 from source, you need install a development package for these external dependent packages. Depends on your Linux distribution, you can either install them by yum(Fedora, CentOS, RedHat), urpmi(Mandriva), yast(SuSE), synaptic/apt-get(Ubuntu). Or compile them form source code.
We collect all these dependent packages under this link. These may not be the current versions of EMAN2 dependent libraries, but they are versions we have tried to compile from source and proved works fine for EMAN2.