The compilation of the svn version (FreeCAD 0.9, Libs: 0.9R2237) run without any problem using cmake.
FreeCAD: ../../src/xcb_io.c:542: _XRead: Assertion `dpy->xcb->reply_data != ((void *)0)' failed.
Could you try to build with automake?
The cMake support for Linux is not very stable so far.
I tried right now but the problem remains. I have joint the configure output.