If you stumbled on this via Google, I hope you found it useful in your specific use case.
While using intelFPGA (Quartus) Lite v16.1 on my Ubuntu Linux 16.x system, I was seeing this shared library-related error …
Inconsistency detected by ld.so: dl-close.c: 811: _dl_close: Assertion `map->l_init_called' failed!
The problem turned out to be some kind of incompatibility with libboost_system.so. Quartus supplies and indeed requires v1.59.0, while my system has v1.58.0 installed, being the latest pkg manager version at the time.
It turns out that the Quartus command-line tools refer to plain libboost_system.so file, which is in fact a sym-link to libboost_system.so.1.59.0. Meanwhile, the GUI tools explicitly require the latter. Hmmm.
Damn the torpedos! FULL STEAM AHEAD!
The easiest fix I could see in my busy little day was to simply remove the symlink, such that the Quartus command-line tools would use the system lib (found by ld-linux.so, in the normal fashion) …
~$ cd ~/intelFPGA_lite/16.1/quartus/linux64/
~/intelFPGA_lite/16.1/quartus/linux64/$ rm -f libboost_system.so
cd ~/intelFPGA_lite/16.1/quartus/linux64/ rm -f libboost_system.so
… and that actually did the trick, for once! Astonishing! 🙂
#YMMV