Some of the mex files use parallel programming using [http://openmp.org/wp/ OpenMp]:

• sparse_hessian_times_B_kronecker_C
• simulate

Under linux some environment variables have to be defined to get the thing working because there is an incompatibility issue between the multithread library distributed with matlab (libguide.so) and the open source multithread library used by the gnu compiler (libgomp.so). The simplest workaround is to add the folowwing lines in your .bashrc file:

export LD_PRELOAD=$LD_PRELOAD:/lib/libgcc_s.so.1
export LD_PRELOAD=$LD_PRELOAD:/usr/lib/libstdc++.so.6
export LD_PRELOAD=$LD_PRELOAD:/usr/lib/libgomp.so.1

The first two lines are necessary even without parallel programming.

There is also an incompatibility issue between matlab's version of MKL (blas and lapack) and the gnu multithread library. So we cannot mix parallel programming and calls to blas or lapack (of course we may decide to use a basic version of blas or lapack routines, ie without multithreading). If my understanding is correct this problem is related of the version of MKL shipped with matlab.