Firedrake import error

[edg-13]

Hi,

I have installed installed firedrake successfully but I get an error when importing in a jupyter environment. The virtual environment was activated.

The logs are here:
make.log
configure.log
firedrake-install.log

Would appreciate any help!

[connorjward]

It looks like your mpi4py installation is linking to the wrong MPI. Please can you share the output of the command

ldd $VIRTUAL_ENV/lib/python*/site-packages/mpi4py/MPI*.so

I'm also assuming that you get the same error just with the command python -c "from firedrake import *". This should not be specific to Jupyter notebooks.

@JDBetteridge FYI

[JDBetteridge]

I do mean inside the virtual environment. Has ldd $VIRTUAL_ENV/lib/python*/site-packages/mpi4py/MPI*.so changed at all?

[JDBetteridge]

Oh, I think I missed the lib of the end of some of those paths. It should read:

env LDFLAGS="-Wl,-rpath,$VIRTUAL_ENV/src/petsc/default/lib -L$VIRTUAL_ENV/src/petsc/default/lib" MPICC=$VIRTUAL_ENV/src/petsc/default/bin/mpicc MPICXX=$VIRTUAL_ENV/src/petsc/default/bin/mpicxx MPIF90=$VIRTUAL_ENV/src/petsc/default/bin/mpif90 pip install --no-binary mpi4py mpi4py

I'm on a system with my own PETSc, so can't test this first hand.

[edg-13]

Still no luck:

[JDBetteridge]

Maybe try with no-cache? It might be using a cached wheel stored on your system:

env LDFLAGS="-Wl,-rpath,$VIRTUAL_ENV/src/petsc/default/lib -L$VIRTUAL_ENV/src/petsc/default/lib" MPICC=$VIRTUAL_ENV/src/petsc/default/bin/mpicc MPICXX=$VIRTUAL_ENV/src/petsc/default/bin/mpicxx MPIF90=$VIRTUAL_ENV/src/petsc/default/bin/mpif90 pip install --no-cache-dir --no-binary mpi4py mpi4py

[edg-13]

Yep that was it! Thanks for the help