OK, great.


A quick google of the import error suggests this could be either a cython issue or a python version issue.


I wonder if it would be better to start from the errors that the usual firedrake install log gives?


[I'm at the end of my expertise on such matters now, by the way! What do others think?]


Jemma

From: firedrake-bounces@imperial.ac.uk <firedrake-bounces@imperial.ac.uk> on behalf of Burns, Paul <P.Burns2@exeter.ac.uk>
Sent: 26 October 2017 17:55:20
To: firedrake
Subject: Re: [firedrake] Firedrake installation on cluster
 

By passing the flag '--install gusto' to the installer...


P

From: firedrake-bounces@imperial.ac.uk <firedrake-bounces@imperial.ac.uk> on behalf of Shipton, Jemma <j.shipton@imperial.ac.uk>
Sent: 26 October 2017 15:14:50
To: firedrake
Subject: Re: [firedrake] Firedrake installation on cluster
 

Hi Paul,


How did you install Gusto?


Jemma

From: firedrake-bounces@imperial.ac.uk <firedrake-bounces@imperial.ac.uk> on behalf of Burns, Paul <P.Burns2@exeter.ac.uk>
Sent: 26 October 2017 15:10:14
To: firedrake
Subject: [firedrake] Firedrake installation on cluster
 
Dear Sir/Madam,

I am trying to get Firedrake up and running on the Isca cluster at Exeter.  The standard install method (i.e., executing 'python3 firedrake-install') does not work, however, we have managed to install Firedrake by developing an install script that loads modules manually, that sets a number of petsc options, and that passes a number of extra options to firedrake-install.

However, when I try and run a simulation on Gusto I get the following error: 

Traceback (most recent call last):
  File "./examples/boussinesq_2d_lab.py", line 1, in <module>
    from gusto import *
  File "/gpfs/ts0/home/pb412/firedrake-20171026/src/gusto/gusto/__init__.py", line 11, in <module>
    from gusto.state import *           # noqa
  File "/gpfs/ts0/home/pb412/firedrake-20171026/src/gusto/gusto/state.py", line 3, in <module>
    from netCDF4 import Dataset
  File "/gpfs/ts0/home/pb412/firedrake-20171026/lib/python3.5/site-packages/netCDF4/__init__.py", line 3, in <module>
    from ._netCDF4 import *
 
ImportError: /gpfs/ts0/home/pb412/firedrake-20171026/lib/python3.5/site-packages/netCDF4/_netCDF4.cpython-35m-x86_64-linux-gnu.so: undefined symbol: _PyThreadState_UncheckedGet


So it looks like there is some problem with the netCDF4 library.

Please advise.

Regards,
Paul