[firedrake] error installing PyOP2

[Justin Chang]

Lawrence,

Upgrading "six" resolved that issue. However, when I attempt to run my
mixed-poisson.py I get this error:

Traceback (most recent call last):

  File "mixed-poisson.py", line 79, in <module>

    solver_parameters=selfp_parameters)

  File
"/Users/justin/Software/firedrake-deps/firedrake/firedrake/variational_solver.py",
line 231, in __init__

    super(LinearVariationalSolver, self).__init__(*args, **kwargs)

  File
"/Users/justin/Software/firedrake-deps/firedrake/firedrake/variational_solver.py",
line 110, in __init__

    ctx = solving_utils._SNESContext(problem)

  File
"/Users/justin/Software/firedrake-deps/firedrake/firedrake/solving_utils.py",
line 105, in __init__

    for problem in problems)

  File
"/Users/justin/Software/firedrake-deps/firedrake/firedrake/solving_utils.py",
line 105, in <genexpr>

    for problem in problems)

  File
"/Users/justin/Software/firedrake-deps/firedrake/firedrake/assemble.py",
line 67, in assemble

    inverse=inverse, nest=nest)

  File
"/Users/justin/Software/firedrake-deps/firedrake/firedrake/assemble.py",
line 100, in _assemble

    inverse=inverse)

  File
"/Users/justin/Software/firedrake-deps/firedrake/firedrake/ffc_interface.py",
line 285, in compile_form

    ffc_kernel = FFCKernel(f, name + str(i) + str(j), parameters)

  File
"/usr/local/lib/python2.7/site-packages/PyOP2-0.11.0_368_g6ee644d-py2.7-macosx-10.10-x86_64.egg/pyop2/caching.py",
line 201, in __new__

    return cls._cache_lookup(key)

  File
"/usr/local/lib/python2.7/site-packages/PyOP2-0.11.0_368_g6ee644d-py2.7-macosx-10.10-x86_64.egg/pyop2/caching.py",
line 253, in _cache_lookup

    return cls._cache.get(key) or cls._read_from_disk(key)

  File
"/usr/local/lib/python2.7/site-packages/PyOP2-0.11.0_368_g6ee644d-py2.7-macosx-10.10-x86_64.egg/pyop2/caching.py",
line 279, in _read_from_disk

    val = cPickle.loads(val)
AttributeError: 'module' object has no attribute 'ColSparseArrayInit'

This was after pulling the latest PyOP2 and firedrake repositories.

Thanks,
Justin

On Wed, Aug 5, 2015 at 3:50 AM, Lawrence Mitchell <
lawrence.mitchell at imperial.ac.uk> wrote:

> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA1
>
> Hi Justin,
>
> On 04/08/15 23:05, Justin Chang wrote:
> > Coming back to this.
> >
> > I believe I have puled the latest petsc, petsc4py, and PyOP2
> > repositories onto my laptop. Following through with all the
> > (re)installation, I come across this error when I run 'make test'
> > in PyOP2:
> >
> > Error in atexit._run_exitfuncs:
>
> Sorry for these continued pains!
>
> So PyOP2 imports cPickle elsewhere, so I think this module most exist.
>  Plausibly the "six" module on your system is not sufficiently up-to-date.
>
> Does the following fail:
>
> python -c "from six.moves.cPickle import dumps"
>
> If that works, I'm very confused, but I suspect it won't.
>
> If it doesn't work, can you try installing an updated "six" module:
>
> pip install --user six
>
> and then go again.
>
> Lawrence
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