[firedrake] error installing PyOP2

[Justin Chang]

Fabio, that resolved this issue, thank you very much

On Thu, Aug 6, 2015 at 2:42 AM, Fabio Luporini <f.luporini12 at imperial.ac.uk>
wrote:

> If everything is up-to-date, you might have to clean the caches (run
> firedrake/scripts/firedrake-clean)
>
> -- Fabio
>
> 2015-08-06 2:19 GMT+01:00 Justin Chang <jychang48 at gmail.com>:
>
>> 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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>>>
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>>
>>
>
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