Re: [firedrake] error installing PyOP2
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@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@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 -----BEGIN PGP SIGNATURE----- Version: GnuPG v1
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_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
Fabio, that resolved this issue, thank you very much On Thu, Aug 6, 2015 at 2:42 AM, Fabio Luporini <f.luporini12@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@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@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 -----BEGIN PGP SIGNATURE----- Version: GnuPG v1
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_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
_______________________________________________ firedrake mailing list firedrake@imperial.ac.uk https://mailman.ic.ac.uk/mailman/listinfo/firedrake
participants (2)
-
Fabio Luporini
-
Justin Chang