December 2014 - firedrake - imperial.ac.uk

Problem with Nonlinear solvers after update
by Anna Kalogirou 22 Dec '14

22 Dec '14

Dear all, I very recently updated firedrake, pyop2 and installed coffee, but since then none of my codes include nonlinear solvers don’t work (they used to work fine before the update). I even tried to run the burgers.py code from the demo and even that diverges. I get something like: Traceback (most recent call last): File "benney-luke.py", line 57, in <module> phi_solver = solver_phi(phi1, phi1, phi0, eta0, etaR, phi, gamma, dt, mu, epsilon, is_linear); File "/Users/matak/Documents/Firedrake/modules/solvers.py", line 26, in solver_phi phi_solver = NonlinearVariationalSolver(phi_problem,solver_parameters={'snes_monitor': True,'ksp_monitor': True,'snes_linesearch_monitor': True}) File "/Users/matak/firedrake/firedrake/variational_solver.py", line 97, in __init__ form_compiler_parameters=self._problem.form_compiler_parameters) File "/Users/matak/firedrake/firedrake/assemble.py", line 58, in assemble form_compiler_parameters=form_compiler_parameters) File "/Users/matak/firedrake/firedrake/assemble.py", line 79, in _assemble kernels = ffc_interface.compile_form(f, "form", parameters=form_compiler_parameters) File "/Users/matak/firedrake/firedrake/ffc_interface.py", line 268, in compile_form ffc_kernel = FFCKernel(f, name + str(i) + str(j), parameters) File "/usr/local/Cellar/python/2.7.8_2/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyOP2-0.11.0_148_g8a1955c-py2.7-macosx-10.9-x86_64.egg/pyop2/caching.py", line 202, in __new__ obj = make_obj() File "/usr/local/Cellar/python/2.7.8_2/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyOP2-0.11.0_148_g8a1955c-py2.7-macosx-10.9-x86_64.egg/pyop2/caching.py", line 192, in make_obj obj.__init__(*args, **kwargs) File "/Users/matak/firedrake/firedrake/ffc_interface.py", line 194, in __init__ (name, it.integral_type(), it.subdomain_id()), opts, inc), File "/usr/local/Cellar/python/2.7.8_2/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyOP2-0.11.0_148_g8a1955c-py2.7-macosx-10.9-x86_64.egg/pyop2/backends.py", line 118, in __call__ return t(*args, **kwargs) File "/usr/local/Cellar/python/2.7.8_2/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyOP2-0.11.0_148_g8a1955c-py2.7-macosx-10.9-x86_64.egg/pyop2/caching.py", line 202, in __new__ obj = make_obj() File "/usr/local/Cellar/python/2.7.8_2/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyOP2-0.11.0_148_g8a1955c-py2.7-macosx-10.9-x86_64.egg/pyop2/caching.py", line 192, in make_obj obj.__init__(*args, **kwargs) File "/usr/local/Cellar/python/2.7.8_2/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyOP2-0.11.0_148_g8a1955c-py2.7-macosx-10.9-x86_64.egg/pyop2/base.py", line 3632, in __init__ self._code = self._ast_to_c(code, opts) File "/usr/local/Cellar/python/2.7.8_2/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/PyOP2-0.11.0_148_g8a1955c-py2.7-macosx-10.9-x86_64.egg/pyop2/host.py", line 63, in _ast_to_c ast_handler.plan_cpu(opts) File "/usr/local/lib/python2.7/site-packages/coffee/plan.py", line 405, in plan_cpu loop_opts = _generate_cpu_code(self, **params) File "/usr/local/lib/python2.7/site-packages/coffee/plan.py", line 241, in _generate_cpu_code loop_opt.rewrite(rewrite) File "/usr/local/lib/python2.7/site-packages/coffee/optimizer.py", line 110, in rewrite ew.expand() File "/usr/local/lib/python2.7/site-packages/coffee/rewriter.py", line 168, in expand ee.expand(self.stmt.children[1], self.stmt, itvars_occs, itvar_exp) File "/usr/local/lib/python2.7/site-packages/coffee/rewriter.py", line 565, in expand return self.expand(node.children[0], node, itvars_occs, itvar_exp) File "/usr/local/lib/python2.7/site-packages/coffee/rewriter.py", line 567, in expand l_node, l_type = self.expand(node.children[0], node, itvars_occs, itvar_exp) File "/usr/local/lib/python2.7/site-packages/coffee/rewriter.py", line 565, in expand return self.expand(node.children[0], node, itvars_occs, itvar_exp) File "/usr/local/lib/python2.7/site-packages/coffee/rewriter.py", line 599, in expand l_node, l_type = self.expand(node.children[0], node, itvars_occs, itvar_exp) File "/usr/local/lib/python2.7/site-packages/coffee/rewriter.py", line 565, in expand return self.expand(node.children[0], node, itvars_occs, itvar_exp) File "/usr/local/lib/python2.7/site-packages/coffee/rewriter.py", line 608, in expand raise RuntimeError("Expansion error: unknown node: %s" % str(node)) RuntimeError: Expansion error: unknown node: (LI_IPK_1_0[k] * LI_IPJ_1_1[j]) / LI_C_1_0 Thank you. Anna.

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Re: [firedrake] borked my update
by David Ham 20 Dec '14

20 Dec '14

On Saturday, December 20, 2014, Rathgeber, Florian < florian.rathgeber(a)imperial.ac.uk> wrote: > > > > I hope this is not a silly question, but in which directory I am > supposed be in when I write “ sudo python setup.py install“ during the > COFFEE installation? > > That should not matter. The only instance where it could matter is if > you're on a file system where the local superuser has no write > permission (which is often the case for NFS mounted file systems). > > I beg to differ. The command as typed will only work from the COFFEE source directory > HTH, > Florian > > > Thanks, > > > > Anna. > > > > > > > > On 19 Dec 2014, at 10:36, Fabio Luporini <fabilupo(a)gmail.com > <javascript:;><mailto:fabilupo@gmail.com <javascript:;>>> wrote: > > > > Some modules are still looking for ast_base which in the new version of > COFFEE has a different name. This may be due to some packages that still > need be updated. Could be ffc, pyop2, or firedrake; are you sure you've > updated and reinstalled all of these packages? > > > > If you run python and try : from coffee import base, what does it say? > > > > Thanks > > > > -- Fabio > > > > Sent from my iPhone > > > > On 19/dic/2014, at 10:20, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk > <javascript:;><mailto:A.Kalogirou@leeds.ac.uk <javascript:;>>> wrote: > > > > I already installed COFFEE and updated PyOP2, so now there are no COFFEE > leftovers in the PyOP2/pyop2 directory... > > > > > > On 19 Dec 2014, at 10:16, David Ham <David.Ham(a)imperial.ac.uk > <javascript:;><mailto:David.Ham@imperial.ac.uk <javascript:;>><mailto: > David.Ham(a)imperial.ac.uk <javascript:;>>> wrote: > > > > Dear Anna, > > > > My first guess is that you are seeing exactly the same error as Colin so > the same solution should apply. > > > > Basically, COFFEE is now a separate package. This means you need to > install the COFFEE package and remove any left over COFFEE files from your > PyOP2 repository. > > > > You can install COFFEE with: > > > > sudo pip install git+https://github.com/coneoproject/COFFEE.git > > > > and you can remove any leftovers by typing the following in the > PyOP2/pyop2 directory: > > > > rm -r coffee > > > > Regards, > > > > David > > > > > > On 19 December 2014 at 10:09, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk > <javascript:;><mailto:A.Kalogirou@leeds.ac.uk <javascript:;>><mailto: > A.Kalogirou(a)leeds.ac.uk <javascript:;>>> wrote: > > Hi all, > > > > I just tried to update firedrake on my laptop (including the coffee > installation), and get similar errors as Colin did a few weeks ago. It > seems that there is no module named coffee.ast_base. Colin, how did you fix > the problem after all? > > > > Thank you. > > > > Best, > > > > Anna. > > -- Dr David Ham Departments of Mathematics and Computing Imperial College London http://www.imperial.ac.uk/people/david.ham

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Re: [firedrake] borked my update
by David Ham 20 Dec '14

20 Dec '14

On Saturday, December 20, 2014, Cotter, Colin J <colin.cotter(a)imperial.ac.uk> wrote: > Dear all, > I thought it was intended that non-PyOP2 developers should pip install > COFFEE instead of building it from source? > > Both should work. > all the best > --Colin > ________________________________________ > From: firedrake-bounces(a)imperial.ac.uk <javascript:;> [ > firedrake-bounces(a)imperial.ac.uk <javascript:;>] on behalf of Anna > Kalogirou [A.Kalogirou(a)leeds.ac.uk <javascript:;>] > Sent: 19 December 2014 11:28 > To: firedrake > Subject: Re: [firedrake] borked my update > > Hi Fabio, > > When I write in python: from coffee import base, it has no problems, but > when I write: import coffee.ast_base it tells me: No module named ast_base. > > I updated FFC and PyOP2, but not firedrake yet. > > I hope this is not a silly question, but in which directory I am supposed > be in when I write “ sudo python setup.py install“ during the COFFEE > installation? > > Thanks, > > Anna. > > > > On 19 Dec 2014, at 10:36, Fabio Luporini <fabilupo(a)gmail.com > <javascript:;><mailto:fabilupo@gmail.com <javascript:;>>> wrote: > > Some modules are still looking for ast_base which in the new version of > COFFEE has a different name. This may be due to some packages that still > need be updated. Could be ffc, pyop2, or firedrake; are you sure you've > updated and reinstalled all of these packages? > > If you run python and try : from coffee import base, what does it say? > > Thanks > > -- Fabio > > Sent from my iPhone > > On 19/dic/2014, at 10:20, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk > <javascript:;><mailto:A.Kalogirou@leeds.ac.uk <javascript:;>>> wrote: > > I already installed COFFEE and updated PyOP2, so now there are no COFFEE > leftovers in the PyOP2/pyop2 directory... > > > On 19 Dec 2014, at 10:16, David Ham <David.Ham(a)imperial.ac.uk > <javascript:;><mailto:David.Ham@imperial.ac.uk <javascript:;>><mailto: > David.Ham(a)imperial.ac.uk <javascript:;>>> wrote: > > Dear Anna, > > My first guess is that you are seeing exactly the same error as Colin so > the same solution should apply. > > Basically, COFFEE is now a separate package. This means you need to > install the COFFEE package and remove any left over COFFEE files from your > PyOP2 repository. > > You can install COFFEE with: > > sudo pip install git+https://github.com/coneoproject/COFFEE.git > > and you can remove any leftovers by typing the following in the > PyOP2/pyop2 directory: > > rm -r coffee > > Regards, > > David > > > On 19 December 2014 at 10:09, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk > <javascript:;><mailto:A.Kalogirou@leeds.ac.uk <javascript:;>><mailto: > A.Kalogirou(a)leeds.ac.uk <javascript:;>>> wrote: > Hi all, > > I just tried to update firedrake on my laptop (including the coffee > installation), and get similar errors as Colin did a few weeks ago. It > seems that there is no module named coffee.ast_base. Colin, how did you fix > the problem after all? > > Thank you. > > Best, > > Anna. > > > On 6 Dec 2014, at 14:03, Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <javascript:;><mailto:colin.cotter@imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>>>> wrote: > > Ah, finally I see. This laptop is a weird mixture of checked versions of > some things, and pip installed other things... > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>> [ > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>>] on behalf of Cotter, > Colin J [colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>>>] > Sent: 06 December 2014 14:01 > To: firedrake > Subject: Re: [firedrake] borked my update > > Hmm, I cleaned out a few .pyc files, rebuilt and now get another error, > but not from COFFEE this time: > > In [1]: from firedrake import * > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-1-379626444471> in <module>() > ----> 1 from firedrake import * > > /home/cjc1/firedrake/firedrake/firedrake/__init__.py in <module>() > 28 from pyop2 import op2 # > noqa > 29 > ---> 30 from assemble import * > 31 from bcs import * > 32 from constant import * > > /home/cjc1/firedrake/firedrake/firedrake/assemble.py in <module>() > 6 from pyop2.profiling import timed_region, profile > 7 > ----> 8 import assembly_cache > 9 import assemble_expressions > 10 import ffc_interface > > /home/cjc1/firedrake/firedrake/firedrake/assembly_cache.py in <module>() > 38 from pyop2.mpi import MPI, _MPI > 39 > ---> 40 import function > 41 import matrix > 42 from parameters import parameters > > /home/cjc1/firedrake/firedrake/firedrake/function.py in <module>() > 7 from pyop2 import op2 > 8 > ----> 9 import assemble_expressions > 10 import expression as expression_t > 11 import functionspace > > /home/cjc1/firedrake/firedrake/firedrake/assemble_expressions.py in > <module>() > 3 from ufl.constantvalue import ConstantValue, Zero, IntValue > 4 from ufl.indexing import MultiIndex > ----> 5 from ufl.core.operator import Operator > 6 from ufl.mathfunctions import MathFunction > 7 from ufl.core.ufl_type import ufl_type as orig_ufl_type > > ImportError: No module named core.operator > > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>> [ > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>>] on behalf of Cotter, > Colin J [colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>>>] > Sent: 06 December 2014 13:48 > To: firedrake > Subject: Re: [firedrake] borked my update > > I checked it out from github and did "python setup.py install". > > This is what I'm getting: > In [7]: from pyop2.op2 import base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-7-445e978e158f> in <module>() > ----> 1 from pyop2.op2 import base > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: > just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.py in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > In [8]: import coffee > > In [9]: import coffee.base > > In [10]: import coffee.ast_base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-10-4eacf0c12697> in <module>() > ----> 1 import coffee.ast_base > > ImportError: No module named ast_base > > Here's what I've got in my pythonpath: > > > /home/cjc1/firedrake/PyOP2:/home/cjc1/.local/lib/site-packages/ufl:/home/cjc1/.local/lib/site-packages/ffc:/home/cjc1/firedrake/COFFEE:/home/cjc1/firedrake/ufl:/home/cjc1/firedrake/ffc:/home/cjc1/firedrake/PyOP2:/home/cjc1/firedrake/firedrake: > > cheers > --cjc > > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>> [ > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>>] on behalf of Fabio > Luporini [f.luporini12(a)imperial.ac.uk <javascript:;><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;>><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;>><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;>>>] > Sent: 06 December 2014 11:28 > To: firedrake > Subject: Re: [firedrake] borked my update > > OK. How have you installed coffee (did you do pip install..?) ? Can you > check your PYTHONPATH? > > If you do: > python > import coffee > import coffee.base > import coffee.ast_base > > Could you tell me the error messages you see? > > Thanks! > > -- Fabio > > 2014-12-06 11:17 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <javascript:;><mailto:colin.cotter@imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>>>>: > Hi Fabio, > Thanks for your reply! I did this, but I'm still getting the same message. > > all the best > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>> [ > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>>] on behalf of Fabio > Luporini [f.luporini12(a)imperial.ac.uk <javascript:;><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;>><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;>><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;><mailto: > f.luporini12(a)imperial.ac.uk <javascript:;>>>] > Sent: 06 December 2014 11:12 > > To: firedrake > Subject: Re: [firedrake] borked my update > > Hi Colin, > > Just get rid of the .pyc files in pyop2/coffee (you can delete the folder) > > -- Fabio > > 2014-12-06 11:07 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <javascript:;><mailto:colin.cotter@imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>>>>: > Oh, but I still get this message. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>> [ > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>>] on behalf of Cotter, > Colin J [colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>>>] > Sent: 06 December 2014 11:02 > To: firedrake > Subject: Re: [firedrake] borked my update > > Oh I see, COFFEE is now an independent package. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>> [ > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;><mailto: > firedrake-bounces(a)imperial.ac.uk <javascript:;>>>] on behalf of Cotter, > Colin J [colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;><mailto: > colin.cotter(a)imperial.ac.uk <javascript:;>>>] > Sent: 06 December 2014 11:01 > To: firedrake > Subject: [firedrake] borked my update > > Dear all, > I updated PyOP2, and now get: > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: > just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.pyc in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > What went wrong? > > all the best > --cjc > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk <javascript:;><mailto:firedrake@imperial.ac.uk > <javascript:;>><mailto:firedrake@imperial.ac.uk <javascript:;>><mailto: > firedrake(a)imperial.ac.uk <javascript:;><mailto:firedrake@imperial.ac.uk > <javascript:;>>> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk <javascript:;><mailto:firedrake@imperial.ac.uk > <javascript:;>><mailto:firedrake@imperial.ac.uk <javascript:;>> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > -- > Dr David Ham > Departments of Mathematics and Computing > Imperial College London > > http://www.imperial.ac.uk/people/david.ham > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk <javascript:;><mailto:firedrake@imperial.ac.uk > <javascript:;>><mailto:firedrake@imperial.ac.uk <javascript:;>> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk <javascript:;><mailto:firedrake@imperial.ac.uk > <javascript:;>> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk <javascript:;><mailto:firedrake@imperial.ac.uk > <javascript:;>> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk <javascript:;> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > -- Dr David Ham Departments of Mathematics and Computing Imperial College London http://www.imperial.ac.uk/people/david.ham

1 0

Re: [firedrake] borked my update
by Fabio Luporini 20 Dec '14

20 Dec '14

Some modules are still looking for ast_base which in the new version of COFFEE has a different name. This may be due to some packages that still need be updated. Could be ffc, pyop2, or firedrake; are you sure you've updated and reinstalled all of these packages? If you run python and try : from coffee import base, what does it say? Thanks -- Fabio Sent from my iPhone > On 19/dic/2014, at 10:20, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk> wrote: > > I already installed COFFEE and updated PyOP2, so now there are no COFFEE leftovers in the PyOP2/pyop2 directory... > > > On 19 Dec 2014, at 10:16, David Ham <David.Ham(a)imperial.ac.uk<mailto:David.Ham@imperial.ac.uk>> wrote: > > Dear Anna, > > My first guess is that you are seeing exactly the same error as Colin so the same solution should apply. > > Basically, COFFEE is now a separate package. This means you need to install the COFFEE package and remove any left over COFFEE files from your PyOP2 repository. > > You can install COFFEE with: > > sudo pip install git+https://github.com/coneoproject/COFFEE.git > > and you can remove any leftovers by typing the following in the PyOP2/pyop2 directory: > > rm -r coffee > > Regards, > > David > > > On 19 December 2014 at 10:09, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk<mailto:A.Kalogirou@leeds.ac.uk>> wrote: > Hi all, > > I just tried to update firedrake on my laptop (including the coffee installation), and get similar errors as Colin did a few weeks ago. It seems that there is no module named coffee.ast_base. Colin, how did you fix the problem after all? > > Thank you. > > Best, > > Anna. > > > On 6 Dec 2014, at 14:03, Cotter, Colin J <colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>> wrote: > > Ah, finally I see. This laptop is a weird mixture of checked versions of some things, and pip installed other things... > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>> [firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>>] on behalf of Cotter, Colin J [colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 14:01 > To: firedrake > Subject: Re: [firedrake] borked my update > > Hmm, I cleaned out a few .pyc files, rebuilt and now get another error, but not from COFFEE this time: > > In [1]: from firedrake import * > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-1-379626444471> in <module>() > ----> 1 from firedrake import * > > /home/cjc1/firedrake/firedrake/firedrake/__init__.py in <module>() > 28 from pyop2 import op2 # noqa > 29 > ---> 30 from assemble import * > 31 from bcs import * > 32 from constant import * > > /home/cjc1/firedrake/firedrake/firedrake/assemble.py in <module>() > 6 from pyop2.profiling import timed_region, profile > 7 > ----> 8 import assembly_cache > 9 import assemble_expressions > 10 import ffc_interface > > /home/cjc1/firedrake/firedrake/firedrake/assembly_cache.py in <module>() > 38 from pyop2.mpi import MPI, _MPI > 39 > ---> 40 import function > 41 import matrix > 42 from parameters import parameters > > /home/cjc1/firedrake/firedrake/firedrake/function.py in <module>() > 7 from pyop2 import op2 > 8 > ----> 9 import assemble_expressions > 10 import expression as expression_t > 11 import functionspace > > /home/cjc1/firedrake/firedrake/firedrake/assemble_expressions.py in <module>() > 3 from ufl.constantvalue import ConstantValue, Zero, IntValue > 4 from ufl.indexing import MultiIndex > ----> 5 from ufl.core.operator import Operator > 6 from ufl.mathfunctions import MathFunction > 7 from ufl.core.ufl_type import ufl_type as orig_ufl_type > > ImportError: No module named core.operator > > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>> [firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>>] on behalf of Cotter, Colin J [colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 13:48 > To: firedrake > Subject: Re: [firedrake] borked my update > > I checked it out from github and did "python setup.py install". > > This is what I'm getting: > In [7]: from pyop2.op2 import base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-7-445e978e158f> in <module>() > ----> 1 from pyop2.op2 import base > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.py in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > In [8]: import coffee > > In [9]: import coffee.base > > In [10]: import coffee.ast_base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-10-4eacf0c12697> in <module>() > ----> 1 import coffee.ast_base > > ImportError: No module named ast_base > > Here's what I've got in my pythonpath: > > /home/cjc1/firedrake/PyOP2:/home/cjc1/.local/lib/site-packages/ufl:/home/cjc1/.local/lib/site-packages/ffc:/home/cjc1/firedrake/COFFEE:/home/cjc1/firedrake/ufl:/home/cjc1/firedrake/ffc:/home/cjc1/firedrake/PyOP2:/home/cjc1/firedrake/firedrake: > > cheers > --cjc > > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>> [firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>>] on behalf of Fabio Luporini [f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk><mailto:f.luporini12@imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk>>] > Sent: 06 December 2014 11:28 > To: firedrake > Subject: Re: [firedrake] borked my update > > OK. How have you installed coffee (did you do pip install..?) ? Can you check your PYTHONPATH? > > If you do: > python > import coffee > import coffee.base > import coffee.ast_base > > Could you tell me the error messages you see? > > Thanks! > > -- Fabio > > 2014-12-06 11:17 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>>: > Hi Fabio, > Thanks for your reply! I did this, but I'm still getting the same message. > > all the best > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>> [firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>>] on behalf of Fabio Luporini [f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk><mailto:f.luporini12@imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk>>] > Sent: 06 December 2014 11:12 > > To: firedrake > Subject: Re: [firedrake] borked my update > > Hi Colin, > > Just get rid of the .pyc files in pyop2/coffee (you can delete the folder) > > -- Fabio > > 2014-12-06 11:07 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>>: > Oh, but I still get this message. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>> [firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>>] on behalf of Cotter, Colin J [colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 11:02 > To: firedrake > Subject: Re: [firedrake] borked my update > > Oh I see, COFFEE is now an independent package. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>> [firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk>>] on behalf of Cotter, Colin J [colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 11:01 > To: firedrake > Subject: [firedrake] borked my update > > Dear all, > I updated PyOP2, and now get: > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.pyc in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > What went wrong? > > all the best > --cjc > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk><mailto:firedrake@imperial.ac.uk<mailto:firedrake@imperial.ac.uk>> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > -- > Dr David Ham > Departments of Mathematics and Computing > Imperial College London > > http://www.imperial.ac.uk/people/david.ham > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk > https://mailman.ic.ac.uk/mailman/listinfo/firedrake

5 4

Re: [firedrake] borked my update
by Andrew McRae 20 Dec '14

20 Dec '14

On 20 December 2014 at 07:28, Rathgeber, Florian < florian.rathgeber(a)imperial.ac.uk> wrote: > > On 19/12/14 11:28, Anna Kalogirou wrote: > > Hi Fabio, > > > > When I write in python: from coffee import base, it has no problems, but > when I write: import coffee.ast_base it tells me: No module named ast_base. > > That is expected with the latest COFFEE version. > > > I updated FFC and PyOP2, but not firedrake yet. > > Please do that, there are a number of places where Firedrake imports > from COFFEE, which might explain the issue. > > > I hope this is not a silly question, but in which directory I am > supposed be in when I write “ sudo python setup.py install“ during the > COFFEE installation? > > That should not matter. The only instance where it could matter is if > you're on a file system where the local superuser has no write > permission (which is often the case for NFS mounted file systems). > I think the expected answer here is 'the COFFEE repository base directory'. E.g., if you type 'git clone ....' when in /home/anna/software/, you need to type 'sudo python setup.py install' when in /home/anna/software/COFFEE/ . HTH, > Florian > > > Thanks, > > > > Anna. >

1 0

Re: [firedrake] borked my update
by David Ham 19 Dec '14

19 Dec '14

OK, there is, in fact, no coffee.ast_base any more. If you are seeing that error this means that your PyOP2 is somehow not up to date. Can you please post the exact and complete error backtrace you are seeing? Regards, David On 19 December 2014 at 10:20, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk> wrote: > > I already installed COFFEE and updated PyOP2, so now there are no COFFEE > leftovers in the PyOP2/pyop2 directory... > > > On 19 Dec 2014, at 10:16, David Ham <David.Ham(a)imperial.ac.uk<mailto: > David.Ham(a)imperial.ac.uk>> wrote: > > Dear Anna, > > My first guess is that you are seeing exactly the same error as Colin so > the same solution should apply. > > Basically, COFFEE is now a separate package. This means you need to > install the COFFEE package and remove any left over COFFEE files from your > PyOP2 repository. > > You can install COFFEE with: > > sudo pip install git+https://github.com/coneoproject/COFFEE.git > > and you can remove any leftovers by typing the following in the > PyOP2/pyop2 directory: > > rm -r coffee > > Regards, > > David > > > On 19 December 2014 at 10:09, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk > <mailto:A.Kalogirou@leeds.ac.uk>> wrote: > Hi all, > > I just tried to update firedrake on my laptop (including the coffee > installation), and get similar errors as Colin did a few weeks ago. It > seems that there is no module named coffee.ast_base. Colin, how did you fix > the problem after all? > > Thank you. > > Best, > > Anna. > > > On 6 Dec 2014, at 14:03, Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk>>> wrote: > > Ah, finally I see. This laptop is a weird mixture of checked versions of > some things, and pip installed other things... > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>> [ > firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk > ><mailto:firedrake-bounces@imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk>>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto: > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 14:01 > To: firedrake > Subject: Re: [firedrake] borked my update > > Hmm, I cleaned out a few .pyc files, rebuilt and now get another error, > but not from COFFEE this time: > > In [1]: from firedrake import * > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-1-379626444471> in <module>() > ----> 1 from firedrake import * > > /home/cjc1/firedrake/firedrake/firedrake/__init__.py in <module>() > 28 from pyop2 import op2 # > noqa > 29 > ---> 30 from assemble import * > 31 from bcs import * > 32 from constant import * > > /home/cjc1/firedrake/firedrake/firedrake/assemble.py in <module>() > 6 from pyop2.profiling import timed_region, profile > 7 > ----> 8 import assembly_cache > 9 import assemble_expressions > 10 import ffc_interface > > /home/cjc1/firedrake/firedrake/firedrake/assembly_cache.py in <module>() > 38 from pyop2.mpi import MPI, _MPI > 39 > ---> 40 import function > 41 import matrix > 42 from parameters import parameters > > /home/cjc1/firedrake/firedrake/firedrake/function.py in <module>() > 7 from pyop2 import op2 > 8 > ----> 9 import assemble_expressions > 10 import expression as expression_t > 11 import functionspace > > /home/cjc1/firedrake/firedrake/firedrake/assemble_expressions.py in > <module>() > 3 from ufl.constantvalue import ConstantValue, Zero, IntValue > 4 from ufl.indexing import MultiIndex > ----> 5 from ufl.core.operator import Operator > 6 from ufl.mathfunctions import MathFunction > 7 from ufl.core.ufl_type import ufl_type as orig_ufl_type > > ImportError: No module named core.operator > > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>> [ > firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk > ><mailto:firedrake-bounces@imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk>>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto: > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 13:48 > To: firedrake > Subject: Re: [firedrake] borked my update > > I checked it out from github and did "python setup.py install". > > This is what I'm getting: > In [7]: from pyop2.op2 import base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-7-445e978e158f> in <module>() > ----> 1 from pyop2.op2 import base > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: > just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.py in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > In [8]: import coffee > > In [9]: import coffee.base > > In [10]: import coffee.ast_base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-10-4eacf0c12697> in <module>() > ----> 1 import coffee.ast_base > > ImportError: No module named ast_base > > Here's what I've got in my pythonpath: > > > /home/cjc1/firedrake/PyOP2:/home/cjc1/.local/lib/site-packages/ufl:/home/cjc1/.local/lib/site-packages/ffc:/home/cjc1/firedrake/COFFEE:/home/cjc1/firedrake/ufl:/home/cjc1/firedrake/ffc:/home/cjc1/firedrake/PyOP2:/home/cjc1/firedrake/firedrake: > > cheers > --cjc > > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>> [ > firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk > ><mailto:firedrake-bounces@imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk>>] on behalf of Fabio Luporini [ > f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk><mailto: > f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk>>] > Sent: 06 December 2014 11:28 > To: firedrake > Subject: Re: [firedrake] borked my update > > OK. How have you installed coffee (did you do pip install..?) ? Can you > check your PYTHONPATH? > > If you do: > python > import coffee > import coffee.base > import coffee.ast_base > > Could you tell me the error messages you see? > > Thanks! > > -- Fabio > > 2014-12-06 11:17 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk>>>: > Hi Fabio, > Thanks for your reply! I did this, but I'm still getting the same > message. > > all the best > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>> [ > firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk > ><mailto:firedrake-bounces@imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk>>] on behalf of Fabio Luporini [ > f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk><mailto: > f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk>>] > Sent: 06 December 2014 11:12 > > To: firedrake > Subject: Re: [firedrake] borked my update > > Hi Colin, > > Just get rid of the .pyc files in pyop2/coffee (you can delete the folder) > > -- Fabio > > 2014-12-06 11:07 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk><mailto:colin.cotter@imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk>>>: > Oh, but I still get this message. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>> [ > firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk > ><mailto:firedrake-bounces@imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk>>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto: > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 11:02 > To: firedrake > Subject: Re: [firedrake] borked my update > > Oh I see, COFFEE is now an independent package. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk><mailto:firedrake-bounces@imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>> [ > firedrake-bounces(a)imperial.ac.uk<mailto:firedrake-bounces@imperial.ac.uk > ><mailto:firedrake-bounces@imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk>>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk><mailto: > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>>] > Sent: 06 December 2014 11:01 > To: firedrake > Subject: [firedrake] borked my update > > Dear all, > I updated PyOP2, and now get: > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: > just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.pyc in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > What went wrong? > > all the best > --cjc > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk><mailto: > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk>> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > -- > Dr David Ham > Departments of Mathematics and Computing > Imperial College London > > http://www.imperial.ac.uk/people/david.ham > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > -- Dr David Ham Departments of Mathematics and Computing Imperial College London http://www.imperial.ac.uk/people/david.ham

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Re: [firedrake] borked my update
by David Ham 19 Dec '14

19 Dec '14

Dear Anna, My first guess is that you are seeing exactly the same error as Colin so the same solution should apply. Basically, COFFEE is now a separate package. This means you need to install the COFFEE package and remove any left over COFFEE files from your PyOP2 repository. You can install COFFEE with: sudo pip install git+https://github.com/coneoproject/COFFEE.git and you can remove any leftovers by typing the following in the PyOP2/pyop2 directory: rm -r coffee Regards, David On 19 December 2014 at 10:09, Anna Kalogirou <A.Kalogirou(a)leeds.ac.uk> wrote: > > Hi all, > > I just tried to update firedrake on my laptop (including the coffee > installation), and get similar errors as Colin did a few weeks ago. It > seems that there is no module named coffee.ast_base. Colin, how did you fix > the problem after all? > > Thank you. > > Best, > > Anna. > > > On 6 Dec 2014, at 14:03, Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk>> wrote: > > Ah, finally I see. This laptop is a weird mixture of checked versions of > some things, and pip installed other things... > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk> [firedrake-bounces(a)imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>] > Sent: 06 December 2014 14:01 > To: firedrake > Subject: Re: [firedrake] borked my update > > Hmm, I cleaned out a few .pyc files, rebuilt and now get another error, > but not from COFFEE this time: > > In [1]: from firedrake import * > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-1-379626444471> in <module>() > ----> 1 from firedrake import * > > /home/cjc1/firedrake/firedrake/firedrake/__init__.py in <module>() > 28 from pyop2 import op2 # > noqa > 29 > ---> 30 from assemble import * > 31 from bcs import * > 32 from constant import * > > /home/cjc1/firedrake/firedrake/firedrake/assemble.py in <module>() > 6 from pyop2.profiling import timed_region, profile > 7 > ----> 8 import assembly_cache > 9 import assemble_expressions > 10 import ffc_interface > > /home/cjc1/firedrake/firedrake/firedrake/assembly_cache.py in <module>() > 38 from pyop2.mpi import MPI, _MPI > 39 > ---> 40 import function > 41 import matrix > 42 from parameters import parameters > > /home/cjc1/firedrake/firedrake/firedrake/function.py in <module>() > 7 from pyop2 import op2 > 8 > ----> 9 import assemble_expressions > 10 import expression as expression_t > 11 import functionspace > > /home/cjc1/firedrake/firedrake/firedrake/assemble_expressions.py in > <module>() > 3 from ufl.constantvalue import ConstantValue, Zero, IntValue > 4 from ufl.indexing import MultiIndex > ----> 5 from ufl.core.operator import Operator > 6 from ufl.mathfunctions import MathFunction > 7 from ufl.core.ufl_type import ufl_type as orig_ufl_type > > ImportError: No module named core.operator > > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk> [firedrake-bounces(a)imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>] > Sent: 06 December 2014 13:48 > To: firedrake > Subject: Re: [firedrake] borked my update > > I checked it out from github and did "python setup.py install". > > This is what I'm getting: > In [7]: from pyop2.op2 import base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-7-445e978e158f> in <module>() > ----> 1 from pyop2.op2 import base > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: > just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.py in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > In [8]: import coffee > > In [9]: import coffee.base > > In [10]: import coffee.ast_base > --------------------------------------------------------------------------- > ImportError Traceback (most recent call last) > /home/cjc1/firedrake/<ipython-input-10-4eacf0c12697> in <module>() > ----> 1 import coffee.ast_base > > ImportError: No module named ast_base > > Here's what I've got in my pythonpath: > > > /home/cjc1/firedrake/PyOP2:/home/cjc1/.local/lib/site-packages/ufl:/home/cjc1/.local/lib/site-packages/ffc:/home/cjc1/firedrake/COFFEE:/home/cjc1/firedrake/ufl:/home/cjc1/firedrake/ffc:/home/cjc1/firedrake/PyOP2:/home/cjc1/firedrake/firedrake: > > cheers > --cjc > > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk> [firedrake-bounces(a)imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>] on behalf of Fabio Luporini [ > f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk>] > Sent: 06 December 2014 11:28 > To: firedrake > Subject: Re: [firedrake] borked my update > > OK. How have you installed coffee (did you do pip install..?) ? Can you > check your PYTHONPATH? > > If you do: > python > import coffee > import coffee.base > import coffee.ast_base > > Could you tell me the error messages you see? > > Thanks! > > -- Fabio > > 2014-12-06 11:17 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk>>: > Hi Fabio, > Thanks for your reply! I did this, but I'm still getting the same > message. > > all the best > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk> [firedrake-bounces(a)imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>] on behalf of Fabio Luporini [ > f.luporini12(a)imperial.ac.uk<mailto:f.luporini12@imperial.ac.uk>] > Sent: 06 December 2014 11:12 > > To: firedrake > Subject: Re: [firedrake] borked my update > > Hi Colin, > > Just get rid of the .pyc files in pyop2/coffee (you can delete the folder) > > -- Fabio > > 2014-12-06 11:07 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk > <mailto:colin.cotter@imperial.ac.uk>>: > Oh, but I still get this message. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk> [firedrake-bounces(a)imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>] > Sent: 06 December 2014 11:02 > To: firedrake > Subject: Re: [firedrake] borked my update > > Oh I see, COFFEE is now an independent package. > > --cjc > ________________________________ > From: firedrake-bounces(a)imperial.ac.uk<mailto: > firedrake-bounces(a)imperial.ac.uk> [firedrake-bounces(a)imperial.ac.uk > <mailto:firedrake-bounces@imperial.ac.uk>] on behalf of Cotter, Colin J [ > colin.cotter(a)imperial.ac.uk<mailto:colin.cotter@imperial.ac.uk>] > Sent: 06 December 2014 11:01 > To: firedrake > Subject: [firedrake] borked my update > > Dear all, > I updated PyOP2, and now get: > > /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() > 7 """ > 8 > ----> 9 from op2 import * > 10 from version import __version__ as ver, __version_info__ # noqa: > just expose > 11 > > /home/cjc1/firedrake/PyOP2/pyop2/op2.pyc in <module>() > 37 > 38 import backends > ---> 39 import base > 40 from base import READ, WRITE, RW, INC, MIN, MAX, i > 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL > > /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() > 55 from version import __version__ as version > 56 > ---> 57 from coffee.base import Node > 58 from coffee import base as ast > 59 > > ImportError: No module named base > > What went wrong? > > all the best > --cjc > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk<mailto:firedrake@imperial.ac.uk> > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > > > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > -- Dr David Ham Departments of Mathematics and Computing Imperial College London http://www.imperial.ac.uk/people/david.ham

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Re: [firedrake] borked my update
by Fabio Luporini 19 Dec '14

19 Dec '14

OK. How have you installed coffee (did you do pip install..?) ? Can you check your PYTHONPATH? If you do: python import coffee import coffee.base import coffee.ast_base Could you tell me the error messages you see? Thanks! -- Fabio 2014-12-06 11:17 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk>: > Hi Fabio, > Thanks for your reply! I did this, but I'm still getting the same > message. > > all the best > --cjc > ------------------------------ > *From:* firedrake-bounces(a)imperial.ac.uk [firedrake-bounces(a)imperial.ac.uk] > on behalf of Fabio Luporini [f.luporini12(a)imperial.ac.uk] > *Sent:* 06 December 2014 11:12 > > *To:* firedrake > *Subject:* Re: [firedrake] borked my update > > Hi Colin, > > Just get rid of the .pyc files in pyop2/coffee (you can delete the > folder) > > -- Fabio > > 2014-12-06 11:07 GMT+00:00 Cotter, Colin J <colin.cotter(a)imperial.ac.uk>: > >> Oh, but I still get this message. >> >> --cjc >> ------------------------------ >> *From:* firedrake-bounces(a)imperial.ac.uk [ >> firedrake-bounces(a)imperial.ac.uk] on behalf of Cotter, Colin J [ >> colin.cotter(a)imperial.ac.uk] >> *Sent:* 06 December 2014 11:02 >> *To:* firedrake >> *Subject:* Re: [firedrake] borked my update >> >> Oh I see, COFFEE is now an independent package. >> >> --cjc >> ------------------------------ >> *From:* firedrake-bounces(a)imperial.ac.uk [ >> firedrake-bounces(a)imperial.ac.uk] on behalf of Cotter, Colin J [ >> colin.cotter(a)imperial.ac.uk] >> *Sent:* 06 December 2014 11:01 >> *To:* firedrake >> *Subject:* [firedrake] borked my update >> >> Dear all, >> I updated PyOP2, and now get: >> >> /home/cjc1/firedrake/PyOP2/pyop2/__init__.py in <module>() >> 7 """ >> 8 >> ----> 9 from op2 import * >> 10 from version import __version__ as ver, __version_info__ # noqa: >> just expose >> 11 >> >> /home/cjc1/firedrake/PyOP2/pyop2/op2.pyc in <module>() >> 37 >> 38 import backends >> ---> 39 import base >> 40 from base import READ, WRITE, RW, INC, MIN, MAX, i >> 41 from base import ON_BOTTOM, ON_TOP, ON_INTERIOR_FACETS, ALL >> >> /home/cjc1/firedrake/PyOP2/pyop2/base.py in <module>() >> 55 from version import __version__ as version >> 56 >> ---> 57 from coffee.base import Node >> 58 from coffee import base as ast >> 59 >> >> ImportError: No module named base >> >> What went wrong? >> >> all the best >> --cjc >> > >

3 4

Re: [firedrake] 1+1 dimensional hierarchical meshes and function spaces
by Andrew McRae 16 Dec '14

16 Dec '14

On 15 December 2014 at 23:00, Eike Mueller <e.mueller(a)bath.ac.uk> wrote: > > Hi Lawrence, > > actually, it looks like that patch has already been integrated into the > petsc branch you recommend below. Building petsc and petsc4py works fine > with that branch. > Which pyop2 branch do I want to use? Still local-par_loop? I guess I have > to update ffc, ufl etc. at the moment I haven't got firedrake to work yet, > it says the pyop2 and firedrake versions are not compatible. > > Thanks, > > Eike > > PS: Are there actually any instructions on the web on obtaining and > building coffee? I lost Fabio's email, I googled and figured it out myself > now, but the repository is a bit hidden... > It's buried in the PyOP2 installation page <http://www.firedrakeproject.org/obtaining_pyop2.html>, on the Firedrake website. Quite obvious from the table of contents, somewhat less obvious once you scroll further down. > > -- > > Dr Eike Hermann Mueller > Research Associate (PostDoc) > > Department of Mathematical Sciences > University of Bath > Bath BA2 7AY, United Kingdom > > +44 1225 38 5633 <+44%201225%2038%205633> > e.mueller(a)bath.ac.uk > <http://people.bath.ac.uk/em459/>http://people.bath.ac.uk/em459/ > > On 9 Dec 2014, at 09:31, Lawrence Mitchell < > lawrence.mitchell(a)imperial.ac.uk> wrote: > > > > On 9 Dec 2014, at 09:13, Eike Mueller <e.mueller(a)bath.ac.uk> wrote: > > > hanks, I will give it a go. Just looking at my petsc, I'm currently > using the master and have the applied the patch below (which you sent me on > 11 Oct). Do I still need this, or has this been integrated into the petsc > branch you mention? > > > Yes, I think so. > > Lawrence > _______________________________________________ > firedrake mailing list > firedrake(a)imperial.ac.uk > https://mailman.ic.ac.uk/mailman/listinfo/firedrake > >

4 8

Re: [firedrake] Nullspace & VectorSpaceBasis
by Andrew McRae 11 Dec '14

11 Dec '14

On 11 Dec 2014 19:17, "Anna Kalogirou" <a.kalogirou(a)leeds.ac.uk> wrote: > > Thanks Andrew. About your comment 1), how can I fix this? I think that requires a Firedrake (PyOP2) fix. Lawrence? > > The two equations valid on one of the boundaries can actually be combined into one by paying the price of a higher time derivative. This is not a problem for this simple system, so if I use > > aphi = v*phi*ds(4) + g*dt**2*inner(grad(v),grad(phi))*dx > Lphi = v*(2*phi1-phi0)*ds(4) > > phi_problem = LinearVariationalProblem(aphi,Lphi,phi2) > phi_solver = LinearVariationalSolver(phi_problem) > > is equivalent to what I had before, and this time the code works and gives a good result (compared to the exact solution). Cool... > > However, I need to understand why the other case doesn't work because that will later be generalised to become nonlinear. > > > Anna. > > > > On 11/12/14 13:04, Andrew McRae wrote: >> >> Four comments: >> >> 1) If I understand correctly, PETSc insists that the diagonal entries of the sparse matrix are filled in. Usually, the LHS form will cause this to happen; however, that obviously isn't the case for your form! >> >> 2) It should be possible to build the nullspace you want, but I'm clueless on the actual syntax. This wouldn't get around (1) without further fixes from our end. >> >> 3) Could the equations given not be included in the weak form for the rest of the problem? >> >> 4) If not, there might be a hacky "add-a-weighted-mass-matrix-to-the-LHS" fix you could use?.... >> >> Andrew >> >> On 11 December 2014 at 12:46, Anna Kalogirou <a.kalogirou(a)leeds.ac.uk> wrote: >>> >>> Dear all, >>> >>> I am trying to solve a simple problem (linear water wave equations), >>> where I have the Laplace equation in a square domain with Neumann >>> boundary conditions on the three sides and on the top boundary two >>> equations are satisfied. >>> >>> I have the following code: >>> -------------------------------------- >>> V = FunctionSpace(mesh,"CG",1) >>> >>> eta0 = Function(V).interpolate(Expression("cos(2*pi*x[0])")) >>> phi0 = Function(V) >>> eta1 = Function(V) >>> phi1 = Function(V) >>> eta = TrialFunction(V) >>> phi = TrialFunction(V) >>> v = TestFunction(V) >>> >>> aeta = v*eta*ds(4) >>> Leta = v*eta0*ds(4) + dt*inner(grad(v),grad(phi0))*dx >>> >>> eta_problem = LinearVariationalProblem(aeta,Leta,eta1) >>> eta_solver = LinearVariationalSolver(eta_problem) >>> >>> aphi = v*phi*ds(4) >>> Lphi = (v*phi0 - g*dt*v*eta1)*ds(4) >>> >>> phi_problem = LinearVariationalProblem(aphi,Lphi,phi1) >>> phi_solver = LinearVariationalSolver(phi_problem) >>> -------------------------------------- >>> >>> The error I get tells me that Object is in wrong state, and Matrix is >>> missing diagonal entry 39. >>> >>> I thought this had to do with the problem being singular, so I tried to >>> build the nullspace but I don't know how to define the VectorSpaceBasis. >>> Any help would be appreciated. >>> >>> Thank you very much. >>> >>> Regards, Anna. >>> >>> _______________________________________________ >>> firedrake mailing list >>> firedrake(a)imperial.ac.uk >>> https://mailman.ic.ac.uk/mailman/listinfo/firedrake >> >> > > -- > > Dr Anna Kalogirou > Research Fellow > School of Mathematics > University of Leeds

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