Hi Robert.

I've now got the interactive form working nicely, with an initial guess passed to the problem solver as you describe in your first reply.  I'm having some issues with passing function values to the Material properties, but that might be best as a separate thread.

Thanks for all your help so far!
David

On Wednesday, 21 December 2016 14:09:03 UTC+1, Robert Cimrman wrote:
Hi David,

note "approx_order=2" in the field definition in your "interactive" script
(line 77). Use 1 to have the smaller matrix as in the problem description file.
Or, if you do want to use the bi-quadratic order, increase the order of
numerical integration (line 93) to two. Currently you are under-integrating and
that is why you keep getting a singular matrix.

r.

On 12/21/2016 01:59 PM, David Jessop wrote:
> I'm getting some very strange behaviour in my "interactive" solution.  For
> the time being I'm just solving a linear Poisson equation on a square
> region with a constant source term everywhere and Dirichelet BCs on the
> left and right boundaries.  I'm set up and solved the same problem using a
> problem description file with the simple.py routine (see
> myPoisson_Soln.pdf) yet the interactive form has massive oscillations (see
> myPoissonInteractive_solution.
> pdf) in the solution.  The error seems to be in that the matrix for the
> interactive case is too large (1599x1599 elements for a domain of 21x21
> cells, myPoisson.py gives 399x399 elements for the same number of cells in
> the domain) and so the inversion is singular, yet I can't find where the
> error in my code could be.  Would someone please mind pointing it out to me?
>
> Thanks.
> D
>
> Output of ./simple.py myPoisson.py:
> sfepy: left over: ['verbose', '__builtins__', 'n_step', 'dims', 'shape',
> '__file__', '__name__', 't1', 'center', 'UserMeshIO', 'gen_block_mesh', 't0'
> , '__package__', 'output_dir', '_filename', 'np', 'output', '__doc__',
> 'mesh_hook']
> sfepy: reading mesh [user] (function:mesh_hook)...
> sfepy: ...done in 0.00 s
> sfepy: creating regions...
> sfepy:     Right
> sfepy:     Top
> sfepy:     Bottom
> sfepy:     Omega
> sfepy:     Left
> sfepy: ...done in 0.00 s
> sfepy: equation "Temperature":
> sfepy:
>            dw_laplace.i.Omega(cond.val, s, T)
>          - dw_surface_integrate.2.Top(insulated.val, s)
>          - dw_volume_lvf.2.Omega(G.val, s)
>
> sfepy: using solvers:
>                 ts: ts
>                nls: newton
>                 ls: ls
> sfepy: updating variables...
> sfepy: ...done
> sfepy: setting up dof connectivities...
> sfepy: ...done in 0.00 s
> sfepy: matrix shape: (399, 399)
> sfepy: assembling matrix graph...
> sfepy: ...done in 0.00 s
> sfepy: matrix structural nonzeros: 3355 (2.11e-02% fill)
> sfepy: ====== time 0.000000e+00 (step 1 of 2) =====
> sfepy: updating materials...
> sfepy:     G
> sfepy:     cond
> sfepy:     insulated
> sfepy: ...done in 0.00 s
> sfepy: nls: iter: 0, residual: 2.530862e+01 (rel: 1.000000e+00)
> sfepy:   rezidual:    0.00 [s]
> sfepy:      solve:    0.00 [s]
> sfepy:     matrix:    0.00 [s]
> sfepy: nls: iter: 1, residual: 6.515061e-14 (rel: 2.574246e-15)
> sfepy: ====== time 1.000000e-01 (step 2 of 2) =====
> sfepy: updating variables...
> sfepy: ...done
> sfepy: updating materials...
> sfepy:     G
> sfepy:     cond
> sfepy:     insulated
> sfepy: ...done in 0.00 s
> sfepy: nls: iter: 0, residual: 6.515061e-14 (rel: 1.000000e+00)
>
> Output of python myPoissonInteractive.py:
> Enter code here...sfepy: saving regions as groups...
> sfepy:   Omega
> sfepy:   Left
> sfepy:   Right
> sfepy:   Bottom
> sfepy:   Top
> sfepy: ...done
> sfepy: updating variables...
> sfepy: ...done
> sfepy: setting up dof connectivities...
> sfepy: ...done in 0.00 s
> sfepy: matrix shape: (1599, 1599)
> sfepy: assembling matrix graph...
> sfepy: ...done in 0.00 s
> sfepy: matrix structural nonzeros: 24311 (9.51e-03% fill)
> sfepy: updating materials...
> sfepy:     cond
> sfepy:     insulated
> sfepy:     G
> sfepy: ...done in 0.00 s
> sfepy: nls: iter: 0, residual: 6.169742e+01 (rel: 1.000000e+00)
> sfepy:   rezidual:    0.00 [s]
> sfepy:      solve:    0.01 [s]
> sfepy:     matrix:    0.00 [s]
> sfepy: warning: linear system solution precision is lower
> sfepy: then the value set in solver options! (err = 2.856021e+01 <
> 1.000000e-10)
> sfepy: nls: iter: 1, residual: 2.946994e+01 (rel: 4.776527e-01)
> IndexedStruct
>   condition:
>     1
>   err:
>     29.4699421316
>   err0:
>     61.6974210411
>   n_iter:
>     1
>   time_stats:
>     dict with keys: ['rezidual', 'solve', 'matrix']
>
>
>
>
> On Friday, 16 December 2016 10:54:39 UTC+1, Robert Cimrman wrote:
>>
>> Hi David,
>>
>> The main problem is having 'vector' in the field creation (line 119) -
>> this
>> means, that your variables are vectors, and not scalars, as required by
>> the
>> Laplace term. Try replacing that with 'scalar' or 1.
>>
>> As for materials, you can use simply:
>>
>> coef = Material('coef', val=2.0)
>>
>> etc.
>>
>> r.
>>
>> On 12/16/2016 10:46 AM, David Jessop wrote:
>>> Here's the complete problem description file.
>>>
>>> On Tuesday, 6 December 2016 15:26:44 UTC+1, David Jessop wrote:
>>>>
>>>>
>>>> <
>> https://lh3.googleusercontent.com/-nqPKBodss14/WEbGCb-rgXI/AAAAAAAAA70/sQ8dedCI87g1P1S984VDxaC8wnJ26NsLwCLcB/s1600/non-linear_Poisson.png>
>>
>>>> Hi,
>>>>
>>>> I have a non-linear form of the Poisson equation where the "diffusion"
>>>> coefficient depends on the derivatives of the state variable (see
>> image).
>>>> There are no Dirichlet-type boundary conditions (i.e. no ebcs) so I
>> really
>>>> need to specify a good initial guess at the solution.
>>>>
>>>> My questions are:
>>>> 1) How are initial guesses passed to the solver?  From the
>> documentation,
>>>> it doesn't seem like initial guesses can be directly passed to the
>>>> nls.newton solver as an argument (though they are an argument of the
>>>> subroutine __call__).
>>>> 2) In what form should the initial guess vector/array be written?  Can
>> a
>>>> function be passed?  Do numerical values have be be specified at the
>> mesh
>>>> nodes?
>>>>
>>>> Thanks for any help on this matter.
>>>>
>>>> D
>>>>
>>>
>>
>>
>