Another issue: I tried this Cahn Hilliard example http://pastebin.com/9UZJ2h24 with trilinos instead of pysparse, and the results seem to differ. The phase separation doesn't seem to occur with the trilinos solver.
On Fri, Jan 24, 2014 at 7:23 PM, Jane Hung <jyh...@mit.edu> wrote: > Could you give more details about how to extend the overlaps along the top > and bottom of the mesh? Should it be something like this > mesh=Grid2D(nx=500,ny=500,dx=0.25, dy=0.25, overlap=2) ? How could you > specify the top and bottom need to be joined? > > > On Fri, Jan 24, 2014 at 11:54 AM, Daniel Wheeler < > daniel.wheel...@gmail.com> wrote: > >> On Fri, Jan 24, 2014 at 10:44 AM, Jane Hung <jyh...@mit.edu> wrote: >> > Actually I got it working in Ubuntu, but the parallel implementation >> doesn't >> > give expected results, as in different from running in serial. The >> > parallelization setup seems fine from the command line test on the >> site. Do >> > periodic grids work when running in parallel? >> >> As far as I can tell, they do not work in parallel. This simple test >> doesn't do the right thing in parallel. >> >> import fipy as fp >> >> m = fp.PeriodicGrid2D(nx=10, ny=10, dx=1., dy=1.) >> v = fp.CellVariable(mesh=m, value=0.) >> v.setValue(1., where=(m.x < 1) & (m.y < 1)) >> (fp.TransientTerm() == fp.DiffusionTerm()).solve(v, dt=0.1) >> >> from fipy.tools.debug import PRINT >> PRINT(v.value, stall=False) >> >> It is clear that the grid is not communicating in the top to bottom >> direction in parallel. >> >> > If not, how could periodic >> > boundary conditions be implemented? >> >> Ideally, Gmsh would do this for us, but I don't believe that it has >> any notion of periodicity. To make it work for the "sliced >> partitioned" grids in FiPy is probably not that difficult, but I don't >> have time to do this right now. It is just a question of extending the >> overlaps to join along the top and bottom of the mesh. The left-right >> overlaps already work being on the same processor since the >> partitioning is only along the y-axis. >> >> Hope that helps. >> >> -- >> Daniel Wheeler >> _______________________________________________ >> fipy mailing list >> fipy@nist.gov >> http://www.ctcms.nist.gov/fipy >> [ NIST internal ONLY: https://email.nist.gov/mailman/listinfo/fipy ] >> > > > > -- > Jane Hung > Graduate Student | MIT Department of Chemical Engineering > Hatton Lab 66-325 | Doyle Lab E18-509 > jyh...@mit.edu | 415.952.6325 > -- Jane Hung Graduate Student | MIT Department of Chemical Engineering Hatton Lab 66-325 | Doyle Lab E18-509 jyh...@mit.edu | 415.952.6325
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