reading boundaries from *_physical_region.xml file

Asked by Nico Schlömer

When dealing with custom meshes with subdomains, my typical workflow is to generate a mesh in Gmsh, convert it to XML format using dolfin-convert, and then read the mesh from the two files mymesh.xml and mymesh_physical_region.xml. The second file gives me the subdomains, e.g.,

mesh = Mesh('mymesh.xml')
subdomains = MeshFunction('size_t', mesh, 'mymesh_physical_region.xml')

From there, I typically go ahead and define the volumes,

dx = Measure('dx')[subdomains]

What I'd like to do now I also define subdomain boundary "volumes", e.g.,

ds = Measure('ds')[boundaries]

How can I generate the corresponding `boundaries`?

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Johan Hake
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Jan Blechta (blechta) said :
#1

boundaries = mesh.domains().facet_domains(mesh)

Revision history for this message
Nico Schlömer (nschloe) said :
#2

    boundaries = mesh.domains().facet_domains(mesh)
TypeError: (b) expected positive 'int' for argument

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Best Johan Hake (johan-hake) said :
#3

In trunk/master you should not need the mesh argument anymore.

Johan

On 04/07/2013 09:35 PM, Nico Schlömer wrote:
> Question #225970 on DOLFIN changed:
> https://answers.launchpad.net/dolfin/+question/225970
>
> Status: Answered => Open
>
> Nico Schlömer is still having a problem:
> boundaries = mesh.domains().facet_domains(mesh)
> TypeError: (b) expected positive 'int' for argument
>

Revision history for this message
Nico Schlömer (nschloe) said :
#4

Confirmed. Thanks!