[Gmsh] Mesh Problems when changing Versions

Mark Mccrea ummccrem at myumanitoba.ca
Fri Mar 6 18:11:10 CET 2015

Good day.

I have recently started to have some problems with using gmsh and Elmer to create field maps for use in Garfield++.  Initially using Gmsh 2.6.1 with Elmer library version 7.0 (rev 6109M) under MacOsX 10.8.5 the meshing and solving worked.  For larger meshes and more events I am trying to move to my groups simulation server.

My meshing and solver commands are:

>    gmsh n3HeTarget.geo -3 -order 2
>    ElmerGrid 14 2 n3HeTarget.msh -autoclean

>    ElmerSolver n3HeTarget-400V.sif

When moving to the server  it was required to update gmsh from 2.6.1 for 64bit support.  I went to gmsh2.8.5.  I also changed to the newest (at the time) Elmer, version 7 (rev7023).

Now using the same input files the meshing and elmergrid seem to work but the ElmerSolver now finds a large number of degenerate points in the mesh and gives error messages of the form:

ERROR:: ElementMetric: Degenerate 3D element: 191783
ElementMetric: DetG:  -1.735E-18
ElementMetric: Node: 1 Coord:   9.754E-01   6.739E+00   1.270E+00
ElementMetric: Node: 2 Coord:   9.754E-01   6.439E+00   1.270E+00
ElementMetric: Node: 3 Coord:   1.474E+00   6.888E+00   1.233E+00
ElementMetric: Node: 4 Coord:   1.474E+00   6.289E+00   1.233E+00
ElementMetric: Node: 5 Coord:   9.754E-01   6.589E+00   1.270E+00
ElementMetric: Node: 6 Coord:   1.225E+00   6.664E+00   1.252E+00
ElementMetric: Node: 7 Coord:   1.225E+00   6.813E+00   1.252E+00
ElementMetric: Node: 8 Coord:   1.225E+00   6.514E+00   1.252E+00
ElementMetric: Node: 9 Coord:   1.225E+00   6.364E+00   1.252E+00
ElementMetric: Node: 10 Coord:   1.474E+00   6.589E+00   1.233E+00
ElementMetric: Node: 2 dCoord:   0.000E+00  -2.995E-01   0.000E+00
ElementMetric: Node: 3 dCoord:   4.987E-01   1.497E-01  -3.653E-02
ElementMetric: Node: 4 dCoord:   4.987E-01  -4.492E-01  -3.653E-02
ElementMetric: Node: 5 dCoord:   0.000E+00  -1.497E-01   0.000E+00
ElementMetric: Node: 6 dCoord:   2.493E-01  -7.487E-02  -1.827E-02
ElementMetric: Node: 7 dCoord:   2.493E-01   7.487E-02  -1.827E-02
ElementMetric: Node: 8 dCoord:   2.493E-01  -2.246E-01  -1.827E-02
ElementMetric: Node: 9 dCoord:   2.493E-01  -3.744E-01  -1.827E-02
ElementMetric: Node: 10 dCoord:   4.987E-01  -1.497E-01  -3.653E-02

it tries to complete the field solution and looks like it might have worked but the field is wrong or won't load in Garfield++.  So while the first error message is given by ElmerSolver but the the .msh generated by gmsh2.8.5 and elmergrid is significantly reduced in size (file size and node count) compared to the original mesh made with gmsh2.6.1,

Opening either mesh in gmsh seems to look good, all of the physical volumes and the overall mesh volume look good, and similar.

Has anyone had similar problems?

or know if the .msh output format has changed?

My .geo and .sif files are attached as well as a terminal logs for each setup showing what was done.

Mark McCrea
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