<html>
<head>
<title></title>
</head>
<body style="font-family:Arial;font-size:14px">
<p>Hello,<br>
<br>
Hello,I found my bug: The indices of the points are offseted in the function DMPlexCreateFromCellList.<br>
Using the correct indicices in the DMPlexSetLabelValue leads to the expected behaviour.<br>
<br>
Thanks you.<br>
Olivier B<br>
<br>
Quoting <a href="mailto:obonnefon@paca.inra.fr">obonnefon@paca.inra.fr</a>:</p>
<blockquote style="border-left:2px solid blue;margin-left:2px;padding-left:12px;" type="cite">
<p>Hello,<br>
<br>
Ok, I did it:<br>
ierr = DMPlexCreateFromCellList(comm,dim,8,9,3,0,obcells,2,obvertex,dm);CHKERRQ(ierr);<br>
for (i=0;i<obNbBound;i++){<br>
ierr =DMPlexSetLabelValue(*dm, "marker", obboundary[i], 1);CHKERRQ(ierr);<br>
}<br>
<br>
but, it is not efficient: The degree of freedom are still present in the linear system.<br>
In the source of DMPlexCreateSquareBoundary, the label is set for the edges and for the points.<br>
Do I have to do something like this ?<br>
Thanks,<br>
Olivier B<br>
<br>
Quoting Matthew Knepley <<a href="mailto:knepley@gmail.com">knepley@gmail.com</a>>:</p>
<blockquote style="border-left:2px solid blue;margin-left:2px;padding-left:12px;" type="cite">
<div dir="ltr">On Tue, Aug 20, 2013 at 10:16 AM, Olivier Bonnefon <span dir="ltr"><<a href="mailto:olivier.bonnefon@avignon.inra.fr" target="_blank">olivier.bonnefon@avignon.inra.fr</a>></span> wrote:<br>
<div class="gmail_extra">
<div class="gmail_quote">
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>Hello,<br>
<br>
Thank-you, I'm using DMPlexCreateFromCellList(), and it works except for the boundary conditions.<br>
I'm using Dirichlet boundary conditions, and the corresponding degree of freedom are not substituted (like when I use DMPlexCreateBoxMesh).<br>
So, I do have missing a step to define the boundary ?</div>
</div>
</blockquote>
<div> </div>
<div>Yes. For the other formats, it translates boundary markers to DMLabels. With the CellList you will have to label your boundary.</div>
<div>If you want it to work exactly as in the example, for every point p on your boundary,</div>
<div> </div>
<div> DMPlexSetLabelValue(dm, "marker", p, 1);</div>
<div> </div>
<div>You can avoid the string lookup by using</div>
<div> </div>
<div> DMPlexCreateLabel(dm, "marker");</div>
<div> DMPlexGetLabel(dm, "marker", &label);</div>
<div> DMLabelSetValue(label, p, 1);</div>
<div> </div>
<div>Obviously, if you have multiple BC, you can use a label for each condition.</div>
<div> </div>
<div> Thanks,</div>
<div> </div>
<div> Matt</div>
<div> </div>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>Olivier B<br>
<br>
<br>
On 08/20/2013 03:08 PM, Matthew Knepley wrote:</div>
<blockquote type="cite">
<div dir="ltr">On Tue, Aug 20, 2013 at 7:50 AM, Olivier Bonnefon <span dir="ltr"><<a href="mailto:olivier.bonnefon@avignon.inra.fr" target="_blank">olivier.bonnefon@avignon.inra.fr</a>></span> wrote:<br>
<div class="gmail_extra">
<div class="gmail_quote">
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<p>Hello,<br>
<br>
I have modify the ex12.c example for a like diffusive problem (FEM+unstructured mesh+SNES).<br>
The next step, is to replace the square mesh by my own mesh.<br>
I want import my mesh from a simple file, and after distributed it with DMPlexDistribute.<br>
Is it the good way ?<br>
Is it possible to import a mesh in petsc ? I didn't find the answer in the documentation. Is there an example ?</p>
</blockquote>
<div> </div>
<div>There are a few formats supported:</div>
<div> </div>
<div> 1) Cell-vertex: DMPlexCreateFromCellList()</div>
<div> </div>
<div> 2) Exodus: DMPlexCreateExodus()</div>
<div> </div>
<div> 3) CGNS: DMPlexCreateCGNS()</div>
<div> </div>
<div> Thanks,</div>
<div> </div>
<div> Matt</div>
<div> </div>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<p>Thanks<br>
<span><font color="#888888">Olivier Bonnefon<br>
<br>
--<br>
Olivier Bonnefon<br>
INRA PACA-Avignon, Unité BioSP<br>
Tel: <a href="tel:%2B33%20%280%294%2032%2072%2021%2058" target="_blank" value="+33432722158">+33 (0)4 32 72 21 58</a></font></span><br>
</p>
</blockquote>
</div>
<br>
<br clear="all">
<div> </div>
<span class="HOEnZb"><font color="#888888">--<br>
What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.<br>
-- Norbert Wiener</font></span></div>
</div>
</blockquote>
<br>
<br>
<pre cols="72">
<span class="HOEnZb"><font color="#888888">--
Olivier Bonnefon
INRA PACA-Avignon, Unité BioSP
Tel: <a href="tel:%2B33%20%280%294%2032%2072%2021%2058" target="_blank" value="+33432722158">+33 (0)4 32 72 21 58</a></font></span>
</pre></div>
</blockquote>
</div>
<br>
<br clear="all">
<div> </div>
--<br>
What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.<br>
-- Norbert Wiener</div>
</div>
</blockquote>
<p><br>
</p>
</blockquote>
<p><br>
<br></p>
</body>
</html>