| limonegiallo |
August 23, 2017 13:39 |
decomposePar problem: Cell 0contains face labels out of range (Again))
5 Attachment(s)
Dear All,
When I run decomposePar I get the error message
Code:
Cell 0contains face labels out of range: 6(0 1 2 -1 -1 -1)
and I would really appreciate your help!
After the following procedure (via terminal):
Code:
1 Rename 0 folder 0.org
2 < blockMesh >
3 < surfaceFeatureExtract >
4 < decomposePar >
5 < mpirun -np 4 snappyHexMesh -overwrite -parallel >
6 < reconstructParMesh -constant -fullMatch >
7 delete all processor folders
8 delete folder 0
9 rename folder 0.org to 0
10 edit the constant/polymesh/boundary file and remove all the references to patches created by blockMesh in Step2.
Leave only the patches desired for the simulation to run.
Edit the number at the top of the text file which shows how many patches are to be setup.
11 < decomposePar >
I get this error message when I run decomposePar:
Code:
/*---------------------------------------------------------------------------*\
| ========= | |
| \\ / F ield | OpenFOAM: The Open Source CFD Toolbox |
| \\ / O peration | Version: 3.0.x |
| \\ / A nd | Web: www.OpenFOAM.org |
| \\/ M anipulation | |
\*---------------------------------------------------------------------------*/
Build : 3.0.x-ac3f6c67e02f
Exec : decomposePar
Date : Aug 23 2017
Time : 18:33:46
Host : "rbalwmba80000.bas.roche.com"
PID : 27296
Case : /home/cfdemuser/CFDEM/CFDEMcoupling-PUBLIC-3.0.x/tutorials_LORETI/cfdemSolverPiso/ErgunTestMPI2b/CFD
nProcs : 1
sigFpe : Enabling floating point exception trapping (FOAM_SIGFPE).
fileModificationChecking : Monitoring run-time modified files using timeStampMaster
allowSystemOperations : Allowing user-supplied system call operations
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
Create time
Decomposing mesh region0
Create mesh
Calculating distribution of cells
Selecting decompositionMethod simple
Finished decomposition in 3.31 s
Calculating original mesh data
Distributing cells to processors
Distributing faces to processors
Distributing points to processors
Constructing processor meshes
--> FOAM FATAL ERROR:
Cell 0contains face labels out of range: 6(0 1 2 -1 -1 -1) Max face index = 3526636
From function polyMesh::polyMesh
(
const IOobject&,
const Xfer<pointField>&,
const Xfer<faceList>&,
const Xfer<cellList>&
)
in file meshes/polyMesh/polyMesh.C at line 654.
FOAM aborting
#0 Foam::error::printStack(Foam::Ostream&) at ??:?
#1 Foam::error::abort() at ??:?
#2 Foam::polyMesh::polyMesh(Foam::IOobject const&, Foam::Xfer<Foam::Field<Foam::Vector<double> > > const&, Foam::Xfer<Foam::List<Foam::face> > const&, Foam::Xfer<Foam::List<Foam::cell> > const&, bool) at ??:?
#3 ? at ??:?
#4 ? at ??:?
#5 __libc_start_main in "/lib64/libc.so.6"
#6 ? at ??:?
Aborted (core dumped)
Additional Information: When I run mpirun -np 4 snappyHexMesh -overwrite -parallel the meshing Finishes without any errors (in = 976.01 s). Then I tried to check the mesh, with checkMesh -allGeometry -allTopology, I received this output:
Code:
/*---------------------------------------------------------------------------*\
| ========= | |
| \\ / F ield | OpenFOAM: The Open Source CFD Toolbox |
| \\ / O peration | Version: 3.0.x |
| \\ / A nd | Web: www.OpenFOAM.org |
| \\/ M anipulation | |
\*---------------------------------------------------------------------------*/
Build : 3.0.x-ac3f6c67e02f
Exec : checkMesh -allGeometry -allTopology
Date : Aug 23 2017
Time : 18:50:33
Host : "rbalwmba80000.bas.roche.com"
PID : 29055
Case : /home/cfdemuser/CFDEM/CFDEMcoupling-PUBLIC-3.0.x/tutorials_LORETI/cfdemSolverPiso/ErgunTestMPI2b/CFD
nProcs : 1
sigFpe : Enabling floating point exception trapping (FOAM_SIGFPE).
fileModificationChecking : Monitoring run-time modified files using timeStampMaster
allowSystemOperations : Allowing user-supplied system call operations
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
Create time
Create polyMesh for time = 0
Enabling all (cell, face, edge, point) topology checks.
Enabling all geometry checks.
Time = 0
Mesh stats
points: 5158977
faces: 14082002
internal faces: 13488393
cells: 4502214
faces per cell: 6.12374
boundary patches: 3
point zones: 0
face zones: 0
cell zones: 0
Overall number of cells of each type:
hexahedra: 3904264
prisms: 163980
wedges: 0
pyramids: 0
tet wedges: 485
tetrahedra: 0
polyhedra: 433485
Breakdown of polyhedra by number of faces:
faces number of cells
4 77048
5 56483
6 53872
7 628
8 130
9 186034
12 53320
15 5970
Checking topology...
****Problem with boundary patch 0 named wall of type wall. The patch should start on face no 13488393 and the patch specifies 13503393.
Possibly consecutive patches have this same problem. Suppressing future warnings.
***Boundary definition is in error.
Cell to face addressing OK.
Point usage OK.
Upper triangular ordering OK.
Face vertices OK.
Topological cell zip-up check OK.
<<Number of faces with non-consecutive shared points: 11. This might indicate a problem.
<<Writing 14 faces with non-standard edge connectivity to set edgeFaces
Number of regions: 1 (OK).
Checking patch topology for multiply connected surfaces...
Patch Faces Points Surface topology Bounding box
wall 553691 635169 ok (non-closed singly connected) (-0.0979907 -0.0979912 -6.86046e-09) (0.0980502 0.0979865 0.565054)
inlet 5918 6908 ok (non-closed singly connected) (-0.0419709 -0.04207 -9.2327e-07) (0.0421114 0.0419902 0.00074498)
outlet 19000 21379 ok (non-closed singly connected) (-0.0977539 -0.0974848 0.563514) (0.0979553 0.0976161 0.565111)
Checking geometry...
Overall domain bounding box (-0.12 -0.12 -0.05) (0.12 0.12 0.65)
Mesh has 3 geometric (non-empty/wedge) directions (1 1 1)
Mesh has 3 solution (non-empty) directions (1 1 1)
Boundary openness (3.90822e-16 4.03493e-17 -6.0453e-17) OK.
Max cell openness = 4.9229e-16 OK.
Max aspect ratio = 25.5492 OK.
Minimum face area = 4.12223e-08. Maximum face area = 7.93287e-05. Face area magnitudes OK.
Min volume = 1.97545e-11. Max volume = 3.82669e-07. Total volume = 0.0403192. Cell volumes OK.
Mesh non-orthogonality Max: 65 average: 15.041
Non-orthogonality check OK.
Face pyramids OK.
***Max skewness = 4.47871, 7 highly skew faces detected which may impair the quality of the results
<<Writing 7 skew faces to set skewFaces
Coupled point location match (average 0) OK.
#0 Foam::error::printStack(Foam::Ostream&) at ??:?
#1 Foam::sigSegv::sigHandler(int) at ??:?
#2 ? in "/lib64/libc.so.6"
#3 Foam::polyMeshTetDecomposition::checkFaceTets(Foam ::polyMesh const&, double, bool, Foam::HashSet<int, Foam::Hash<int> >*) at ??:?
#4 ? at ??:?
#5 ? at ??:?
#6 __libc_start_main in "/lib64/libc.so.6"
#7 ? at ??:?
Segmentation fault (core dumped)
Here attached you can also find some relevant txt files as snappyHexMeshDict, blockMeshDict, boundary, faceZones and p.
It is a long time that I am trying to solve this problem and I am out of ideas.
Any suggestion ??
Best,
Limone |
