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November 2, 2016, 00:53
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[simpleFoam] Floating point exception
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#1 |
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New Member
Siyu Chen
Join Date: Sep 2016
Location: Houghton, USA
Posts: 7
Rep Power: 10  |
Hi, I am Siyu, a beginner.
I want to simulate the flow through aggregates in 2D using simpleFoam solver. The aggregates are scanned from X-ray CT. Then I import just two pictures into 3D Slicer, and export as STL file. I used blockMesh, snappyHexMesh, and checkMesh. But when I type "simpleFoam", this error coming out. According to some of the information through Google and on this forum, I thought it may be (1) Boundary condition; (2) Meshing. Actually, I have revised in these two aspects for days. Problem still can NOT be resolved. Please help me think about it. Thanks. All of the files before meshing are available at (I uploaded on Google Drive): https://drive.google.com/open?id=0B4...GcwQTdHdmptWk0 Some details as following: ----------------'Geometry'----------------- Set up face as the inlet, bottom face as the outlet, no value for left and right face, empty for front and back faces. https://drive.google.com/open?id=0B4...01PRFBRcHlWWmc ----------------boundary condition----------------- Code:
// p
dimensions [0 2 -2 0 0 0 0];
internalField uniform 0;
boundaryField
{
Agg
{
//type zeroGradient;
type fixedValue;
value uniform 0;
}
inlet
{
type zeroGradient;
//type fixedValue;
//value uniform 1e-3;
}
outlet
{
//type fixedFluxPressure;
type fixedValue;
value uniform 0;
}
left
{
type zeroGradient;
}
right
{
type zeroGradient;
}
frontAndBack
{
type empty;
}
}
Code:
// U
dimensions [0 1 -1 0 0 0 0];
internalField uniform (0 0 0);
boundaryField
{
Agg
{
type noSlip;
//type fixedValue;
//value uniform (0 0 0);
}
inlet
{
//type zeroGradient;
type fixedValue;
value uniform (0 -0.001 0);
}
outlet
{
type inletOutlet;
//value uniform 0;
inletValue uniform (0 0 0);
}
left
{
type noSlip;
//type fixedValue;
//value uniform (0 0 0);
}
right
{
type noSlip;
//type fixedValue;
//value uniform (0 0 0);
}
frontAndBack
{
type empty;
}
}
Code:
Create time
Create polyMesh for time = 0
Time = 0
Mesh stats
points: 1825571
faces: 3949696
internal faces: 3216923
cells: 1085217
faces per cell: 6.60386
boundary patches: 6
point zones: 0
face zones: 0
cell zones: 0
Overall number of cells of each type:
hexahedra: 728927
prisms: 58108
wedges: 0
pyramids: 0
tet wedges: 0
tetrahedra: 0
polyhedra: 298182
Breakdown of polyhedra by number of faces:
faces number of cells
5 42486
6 90848
7 714
8 2476
9 90836
10 1421
11 1044
12 49539
13 100
14 394
15 18045
16 2
17 5
18 271
21 1
Checking topology...
Boundary definition OK.
***Total number of faces on empty patches is not divisible by the number of cells in the mesh. Hence this mesh is not 1D or 2D.
Cell to face addressing OK.
Point usage OK.
Upper triangular ordering OK.
Face vertices OK.
Number of regions: 1 (OK).
Checking patch topology for multiply connected surfaces...
Patch Faces Points Surface topology
inlet 100 202 ok (non-closed singly connected)
outlet 100 202 ok (non-closed singly connected)
left 100 202 ok (non-closed singly connected)
right 100 202 ok (non-closed singly connected)
frontAndBack 116838 141393 ok (non-closed singly connected)
Agg 615535 661836 multiply connected (shared edge)
<<Writing 153 conflicting points to set nonManifoldPoints
Checking geometry...
Overall domain bounding box (-100 -100 0) (0 0 1)
Mesh has 2 geometric (non-empty/wedge) directions (1 1 0)
Mesh has 2 solution (non-empty) directions (1 1 0)
***Number of edges not aligned with or perpendicular to non-empty directions: 1054845
<<Writing 1500798 points on non-aligned edges to set nonAlignedEdges
Boundary openness (7.90745e-18 -1.62165e-17 4.64804e-15) OK.
Max cell openness = 1.34114e-15 OK.
Max aspect ratio = 25.2667 OK.
Minimum face area = 1.05879e-22. Maximum face area = 1.00726. Face area magnitudes OK.
***Zero or negative cell volume detected. Minimum negative volume: -2.52891e-07, Number of negative volume cells: 31
<<Writing 31 zero volume cells to set zeroVolumeCells
Mesh non-orthogonality Max: 179.57 average: 19.4536
*Number of severely non-orthogonal (> 70 degrees) faces: 604.
***Number of non-orthogonality errors: 20.
<<Writing 624 non-orthogonal faces to set nonOrthoFaces
***Error in face pyramids: 1184 faces are incorrectly oriented.
<<Writing 1171 faces with incorrect orientation to set wrongOrientedFaces
***Max skewness = 167.391, 144 highly skew faces detected which may impair the quality of the results
<<Writing 144 skew faces to set skewFaces
Coupled point location match (average 0) OK.
Failed 5 mesh checks.
End
fvSolution Code:
solvers
{
p
{
solver PCG;
preconditioner DIC;
tolerance 1e-07;
relTol 0.1;
}
U
{
solver PBiCG;
preconditioner DILU;
tolerance 1e-07;
relTol 0;
}
}
SIMPLE
{
nNonOrthogonalCorrectors 0;
residualControl
{
p 1e-5;
U 1e-5;
}
pRefCell 0;
pRefValue 0;
}
relaxationFactors
{
p 0.15;
U 0.94;
}
fvSchemes Code:
ddtSchemes
{
default steadyState;
}
gradSchemes
{
default Gauss linear;
grad(p) Gauss linear;
}
divSchemes
{
default none;
div(phi,U) bounded Gauss limitedLinearV 1;
div((nuEff*dev2(T(grad(U))))) Gauss linear;
// div(phid,p) Gauss limitedLinear 1;
// div(phiU,p) Gauss linear;
// div(U) Gauss linear;
}
laplacianSchemes
{
default none;
laplacian(nuEff,U) Gauss linear corrected;
laplacian((1|A(U)),p) Gauss linear corrected;
}
interpolationSchemes
{
default linear;
}
snGradSchemes
{
default corrected;
}
fluxRequired
{
default no;
p ;
}
Code:
... Time = 28 DILUPBiCG: Solving for Ux, Initial residual = 0.576676, Final residual = 9.89667e-08, No Iterations 11 DILUPBiCG: Solving for Uy, Initial residual = 0.589817, Final residual = 2.19584e-08, No Iterations 12 DICPCG: Solving for p, Initial residual = 0.909012, Final residual = 258.481, No Iterations 1001 time step continuity errors : sum local = 3.31355e+20, global = 4.27055e+16, cumulative = 4.27046e+16 ExecutionTime = 300.04 s ClockTime = 306 s Time = 29 DILUPBiCG: Solving for Ux, Initial residual = 0.930444, Final residual = 3.52896e-08, No Iterations 15 DILUPBiCG: Solving for Uy, Initial residual = 0.940062, Final residual = 1.46116e-08, No Iterations 13 DICPCG: Solving for p, Initial residual = 0.987867, Final residual = 7531.96, No Iterations 1001 time step continuity errors : sum local = 4.12972e+30, global = 3.83275e+27, cumulative = 3.83275e+27 ExecutionTime = 363.53 s ClockTime = 370 s Time = 30 DILUPBiCG: Solving for Ux, Initial residual = 0.938886, Final residual = 6.16514e-08, No Iterations 32 DILUPBiCG: Solving for Uy, Initial residual = 0.905041, Final residual = 4.36084e-08, No Iterations 28 #0 Foam::error::printStack(Foam::Ostream&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #1 Foam::sigFpe::sigHandler(int) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #2 ? in "/lib64/libc.so.6" #3 Foam::DICPreconditioner::calcReciprocalD(Foam::Field<double>&, Foam::lduMatrix const&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #4 Foam::DICPreconditioner::DICPreconditioner(Foam::lduMatrix::solver const&, Foam::dictionary const&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #5 Foam::lduMatrix::preconditioner::addsymMatrixConstructorToTable<Foam::DICPreconditioner>::New(Foam::lduMatrix::solver const&, Foam::dictionary const&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #6 Foam::lduMatrix::preconditioner::New(Foam::lduMatrix::solver const&, Foam::dictionary const&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #7 Foam::PCG::solve(Foam::Field<double>&, Foam::Field<double> const&, unsigned char) const in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #8 Foam::fvMatrix<double>::solveSegregated(Foam::dictionary const&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libfiniteVolume.so" #9 Foam::fvMatrix<double>::solve(Foam::dictionary const&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" #10 Foam::fvMatrix<double>::solve() in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" #11 ? in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" #12 __libc_start_main in "/lib64/libc.so.6" #13 ? in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" Floating point exception Thanks for your help! |
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November 2, 2016, 02:12
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#2 |
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Member
Arsalan
Join Date: Jul 2014
Posts: 74
Rep Power: 12 |
Hi Siyu,
It's quite obvious from checkMesh report that your mesh quality is so terrible, negative minimum volume, high non-orthogonality, incorrect orientation, high max skewness and all the bad.Try to work out the mesh and resolve any problems you're facing. Regards, Arsalan. |
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November 2, 2016, 08:24
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#3 | |
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New Member
Siyu Chen
Join Date: Sep 2016
Location: Houghton, USA
Posts: 7
Rep Power: 10 |
Thanks for your reply. I will check with it.
Quote:
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November 3, 2016, 10:29
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checkMesh
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#4 | |
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New Member
Siyu Chen
Join Date: Sep 2016
Location: Houghton, USA
Posts: 7
Rep Power: 10 |
Hi Arsalan,
I found that if I do NOT have the "refinementSurfaces", the checkMesh will be ok. In snappyHexMeshDict, I change "level (5 6)" to "level (0 0)". Code:
refinementSurfaces
{
Agg
{
// Surface-wise min and max refinement level
level (0 0);
}
Code:
Build : v1606+
Exec : checkMesh
Date : Nov 03 2016
Time : 14:07:21
Host : "4576fc08b5fb"
PID : 490
Case : /Users/siyu/OpenFOAM/docker-v1606+/run/agg_2d
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
Time = 0
Mesh stats
points: 20402
internal points: 0
faces: 40200
internal faces: 19800
cells: 10000
faces per cell: 6
boundary patches: 5
point zones: 0
face zones: 0
cell zones: 0
Overall number of cells of each type:
hexahedra: 10000
prisms: 0
wedges: 0
pyramids: 0
tet wedges: 0
tetrahedra: 0
polyhedra: 0
Checking topology...
Boundary definition OK.
Cell to face addressing OK.
Point usage OK.
Upper triangular ordering OK.
Face vertices OK.
Number of regions: 1 (OK).
Checking patch topology for multiply connected surfaces...
Patch Faces Points Surface topology
inlet 100 202 ok (non-closed singly connected)
outlet 100 202 ok (non-closed singly connected)
left 100 202 ok (non-closed singly connected)
right 100 202 ok (non-closed singly connected)
frontAndBack 20000 20402 ok (non-closed singly connected)
Checking geometry...
Overall domain bounding box (-100 -100 0) (0 0 1)
Mesh has 2 geometric (non-empty/wedge) directions (1 1 0)
Mesh has 2 solution (non-empty) directions (1 1 0)
All edges aligned with or perpendicular to non-empty directions.
Boundary openness (0 0 0) OK.
Max cell openness = 0 OK.
Max aspect ratio = 1 OK.
Minimum face area = 1. Maximum face area = 1. Face area magnitudes OK.
Min volume = 1. Max volume = 1. Total volume = 10000. Cell volumes OK.
Mesh non-orthogonality Max: 0 average: 0
Non-orthogonality check OK.
Face pyramids OK.
Max skewness = 0 OK.
Coupled point location match (average 0) OK.
Mesh OK.
--> FOAM Warning :
From function virtual Foam::polyMesh::readUpdateState Foam::polyMesh::readUpdate()
in file meshes/polyMesh/polyMeshIO.C at line 203
unexpected consequences. Proceed with care.
Time = 1
Mesh stats
points: 16786
internal points: 0
faces: 32404
internal faces: 15614
cells: 8003
faces per cell: 6
boundary patches: 6
point zones: 0
face zones: 0
cell zones: 0
Overall number of cells of each type:
hexahedra: 8003
prisms: 0
wedges: 0
pyramids: 0
tet wedges: 0
tetrahedra: 0
polyhedra: 0
Checking topology...
Boundary definition OK.
***Total number of faces on empty patches is not divisible by the number of cells in the mesh. Hence this mesh is not 1D or 2D.
Cell to face addressing OK.
Point usage OK.
Upper triangular ordering OK.
Face vertices OK.
Number of regions: 1 (OK).
Checking patch topology for multiply connected surfaces...
Patch Faces Points Surface topology
inlet 100 202 ok (non-closed singly connected)
outlet 100 202 ok (non-closed singly connected)
left 100 202 ok (non-closed singly connected)
right 100 202 ok (non-closed singly connected)
frontAndBack 15992 16774 ok (non-closed singly connected)
Agg 398 784 ok (non-closed singly connected)
Checking geometry...
Overall domain bounding box (-100 -100 0) (0 0 1)
Mesh has 2 geometric (non-empty/wedge) directions (1 1 0)
Mesh has 2 solution (non-empty) directions (1 1 0)
All edges aligned with or perpendicular to non-empty directions.
Boundary openness (0 0 0) OK.
Max cell openness = 0 OK.
Max aspect ratio = 1 OK.
Minimum face area = 1. Maximum face area = 1. Face area magnitudes OK.
Min volume = 1. Max volume = 1. Total volume = 8003. Cell volumes OK.
Mesh non-orthogonality Max: 0 average: 0
Non-orthogonality check OK.
Face pyramids OK.
Max skewness = 0 OK.
Coupled point location match (average 0) OK.
Mesh OK.
Time = 2
Mesh stats
points: 16562
internal points: 0
faces: 32292
internal faces: 15614
cells: 8003
faces per cell: 5.98601
boundary patches: 6
point zones: 0
face zones: 0
cell zones: 0
Overall number of cells of each type:
hexahedra: 7891
prisms: 112
wedges: 0
pyramids: 0
tet wedges: 0
tetrahedra: 0
polyhedra: 0
Checking topology...
Boundary definition OK.
***Total number of faces on empty patches is not divisible by the number of cells in the mesh. Hence this mesh is not 1D or 2D.
Cell to face addressing OK.
Point usage OK.
Upper triangular ordering OK.
Face vertices OK.
Number of regions: 1 (OK).
Checking patch topology for multiply connected surfaces...
Patch Faces Points Surface topology
inlet 100 202 ok (non-closed singly connected)
outlet 100 202 ok (non-closed singly connected)
left 100 202 ok (non-closed singly connected)
right 100 202 ok (non-closed singly connected)
frontAndBack 15992 16561 ok (non-closed singly connected)
Agg 286 560 ok (non-closed singly connected)
Checking geometry...
Overall domain bounding box (-100 -100 0) (0 0 1)
Mesh has 2 geometric (non-empty/wedge) directions (1 1 0)
Mesh has 2 solution (non-empty) directions (1 1 0)
All edges aligned with or perpendicular to non-empty directions.
Boundary openness (0 3.39742e-18 1.78846e-15) OK.
Max cell openness = 2.22205e-16 OK.
Max aspect ratio = 8.88166 OK.
Minimum face area = 0.0201718. Maximum face area = 2.01033. Face area magnitudes OK.
Min volume = 0.0304974. Max volume = 2.01033. Total volume = 8015.75. Cell volumes OK.
Mesh non-orthogonality Max: 64.7428 average: 2.67785
Non-orthogonality check OK.
Face pyramids OK.
Max skewness = 1.00593 OK.
Coupled point location match (average 0) OK.
Mesh OK.
End
Code:
Time = 815 DILUPBiCG: Solving for Ux, Initial residual = 0.334857, Final residual = 2.99063e-08, No Iterations 7 DILUPBiCG: Solving for Uy, Initial residual = 0.324766, Final residual = 8.88104e-08, No Iterations 7 DICPCG: Solving for p, Initial residual = 2.41506e-05, Final residual = 2.29941e-06, No Iterations 17 time step continuity errors : sum local = 1.95843e+78, global = 4.69163e+77, cumulative = 7.87177e+77 ExecutionTime = 13.72 s ClockTime = 19 s Time = 816 #0 Foam::error::printStack(Foam::Ostream&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #1 Foam::sigFpe::sigHandler(int) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #2 ? in "/lib64/libc.so.6" #3 double Foam::sumProd<double>(Foam::UList<double> const&, Foam::UList<double> const&) in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #4 Foam::PBiCG::solve(Foam::Field<double>&, Foam::Field<double> const&, unsigned char) const in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so" #5 ? in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" #6 ? in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" #7 ? in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" #8 __libc_start_main in "/lib64/libc.so.6" #9 ? in "/opt/OpenFOAM/OpenFOAM-v1606+/platforms/linux64GccDPInt32Opt/bin/simpleFoam" Floating point exception Thanks! Quote:
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| Tags |
| simplefoam; mesh |
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