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[snappyHexMesh] snappyHex 2.2.1 works while 2.3.0 gets core dumped |
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September 3, 2014, 09:22 |
snappyHex 2.2.1 works while 2.3.0 gets core dumped
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#1 |
Member
Luca
Join Date: Mar 2013
Posts: 68
Rep Power: 13 |
The following 2 dictionaries get successfully executed by OF 2.2.1
Code:
***HEADER REMOVED TO SHORTEN THE MESSAGE*** FoamFile { version 2.0; format ascii; class dictionary; object blockMeshDict; } // * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * // X1 -18650; //-35000.0000; X2 15000.0000; Y1 -1500.0000; Y2 1500.0000; Z1 0.0000; Z2 2000.0000; Z3 4000.0000; vertices ( ($X1 $Y1 $Z1) //0 ($X2 $Y1 $Z1) //1 ($X1 $Y2 $Z1) //2 ($X2 $Y2 $Z1) //3 ($X1 $Y1 $Z2) //4 ($X2 $Y1 $Z2) //5 ($X1 $Y2 $Z2) //6 ($X2 $Y2 $Z2) //7 ($X1 $Y1 $Z3) //8 ($X2 $Y1 $Z3) //9 ($X1 $Y2 $Z3) //10 ($X2 $Y2 $Z3) //11 ); blocks ( hex (0 1 3 2 4 5 7 6) (126 13 6) simpleGrading (1.00 1.00 20.00) hex (4 5 7 6 8 9 11 10) (126 13 6) simpleGrading (1.00 1.00 0.10) ); edges ( ); patches ( patch // KIND: patch, simmetryPlane, wall... FRONT ( (0 4 6 2) (4 8 10 6) ) patch // KIND: patch, simmetryPlane, wall... BACK ( (3 7 5 1) (7 11 9 5) ) patch // KIND: patch, simmetryPlane, wall... RIGHT ( (0 1 5 4) (4 5 9 8) ) patch // KIND: patch, simmetryPlane, wall... LEFT ( (3 2 6 7) (7 6 10 11) ) patch // KIND: patch, simmetryPlane, wall... BOT ( (0 1 3 2) ) patch // KIND: patch, simmetryPlane, wall... TOP ( (8 9 11 10) ) ); mergePatchPairs ( ); Code:
/*--------------------------------*- C++ -*----------------------------------*\ | ========= | | | \\ / F ield | OpenFOAM: The Open Source CFD Toolbox | | \\ / O peration | Version: 1.7.1 | | \\ / A nd | Web: www.OpenFOAM.com | | \\/ M anipulation | | \*---------------------------------------------------------------------------*/ FoamFile { version 2.0; format ascii; class dictionary; object snappyHexMeshDict; } // * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * // // NOTE: LARGE NUMBER OF ITERATIONS VERSION! // Which of the steps to run castellatedMesh true; snap false; addLayers false; // Geometry. Definition of all surfaces. All surfaces are of class // searchableSurface. // Surfaces are used // - to specify refinement for any mesh cell intersecting it // - to specify refinement for any mesh cell inside/outside/near // - to 'snap' the mesh boundary to the surface geometry { refinementBox { type searchableBox; min (-10000 -1500 0); //(-2 -1.5 0); max (15000 1500 4000); //( 3.5 1.5 0.7); } refinementBox2 { type searchableBox; min (0 -1500 0); //(-2 -1.5 0); max (15000 1500 4000); //( 3.5 1.5 0.7); } }; // Settings for the castellatedMesh generation. castellatedMeshControls { // Refinement parameters // ~~~~~~~~~~~~~~~~~~~~~ // If local number of cells is >= maxLocalCells on any processor // switches from from refinement followed by balancing // (current method) to (weighted) balancing before refinement. maxLocalCells 500000000; // Overall cell limit (approximately). Refinement will stop immediately // upon reaching this number so a refinement level might not complete. // Note that this is the number of cells before removing the part which // is not 'visible' from the keepPoint. The final number of cells might // actually be a lot less. maxGlobalCells 800000000; // The surface refinement loop might spend lots of iterations refining just a // few cells. This setting will cause refinement to stop if <= minimumRefine // are selected for refinement. Note: it will at least do one iteration // (unless the number of cells to refine is 0) minRefinementCells 1000; // Allow a certain level of imbalance during refining // (since balancing is quite expensive) // Expressed as fraction of perfect balance (= overall number of cells / // nProcs). 0=balance always. maxLoadUnbalance 0.10; // Number of buffer layers between different levels. // 1 means normal 2:1 refinement restriction, larger means slower // refinement. nCellsBetweenLevels 15; // Explicit feature edge refinement // ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ // Specifies a level for any cell intersected by its edges. // This is a featureEdgeMesh, read from constant/triSurface for now. features ( ); // Surface based refinement // ~~~~~~~~~~~~~~~~~~~~~~~~ // Specifies two levels for every surface. The first is the minimum level, // every cell intersecting a surface gets refined up to the minimum level. // The second level is the maximum level. Cells that 'see' multiple // intersections where the intersections make an // angle > resolveFeatureAngle get refined up to the maximum level. refinementSurfaces { } // Resolve sharp angles resolveFeatureAngle 30; //90; // Region-wise refinement // ~~~~~~~~~~~~~~~~~~~~~~ // Specifies refinement level for cells in relation to a surface. One of // three modes // - distance. 'levels' specifies per distance to the surface the // wanted refinement level. The distances need to be specified in // descending order. // - inside. 'levels' is only one entry and only the level is used. All // cells inside the surface get refined up to the level. The surface // needs to be closed for this to be possible. // - outside. Same but cells outside. refinementRegions { refinementBox { mode inside; levels ((1.0 1)); } refinementBox2 { mode inside; levels ((1.0 2)); } } // Mesh selection // ~~~~~~~~~~~~~~ // After refinement patches get added for all refinementSurfaces and // all cells intersecting the surfaces get put into these patches. The // section reachable from the locationInMesh is kept. // NOTE: This point should never be on a face, always inside a cell, even // after refinement. locationInMesh (0 0 1000); allowFreeStandingZoneFaces false; } // Settings for the snapping. snapControls { //- Number of patch smoothing iterations before finding correspondence // to surface nSmoothPatch 10; //- Relative distance for points to be attracted by surface feature point // or edge. True distance is this factor times local // maximum edge length. tolerance 4.0; //- Number of mesh displacement relaxation iterations. nSolveIter 200; //- Maximum number of snapping relaxation iterations. Should stop // before upon reaching a correct mesh. nRelaxIter 40; // Feature snapping //- Number of feature edge snapping iterations. // Leave out altogether to disable. nFeatureSnapIter 10; //- Detect (geometric) features by sampling the surface implicitFeatureSnap false; //- Use castellatedMeshControls::features explicitFeatureSnap true; //- Detect features between multiple surfaces // (only for explicitFeatureSnap, default = false) multiRegionFeatureSnap true; } // Settings for the layer addition. addLayersControls { // Are the thickness parameters below relative to the undistorted // size of the refined cell outside layer (true) or absolute sizes (false). relativeSizes true; // Per final patch (so not geometry!) the layer information layers { } // Expansion factor for layer mesh expansionRatio 1.2; //- Wanted thickness of final added cell layer. If multiple layers // is the thickness of the layer furthest away from the wall. // See relativeSizes parameter. finalLayerThickness 0.8; //- Minimum thickness of cell layer. If for any reason layer // cannot be above minThickness do not add layer. // Relative to undistorted size of cell outside layer. minThickness 0.0000000001; //0.001; //- If points get not extruded do nGrow layers of connected faces that are // also not grown. This helps convergence of the layer addition process // close to features. nGrow 0; //5; // Advanced settings //- When not to extrude surface. 0 is flat surface, 90 is when two faces // make straight angle. featureAngle 130; //- Maximum number of snapping relaxation iterations. Should stop // before upon reaching a correct mesh. nRelaxIter 40; // Number of smoothing iterations of surface normals nSmoothSurfaceNormals 20; // Number of smoothing iterations of interior mesh movement direction nSmoothNormals 30; // Smooth layer thickness over surface patches nSmoothThickness 20; // Stop layer growth on highly warped cells maxFaceThicknessRatio 0.5; // Reduce layer growth where ratio thickness to medial // distance is large maxThicknessToMedialRatio 0.3; // Angle used to pick up medial axis points minMedianAxisAngle 90; // Create buffer region for new layer terminations nBufferCellsNoExtrude 0; // Overall max number of layer addition iterations nLayerIter 300; } // Generic mesh quality settings. At any undoable phase these determine // where to undo. meshQualityControls { //- Maximum non-orthogonality allowed. Set to 180 to disable. maxNonOrtho 65; //- Max skewness allowed. Set to <0 to disable. maxBoundarySkewness 20; maxInternalSkewness 4; //- Max concaveness allowed. Is angle (in degrees) below which concavity // is allowed. 0 is straight face, <0 would be convex face. // Set to 180 to disable. maxConcave 80; //- Minimum projected area v.s. actual area. Set to -1 to disable. minFlatness 0.5; //- Minimum pyramid volume. Is absolute volume of cell pyramid. // Set to a sensible fraction of the smallest cell volume expected. // Set to very negative number (e.g. -1E30) to disable. minVol 1e-13; minTetQuality 1e-30; //- Minimum face area. Set to <0 to disable. minArea -1; //- Minimum face twist. Set to <-1 to disable. dot product of face normal //- and face centre triangles normal minTwist 0.02; //- minimum normalised cell determinant //- 1 = hex, <= 0 = folded or flattened illegal cell minDeterminant 0.00001; //- minFaceWeight (0 -> 0.5) minFaceWeight 0.02; //- minVolRatio (0 -> 1) minVolRatio 0.01; //must be >0 for Fluent compatibility minTriangleTwist -1; // Advanced //- Number of error distribution iterations nSmoothScale 30; //- amount to scale back displacement at error points errorReduction 0.75; } // Advanced // Flags for optional output // 0 : only write final meshes // 1 : write intermediate meshes // 2 : write volScalarField with cellLevel for postprocessing // 4 : write current intersections as .obj files debug 0; // Merge tolerance. Is fraction of overall bounding box of initial mesh. // Note: the write tolerance needs to be higher than this. mergeTolerance 1E-6; // ************************************************************************* // Code:
/*---------------------------------------------------------------------------*\ | ========= | | | \\ / F ield | OpenFOAM: The Open Source CFD Toolbox | | \\ / O peration | Version: 2.3.0 | | \\ / A nd | Web: www.OpenFOAM.org | | \\/ M anipulation | | \*---------------------------------------------------------------------------*/ Build : 2.3.0-f5222ca19ce6 Exec : snappyHexMesh Date : Sep 03 2014 Time : 14:13:46 Host : "Blow04" PID : 16893 Case : /home/pol/LUCA/mapping_WtSliceSmall/spectrumRecovery 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 mesh for time = 0 Read mesh in = 0.17 s Overall mesh bounding box : (-18650 -1500 0) (15000 1500 4000) Relative tolerance : 1e-06 Absolute matching distance : 0.0340194 Reading refinement surfaces. Read refinement surfaces in = 0 s Reading refinement shells. Refinement level 1 for all cells inside refinementBox Refinement level 2 for all cells inside refinementBox2 Read refinement shells in = 0 s Setting refinement level of surface to be consistent with shells. Checked shell refinement in = 0 s Reading features. Read features in = 0 s Determining initial surface intersections ----------------------------------------- Edge intersection testing: Number of edges : 62274 Number of edges to retest : 62274 Number of intersected edges : 0 Calculated surface intersections in = 0.15 s Initial mesh : cells:19656 faces:62274 points:23114 Cells per refinement level: 0 19656 Adding patches for surface regions ---------------------------------- Patch Type Region ----- ---- ------ Added patches in = 0 s Selecting decompositionMethod none Layer thickness specified as final layer and expansion ratio. Refinement phase ---------------- Found point (0 0 1000) in cell 7377 on processor 0 Surface refinement iteration 0 ------------------------------ Marked for refinement due to surface intersection : 0 cells. Determined cells to refine in = 0.02 s Selected for refinement : 0 cells (out of 19656) Stopping refining since too few cells selected. Removing mesh beyond surface intersections ------------------------------------------ Found point (0 0 1000) in global region 0 out of 1 regions. Keeping all cells in region 0 containing point (0 0 1000) Selected for keeping : 19656 cells. Edge intersection testing: Number of edges : 62274 Number of edges to retest : 0 Number of intersected edges : 0 Shell refinement iteration 0 ---------------------------- Marked for refinement due to distance to explicit features : 0 cells. Marked for refinement due to refinement shells : 14664 cells. Determined cells to refine in = 0.08 s Selected for internal refinement : 14664 cells (out of 19656) Edge intersection testing: Number of edges : 377736 Number of edges to retest : 362453 Number of intersected edges : 0 Refined mesh in = 0.94 s After refinement shell refinement iteration 0 : cells:122304 faces:377736 points:133399 Cells per refinement level: 0 4992 1 117312 Shell refinement iteration 1 ---------------------------- Marked for refinement due to distance to explicit features : 0 cells. Marked for refinement due to refinement shells : 69888 cells. Determined cells to refine in = 0.05 s Selected for internal refinement : 69888 cells (out of 122304) Edge intersection testing: Number of edges : 1864056 Number of edges to retest : 1704130 Number of intersected edges : 0 Refined mesh in = 4.8 s After refinement shell refinement iteration 1 : cells:611520 faces:1864056 points:641449 Cells per refinement level: 0 4992 1 47424 2 559104 Shell refinement iteration 2 ---------------------------- Marked for refinement due to distance to explicit features : 0 cells. Marked for refinement due to refinement shells : 0 cells. Determined cells to refine in = 0.2 s Selected for internal refinement : 0 cells (out of 611520) Stopping refining since too few cells selected. Dangling coarse cells refinement iteration 0 -------------------------------------------- Determined cells to refine in = 0.04 s Selected for refinement : 0 cells (out of 611520) Stopping refining since too few cells selected. Dangling coarse cells refinement iteration 0 -------------------------------------------- Determined cells to refine in = 0.03 s Selected for refinement : 0 cells (out of 611520) Stopping refining since too few cells selected. Splitting mesh at surface intersections --------------------------------------- Introducing baffles for 0 faces that are intersected by the surface. Edge intersection testing: Number of edges : 1864056 Number of edges to retest : 0 Number of intersected edges : 0 Created baffles in = 1.87 s After introducing baffles : cells:611520 faces:1864056 points:641449 Cells per refinement level: 0 4992 1 47424 2 559104 Introducing baffles to block off problem cells ---------------------------------------------- #0 Foam::error::printStack(Foam::Ostream&) in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libOpenFOAM.so" #1 Foam::sigSegv::sigHandler(int) in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libOpenFOAM.so" #2 in "/lib/x86_64-linux-gnu/libc.so.6" #3 Foam::List<int>::List(int, int const&) in "/opt/openfoam230/platforms/linux64GccDPOpt/bin/snappyHexMesh" #4 Foam::meshRefinement::nearestPatch(Foam::List<int> const&) const in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libautoMesh.so" #5 Foam::meshRefinement::markFacesOnProblemCells(Foam::dictionary const&, bool, Foam::Field<double> const&, Foam::List<int> const&) const in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libautoMesh.so" #6 Foam::meshRefinement::handleSnapProblems(Foam::snapParameters const&, bool, bool, Foam::Field<double> const&, Foam::dictionary const&, Foam::Time&, Foam::List<int> const&, Foam::List<int> const&) in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libautoMesh.so" #7 Foam::meshRefinement::baffleAndSplitMesh(bool, Foam::snapParameters const&, bool, bool, Foam::Field<double> const&, bool, double, Foam::dictionary const&, Foam::Time&, Foam::List<int> const&, Foam::List<int> const&, Foam::Vector<double> const&) in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libautoMesh.so" #8 Foam::autoRefineDriver::baffleAndSplitMesh(Foam::refinementParameters const&, Foam::snapParameters const&, bool, Foam::dictionary const&) in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libautoMesh.so" #9 Foam::autoRefineDriver::doRefine(Foam::dictionary const&, Foam::refinementParameters const&, Foam::snapParameters const&, bool, Foam::dictionary const&) in "/opt/openfoam230/platforms/linux64GccDPOpt/lib/libautoMesh.so" #10 in "/opt/openfoam230/platforms/linux64GccDPOpt/bin/snappyHexMesh" #11 __libc_start_main in "/lib/x86_64-linux-gnu/libc.so.6" #12 in "/opt/openfoam230/platforms/linux64GccDPOpt/bin/snappyHexMesh" Segmentation fault (core dumped) |
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September 3, 2014, 16:42 |
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#2 |
Retired Super Moderator
Bruno Santos
Join Date: Mar 2009
Location: Lisbon, Portugal
Posts: 10,981
Blog Entries: 45
Rep Power: 128 |
Greetings Luca,
If I've recognised properly the error, it is a bug in OpenFOAM 2.3.0. I accompanied a similar case here on the forum and respective bug fix sometime ago.... let me see if I can find them... oh, wait, I didn't accompany the bug fix itself, but I might have found the actual bug report+fix:
Right now I don't have enough time to check this myself, but I'll leave a note on my to-do list to into this during the weekend. In the meantime:
Bruno
__________________
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September 3, 2014, 16:49 |
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#3 |
Member
Luca
Join Date: Mar 2013
Posts: 68
Rep Power: 13 |
Thanks Bruno.
I already workaround-ed the error switching to Openfoam 2.2.1. As you can see the mesh is REALLY simple and I don't expect a difference between 2.3.0 and 2.2.1. I just wanted to understand if this is a bug and report it with the dictionaries that trigger it. Tell me if I should report it somewhere and/or provide more informations. Best regards, Luca |
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September 7, 2014, 16:54 |
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#4 |
Retired Super Moderator
Bruno Santos
Join Date: Mar 2009
Location: Lisbon, Portugal
Posts: 10,981
Blog Entries: 45
Rep Power: 128 |
Hi Luca,
I've tested this just now and the problem is already fixed in OpenFOAM 2.3.x. You'll need to build 2.3.x from source code: http://www.openfoam.org/download/git.php Best regards, Bruno |
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Tags |
core dumped, openfoam 2.3.0, snappy hex mesh |
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