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How to create isoSurface in the solver itself |
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December 13, 2011, 20:51 |
How to create isoSurface in the solver itself
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#1 |
Member
Yuri Feldman
Join Date: Mar 2011
Posts: 30
Rep Power: 15 |
Dear forum,
I am interested in coputation of Nu number on some internal surface (let say surface with the same radius, and I already have computed volScalarField R ). I want to interpolate my velocity and temperatue field in the solver (without usoin sample libriary). Any suggestions how to do it? I tried this constructor Foam:: isosurface mysurf(mesh, U, R) but it does not pass compilation. many thanks, Yuri |
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December 14, 2011, 09:02 |
Have a look to sampledIsoSurface
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#2 |
Member
Frederic Collonval
Join Date: Apr 2009
Location: Technische Universitaet Munich - Lehrstuhl fuer Thermodynamik
Posts: 53
Rep Power: 17 |
Dear Yuri,
The class you are looking for is sampledIsoSurface or sampledIsoSurfaceCell (they are define in the following directory $FOAM_SRC/sampling/sampledSurface/isoSurface/) You have to construct it from a dictionary (I advice you to create your own dictionary) like this Code:
Foam::sampledIsoSurface myIsoSurf("myIsoSurface", mesh, mydict); Code:
// Iso surface for interpolated values only type isoSurface; // always triangulated isoField R; isoValue 0.005; interpolate true; //zone ABC; // Optional: zone only //exposedPatchName fixedWalls; // Optional: zone only // regularise false; // Optional: do not simplify Code:
myIsoSurf.update(); tmp<vectorField> interpolatedU = myIsoSurf.sample(U); tmp<scalarField> interpolatedT = myIsoSurf.sample(T); Code:
myIsoSurf.update(); tmp<vectorField> interpolatedU = myIsoSurf.interpolate(Foam::interpolation<vector>(U)); tmp<scalarField> interpolatedT = myIsoSurf.interpolate(Foam::interpolation<scalar>(T)); Frederic
__________________
Frederic Collonval Technische Universität München Thermodynamics Dpt. Last edited by fcollonv; December 14, 2011 at 09:10. Reason: Sample read only the value of the cells intersecting with the surface. Interpolate do a real interpolation. |
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December 14, 2011, 17:46 |
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#3 |
Member
Yuri Feldman
Join Date: Mar 2011
Posts: 30
Rep Power: 15 |
Dear Frederic,
Thank you so much for a such comprehensive explanation. I have already started to implement it and faced with several problems. 1. I created my own dictionary. I called it sDict and put into the "system" directory of the case: FoamFile { version 2.0; format ascii; class dictionary; location "system"; object sampleDict; } // * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * // // Iso surface for interpolated values only interpolationScheme cellPointFace; surfaces ( midSphere { type isoSurface; // always triangulated isoField R; isoValue 0.4285; interpolate true; //zone ABC; // Optional: zone only //exposedPatchName fixedWalls; // Optional: zone only // regularise false; // Optional: do not simplify } ); now in my new solver I added two lines to create the dictionary ; const fileName sDict("/raid0/yurifeld/OpenFoam/run/tutorials/heatTransfer/buoyantBoussinesqPimpleFoam/SpherGap/Gap0714/Ra510e4/system/sDict"); const dictionary SampleDict(sDict); and then I create the sampling surface by sampledIsoSurface midSphere("midSphere", mesh, SampleDict); midSphere.update(); tmp<vectorField> interpolatedU = midSphere.sample(U); tmp<scalarField> interpolatedT = midSphere.sample(T); for some reason the program does not recognize the file so I am gettin a runtime error : -> FOAM FATAL IO ERROR: keyword isoField is undefined in dictionary "/raid0/yurifeld/OpenFoam/run/tutorials/heatTransfer/buoyantBoussinesqPimpleFoam/SpherGap/Gap0714/Ra510e4/system/sDict" file: /raid0/yurifeld/OpenFoam/run/tutorials/heatTransfer/buoyantBoussinesqPimpleFoam/SpherGap/Gap0714/Ra510e4/system/sDict From function dictionary::lookupEntry(const word&, bool, bool) const in file db/dictionary/dictionary.C at line 395. 2. As far as I understand if I sample volScalarField or volVectorField on the isosurface I already get an interpolated values. In this case this is not clear for me why separate interpolation functions are necessray. And how can I sample now surface field of temperature gradient: surfaceScalarField heatFlux =fvc::snGrad(T); if I just write tmp<scalarField> dTdn= midSphere.interpolate(Foam::interpolation<scalar>( T)); I get a compilation error. 3. How can I write out the interpolated/sampled fields for visualizing/debugging. I saw that there is a function print(IOstream) bu it is not clear how to work with it. Many many thanks, Yuri |
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December 15, 2011, 03:42 |
Answers to your questions
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#4 | |||
Member
Frederic Collonval
Join Date: Apr 2009
Location: Technische Universitaet Munich - Lehrstuhl fuer Thermodynamik
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Rep Power: 17 |
1. The dictionary should contain only the sub-entries of midSphere because by calling directly the class sampleIsoSurface you do a part of the job of sample: meaning you already specify that it is a surface and you give a name, so the only information missing are the parameters for the isoSurface.
To put it in a nutshell, your dictionary should look like Code:
FoamFile { version 2.0; format ascii; class dictionary; location "system"; object sampleDict; } // * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * // type isoSurface; // always triangulated isoField R; isoValue 0.4285; interpolate true; //zone ABC; // Optional: zone only //exposedPatchName fixedWalls; // Optional: zone only // regularise false; // Optional: do not simplify Quote:
Code:
00033 template <class Type> 00034 Foam::tmp<Foam::Field<Type> > 00035 Foam::sampledIsoSurface::sampleField 00036 ( 00037 const GeometricField<Type, fvPatchField, volMesh>& vField 00038 ) const 00039 { 00040 // Recreate geometry if time has changed 00041 updateGeometry(); 00042 00043 return tmp<Field<Type> >(new Field<Type>(vField, surface().meshCells())); 00044 } Quote:
Code:
volVectorField gradT =fvc::grad(T); autoPtr<Foam::interpolation<vector> > interpolator; // The interpolator need two entries: the interpolation scheme (names possible in the sample dict) and the field to be interpolated interpolator = Foam::interpolation<vector>::New(word("cellPointFace"), gradT); tmp<vectorField> dTdn = midSphere.interpolate(interpolator()); // Project the gradT on the normal of the surface tmp<scalarField> heatFlux = midSphere.project(dTdn); Quote:
Code:
vtkSurfaceWriter writer(); writer.write(outputDir, midSphere.name(), midSphere.points(), midSphere.faces(), fieldName, field, interpolateBoolean); N.B. Your code won't work if used in parallel... if this is mandatory I advice you to understand exactly the function sampleAndWrite of sampledSurfacesTemplates.C I hope it will work. Kindly, Frederic
__________________
Frederic Collonval Technische Universität München Thermodynamics Dpt. Last edited by fcollonv; December 15, 2011 at 03:45. Reason: Typo mistake |
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January 30, 2013, 14:00 |
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#5 |
Senior Member
Mieszko Młody
Join Date: Mar 2009
Location: POLAND, USA
Posts: 145
Rep Power: 17 |
Hi,
I am trying similar thing, but I have some more basic problem. Namely, my solver does not want to compile after I add line: #include "sampledIsoSurface.H" I guess I need it to define: sampledIsoSurface midSphere("midSphere", mesh, SampleDict); I have strange error, which seems to point on some OpenFOAM files: SOURCE=cuette_spr.C ; g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3 -DNoRepository -ftemplate-depth-100 -I/opt/openfoam210/src/finiteVolume/lnInclude -I/opt/openfoam210/src/meshTools/lnInclude -I/opt/openfoam210/src/surfMesh/lnInclude -I/opt/openfoam210/src/triSurface/lnInclude -I/opt/openfoam210/src/conversion/lnInclude -I/opt/openfoam210/src/sampling/lnInclude -I/opt/openfoam210/src/lagrangian/basic/lnInclude -IlnInclude -I. -I/opt/openfoam210/src/OpenFOAM/lnInclude -I/opt/openfoam210/src/OSspecific/POSIX/lnInclude -fPIC -c $SOURCE -o Make/linux64GccDPOpt/cuette_spr.o In file included from /opt/openfoam210/src/OpenFOAM/lnInclude/triangle.H:42:0, from /opt/openfoam210/src/OpenFOAM/lnInclude/triPointRef.H:35, from /opt/openfoam210/src/OpenFOAM/lnInclude/triFace.H:48, from /opt/openfoam210/src/triSurface/lnInclude/labelledTri.H:38, from /opt/openfoam210/src/triSurface/lnInclude/triSurface.H:40, from /opt/openfoam210/src/sampling/lnInclude/isoSurface.H:66, from cuette_spr.C:49: /opt/openfoam210/src/OpenFOAM/lnInclude/Random.H: In function ‘int main(int, char**)’: /opt/openfoam210/src/OpenFOAM/lnInclude/Random.H:43:1: error: ‘namespace’ definition is not allowed here In file included from /opt/openfoam210/src/OpenFOAM/lnInclude/triPointRef.H:35:0, from /opt/openfoam210/src/OpenFOAM/lnInclude/triFace.H:48, from /opt/openfoam210/src/triSurface/lnInclude/labelledTri.H:38, from /opt/openfoam210/src/triSurface/lnInclude/triSurface.H:40, from /opt/openfoam210/src/sampling/lnInclude/isoSurface.H:66, from cuette_spr.C:49: /opt/openfoam210/src/OpenFOAM/lnInclude/triangle.H:48:1: error: ‘namespace’ definition is not allowed here /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:32:1: error: a template declaration cannot appear at block scope In file included from /opt/openfoam210/src/OpenFOAM/lnInclude/triangle.H:248:0, from /opt/openfoam210/src/OpenFOAM/lnInclude/triPointRef.H:35, from /opt/openfoam210/src/OpenFOAM/lnInclude/triFace.H:48, from /opt/openfoam210/src/triSurface/lnInclude/labelledTri.H:38, from /opt/openfoam210/src/triSurface/lnInclude/triSurface.H:40, from /opt/openfoam210/src/sampling/lnInclude/isoSurface.H:66, from cuette_spr.C:49: /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:46:1: error: expected ‘;’ before ‘template’ /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:60:1: error: a template declaration cannot appear at block scope /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:69:1: error: expected ‘;’ before ‘template’ /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:75:1: error: a template declaration cannot appear at block scope /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:81:1: error: expected ‘;’ before ‘template’ /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:88:1: error: a template declaration cannot appear at block scope /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:95:1: error: expected ‘;’ before ‘template’ /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:102:1: error: a template declaration cannot appear at block scope /opt/openfoam210/src/OpenFOAM/lnInclude/triangleI.H:109:1: error: expected ‘;’ before ‘template’ createFields.H:192:11: warning: unused variable ‘pRefCell’ [-Wunused-variable] createFields.H:193:12: warning: unused variable ‘pRefValue’ [-Wunused-variable] cuette_spr.C:180:1: error: expected ‘}’ at end of input make: *** [Make/linux64GccDPOpt/cuette_spr.o] Błąd 1 I hope you can help me with this... Best MM Last edited by ziemowitzima; January 30, 2013 at 15:04. |
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January 30, 2013, 15:46 |
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#6 |
Senior Member
Mieszko Młody
Join Date: Mar 2009
Location: POLAND, USA
Posts: 145
Rep Power: 17 |
Dear Frederic,
Dear Yuri, Please ignore my previous post. I fixed this problem. I did everything like suggested in yours thread, but I still have this runtime error: HTML Code:
--> FOAM FATAL IO ERROR: keyword isoField is undefined in dictionary "/home/zima/OpenFOAM/zima-2.1.0/run/tutorials/cuette_flow/cuette_spr/system/sDict" file: /home/zima/OpenFOAM/zima-2.1.0/run/tutorials/cuette_flow/cuette_spr/system/sDict From function dictionary::lookupEntry(const word&, bool, bool) const in file db/dictionary/dictionary.C at line 400. FOAM exiting Best and thanks ZMM |
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October 13, 2013, 09:22 |
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#7 | |
Senior Member
Join Date: Nov 2012
Posts: 171
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Hi fcollonv,
When we calculate the other quantities on this iso-surface, can we also calculate the normal and tangential gradients at the points on that iso-surface? This correspond to the local coordinates maybe not the original coordinates. Thank you. Quote:
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September 8, 2014, 10:07 |
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#8 | |
New Member
Y.LANCE
Join Date: Feb 2013
Posts: 7
Rep Power: 13 |
Quote:
I know the topic is old but I have the same error. Remember how you solved this problem ? Thanks. |
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October 7, 2015, 11:44 |
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#9 |
Senior Member
Andrea Ferrari
Join Date: Dec 2010
Posts: 319
Rep Power: 16 |
Hi All,
i am trying to extract normal vectors from the constructed iso-surface. To do this i have to loop over the faces of the iso-surface and then loop over the points that belong to a particular face. If the points are arranged in the right way (i.e, clockwise or anticlockwise) the face area vectors should always point in the same direction (i.e inward or outward). This does not seem to be the case here. I printed the area vectors to check the orientation and they are not pointing in the same direction, some vectors point inward and some vectors point outward. Does this mean that the point labels in the face list are arranged randomly?..sounds weird Best, Andrea |
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July 2, 2017, 18:56 |
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#10 |
Member
Raunak Bardia
Join Date: Jan 2015
Posts: 32
Rep Power: 11 |
Hello everyone,
I am relatively new to OpenFoam. I am trying to use the sampledIsoSurface function in my solver like this: const fileName sdict(runTime.path()/"system/SurfDict"); const dictionary surf(sdict); Foam::sampledIsoSurface iso("iso",mesh,surf); But when compiling the solver I get the following error: IsointerFoam.C:75: error: ‘sampledIsoSurface’ is not a member of ‘Foam’ IsointerFoam.C:75: error: expected ‘;’ before ‘iso’ I looked through all the files but was unable to find the solution to this problem myself. Can someone please point out what am I doing wrong in this addition to the code? |
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July 3, 2017, 04:51 |
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#12 |
Senior Member
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Hi all,
@akidess Why? runTime.path() is fileName instance with overloaded / operator. @raunakbardia Do you include sampledIsoSurface.H header? |
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July 3, 2017, 04:58 |
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#13 | |
Senior Member
Anton Kidess
Join Date: May 2009
Location: Germany
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Quote:
Edit: Operator is indeed overloaded here: https://github.com/OpenFOAM/OpenFOAM...ame/fileName.C
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*On twitter @akidTwit *Spend as much time formulating your questions as you expect people to spend on their answer. |
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July 3, 2017, 10:00 |
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#14 |
Member
Raunak Bardia
Join Date: Jan 2015
Posts: 32
Rep Power: 11 |
Thanks for your replies!
@Anton: I came across the use of this forward slash operator on some online forum and it seems to be working fine here. When I tried to output the file name stored in the variable sdict, it gave me the correct output. As you rightly mentioned in the link, there is a friend operator on line # 431 which might be defining this functionality. Also, the compilation does not show any error on this statement when I run it separately as well. @Alexey: I had tried adding that header file earlier but I got this error. "could not open file sampledIsoSurface.H for source file IsointerFoam.C" I assumed that the source files are added in the dependency list on their own so I should not be including it separately. Please correct me if I am wrong. If indeed, I have to add this header file separately, then I am not sure why I am getting the aforementioned error. Thanks again for your help! |
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July 3, 2017, 10:11 |
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#15 |
Senior Member
Andrea Ferrari
Join Date: Dec 2010
Posts: 319
Rep Power: 16 |
Try to remove Foam:: and just use
Code:
sampledIsoSurface iso("iso",mesh,surf); Code:
#include "sampledIsoSurface.H" Code:
EXE_INC = \ .... -I$(LIB_SRC)/sampling/lnInclude \ ..... EXE_LIBS = \ ..... -lsampling \ ..... In my case it works just fine in this way |
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July 3, 2017, 12:12 |
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#16 |
Member
Raunak Bardia
Join Date: Jan 2015
Posts: 32
Rep Power: 11 |
Soon after I wrote my last question, I realized I should be looking at the library dependencies.
Thanks for your reply Andrea. That definitely solved the problem. My two cents to that addition is that the compilation also requires two other libraries if they are not already added in your solver EXE_INC = \ ... -I$(LIB_SRC)/sampling/lnInclude \ -I$(LIB_SRC)/triSurface/lnInclude \ -I$(LIB_SRC)/meshTools/lnInclude EXE_LIBS = \ ... -lsampling \ -lmeshTools \ -ltriSurface However, the compiled solver still doesn't work. I am facing the same error as mentioned in the posts above: Code:
--> FOAM FATAL IO ERROR: keyword isoField is undefined in dictionary "/home/rbardia/OpenFOAM/rbardia-2.1.1/run/Testing/IsoSurfaceTesting/Isointerfoam/system/SurfDict" file: /home/rbardia/OpenFOAM/rbardia-2.1.1/run/Testing/IsoSurfaceTesting/Isointerfoam/system/SurfDict From function dictionary::lookupEntry(const word&, bool, bool) const in file db/dictionary/dictionary.C at line 400. FOAM exiting Code:
/*--------------------------------*- C++ -*----------------------------------*\ | ========= | | | \\ / F ield | OpenFOAM: The Open Source CFD Toolbox | | \\ / O peration | Version: 2.1.x | | \\ / A nd | Web: www.OpenFOAM.org | | \\/ M anipulation | | \*---------------------------------------------------------------------------*/ FoamFile { version 2.0; format ascii; class dictionary; location "system"; object SurfDict; } // * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * // // Iso surface for interpolated values only type isoSurface; // always triangulated isoField alpha1; isoValue 0.5; interpolate true; //zone ABC; // Optional: zone only //exposedPatchName fixedWalls; // Optional: zone only regularise false; // Optional: do not simplify // mergeTol 1e-10; // Optional: fraction of mesh bounding box // to merge points (default=1e-6) |
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July 4, 2017, 03:56 |
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#17 |
Senior Member
Andrea Ferrari
Join Date: Dec 2010
Posts: 319
Rep Power: 16 |
sounds weird, there is probably something wrong in the way you read the dictionary. It is difficult to say more than this without seeing your source code.
best, andrea |
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July 4, 2017, 11:55 |
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#18 |
Member
Raunak Bardia
Join Date: Jan 2015
Posts: 32
Rep Power: 11 |
Thanks Andrea.
I was able to solve the issue. Instead of reading the dictionary directly I created an IOdictionary object in the createFields.H and obtained the inputs from that dictionary to create the isosurface. This idea was from one of your other posts: isoSurface normal I am not sure why this method worked while the other didn't but I will stick with this for now. |
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May 8, 2020, 05:41 |
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#19 |
Senior Member
krishna kant
Join Date: Feb 2016
Location: Hyderabad, India
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Hello All, Does this idea works on parallel run? I am facing problems in parallel run but not in serial run.
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