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Old   October 23, 2011, 05:14
Default
  #21
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Roman Thiele
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Hej Richard

I made sure that the files exist and I sourced everything again.

Code:
roman@pc070245:~/OpenFOAM/OpenFOAM-2.0.x$ export  FOAM_INST_DIR="/home/roman/OpenFOAM"; source  $FOAM_INST_DIR/OpenFOAM-2.0.x/etc/bashrc WM_GPU='CUDA'  CUDA_ARCH_PATH=/home/roman/OpenFOAM/ofgpu-0-2 WM_MPLIB=NONE
I then start the code, but I am still getting errors. The path should be right. Compiling of of-gpu went find and I didn't get any errors. I soft linked the install/release/lib to install/lib.

Code:
roman@pc070245:~/OpenFOAM/OpenFOAM-2.0.x$ ./Allwmake 
make: Nothing to be done for `all'.
no ThirdParty sources found - skipping
+ set -e
+ wmakePrintBuild -check
same version as previous build
+ wmakeLnInclude OpenFOAM
+ wmakeLnInclude OSspecific/POSIX
+ OSspecific/POSIX/Allwmake
'/home/roman/OpenFOAM/OpenFOAM-2.0.x/platforms/linux64GccDPOpt/lib/libOSspecific.o' is up to date.
+ Pstream/Allwmake
+ wmake libso dummy
'/home/roman/OpenFOAM/OpenFOAM-2.0.x/platforms/linux64GccDPOpt/lib/dummy/libPstream.so' is up to date.
+ wmake libso OpenFOAM
'/home/roman/OpenFOAM/OpenFOAM-2.0.x/platforms/linux64GccDPOpt/lib/libOpenFOAM.so' is up to date.
+ [ TRUE =  ]
+ gpu/Allwmake
+ wmake libso gpuless
'/home/roman/OpenFOAM/OpenFOAM-2.0.x/platforms/linux64GccDPOpt/lib/gpuless/libgpu.so' is up to date.
+ wmake libso cuda
SOURCE=cudaGpu.C ;  g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3  -DNoRepository -ftemplate-depth-100  -I/home/roman/OpenFOAM/ofgpu-0-2/src -IlnInclude -I. -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OpenFOAM/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64GccDPOpt/cudaGpu.o
cudaGpu.C:23:31: fatal error: ofgpu/ofgpuconfig.h: No such file or directory
compilation terminated.
make: *** [Make/linux64GccDPOpt/cudaGpu.o] Error 1
I marked something in read. I know that the path does not exist. I checked that the green-marked file and path exist. and they do. Further down the compilation it is missing many more files and always results in the same errors. like
Code:
+ wmake all utilities
make[1]: Entering directory `/home/roman/OpenFOAM/OpenFOAM-2.0.x/applications/utilities/mesh'
make[2]: Entering directory `/home/roman/OpenFOAM/OpenFOAM-2.0.x/applications/utilities/mesh/advanced'
make[3]: Entering directory `/home/roman/OpenFOAM/OpenFOAM-2.0.x/applications/utilities/mesh/advanced/PDRMesh'
SOURCE=PDRMesh.C ;  g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3  -DNoRepository -ftemplate-depth-100 -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/meshTools/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/dynamicMesh/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/finiteVolume/lnInclude -IlnInclude -I. -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OpenFOAM/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64GccDPOpt/PDRMesh.o
PDRMesh.C:45:26: fatal error: fvMeshSubset.H: No such file or directory
compilation terminated.
make[3]: *** [Make/linux64GccDPOpt/PDRMesh.o] Error 1
make[3]: Target `/home/roman/OpenFOAM/OpenFOAM-2.0.x/platforms/linux64GccDPOpt/bin/PDRMesh' not remade because of errors.
make[3]: Leaving directory `/home/roman/OpenFOAM/OpenFOAM-2.0.x/applications/utilities/mesh/advanced/PDRMesh'
make[2]: *** [PDRMesh] Error 2
make[3]: Entering directory `/home/roman/OpenFOAM/OpenFOAM-2.0.x/applications/utilities/mesh/advanced/autoRefineMesh'
SOURCE=autoRefineMesh.C ;  g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3  -DNoRepository -ftemplate-depth-100 -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/dynamicMesh/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/meshTools/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/triSurface/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/lagrangian/basic/lnInclude -IlnInclude -I. -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OpenFOAM/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64GccDPOpt/autoRefineMesh.o
autoRefineMesh.C:32:32: fatal error: twoDPointCorrector.H: No such file or directory
compilation terminated.
in this one all the green lnInclude directories are missing.
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Old   October 23, 2011, 05:21
Default To solve "fatal error: ofgpu/ofgpuconfig.h: No such file or directory"
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Hi romant,

ofgpu-0.2 does not create ./src directory. you should make it your self.
To solve "fatal error: ofgpu/ofgpuconfig.h: No such file or directory" copy "ofgpu-0-2/ofgpu" directory to "ofgpu-0-2/src/":

mkdir ofgpu-0-2/src -p
cp -r ofgpu-0-2/ofgpu ofgpu-0-2/src/

Ahmad
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Old   October 23, 2011, 05:28
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thank you, but this still leaves some errors to work on. like all the linking errors that I mentioned with the normal openfoam and now it at least tries to compile part of the of-gpu, but still runs into problem, namely, when building PBiCGgpu.C

Code:
SOURCE=PBiCGgpu.C ;  g++ -m64 -Dlinux64 -DWM_DP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -Wnon-virtual-dtor -O3  -DNoRepository -ftemplate-depth-100  -I/home/roman/OpenFOAM/ofgpu-0-2/src -IlnInclude -I. -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OpenFOAM/lnInclude -I/home/roman/OpenFOAM/OpenFOAM-2.0.x/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64GccDPOpt/PBiCGgpu.o
PBiCGgpu.C: In member function ‘virtual Foam::lduMatrix::solverPerformance Foam::PBiCGgpu::solve(Foam::scalarField&, const scalarField&, Foam::direction) const’:
PBiCGgpu.C:88:72: error: no matching function for call to ‘ofgpu::SparseMatrixArgs::SparseMatrixArgs(const char*, Foam::label, Foam::label, Foam::UList<int>::const_iterator, Foam::UList<int>::const_iterator, Foam::UList<int>::const_iterator, Foam::UList<double>::const_iterator, Foam::UList<double>::const_iterator, Foam::UList<int>::const_iterator, Foam::UList<int>::const_iterator, Foam::UList<double>::const_iterator, Foam::UList<double>::iterator, Foam::UList<double>::const_iterator, const label&, const scalar&, const scalar&, Foam::scalar&, Foam::scalar&, Foam::label&, bool&)’
PBiCGgpu.C:88:72: note: candidates are:
/home/roman/OpenFOAM/ofgpu-0-2/src/ofgpu/sparsematrixargs.h:46:5: note: ofgpu::SparseMatrixArgs::SparseMatrixArgs(const char*, ofgpu::index, ofgpu::index, const index*, const index*, const index*, const real*, const real*, const index*, const index*, const real*, ofgpu::real*, const real*, ofgpu::index, ofgpu::real, ofgpu::real, ofgpu::real&, ofgpu::real&, ofgpu::index&, bool&)
/home/roman/OpenFOAM/ofgpu-0-2/src/ofgpu/sparsematrixargs.h:46:5: note:   no known conversion for argument 7 from ‘Foam::UList<double>::const_iterator {aka const double*}’ to ‘const real* {aka const float*}’
/home/roman/OpenFOAM/ofgpu-0-2/src/ofgpu/sparsematrixargs.h:24:10: note: ofgpu::SparseMatrixArgs::SparseMatrixArgs(const ofgpu::SparseMatrixArgs&)
/home/roman/OpenFOAM/ofgpu-0-2/src/ofgpu/sparsematrixargs.h:24:10: note:   candidate expects 1 argument, 20 provided
make: *** [Make/linux64GccDPOpt/PBiCGgpu.o] Error 1
and of course the missing lnInclude directories.
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Old   October 23, 2011, 05:54
Default $WM_PRECISION or a similar environment variable
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Hi Roman,

I had the same problem. You should export $WM_PRECISION or a similar environment variable in <open-foam-root>/etc/bashrc

It should have "SP" value since ofgpu supports only single-precision floating point. For you, its value is "DP" probably.

Recompiling all modules is needed
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Old   October 24, 2011, 10:55
Default Missing src directory
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Quote:
Originally Posted by ahmadlashgar View Post
ofgpu-0.2 does not create ./src directory
I see the problem - I missed the src directory in my package hierarchy (ofgpu-0-2.tgz). I've fixed it now, should be good to go. Thanks for finding/reporting this problem.

I've also added a note about single precision in the instructions: http://www.symscape.com/gpu-0-2-openfoam
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Last edited by gocarts; October 24, 2011 at 11:01. Reason: More info
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Old   November 22, 2011, 14:01
Default Unknown function type cudaGpu
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I finished compiling and obtained libgpu.so in
platforms/linux64GccSPOpt/lib/cuda/
but when I tried pitzDailyGpu, I've got the following error
Starting time loop

--------------------------
--> FOAM Warning :
From function dlOpen(const fileName&, const bool)
in file POSIX.C at line 1141
dlopen error : gpu: cannot open shared object file: No such file or directory
--> FOAM Warning :
From function dlLibraryTable:pen(const fileName&, const bool)
in file db/dynamicLibrary/dlLibraryTable/dlLibraryTable.C at line 96
could not load "gpu"
--> FOAM Warning :
From function dlLibraryTable:pen(const dictionary&, const word&, const TablePtr&)
in file lnInclude/dlLibraryTableTemplates.C at line 67
Could not open library "gpu"

--> FOAM FATAL ERROR:
Unknown function type cudaGpu
-------------------------------------------

am I missing something here ?
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Old   November 22, 2011, 14:07
Default Check libofgpu.so
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Check that libofgpu.so is also in your LD_LIBRARY_PATH
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Old   November 22, 2011, 16:23
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Quote:
Originally Posted by arphy View Post
--> FOAM Warning :
From function dlLibraryTable:pen(const dictionary&, const word&, const TablePtr&)
in file lnInclude/dlLibraryTableTemplates.C at line 67
Could not open library "gpu"
That name in bold is unrolled to "libgpu.so".

Quote:
Originally Posted by gocarts View Post
Check that libofgpu.so is also in your LD_LIBRARY_PATH
@arphy: Along with Richard's suggestion, I'm also guessing that there is a typo somewhere in you case's "controlDict" file? "gpu" instead of "ofgpu".

Best regards,
Bruno
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Old   November 22, 2011, 17:09
Default gpu in controlDict is correct
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Quote:
Originally Posted by arphy
I finished compiling and obtained libgpu.so in
platforms/linux64GccSPOpt/lib/cuda/
It's correct to load libgpu.so ("gpu" in your controlDict) and I was thinking that given libgpu.so is in the right location, it is more likely that libofgpu.so (which libgpu.so references) was not being found and therefore loading libgpu.so would fail.

For reference libgpu.so is the bridge library between OpenFOAM and libofgpu.so. libofgpu.so is independent of OpenFOAM and only references CUDA libraries.

Quote:
Originally Posted by wyldckat
...typo somewhere in your case's "controlDict" file? "gpu" instead of "ofgpu".
No, as discussed above controlDict should refer to gpu not ofgpu.

Bruno, partly this confusion is likely because I named the libs so similar and it's easy to miss refer to the wrong one.
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Old   November 22, 2011, 17:39
Default Try replacing "gpu" with "libgpu.so"
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Another thought, try replacing "gpu" in controlDict with "libgpu.so" - though this shouldn't be necessary. I suggest this because the dlopen error message shouldn't be reported in it's raw form, at least not in OpenFOAM 2.0.x, yet that is what you are seeing.

Just to be clear which version of OpenFOAM and ofgpu are you using?
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Old   November 23, 2011, 00:46
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Quote:
Originally Posted by gocarts View Post
Another thought, try replacing "gpu" in controlDict with "libgpu.so" - though this shouldn't be necessary. I suggest this because the dlopen error message shouldn't be reported in it's raw form, at least not in OpenFOAM 2.0.x, yet that is what you are seeing.

Just to be clear which version of OpenFOAM and ofgpu are you using?

Thanks you very much for your help. It is working now.
This part in my controlDict looks like this
functions
{
cudaGpu
{
type cudaGpu;
functionObjectLibs ("libgpu.so");
cudaDevice 0;
}
}

What do you think why the normal setting does not work ?
BTW. My OpenFoam is the one I clone from the repository yesterday (have no idea how to check the version via git)
I will redo another make with your designated version of OpenFoam.

Last edited by arphy; November 23, 2011 at 02:29.
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Old   November 23, 2011, 09:46
Default Match git commit
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Quote:
Originally Posted by arphy View Post
My OpenFoam is the one I clone from the repository yesterday (have no idea how to check the version via git)
I will redo another make with your designated version of OpenFoam.
I think the version you checked out of git has a modified Foam::dlopen routine.

For the patch to work correctly you need to match the exact version of OpenFOAM from git.

git commit: 2a7a68737dba87d82500df67029a15aeda662c42, Date: Sept. 14 11:28:07 2011.

Use:
  1. git clone http://github.com/OpenFOAM/OpenFOAM-2.0.x
  2. cd OpenFOAM-2.0.x
  3. git checkout 2a7a68737dba87d82500df67029a15aeda662c42
  4. apply patch
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Old   February 12, 2012, 16:29
Default error with nviroment variable for OpenFOAM-2.1.x
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As I download OpenFOAam-2.1.x from https://github.com/OpenFOAM/OpenFOAM-2.1.x and apply the patch.

I run the foamSystemCheck to check if I can compile OpenFOAM
then I run foamInstallationTest to check if I source my ~/.bashrc correctly
and I got the errors shown below. No error during applying patch. Plz help !!

ERROR MESSAGE IN TERMINAL:
Code:
Executing ./foamInstallationTest:


Checking basic setup...
-------------------------------------------------------------------------------

FATAL ERROR: OpenFOAM environment not configured.

    Please refer to the installation section of the README file:
    <OpenFOAM installation dir>/OpenFOAM-2.1.x/README
    to source the OpenFOAM environment.
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Old   February 14, 2012, 13:20
Default Need Help debugging this message
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I'm trying to compile cuda with wmake within ~/OpenFOAM/OpenFOAM-2.1.0/src/gpu/cuda/ and have the errors shown below. What does it mean ?

Code:
g++ -m32 -Dlinux -DWM_SP -Wall -Wextra -Wno-unused-parameter -Wold-style-cast -O3  -DNoRepository -ftemplate-depth-100  -I/home/hai-nguyen/ofgpu-0-2/src -IlnInclude -I. -I/home/hai-nguyen/OpenFOAM/OpenFOAM-2.1.0/src/OpenFOAM/lnInclude -I/home/hai-nguyen/OpenFOAM/OpenFOAM-2.1.0/src/OSspecific/POSIX/lnInclude   -fPIC -Xlinker --add-needed -Xlinker --no-as-needed Make/linuxGccDPOpt/cudaGpu.o Make/linuxGccDPOpt/PBiCGgpu.o Make/linuxGccDPOpt/PCGgpu.o -L/home/hai-nguyen/OpenFOAM/OpenFOAM-2.1.0/platforms/linuxGccDPOpt/lib \
          -lOpenFOAM -ldl   -lm -o OpenFOAM.out
/usr/lib/gcc/i486-linux-gnu/4.4.3/../../../../lib/crt1.o: In function `_start':
(.text+0x18): undefined reference to `main'
Make/linuxGccDPOpt/cudaGpu.o: In function `Foam::cudaGpu::cudaGpu(Foam::word const&, Foam::Time const&, Foam::dictionary const&)':
cudaGpu.C:(.text+0x64c): undefined reference to `ofgpuConfig'
Make/linuxGccDPOpt/cudaGpu.o: In function `Foam::cudaGpu::cudaGpu(Foam::word const&, Foam::Time const&, Foam::dictionary const&)':
cudaGpu.C:(.text+0x8fc): undefined reference to `ofgpuConfig'
Make/linuxGccDPOpt/PBiCGgpu.o: In function `Foam::PBiCGgpu::PBiCGgpu(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)':
PBiCGgpu.C:(.text+0x48): undefined reference to `Foam::PBiCG::PBiCG(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)'
Make/linuxGccDPOpt/PBiCGgpu.o: In function `Foam::PBiCGgpu::PBiCGgpu(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)':
PBiCGgpu.C:(.text+0xb8): undefined reference to `Foam::PBiCG::PBiCG(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)'
Make/linuxGccDPOpt/PBiCGgpu.o: In function `Foam::PBiCGgpu::solve(Foam::Field<float>&, Foam::Field<float> const&, unsigned char) const':
PBiCGgpu.C:(.text+0x7dd): undefined reference to `ofgpuPBiCGsolve'
Make/linuxGccDPOpt/PCGgpu.o: In function `Foam::PCGgpu::PCGgpu(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)':
PCGgpu.C:(.text+0x48): undefined reference to `Foam::PCG::PCG(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)'
Make/linuxGccDPOpt/PCGgpu.o: In function `Foam::PCGgpu::PCGgpu(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)':
PCGgpu.C:(.text+0xb8): undefined reference to `Foam::PCG::PCG(Foam::word const&, Foam::lduMatrix const&, Foam::FieldField<Foam::Field, float> const&, Foam::FieldField<Foam::Field, float> const&, Foam::UPtrList<Foam::lduInterfaceField const> const&, Foam::dictionary const&)'
Make/linuxGccDPOpt/PCGgpu.o: In function `Foam::PCGgpu::solve(Foam::Field<float>&, Foam::Field<float> const&, unsigned char) const':
PCGgpu.C:(.text+0x7dd): undefined reference to `ofgpuPCGsolve'
collect2: ld returned 1 exit status
make: *** [OpenFOAM.out] Error 1
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Old   February 15, 2012, 04:00
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  #35
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Probably that you should have used 'wmake libso' to build a library instead of an executable.
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Old   March 1, 2012, 21:41
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***EDIT***
I wasn't configuring cmake correctly. I followed directions in the comments of the symscape website and now have everything working.
************

Applying
$ cmake -DCMAKE_INSTALL_PREFIX=/opt/ofgpu-0-2/install

gives me the following errors

Code:
CUDA_TOOLKIT_ROOT_DIR not found or specified
-- Could NOT find CUDA  (missing:  CUDA_TOOLKIT_ROOT_DIR CUDA_NVCC_EXECUTABLE CUDA_INCLUDE_DIRS CUDA_CUDART_LIBRARY)
CMake Error: The following variables are used in this project, but they are set to NOTFOUND.
Please set them or make sure they are set and tested correctly in the CMake files:
CUDA_CUDART_LIBRARY (ADVANCED)
    linked by target "ofgpu" in directory /opt/ofgpu-0-2/src/ofgpu
CUDA_TOOLKIT_INCLUDE (ADVANCED)
   used as include directory in directory /opt/ofgpu-0-2/src/ofgpu

-- Configuring incomplete, errors occurred!
How do I resolve these errors? Should I be using -DCMAKE_INSTALL_PREFIX=/opt/ofgpu-0-2/src/ofgpu/install?

I can apply the OF patch with no errors.
I'm on 64bit Ubuntu 10.04. For reference my $HOME/.bashrc file contains

Code:
export CUDA_HOME="/opt/cuda"
export LD_LIBRARY_PATH="${LD_LIBRARY_PATH}:${CUDA_HOME}/lib64"
export PATH=${CUDA_HOME}/bin:${PATH}

Last edited by twray; March 6, 2012 at 16:31. Reason: resolved issue
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