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Compile OF2.1 with Intel Icc and Intel MPI
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hi everyone,
I am trying to install OF on Linux Mint with Intel Icc and MPI, first I test that intel mpi works then I set 66 export WM_COMPILER=Icc 85 export WM_MPLIB=INTELMPI also I add the mpi path in settings.sh 549 INTELMPI) 550 export MPI_ROOT=/opt/intel/impi/4.1.0.024 # mpi installed path 551 lastCharID=$(( ${#MPI_ROOT} - 1 )) 552 if [ "${MPI_ROOT:$lastCharID:1}" == '/' ] 553 then 554 MPI_ROOT=${MPI_ROOT:0:$lastCharID} 555 fi 556 557 export FOAM_MPI=${MPI_ROOT##*/} 558 export MPI_ARCH_PATH=$MPI_ROOT 559 560 if [ ! -d "$MPI_ROOT" -o -z "$MPI_ARCH_PATH" ] 561 then 562 echo "Warning in $WM_PROJECT_DIR/etc/config/settings.sh:" 1>&2 563 echo " MPI_ROOT not a valid mpt installation directory or ending in a '/'." 1>&2 564 echo " Please set MPI_ROOT to the mpt installation directory." 1> &2 565 echo " MPI_ROOT currently set to '$MPI_ROOT'" 1>&2 566 fi 567 568 if [ "$FOAM_VERBOSE" -a "$PS1" ] 569 then 570 echo "Using INTEL MPI:" 571 echo " MPI_ROOT : $MPI_ROOT" 572 echo " FOAM_MPI : $FOAM_MPI" 573 fi 574 575 _foamAddPath $MPI_ARCH_PATH/bin64 576 _foamAddLib $MPI_ARCH_PATH/lib64 577 ;; 578 *) 579 export FOAM_MPI=$FOAM_LIBBIN/impi/4.0.024/bin64 580 #dummy 581 ;; 582 esac /home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/lib/openmpi-1.5.3/libPstream.so: could not read symbols: Invalid operation make[3]: *** [/home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/bin/refineHexMesh] Error 1 make[3]: Leaving directory `/home/wei/OpenFOAM/OpenFOAM-2.1.1/applications/utilities/mesh/advanced/refineHexMesh' make[2]: *** [refineHexMesh] Error 2 /home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/lib/openmpi-1.5.3/libPstream.so: could not read symbols: Invalid operation make[3]: *** [/home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/bin/selectCells] Error 1 make[3]: Leaving directory `/home/wei/OpenFOAM/OpenFOAM-2.1.1/applications/utilities/mesh/advanced/selectCells' make[2]: *** [selectCells] Error 2 ............................. after I add #undef EIO in the readMechanicalProperties.H it still has erros so what should I do? Thanks you all W. |
Greetings hewei,
I think you forgot to start a new terminal or at least to reset your OpenFOAM shell environment. I say this because it's still using the "openmpi-1.5.3" paths to Pstream! If you have doubts about the "OpenFOAM shell environment", try this blog post of mine: Advanced tips for working with the OpenFOAM shell environment Best regards, Bruno |
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ld: note: '_ZN4Foam8UPstream9nRequestsEv' is defined in DSO /home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/lib/4.1.0.024/libPstream.so so try adding it to the linker command line /home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/lib/4.1.0.024/libPstream.so: could not read symbols: Invalid operation make[2]: *** [/home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/bin/MRFMultiphaseInterFoam] Error 1 someone in this forums left a word "delate //front in settimes" but without more details. and what files should I add ,modified or delete? I really have no idea now, then what should I do? and how did other solve this problem? thanks for advance |
Hi hewei,
This is very strange... which exact version of Linux Mint are you using? Best regards, Bruno |
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I use Linux Mint 13. its low temperature performance appears me the most the above error doesn't appear yet, i found this /usr/local/include/mpi.h(2087): catastrophic error: cannot open source file "openmpi/ompi/mpi/cxx/mpicxx.h" #include "openmpi/ompi/mpi/cxx/mpicxx.h" It seems my intel mpi setting has problems, why OF link to openmpi? I test this $echo $MPI_ROOT $MPI_HOME /opt/intel/impi/4.1.0.024/intel64 /opt/intel/impi/4.1.0.024/intel64 $mpiicc -v mpiicc for the Intel(R) MPI Library 4.1 for Linux* Copyright(C) 2003-2012, Intel Corporation. All rights reserved. icc version 13.1.0 (gcc version 4.6.0 compatibility) and in the /home/.profile I also setted PATH=$PATH:/opt/intel/impi/4.1.0.024/intel64/bin is it enough? this time I upload my setting.sh and the make log thanks wei |
OK, we're getting closer. Check the following:
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OF cann't find the mpi location, so I change / wmake / rules / linux64Icc / mplibINTELMPI PFLAGS = -DMPICH_SKIP_MPICXX PINC = -I$(MPI_ARCH_PATH)/include64 PLIBS = -L$(MPI_ARCH_PATH)/lib64 -lmpi into PFLAGS = -DMPICH_SKIP_MPICXX PINC = -I$(MPI_ARCH_PATH)/include PLIBS = -L$(MPI_ARCH_PATH)/lib -lmpi in my case after that, the relevant errors disappeared and the left errors are about EIO and solidEquilibriumDisplacement fPIC -c $SOURCE -o Make/linux64IccDPOpt/solidDisplacementFoam.o readMechanicalProperties.H(78): error: expected an identifier IOobject EIO ^ readMechanicalProperties.H(80): error: expected a type specifier "E", ^ readMechanicalProperties.H(81): error: variable "runTime" is not a type name runTime.timeName(0), ^ readMechanicalProperties.H(81): error: expected a ")" runTime.timeName(0), ^ readMechanicalProperties.H(85): warning #12: parsing restarts here after previous syntax error ); ^ readMechanicalProperties.H(94): error: no instance of constructor "Foam::GeometricField<Type, PatchField, GeoMesh>::GeometricField [with Type=Foam::scalar={Foam::doubleScalar={double}}, PatchField=Foam::fvPatchField, GeoMesh=Foam::volMesh]" matches the argument list argument types are: (int, Foam::fvMesh, Foam::dimensionedScalar, const Foam::word) ( ^ readMechanicalProperties.H(109): error: expression must have class type EIO.readOpt() = IOobject::MUST_READ; ^ readMechanicalProperties.H(114): error: no instance of constructor "Foam::GeometricField<Type, PatchField, GeoMesh>::GeometricField [with Type=Foam::scalar={Foam::doubleScalar={double}}, PatchField=Foam::fvPatchField, GeoMesh=Foam::volMesh]" matches the argument list argument types are: (int, Foam::fvMesh) ( ^ compilation aborted for solidDisplacementFoam.C (code 2) make[2]: *** [Make/linux64IccDPOpt/solidDisplacementFoam.o] Error 2 make[2]: Target `/home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/bin/solidDisplacementFoam' not remade because of errors. make[2]: Leaving directory `/home/wei/OpenFOAM/OpenFOAM-2.1.1/applications/solvers/stressAnalysis/solidDisplacementFoam' make[1]: *** [solidDisplacementFoam] Error 2 make[2]: Entering directory `/home/wei/OpenFOAM/OpenFOAM-2.1.1/applications/solvers/stressAnalysis/solidEquilibriumDisplacementFoam' SOURCE=solidEquilibriumDisplacementFoam.C ; icpc -std=c++0x -Dlinux64 -DWM_DP -wd327,654,819,1125,1476,1505,1572 -xSSE3 -O2 -no-prec-div -DNoRepository -I/home/wei/OpenFOAM/OpenFOAM-2.1.1/src/finiteVolume/lnInclude -ItractionDisplacementCorrectionStress -I../solidDisplacementFoam -IlnInclude -I. -I/home/wei/OpenFOAM/OpenFOAM-2.1.1/src/OpenFOAM/lnInclude -I/home/wei/OpenFOAM/OpenFOAM-2.1.1/src/OSspecific/POSIX/lnInclude -fPIC -c $SOURCE -o Make/linux64IccDPOpt/solidEquilibriumDisplacementFoam.o ../solidDisplacementFoam/readMechanicalProperties.H(78): error: expected an identifier IOobject EIO ^ ../solidDisplacementFoam/readMechanicalProperties.H(80): error: expected a type specifier "E", ^ ../solidDisplacementFoam/readMechanicalProperties.H(81): error: variable "runTime" is not a type name runTime.timeName(0), ^ ../solidDisplacementFoam/readMechanicalProperties.H(81): error: expected a ")" runTime.timeName(0), ^ ../solidDisplacementFoam/readMechanicalProperties.H(85): warning #12: parsing restarts here after previous syntax error ); ^ ../solidDisplacementFoam/readMechanicalProperties.H(94): error: no instance of constructor "Foam::GeometricField<Type, PatchField, GeoMesh>::GeometricField [with Type=Foam::scalar={Foam::doubleScalar={double}}, PatchField=Foam::fvPatchField, GeoMesh=Foam::volMesh]" matches the argument list argument types are: (int, Foam::fvMesh, Foam::dimensionedScalar, const Foam::word) ( ^ ../solidDisplacementFoam/readMechanicalProperties.H(109): error: expression must have class type EIO.readOpt() = IOobject::MUST_READ; ^ ../solidDisplacementFoam/readMechanicalProperties.H(114): error: no instance of constructor "Foam::GeometricField<Type, PatchField, GeoMesh>::GeometricField [with Type=Foam::scalar={Foam::doubleScalar={double}}, PatchField=Foam::fvPatchField, GeoMesh=Foam::volMesh]" matches the argument list argument types are: (int, Foam::fvMesh) ( ^ compilation aborted for solidEquilibriumDisplacementFoam.C (code 2) make[2]: *** [Make/linux64IccDPOpt/solidEquilibriumDisplacementFoam.o] Error 2 make[2]: Target `/home/wei/OpenFOAM/OpenFOAM-2.1.1/platforms/linux64IccDPOpt/bin/solidEquilibriumDisplacementFoam' not remade because of errors. make[2]: Leaving directory `/home/wei/OpenFOAM/OpenFOAM-2.1.1/applications/solvers/stressAnalysis/solidEquilibriumDisplacementFoam' make[1]: *** [solidEquilibriumDisplacementFoam] Error 2 make[1]: Target `application' not remade because of errors. make[1]: Leaving directory `/home/wei/OpenFOAM/OpenFOAM-2.1.1/applications/solvers/stressAnalysis' make: *** [stressAnalysis] Error 2 make: Target `application' not remade because of errors. anyway this solver I am not using now, the others work very well, Thank you very much!! wei |
Hi Wei,
The last two problems are already fixed in OpenFOAM 2.1.x. Best regards, Bruno |
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