CFD Online Discussion Forums - [OpenFOAM.org] Not found many .so files when installing OpenFOAM 6

Hi everyone,

I met a strange problem when I installed OpenFOAM 6 following the official website. It showed that many .so files were not found even they were already ~/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib. Can anybody help me? Thanks very much!

The errors are as follows:

[lengjun@localhost OpenFOAM-6]$ ./Allwmake
Allwmake /home/lengjun/OpenFOAM/OpenFOAM-6
make: Nothing to be done for 'all'.

========================================
Start ThirdParty Allwmake
========================================

========================================
Build MPI libraries if required

========================================
Build Scotch decomposition library scotch_6.0.6
/home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/scotch_6.0.6
scotch header in /home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/scotch_6.0.6/include
scotch libs in /home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/lib

========================================
Build PTScotch decomposition library scotch_6.0.6 (uses MPI)
/home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/scotch_6.0.6

ptscotch header in /home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/scotch_6.0.6/include/openmpi-system
ptscotch libs in /home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/lib/openmpi-system

========================================
Build Metis decomposition
optional component Metis was not found
========================================
Build CGAL
optional component was not found

========================================
Done ThirdParty Allwmake
========================================

Allwmake src
no git description found
Allwmake src/Pstream
wmake dummy
wmake mpi
Allwmake libo src/OSspecific/POSIX
found <sys/inotify.h> -- enabling inotify for file monitoring.
wmake libo .
wmake OpenFOAM
wmake fileFormats
wmake surfMesh
wmake triSurface
wmake meshTools
Allwmake src/dummyThirdParty
wmake scotchDecomp
wmake ptscotchDecomp
wmake metisDecomp
wmake MGridGen
wmake finiteVolume
wmake lagrangian/basic
wmake lagrangian/distributionModels
wmake genericPatchFields
wmake conversion
wmake mesh/extrudeModel
wmake dynamicMesh
wmake sampling
wmake dynamicFvMesh
wmake topoChangerFvMesh
Allwmake src/parallel
Allwmake src/parallel/decompose
using SCOTCH_ARCH_PATH=/home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/scotch_6.0.6
wmake scotchDecomp
wmake ptscotchDecomp
wmake ptscotchDecomp
Allwmake src/parallel/decompose/metisDecomp
using METIS_ARCH_PATH=/home/lengjun/OpenFOAM/ThirdParty-6/platforms/linux64GccDPInt32/metis-5.1.0
wmake decompositionMethods
wmake decompose
Allwmake src/parallel/reconstruct
wmake reconstruct
wmake distributed
wmake ODE
wmake randomProcesses
Allwmake src/transportModels
wmake twoPhaseMixture
wmake interfaceProperties
wmake twoPhaseProperties
wmake incompressible
wmake compressible
wmake immiscibleIncompressibleTwoPhaseMixture
Allwmake src/thermophysicalModels
wmake specie
wmake solidSpecie
wmake thermophysicalProperties
wmake basic
wmake reactionThermo
wmake laminarFlameSpeed
wmake chemistryModel
wmake barotropicCompressibilityModel
wmake SLGThermo
wmake solidThermo
wmake solidChemistryModel
wmake radiation
Allwmake src/TurbulenceModels
wmake turbulenceModels
wmake incompressible
wmake compressible
wmake combustionModels
Allwmake src/regionModels
wmake regionModel
wmake pyrolysisModels
wmake surfaceFilmModels
wmake surfaceFilmModels/derivedFvPatchFields/wallFunctions
wmake thermalBaffleModels
wmake regionCoupling
Allwmake src/lagrangian
wmake distributionModels
wmake basic
wmake solidParticle
wmake intermediate
wmake turbulence
wmake spray
wmake DSMC
wmake coalCombustion
Allwmake src/lagrangian/molecularDynamics
wmake potential
wmake molecularMeasurements
wmake molecule
Allwmake src/mesh
wmake snappyHexMesh
wmake blockMesh
wmake extrudeModel
Allwmake src/renumber
skipping zoltanRenumber
wmake renumberMethods
Allwmake src/fvAgglomerationMethods
wmake pairPatchAgglomeration
wmake fvMotionSolver
wmake engine
wmake fvOptions
wmake regionCoupled
Allwmake src/functionObjects
wmake field
wmake forces
wmake lagrangian
wmake utilities
wmake solvers
wmake sixDoFRigidBodyMotion
wmake sixDoFRigidBodyState
wmake rigidBodyDynamics
wmake rigidBodyMeshMotion
wmake waves
wmake semiPermeableBaffle
wmake atmosphericModels
Allwmake applications
wmake solvers
wmake basic
make[1]: Entering directory '/home/lengjun/OpenFOAM/OpenFOAM-6/applications/solvers/basic'
wmake laplacianFoam
make[2]: Entering directory '/home/lengjun/OpenFOAM/OpenFOAM-6/applications/solvers/basic/laplacianFoam'
g++ -std=c++11 -m64 -Dlinux64 -DWM_ARCH_OPTION=64 -DWM_DP -DWM_LABEL_SIZE=32 -Wall -Wextra -Wold-style-cast -Wnon-virtual-dtor -Wno-unused-parameter -Wno-invalid-offsetof -Wno-attributes -O3 -DNoRepository -ftemplate-depth-100 -I/home/lengjun/OpenFOAM/OpenFOAM-6/src/finiteVolume/lnInclude -I/home/lengjun/OpenFOAM/OpenFOAM-6/src/meshTools/lnInclude -IlnInclude -I. -I/home/lengjun/OpenFOAM/OpenFOAM-6/src/OpenFOAM/lnInclude -I/home/lengjun/OpenFOAM/OpenFOAM-6/src/OSspecific/POSIX/lnInclude -fPIC -Xlinker --add-needed -Xlinker --no-as-needed /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/applications/solvers/basic/laplacianFoam/laplacianFoam.o -L/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib \
-lfiniteVolume -lfvOptions -lmeshTools -lOpenFOAM -ldl \
-lm -o /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/bin/laplacianFoam
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libtriSurface.so, needed by /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfiniteVolume.so, not found (try using -rpath or -rpath-link)
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libsampling.so, needed by /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so, not found (try using -rpath or -rpath-link)
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libturbulenceModels.so, needed by /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so, not found (try using -rpath or -rpath-link)
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libcompressibleTurbulenceModels.so, needed by /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so, not found (try using -rpath or -rpath-link)
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libsurfMesh.so, needed by /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so, not found (try using -rpath or -rpath-link)
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libfileFormats.so, needed by /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so, not found (try using -rpath or -rpath-link)
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libPstream.so, needed by /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so, not found (try using -rpath or -rpath-link)
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/applications/solvers/basic/laplacianFoam/laplacianFoam.o: In function `Foam::GeometricField<double, Foam::fvPatchField, Foam::volMesh>::Boundary::evaluate()':
laplacianFoam.C:(.text._ZN4Foam14GeometricFieldIdN S_12fvPatchFieldENS_7volMeshEE8Boundary8evaluateEv[_ZN4Foam14GeometricFieldIdNS_12fvPatchFieldENS_7vo lMeshEE8Boundary8evaluateEv]+0x159): undefined reference to `Foam::UPstream::nRequests()'
laplacianFoam.C:(.text._ZN4Foam14GeometricFieldIdN S_12fvPatchFieldENS_7volMeshEE8Boundary8evaluateEv[_ZN4Foam14GeometricFieldIdNS_12fvPatchFieldENS_7vo lMeshEE8Boundary8evaluateEv]+0x280): undefined reference to `Foam::UPstream::waitRequests(int)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/applications/solvers/basic/laplacianFoam/laplacianFoam.o: In function `void Foam::mapDistributeBase::distribute<double, Foam::noOp>(Foam::UPstream::commsTypes, Foam::List<Foam::Pair<int> > const&, int, Foam::List<Foam::List<int> > const&, bool, Foam::List<Foam::List<int> > const&, bool, Foam::List<double>&, Foam::noOp const&, int)':
laplacianFoam.C:(.text._ZN4Foam17mapDistributeBase 10distributeIdNS_4noOpEEEvNS_8UPstream10commsTypes ERKNS_4ListINS_4PairIiEEEEiRKNS5_INS5_IiEEEEbSE_bR NS5_IT_EERKT0_i[_ZN4Foam17mapDistributeBase10distributeIdNS_4noOpE EEvNS_8UPstream10commsTypesERKNS_4ListINS_4PairIiE EEEiRKNS5_INS5_IiEEEEbSE_bRNS5_IT_EERKT0_i]+0x521): undefined reference to `Foam::UPstream::nRequests()'
laplacianFoam.C:(.text._ZN4Foam17mapDistributeBase 10distributeIdNS_4noOpEEEvNS_8UPstream10commsTypes ERKNS_4ListINS_4PairIiEEEEiRKNS5_INS5_IiEEEEbSE_bR NS5_IT_EERKT0_i[_ZN4Foam17mapDistributeBase10distributeIdNS_4noOpE EEvNS_8UPstream10commsTypesERKNS_4ListINS_4PairIiE EEEiRKNS5_INS5_IiEEEEbSE_bRNS5_IT_EERKT0_i]+0x646): undefined reference to `Foam::UIPstream::read(Foam::UPstream::commsTypes, int, char*, long, int, int)'

/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `Foam::UPstream::freePstreamCommunicator(int)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `pthread_create'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `Foam::fluidThermo::typeName'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::triSurface()'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfiniteVolume.so: undefined reference to `Foam::UPstream::finishedRequest(int)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::scalePoints(double)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `Foam::UPstream::scatter(char const*, Foam::UList<int> const&, Foam::UList<int> const&, char*, int, int)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::fileFormats::STARCDCore::writePoints(Foam:: Ostream&, Foam::Field<Foam::Vector<double> > const&)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::DimensionedField<double, Foam::triSurfacePointGeoMesh>::typeName'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `Foam::UPstream::gather(char const*, int, char*, Foam::UList<int> const&, Foam::UList<int> const&, int)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::fileFormats::STARCDCore::readHeader(Foam::I Fstream&, Foam::word const&)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `Foam::UPstream::init(int&, char**&, bool)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::OBJstream::write(Foam::Vector<double> const&)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::fileFormats::NASCore::parseNASCoord(Foam::s tring const&)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::triSurface(Foam::fileName const&)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `Foam::UPstream::abort()'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::geometricSurfacePatch::operator==(Foam::geo metricSurfacePatch const&) const'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::DimensionedField<double, Foam::triSurfaceGeoMesh>::typeName'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::subsetMesh(Foam::List<bool> const&, Foam::List<int>&, Foam::List<int>&) const'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `Foam::meshToMesh::interpolationMethodNames_'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `Foam::basicThermo::typeName'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::fileFormats::STARCDCore::readPoints(Foam::I Fstream&, Foam::Field<Foam::Vector<double> >&, Foam::List<int>&)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `Foam::basicThermo::dictName'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `Foam::UPstream::resetRequests(int)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `typeinfo for Foam::basicThermo'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `Foam::compressibleTurbulenceModel::typeName'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libOpenFOAM.so: undefined reference to `Foam::UPstream::allocatePstreamCommunicator(int, int)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::edgeOwner() const'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::OBJstream::OBJstream(Foam::fileName const&, Foam::IOstream::streamFormat, Foam::IOstream::versionNumber, Foam::IOstream::compressionType)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::triSurface(Foam::List<Foam::lab elledTri> const&,
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::triSurface(Foam::triSurface const&)'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::markZones(Foam::List<bool> const&, Foam::List<int>&) const'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::fileFormats::NASCore::NASCore()'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::writeStats(Foam::Ostream&) const'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libmeshTools.so: undefined reference to `Foam::triSurface::clearOut()'
/home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/lib/libfvOptions.so: undefined reference to `typeinfo for Foam::compressibleTurbulenceModel'
collect2: error: ld returned 1 exit status
make[2]: *** [/home/lengjun/OpenFOAM/OpenFOAM-6/wmake/makefiles/general:142: /home/lengjun/OpenFOAM/OpenFOAM-6/platforms/linux64GccDPInt32Opt/bin/laplacianFoam] Error 1
make[2]: Leaving directory '/home/lengjun/OpenFOAM/OpenFOAM-6/applications/solvers/basic/laplacianFoam'
make[1]: *** [/home/lengjun/OpenFOAM/OpenFOAM-6/wmake/makefiles/apps:39: laplacianFoam] Error 2
make[1]: Leaving directory '/home/lengjun/OpenFOAM/OpenFOAM-6/applications/solvers/basic'
make: *** [/home/lengjun/OpenFOAM/OpenFOAM-6/wmake/makefiles/apps:39: basic] Error 2
[lengjun@localhost OpenFOAM-6]$

system information:
centOS 7
gcc version 8.3.1
mpirun (Open MPI) 4.0.5