[ripudaman]

Here is the error log I get when compiling the cfMesh libraries in foam-extend-3.2 on Stampede supercomputer on TACC.

Almost everything else is compiling fine.

+ wmake libso cfMesh
SOURCE=utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellCells.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenAddressingCellCells.o
SOURCE=utilities/meshes/polyMeshGenModifier/polyMeshGenModifierReorderBoundaryFaces.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenModifierReorderBoundaryFaces.o
SOURCE=utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellEdges.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenAddressingCellEdges.o
SOURCE=utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellPoints.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenAddressingCellPoints.o
SOURCE=utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingEdgeFaces.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenAddressingEdgeFaces.o
SOURCE=utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingFaceEdges.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenAddressingFaceEdges.o
SOURCE=utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingPointPoints.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenAddressingPointPoints.o
SOURCE=utilities/meshes/polyMeshGenChecks/polyMeshGenChecks.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenChecks.o
SOURCE=utilities/meshes/polyMeshGenChecks/polyMeshGenChecksGeometry.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenChecksGeometry.o
SOURCE=utilities/meshes/polyMeshGenChecks/polyMeshGenChecksTopology.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/polyMeshGenChecksTopology.o
SOURCE=utilities/meshes/partTetMesh/partTetMesh.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/partTetMesh.o
SOURCE=utilities/meshes/partTetMesh/partTetMeshAddressing.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/partTetMeshAddressing.o
SOURCE=utilities/meshes/partTetMesh/partTetMeshParallelAddressing.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/partTetMeshParallelAddressing.o
SOURCE=utilities/meshes/partTetMesh/partTetMeshSimplex.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/partTetMeshSimplex.o
SOURCE=utilities/meshes/partTriMesh/partTriMesh.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/partTriMesh.o
SOURCE=utilities/meshes/partTriMesh/partTriMeshAddressing.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/partTriMeshAddressing.o
SOURCE=utilities/meshes/partTriMesh/partTriMeshParallelAddressing.C ;  mpicxx -DIntel -Dlinux64 -DWM_DP -wd327,584,654,819,1125,1476,1505,1572 -ansi-alias -O3 -fno-alias -fp-model precise -fargument-noalias-global -unroll0  -DNoRepository -DUSE_OMP -fopenmp -I/work/02701/ripu/foam/foam-extend-3.2/src/edgeMesh/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/meshTools/lnInclude -IlnInclude -I. -I/work/02701/ripu/foam/foam-extend-3.2/src/foam/lnInclude -I/work/02701/ripu/foam/foam-extend-3.2/src/OSspecific/POSIX/lnInclude   -fPIC -c $SOURCE -o Make/linux64IccDPOpt/partTriMeshParallelAddressing.o
utilities/meshes/polyMeshGenModifier/polyMeshGenModifierReorderBoundaryFaces.C(224): internal error: null pointer
  }
  ^

compilation aborted for utilities/meshes/polyMeshGenModifier/polyMeshGenModifierReorderBoundaryFaces.C (code 4)
make: *** [Make/linux64IccDPOpt/polyMeshGenModifierReorderBoundaryFaces.o] Error 4
make: *** Waiting for unfinished jobs....
utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellPoints.C(118): internal error: null pointer
  }
  ^

compilation aborted for utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellPoints.C (code 4)
make: *** [Make/linux64IccDPOpt/polyMeshGenAddressingCellPoints.o] Error 4
utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellEdges.C(123): internal error: null pointer
  }
  ^

utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingFaceEdges.C(108): internal error: null pointer
  }
  ^

utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingPointPoints.C(120): internal error: null pointer
  }
  ^

utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellCells.C(130): internal error: null pointer
  }
  ^

compilation aborted for utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellEdges.C (code 4)
utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingEdgeFaces.C(132): internal error: null pointer
  }
  ^

make: *** [Make/linux64IccDPOpt/polyMeshGenAddressingCellEdges.o] Error 4
compilation aborted for utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingFaceEdges.C (code 4)
compilation aborted for utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingPointPoints.C (code 4)
compilation aborted for utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingCellCells.C (code 4)
make: *** [Make/linux64IccDPOpt/polyMeshGenAddressingFaceEdges.o] Error 4
make: *** [Make/linux64IccDPOpt/polyMeshGenAddressingPointPoints.o] Error 4
make: *** [Make/linux64IccDPOpt/polyMeshGenAddressingCellCells.o] Error 4
compilation aborted for utilities/meshes/polyMeshGenAddressing/polyMeshGenAddressingEdgeFaces.C (code 4)
make: *** [Make/linux64IccDPOpt/polyMeshGenAddressingEdgeFaces.o] Error 4

Any Suggestions?

Ripu

[wyldckat]

Quick question: Which Intel Compiler version are you using? A few examples for finding it out:

mpicxx --version
icc --version
icpc --version

[ripudaman]

Here is the output I get when I check the version.

login1.stampede(1)$ mpicxx --version
icpc (ICC) 15.0.2 20150121
Copyright (C) 1985-2015 Intel Corporation. All rights reserved.

login1.stampede(2)$ icc --version
icc (ICC) 15.0.2 20150121
Copyright (C) 1985-2015 Intel Corporation. All rights reserved.

login1.stampede(3)$ icpc --version
icpc (ICC) 15.0.2 20150121
Copyright (C) 1985-2015 Intel Corporation. All rights reserved.

Ripu

[wyldckat]

Quick answer: OK, then it's one of the recent versions of ICC. Intel provides a non-commercial license to open source contributors and I can have a look into this issue in the coming weekend: https://software.intel.com/en-us/qua...rcecontributor

If anyone wants to check this and solve this before I try to, please do feel free to do so!

In the meantime, one workaround would be to use GCC to build only this library.

[ripudaman]

That sounds great Bruno. Thanks for looking into this.

Ripu

[franjo_j]

Hi Ripu,

I do not use Intel compiler and I have not seen this error before.
Strangely, the reported errors are at the last line of a function. Can you please try compiling cfMesh without the -fopenmp flag because it may be the cause of the problem. It is not used by the Intel compiler and I am not sure how it gets defined on your machine, because the compiler should not define the __GNUC__ macro. In the cfMesh/Make/options you can find the following:

#if defined(__GNUC__)
# if defined(darwin)
OMP_FLAGS =
# else
OMP_FLAGS = -DUSE_OMP -fopenmp
# endif
#else
OMP_FLAGS =
#endif

Please replace this with:

#if defined(__GNUC__)
# if defined(darwin)
OMP_FLAGS =
# else
OMP_FLAGS = -DUSE_OMP -openmp // intel compiler uses -openmp
# endif
#else
OMP_FLAGS =
#endif

Intel compiler uses -openmp flag for openmp. If the above does not work, then try compiling without openmp by replacing the above with

OMP_FLAGS =

Please let me know if any of this solve the problem.

Regards,

Franjo

[ripudaman]

Franjo,

Changing the -fopenmp to -openmp did not solve the problem but putting
OMP_FLAGS = after the if else construct helps in compiling.

Thanks for helping with this. I am happy with this now.

Ripu