Please apply the patch I sent earlier and retry.
Satish
On Tue, 26 Mar 2019, Kun Jiao via petsc-users wrote:
> Strange things, when I compile my code in the test dir in PETSC, it works.
> After I "make install" PETSC, and try to compile my code against the
> installed PETSC, it doesn't work any more.
>
> I guess this is what you means.
>
> Is there any way to reenable MatCreateMPIAIJMKL public interface?
>
> And, I am using intel MKL, here is my configure option:
>
> Configure Options: --configModules=PETSc.Configure
> --optionsModule=config.compilerOptions PETSC_ARCH=linux-gnu-intel
> --with-precision=single --with-cc=mpiicc --with-cxx=mpiicc --with-fc=mpiifort
> --with-mpi-include=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mpi/intel64/include
>
> --with-mpi-lib="-L/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel//compilers_and_libraries_2019.2.187/linux/mpi/intel64/lib
> -lmpifort -lmpi_ilp64"
> --with-blaslapack-lib="-L/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl/lib/intel64
> -Wl, --no-as-needed -lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lpthread
> -lm -ldl"
> --with-scalapack-lib="-L/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl/lib/intel64
> -lmkl_scalapack_lp64 -lmkl_blacs_intelmpi_lp64"
> --with-scalapack-include=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl/include
>
> --with-mkl_pardiso-dir=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl
> --with-mkl_sparse=1
> --with-mkl_sparse-dir=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl
> --with-mkl_cpardiso=1
> --with-mkl_cpardiso-dir=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl
> --with-mkl_sparse_optimize=1
> --with-mkl_sparse_optimize-dir=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl
> --with-mkl_sparse_sp2m=1
> --with-mkl_sparse_sp2m-dir=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/intel/compilers_and_libraries_2019.2.187/linux/mkl
> --with-cmake=1
> --prefix=/wgdisk/hy3300/source_code_dev/imaging/kjiao/software/petsc_3.9.4
> --known-endian=big --with-debugging=0 --COPTFLAGS=" -Ofast -xHost"
> --CXXOPTFLAGS=" -Ofast -xHost" --FOPTFLAGS=" -Ofast -xHost" --with-x=0
> Working directory: /wgdisk/hy3300/source_code_dev/imaging/kjiao/petsc-3.10.4
>
>
>
> Schlumberger-Private
>
> -----Original Message-----
> From: Balay, Satish <ba...@mcs.anl.gov>
> Sent: Tuesday, March 26, 2019 10:19 AM
> To: Kun Jiao <kj...@slb.com>
> Cc: Mark Adams <mfad...@lbl.gov>; petsc-users@mcs.anl.gov
> Subject: Re: [petsc-users] [Ext] Re: error: identifier "MatCreateMPIAIJMKL"
> is undefined in 3.10.4
>
> >>>>>>>
> balay@sb /home/balay/petsc (maint=)
> $ git grep MatCreateMPIAIJMKL maint-3.8
> maint-3.8:src/mat/impls/aij/mpi/aijmkl/mpiaijmkl.c: MatCreateMPIAIJMKL -
> Creates a sparse parallel matrix whose local
> maint-3.8:src/mat/impls/aij/mpi/aijmkl/mpiaijmkl.c:PetscErrorCode
> MatCreateMPIAIJMKL(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt
> N,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt
> o_nnz[],Mat *A)
> maint-3.8:src/mat/impls/aij/mpi/aijmkl/mpiaijmkl.c:.seealso:
> MatCreateMPIAIJMKL(), MATSEQAIJMKL, MATMPIAIJMKL
> maint-3.8:src/mat/impls/aij/seq/aijmkl/aijmkl.c:.seealso: MatCreate(),
> MatCreateMPIAIJMKL(), MatSetValues() balay@sb /home/balay/petsc (maint=) $
> git grep MatCreateMPIAIJMKL maint
> maint:src/mat/impls/aij/mpi/aijmkl/mpiaijmkl.c: MatCreateMPIAIJMKL -
> Creates a sparse parallel matrix whose local
> maint:src/mat/impls/aij/mpi/aijmkl/mpiaijmkl.c:PetscErrorCode
> MatCreateMPIAIJMKL(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt
> N,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt
> o_nnz[],Mat *A)
> maint:src/mat/impls/aij/mpi/aijmkl/mpiaijmkl.c:.seealso:
> MatCreateMPIAIJMKL(), MATSEQAIJMKL, MATMPIAIJMKL
> maint:src/mat/impls/aij/seq/aijmkl/aijmkl.c:.seealso: MatCreate(),
> MatCreateMPIAIJMKL(), MatSetValues() balay@sb /home/balay/petsc (maint=) $
> <<<<<<<<<<<
>
> MatCreateMPIAIJMKL() exists in both petsc-3.8 and petsc-3.10. However the
> public interface is missing from both of these versions. So I'm surprised you
> don't get the same error with petsc-3.8
>
> Can you try the following change?
>
> diff --git a/include/petscmat.h b/include/petscmat.h index
> 1b8ac69377..c66f727994 100644
> --- a/include/petscmat.h
> +++ b/include/petscmat.h
> @@ -223,7 +223,8 @@ typedef enum
> {DIFFERENT_NONZERO_PATTERN,SUBSET_NONZERO_PATTERN,SAME_NONZERO_PATT
>
> #if defined PETSC_HAVE_MKL_SPARSE
> PETSC_EXTERN PetscErrorCode
> MatCreateBAIJMKL(MPI_Comm,PetscInt,PetscInt,PetscInt,PetscInt,PetscInt,PetscInt,const
> PetscInt[],PetscInt,const PetscInt[],Mat*); -PETSC_EXTERN PetscErrorCode
> MatCreateSeqBAIJMKL(MPI_Comm comm,PetscInt bs,PetscInt m,PetscInt n,PetscInt
> nz,const PetscInt nnz[],Mat *A);
> +PETSC_EXTERN PetscErrorCode
> +MatCreateSeqBAIJMKL(MPI_Comm,PetscInt,PetscInt,PetscInt,PetscInt,const
> +PetscInt[],Mat*); PETSC_EXTERN PetscErrorCode
> +MatCreateMPIAIJMKL(MPI_Comm,PetscInt,PetscInt,PetscInt,PetscInt,PetscIn
> +t,const PetscInt[],PetscInt,const PetscInt[],Mat*);
> #endif
>
> PETSC_EXTERN PetscErrorCode
> MatCreateSeqSELL(MPI_Comm,PetscInt,PetscInt,PetscInt,const PetscInt[],Mat*);
>
>
> Also note: - this routine is available only when PETSc is built with Intel MKL
>
> Satish
>
> On Tue, 26 Mar 2019, Kun Jiao via petsc-users wrote:
>
> > [kjiao@hyi0016 src/lsqr]% make
> > [ 50%] Building CXX object lsqr/CMakeFiles/p_lsqr.dir/lsqr.cc.o
> > /wgdisk/hy3300/source_code_dev/imaging/kjiao/src/git/src/lsqr/lsqr.cc(318):
> > error: identifier "MatCreateMPIAIJMKL" is undefined
> > ierr =
> > MatCreateMPIAIJMKL(comm,m,n,M,N,maxnz,dialens,maxnz,offlens,&A);CHKERRQ(ierr);
> > ^
> >
> > /wgdisk/hy3300/source_code_dev/imaging/kjiao/src/git/src/lsqr/lsqr.cc(578):
> > error: identifier "MatCreateMPIAIJMKL" is undefined
> > ierr =
> > MatCreateMPIAIJMKL(comm,m,n,M,N,maxnz,dialens,maxnz,offlens,&A);CHKERRQ(ierr);
> > ^
> >
> > compilation aborted for
> > /wgdisk/hy3300/source_code_dev/imaging/kjiao/src/git/src/lsqr/lsqr.cc
> > (code 2)
> >
> > Thanks.
> >
> >
> > From: Mark Adams <mfad...@lbl.gov>
> > Sent: Tuesday, March 26, 2019 9:22 AM
> > To: Kun Jiao <kj...@slb.com>
> > Cc: petsc-users@mcs.anl.gov
> > Subject: Re: [Ext] Re: [petsc-users] error: identifier
> > "MatCreateMPIAIJMKL" is undefined in 3.10.4
> >
> > I assume the whole error message will have the line of code. Please send
> > the whole error message and line of offending code if not included.
> >
> > On Tue, Mar 26, 2019 at 10:08 AM Kun Jiao
> > <kj...@slb.com<mailto:kj...@slb.com>> wrote:
> > It is compiling error, error message is:
> >
> > error: identifier "MatCreateMPIAIJMKL" is undefined.
> >
> >
> >
> >
> >
> > From: Mark Adams <mfad...@lbl.gov<mailto:mfad...@lbl.gov>>
> > Sent: Tuesday, March 26, 2019 6:48 AM
> > To: Kun Jiao <kj...@slb.com<mailto:kj...@slb.com>>
> > Cc: petsc-users@mcs.anl.gov<mailto:petsc-users@mcs.anl.gov>
> > Subject: [Ext] Re: [petsc-users] error: identifier
> > "MatCreateMPIAIJMKL" is undefined in 3.10.4
> >
> > Please send the output of the error (runtime, compile time, link
> > time?)
> >
> > On Mon, Mar 25, 2019 at 10:50 PM Kun Jiao via petsc-users
> > <petsc-users@mcs.anl.gov<mailto:petsc-users@mcs.anl.gov>> wrote:
> > Hi Petsc Experts,
> >
> > Is MatCreateMPIAIJMKL retired in 3.10.4?
> >
> > I got this error with my code which works fine in 3.8.3 version.
> >
> > Regards,
> > Kun
> >
> >
> >
> > Schlumberger-Private
> >
> >
> > Schlumberger-Private
> >
> >
> > Schlumberger-Private
> >
>
