[petsc-users] SIGSEGV in Superlu_dist

[Hong]

Anthony,
I pushed a fix
https://bitbucket.org/petsc/petsc/commits/ceeba3afeff0c18262ed13ef92e2508ca68b0ecf

Once it passes our nightly tests, I'll merge it to petsc-maint, then
petsc-dev.
Thanks for reporting it!

Hong

On Mon, Aug 10, 2015 at 4:27 PM, Barry Smith <bsmith at mcs.anl.gov> wrote:

>
>   Anthony,
>
>    This crash is in PETSc code before it calls the SuperLU_DIST numeric
> factorization; likely we have a mistake such as assuming a process has at
> least one row of the matrix and need to fix it.
>
>    Barry
>
> > 0x00007fe6ba609297 in MatLUFactorNumeric_SuperLU_DIST (F=0x1922b50,
> >    A=0x14a6a70, info=0x19099f8)
> >    at
> /home/anthony/LIB/petsc-3.6.1/src/mat/impls/aij/mpi/superlu_dist/superlu_dist.c:368
> > 368           colA_start = rstart + ajj[0]; /* the smallest global col
> index of A */
>
>
>
> > On Aug 10, 2015, at 3:50 PM, Anthony Haas <aph at email.arizona.edu> wrote:
> >
> > Hi Sherry,
> >
> > I recently submitted a matrix for which I noticed that Superlu_dist was
> hanging when running on 4 processors with parallel symbolic factorization.
> I have been using the latest version of Superlu_dist and the code is not
> hanging anymore. However, I noticed that when running the same matrix (I
> have attached the matrix), the code crashes with the following SIGSEGV when
> running on 10 procs (with or without parallel symbolic factorization). It
> is probably overkill to run such a 'small' matrix on 10 procs but I thought
> that it might still be useful to report the problem?? See below for the
> error obtained when running with gdb and also a code snippet to reproduce
> the error.
> >
> > Thanks,
> >
> >
> > Anthony
> >
> >
> >
> > 1) ERROR in GDB
> >
> > Program received signal SIGSEGV, Segmentation fault.
> > 0x00007fe6ba609297 in MatLUFactorNumeric_SuperLU_DIST (F=0x1922b50,
> >    A=0x14a6a70, info=0x19099f8)
> >    at
> /home/anthony/LIB/petsc-3.6.1/src/mat/impls/aij/mpi/superlu_dist/superlu_dist.c:368
> > 368           colA_start = rstart + ajj[0]; /* the smallest global col
> index of A */
> > (gdb)
> >
> >
> >
> > 2) PORTION OF CODE TO REPRODUCE ERROR
> >
> >    Subroutine HowBigLUCanBe(rank)
> >
> >      IMPLICIT NONE
> >
> >      integer(i4b),intent(in) :: rank
> >      integer(i4b)            :: i,ct
> >      real(dp)                :: begin,endd
> >      complex(dpc)            :: sigma
> >
> >      PetscErrorCode ierr
> >
> >
> >      if (rank==0) call cpu_time(begin)
> >
> >      if (rank==0) then
> >         write(*,*)
> >         write(*,*)'Testing How Big LU Can Be...'
> >         write(*,*)'============================'
> >         write(*,*)
> >      endif
> >
> >      !sigma = (1.0d0,0.0d0)
> >      !call MatAXPY(A,-sigma,B,DIFFERENT_NONZERO_PATTERN,ierr) ! on exit
> A = A-sigma*B
> >
> >      !call MatView(A,PETSC_VIEWER_STDOUT_WORLD,ierr)
> >
> > !.....Write Matrix to ASCII and Binary Format
> >      !call PetscViewerASCIIOpen(PETSC_COMM_WORLD,"Amat.m",viewer,ierr)
> >      !call MatView(DXX,viewer,ierr)
> >      !call PetscViewerDestroy(viewer,ierr)
> >
> >      !call
> PetscViewerBinaryOpen(PETSC_COMM_WORLD,"Amat_binary.m",FILE_MODE_WRITE,viewer,ierr)
> >      !call MatView(A,viewer,ierr)
> >      !call PetscViewerDestroy(viewer,ierr)
> >
> > !...Load a Matrix in Binary Format
> >      call
> PetscViewerBinaryOpen(PETSC_COMM_WORLD,"Amat_binary.m",FILE_MODE_READ,viewer,ierr)
> >      call MatCreate(PETSC_COMM_WORLD,DLOAD,ierr)
> >      call MatSetType(DLOAD,MATAIJ,ierr)
> >      call MatLoad(DLOAD,viewer,ierr)
> >      call PetscViewerDestroy(viewer,ierr)
> >
> >      !call MatView(DLOAD,PETSC_VIEWER_STDOUT_WORLD,ierr)
> >
> >
> > !.....Create Linear Solver Context
> >      call KSPCreate(PETSC_COMM_WORLD,ksp,ierr)
> >
> > !.....Set operators. Here the matrix that defines the linear system also
> serves as the preconditioning matrix.
> >      !call KSPSetOperators(ksp,A,A,DIFFERENT_NONZERO_PATTERN,ierr) !aha
> commented and replaced by next line
> >
> >      !call KSPSetOperators(ksp,A,A,ierr) ! remember: here A = A-sigma*B
> >      call KSPSetOperators(ksp,DLOAD,DLOAD,ierr) ! remember: here A =
> A-sigma*B
> >
> > !.....Set Relative and Absolute Tolerances and Uses Default for
> Divergence Tol
> >      tol = 1.e-10
> >      call
> KSPSetTolerances(ksp,tol,tol,PETSC_DEFAULT_REAL,PETSC_DEFAULT_INTEGER,ierr)
> >
> > !.....Set the Direct (LU) Solver
> >      call KSPSetType(ksp,KSPPREONLY,ierr)
> >      call KSPGetPC(ksp,pc,ierr)
> >      call PCSetType(pc,PCLU,ierr)
> >      call PCFactorSetMatSolverPackage(pc,MATSOLVERSUPERLU_DIST,ierr) !
> MATSOLVERSUPERLU_DIST MATSOLVERMUMPS
> >
> > !.....Create Right-Hand-Side Vector
> >      !call MatCreateVecs(A,frhs,PETSC_NULL_OBJECT,ierr)
> >      !call MatCreateVecs(A,sol,PETSC_NULL_OBJECT,ierr)
> >
> >      call MatCreateVecs(DLOAD,frhs,PETSC_NULL_OBJECT,ierr)
> >      call MatCreateVecs(DLOAD,sol,PETSC_NULL_OBJECT,ierr)
> >
> >      call MatGetOwnershipRange(DLOAD,IstartA,IendA,ierr)!;CHKERRQ(ierr)
> >
> >      allocate(xwork1(IendA-IstartA))
> >      allocate(loc(IendA-IstartA))
> >
> >      ct=0
> >      do i=IstartA,IendA-1
> >         ct=ct+1
> >         loc(ct)=i
> >         xwork1(ct)=(1.0d0,0.0d0)
> >      enddo
> >
> >      call VecSetValues(frhs,IendA-IstartA,loc,xwork1,INSERT_VALUES,ierr)
> >      call VecZeroEntries(sol,ierr)
> >
> >      deallocate(xwork1,loc)
> >
> > !.....Assemble Vectors
> >      call VecAssemblyBegin(frhs,ierr)
> >      call VecAssemblyEnd(frhs,ierr)
> >
> > !.....Solve the Linear System
> >      call KSPSolve(ksp,frhs,sol,ierr)
> >
> >      !call VecView(sol,PETSC_VIEWER_STDOUT_WORLD,ierr)
> >
> >      if (rank==0) then
> >         call cpu_time(endd)
> >         write(*,*)
> >         print '("Total time for HowBigLUCanBe = ",f21.3,"
> seconds.")',endd-begin
> >      endif
> >
> >      call SlepcFinalize(ierr)
> >
> >      STOP
> >
> >
> >    end Subroutine HowBigLUCanBe
> >
> > <Amat_binary.m.info>
>
>
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