Ok, next step is valgrind http://www.mcs.anl.gov/petsc/petsc-as/documentation/faq.html#valgrind
valgrind is an amazing tool (and I don't say the easily) to help track down memory corruption problems that otherwise are difficult to find. It is likely that valgrind can resolve this issue in a few minutes. Barry On Jul 29, 2011, at 12:52 PM, Travis C. Fisher wrote: > Barry, > > I added the line, > call MatSetOption(pcmat,MAT_NEW_NONZERO_LOCATION_ERR,PETSC_TRUE,ierr), > after the call to matrix assembly and do not get an error associated with the > nonzero locations. > > Here is the error running superlu_dist with one processor. > > 0 SNES Function norm 9.448256037271e+02 > Nonzeros in L 21005940 > Nonzeros in U 21018240 > nonzeros in L+U 41958975 > nonzeros in LSUB 3914621 > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, > probably memory access out of range > [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger > [0]PETSC ERROR: or see > http://www.mcs.anl.gov/petsc/petsc-as/documentation/faq.html#valgrind[0]PETSC > ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find > memory corruption errors > [0]PETSC ERROR: likely location of problem given in stack below > [0]PETSC ERROR: --------------------- Stack Frames > ------------------------------------ > [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available, > [0]PETSC ERROR: INSTEAD the line number of the start of the function > [0]PETSC ERROR: is given. > [0]PETSC ERROR: [0] MatSolve_SuperLU_DIST line 117 > /scratch/tfisher/petsc-dev/src/mat/impls/aij/mpi/superlu_dist/superlu_dist.c > [0]PETSC ERROR: [0] MatSolve line 3039 > /scratch/tfisher/petsc-dev/src/mat/interface/matrix.c > [0]PETSC ERROR: [0] PCApply_LU line 202 > /scratch/tfisher/petsc-dev/src/ksp/pc/impls/factor/lu/lu.c > [0]PETSC ERROR: [0] PCApply line 373 > /scratch/tfisher/petsc-dev/src/ksp/pc/interface/precon.c > [0]PETSC ERROR: [0] KSPInitialResidual line 45 > /scratch/tfisher/petsc-dev/src/ksp/ksp/interface/itres.c > [0]PETSC ERROR: [0] KSPSolve_LGMRES line 354 > /scratch/tfisher/petsc-dev/src/ksp/ksp/impls/gmres/lgmres/lgmres.c > [0]PETSC ERROR: [0] KSPSolve line 330 > /scratch/tfisher/petsc-dev/src/ksp/ksp/interface/itfunc.c > [0]PETSC ERROR: [0] SNES_KSPSolve line 3364 > /scratch/tfisher/petsc-dev/src/snes/interface/snes.c > [0]PETSC ERROR: [0] SNESSolve_LS line 142 > /scratch/tfisher/petsc-dev/src/snes/impls/ls/ls.c > [0]PETSC ERROR: [0] SNESSolve line 2617 > /scratch/tfisher/petsc-dev/src/snes/interface/snes.c > [0]PETSC ERROR: --------------------- Error Message > ------------------------------------ > [0]PETSC ERROR: Signal received! > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: Petsc Development HG revision: > 77f4001db099d653cddbbaf61d75c0cf8cf833fd HG Date: Fri Jul 29 13:41:12 2011 > +0200 > [0]PETSC ERROR: See docs/changes/index.html for recent updates. > [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting. > [0]PETSC ERROR: See docs/index.html for manual pages. > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: ./HFCFS on a arch-linu named larss-nad by tcfishe1 Fri Jul 29 > 13:47:04 2011 > [0]PETSC ERROR: Libraries linked from /ump/fldmd/home/tcfishe1/gnucompiled/lib > [0]PETSC ERROR: Configure run at Fri Jul 29 11:37:36 2011 > [0]PETSC ERROR: Configure options > --prefix=/ump/fldmd/home/tcfishe1/gnucompiled --download-fblas-lapack=yes > --download-superlu_dist=yes --download-parmetis=yes --download-hypre=yes > --download-mumps=yes --download-blacs=yes --download-scalapack=yes > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: User provided function() line 0 in unknown directory unknown > file > -------------------------------------------------------------------------- > MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_WORLD > with errorcode 59. > > Thanks, > > Travis >
