Run in a debugger with -fp_trap to see where the bad value is generated. Use SNESSetFunctionDomainError() if appropriate.
On Tue, Jun 12, 2012 at 11:32 PM, behzad baghapour < behzad.baghapour at gmail.com> wrote: > Thanks. I did above procedure to my ComputeJacobian (only set values for > precondition matrix B and assemble both A and B). This tackles the problem > but the linear solver did not converged and bring the below error: > > 0: CFL = 100, Nonlinear = 0.0626958, Linear = (0,0,1e-05) 3.63577 > > ----------------------------------------------------------------------------- > Linear solve did not converge due to DIVERGED_ITS iterations 30 > 1: CFL = 100, Nonlinear = 0.108225, Linear = (30,0.047985,0.3) 0.0569319 > > ----------------------------------------------------------------------------- > > [0]PETSC ERROR: --------------------- Error Message > ------------------------------------ > [0]PETSC ERROR: Floating point exception! > [0]PETSC ERROR: Infinite or not-a-number generated in norm! > > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: Petsc Release Version 3.2.0, Patch 3, Fri Sep 30 10:28:33 > CDT 2011 > [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: ./code on a linux-gnu named baghapour by baghapour Wed Jun > 13 08:54:57 2012 > [0]PETSC ERROR: Libraries linked from > /home/baghapour/softs/petsc/linux-gnu-cxx-debug/lib > [0]PETSC ERROR: Configure run at Wed Nov 9 19:16:47 2011 > [0]PETSC ERROR: Configure options --with-cc=gcc --with-fc=gfortran > --with-cxx=g++ --download-f2cblaslapack=1 --download-mpich=1 > --with-clanguage=cxx --with-debugging=no --download-parms --download-hypre > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: VecNorm() line 167 in src/vec/vec/interface/rvector.c > [0]PETSC ERROR: MatMFFDCompute_WP() line 75 in src/mat/impls/mffd/wp.c > [0]PETSC ERROR: MatMult_MFFD() line 351 in src/mat/impls/mffd/mffd.c > [0]PETSC ERROR: MatMult() line 2177 in src/mat/interface/matrix.c > [0]PETSC ERROR: PCApplyBAorAB() line 610 in src/ksp/pc/interface/precon.c > [0]PETSC ERROR: GMREScycle() line 156 in src/ksp/ksp/impls/gmres/gmres.c > [0]PETSC ERROR: KSPSolve_GMRES() line 231 in > src/ksp/ksp/impls/gmres/gmres.c > [0]PETSC ERROR: KSPSolve() line 423 in src/ksp/ksp/interface/itfunc.c > [0]PETSC ERROR: SNES_KSPSolve() line 3396 in src/snes/interface/snes.c > [0]PETSC ERROR: SNESSolve_LS() line 190 in src/snes/impls/ls/ls.c > [0]PETSC ERROR: SNESSolve() line 2676 in src/snes/interface/snes.c > [0]PETSC ERROR: _petsc_NewtonTimeAdvance() line 141 in Newton.cpp > > Does it need to set specific options for linear solver (KSP) dealing with > MF? > > > > > > > > > On Wed, Jun 13, 2012 at 1:09 AM, Barry Smith <bsmith at mcs.anl.gov> wrote: > >> >> Like in your ComputeJacobian( Mat *J,Mat *B, ...) >> >> you are calling MatZeroEntries(*J....) and then MatSetValues(*J,....) >> >> you should not do that. You should call the zero entries and set >> values on B only. Then call MatAssemblyBegin/End() separately on BOTH >> matrices. >> >> Also if you checked the error code from MatZeroEntries() with a >> CHKERRQ(ierr) instead of ignoring it you would likely not get the crash >> below but would get stack frames instead. >> >> Barry >> >> On Jun 12, 2012, at 12:54 PM, Matthew Knepley wrote: >> >> > On Wed, Jun 13, 2012 at 1:46 AM, behzad baghapour < >> behzad.baghapour at gmail.com> wrote: >> > You are right! I do calculate the Jacobian and Preconditioning matrice >> in FormJacobian function with Mat context. When I used "-snes_mf_operator" >> I received the error: >> > >> > Right, you only want to assemble the preconditioning matrix if you use >> MF. >> > >> > Matt >> > >> > [0]PETSC ERROR: --------------------- Error Message >> ------------------------------------ >> > [0]PETSC ERROR: No support for this operation for this object type! >> > [0]PETSC ERROR: Mat type mffd! >> > [0]PETSC ERROR: >> ------------------------------------------------------------------------ >> > [0]PETSC ERROR: Petsc Release Version 3.2.0, Patch 3, Fri Sep 30 >> 10:28:33 CDT 2011 >> > [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: ./code on a linux-gnu named behzad-desktop by behzad >> Tue Jun 12 22:01:48 2012 >> > [0]PETSC ERROR: Libraries linked from >> /home/behzad/softs/petsc/linux-gnu-cxx-debug/lib >> > [0]PETSC ERROR: Configure run at Sat Dec 17 10:21:01 2011 >> > [0]PETSC ERROR: Configure options --with-cc=gcc --with-cxx=g++ >> --download-f2cblaslapack=1 --download-mpich=1 --download-hypre >> --download-parms --with-clanguage=cxx -with-debugging=no >> > [0]PETSC ERROR: >> ------------------------------------------------------------------------ >> > [0]PETSC ERROR: MatZeroEntries() line 5186 in src/mat/interface/matrix.c >> > [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]PETSCERROR: >> or try >> http://valgrind.org on GNU/linux and Apple Mac OS X to find memory >> corruption errors >> > [0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, >> and run >> > [0]PETSC ERROR: to get more information on the crash. >> > [0]PETSC ERROR: --------------------- Error Message >> ------------------------------------ >> > [0]PETSC ERROR: Signal received! >> > [0]PETSC ERROR: >> ------------------------------------------------------------------------ >> > [0]PETSC ERROR: Petsc Release Version 3.2.0, Patch 3, Fri Sep 30 >> 10:28:33 CDT 2011 >> > [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: ./code on a linux-gnu named behzad-desktop by behzad >> Tue Jun 12 22:01:48 2012 >> > [0]PETSC ERROR: Libraries linked from >> /home/behzad/softs/petsc/linux-gnu-cxx-debug/lib >> > [0]PETSC ERROR: Configure run at Sat Dec 17 10:21:01 2011 >> > [0]PETSC ERROR: Configure options --with-cc=gcc --with-cxx=g++ >> --download-f2cblaslapack=1 --download-mpich=1 --download-hypre >> --download-parms --with-clanguage=cxx -with-debugging=no >> > [0]PETSC ERROR: >> ------------------------------------------------------------------------ >> > [0]PETSC ERROR: User provided function() line 0 in unknown directory >> unknown file >> > application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0 >> > [cli_0]: aborting job: >> > application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0 >> > make: [run] Error 59 (ignored) >> > >> > >> > >> > On Tue, Jun 12, 2012 at 8:47 PM, Jed Brown <jedbrown at mcs.anl.gov> >> wrote: >> > On Tue, Jun 12, 2012 at 11:12 AM, behzad baghapour < >> behzad.baghapour at gmail.com> wrote: >> > Thank you. Now, I received the error which I should change Mat into >> mffd. >> > >> > Always include the entire error message! >> > >> > You have to assemble a matrix to use most preconditioners. >> > >> > >> > >> > >> > -- >> > What most experimenters take for granted before they begin their >> experiments is infinitely more interesting than any results to which their >> experiments lead. >> > -- Norbert Wiener >> >> > -------------- next part -------------- An HTML attachment was scrubbed... URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20120612/6e073496/attachment-0001.html>
