No I am using Hypre built automatically along with petsc... I will try ex10, thanks...
Matthew Knepley wrote: > This is already bad. You had an Invalid Read and Invalid Write in your > Hypre. Did you build it > yourself? If so, let us build it. If not, please try your matrix on KSP > ex10 and see if you get a > crash on 2 procs. > > Thanks, > > Matt > > On Sat, Nov 14, 2009 at 3:51 PM, Dominik Szczerba <dominik at itis.ethz.ch > <mailto:dominik at itis.ethz.ch>> wrote: > > run onlu in single, he says things like below - but does not crash. > Also, the program run with -np 1 does not crash. No clear idea > though about valgrind's output, please advise if this tells you > anything... > > Call from NS3T10::createSolverContexts() referenced therein is: > > ierr = KSPCreate(petsc_comm,&kspSchurVelocity);CHKERRQ(ierr); > > > ==2605== Conditional jump or move depends on uninitialised value(s) > ==2605== at 0x8AE720F: hypre_BoomerAMGSetPlotFileName > (par_amg.c:2115) > ==2605== by 0x8AE7ED9: hypre_BoomerAMGCreate (par_amg.c:276) > ==2605== by 0x8AE4A71: HYPRE_BoomerAMGCreate (HYPRE_parcsr_amg.c:31) > ==2605== by 0x8562019: PCHYPRESetType_HYPRE (hypre.c:850) > ==2605== by 0x8563068: PCHYPRESetType (hypre.c:964) > ==2605== by 0x80E67BB: NS3T10::createSolverContexts() > (NS3T10mpi.cxx:1980) > ==2605== by 0x80EA63B: NS3T10::solve() (NS3T10mpi.cxx:2306) > ==2605== by 0x8104860: main (ns3t10mpi_main.cxx:1516) > ==2605== > ==2605== Conditional jump or move depends on uninitialised value(s) > ==2605== at 0x8AE7244: hypre_BoomerAMGSetPlotFileName > (par_amg.c:2120) > ==2605== by 0x8AE7ED9: hypre_BoomerAMGCreate (par_amg.c:276) > ==2605== by 0x8AE4A71: HYPRE_BoomerAMGCreate (HYPRE_parcsr_amg.c:31) > ==2605== by 0x8562019: PCHYPRESetType_HYPRE (hypre.c:850) > ==2605== by 0x8563068: PCHYPRESetType (hypre.c:964) > ==2605== by 0x80E67BB: NS3T10::createSolverContexts() > (NS3T10mpi.cxx:1980) > ==2605== by 0x80EA63B: NS3T10::solve() (NS3T10mpi.cxx:2306) > ==2605== by 0x8104860: main (ns3t10mpi_main.cxx:1516) > ==2605== > ==2605== Conditional jump or move depends on uninitialised value(s) > ==2605== at 0x4025C16: strcpy (mc_replace_strmem.c:303) > ==2605== by 0x8AE727A: hypre_BoomerAMGSetPlotFileName > (par_amg.c:2123) > ==2605== by 0x8AE7ED9: hypre_BoomerAMGCreate (par_amg.c:276) > ==2605== by 0x8AE4A71: HYPRE_BoomerAMGCreate (HYPRE_parcsr_amg.c:31) > ==2605== by 0x8562019: PCHYPRESetType_HYPRE (hypre.c:850) > ==2605== by 0x8563068: PCHYPRESetType (hypre.c:964) > ==2605== by 0x80E67BB: NS3T10::createSolverContexts() > (NS3T10mpi.cxx:1980) > ==2605== by 0x80EA63B: NS3T10::solve() (NS3T10mpi.cxx:2306) > ==2605== by 0x8104860: main (ns3t10mpi_main.cxx:1516) > ==2605== > ==2605== Conditional jump or move depends on uninitialised value(s) > ==2605== at 0x4025C35: strcpy (mc_replace_strmem.c:303) > ==2605== by 0x8AE727A: hypre_BoomerAMGSetPlotFileName > (par_amg.c:2123) > ==2605== by 0x8AE7ED9: hypre_BoomerAMGCreate (par_amg.c:276) > ==2605== by 0x8AE4A71: HYPRE_BoomerAMGCreate (HYPRE_parcsr_amg.c:31) > ==2605== by 0x8562019: PCHYPRESetType_HYPRE (hypre.c:850) > ==2605== by 0x8563068: PCHYPRESetType (hypre.c:964) > ==2605== by 0x80E67BB: NS3T10::createSolverContexts() > (NS3T10mpi.cxx:1980) > ==2605== by 0x80EA63B: NS3T10::solve() (NS3T10mpi.cxx:2306) > ==2605== by 0x8104860: main (ns3t10mpi_main.cxx:1516) > ==2605== > Solver contexts created in 2.520000 s > Starting KSPSolve (0/1) > 0 KSP Residual norm 8.368803253774e-06 > ==2605== Invalid read of size 8 > ==2605== at 0x8B23B5A: hypre_BoomerAMGCreateS (par_strength.c:223) > ==2605== by 0x8AE966F: hypre_BoomerAMGSetup (par_amg_setup.c:630) > ==2605== by 0x8AE4A4D: HYPRE_BoomerAMGSetup (HYPRE_parcsr_amg.c:58) > ==2605== by 0x855A5D9: PCSetUp_HYPRE (hypre.c:134) > ==2605== by 0x86256A9: PCSetUp (precon.c:794) > ==2605== by 0x85A6E62: KSPSetUp (itfunc.c:237) > ==2605== by 0x85A7EAB: KSPSolve (itfunc.c:353) > ==2605== by 0x80F5B16: applyPrecSchur(void*, _p_Vec*, _p_Vec*) > (NS3T10mpi.cxx:3741) > ==2605== by 0x851C47E: PCApply_Shell (shellpc.c:129) > ==2605== by 0x862074E: PCApply (precon.c:357) > ==2605== by 0x863AC4C: KSPInitialResidual (itres.c:64) > ==2605== by 0x85EB09A: KSPSolve_GMRES (gmres.c:241) > ==2605== Address 0xafae5d0 is 0 bytes after a block of size 93,488 > alloc'd > ==2605== at 0x4023F5B: calloc (vg_replace_malloc.c:418) > ==2605== by 0x8B4E9C7: hypre_CAlloc (hypre_memory.c:121) > ==2605== by 0x8B4CA67: hypre_CSRMatrixInitialize (csr_matrix.c:91) > ==2605== by 0x8B32EC8: hypre_ParCSRMatrixInitialize > (par_csr_matrix.c:200) > ==2605== by 0x8AE0C44: hypre_IJMatrixInitializeParCSR > (IJMatrix_parcsr.c:272) > ==2605== by 0x8ADBE09: HYPRE_IJMatrixInitialize > (HYPRE_IJMatrix.c:302) > ==2605== by 0x891AD3A: MatHYPRE_IJMatrixFastCopy_SeqAIJ (mhyp.c:174) > ==2605== by 0x891A2E1: MatHYPRE_IJMatrixCopy (mhyp.c:131) > ==2605== by 0x855A445: PCSetUp_HYPRE (hypre.c:130) > ==2605== by 0x86256A9: PCSetUp (precon.c:794) > ==2605== by 0x85A6E62: KSPSetUp (itfunc.c:237) > ==2605== by 0x85A7EAB: KSPSolve (itfunc.c:353) > ==2605== > ==2605== Invalid write of size 4 > ==2605== at 0x8B23E0C: hypre_BoomerAMGCreateS (par_strength.c:301) > ==2605== by 0x8AE966F: hypre_BoomerAMGSetup (par_amg_setup.c:630) > ==2605== by 0x8AE4A4D: HYPRE_BoomerAMGSetup (HYPRE_parcsr_amg.c:58) > ==2605== by 0x855A5D9: PCSetUp_HYPRE (hypre.c:134) > ==2605== by 0x86256A9: PCSetUp (precon.c:794) > ==2605== by 0x85A6E62: KSPSetUp (itfunc.c:237) > ==2605== by 0x85A7EAB: KSPSolve (itfunc.c:353) > ==2605== by 0x80F5B16: applyPrecSchur(void*, _p_Vec*, _p_Vec*) > (NS3T10mpi.cxx:3741) > ==2605== by 0x851C47E: PCApply_Shell (shellpc.c:129) > ==2605== by 0x862074E: PCApply (precon.c:357) > ==2605== by 0x863AC4C: KSPInitialResidual (itres.c:64) > ==2605== by 0x85EB09A: KSPSolve_GMRES (gmres.c:241) > ==2605== Address 0xb12a050 is 0 bytes after a block of size 46,744 > alloc'd > ==2605== at 0x4023F5B: calloc (vg_replace_malloc.c:418) > ==2605== by 0x8B4E9C7: hypre_CAlloc (hypre_memory.c:121) > ==2605== by 0x8B23980: hypre_BoomerAMGCreateS (par_strength.c:163) > ==2605== by 0x8AE966F: hypre_BoomerAMGSetup (par_amg_setup.c:630) > ==2605== by 0x8AE4A4D: HYPRE_BoomerAMGSetup (HYPRE_parcsr_amg.c:58) > ==2605== by 0x855A5D9: PCSetUp_HYPRE (hypre.c:134) > ==2605== by 0x86256A9: PCSetUp (precon.c:794) > ==2605== by 0x85A6E62: KSPSetUp (itfunc.c:237) > ==2605== by 0x85A7EAB: KSPSolve (itfunc.c:353) > ==2605== by 0x80F5B16: applyPrecSchur(void*, _p_Vec*, _p_Vec*) > (NS3T10mpi.cxx:3741) > ==2605== by 0x851C47E: PCApply_Shell (shellpc.c:129) > ==2605== by 0x862074E: PCApply (precon.c:357) > ==2605== > ... > ==2605== Invalid read of size 8 > ==2605== at 0x8B1ACE8: hypre_BoomerAMGRelax (par_relax.c:182) > ==2605== by 0x8B1DFBF: hypre_BoomerAMGRelaxIF > (par_relax_interface.c:110) > ==2605== by 0x8AFC310: hypre_BoomerAMGCycle (par_cycle.c:386) > ==2605== by 0x8AEE09E: hypre_BoomerAMGSolve (par_amg_solve.c:252) > ==2605== by 0x8AE4A25: HYPRE_BoomerAMGSolve (HYPRE_parcsr_amg.c:76) > ==2605== by 0x855AAA4: PCApply_HYPRE (hypre.c:172) > ==2605== by 0x862074E: PCApply (precon.c:357) > ==2605== by 0x8606095: KSPSolve_PREONLY (preonly.c:29) > ==2605== by 0x85A85D3: KSPSolve (itfunc.c:385) > ==2605== by 0x80F5B16: applyPrecSchur(void*, _p_Vec*, _p_Vec*) > (NS3T10mpi.cxx:3741) > ==2605== by 0x851C47E: PCApply_Shell (shellpc.c:129) > ==2605== by 0x862074E: PCApply (precon.c:357) > ==2605== Address 0xafae5d0 is 0 bytes after a block of size 93,488 > alloc'd > ==2605== at 0x4023F5B: calloc (vg_replace_malloc.c:418) > ==2605== by 0x8B4E9C7: hypre_CAlloc (hypre_memory.c:121) > ==2605== by 0x8B4CA67: hypre_CSRMatrixInitialize (csr_matrix.c:91) > ==2605== by 0x8B32EC8: hypre_ParCSRMatrixInitialize > (par_csr_matrix.c:200) > ==2605== by 0x8AE0C44: hypre_IJMatrixInitializeParCSR > (IJMatrix_parcsr.c:272) > ==2605== by 0x8ADBE09: HYPRE_IJMatrixInitialize > (HYPRE_IJMatrix.c:302) > ==2605== by 0x891AD3A: MatHYPRE_IJMatrixFastCopy_SeqAIJ (mhyp.c:174) > ==2605== by 0x891A2E1: MatHYPRE_IJMatrixCopy (mhyp.c:131) > ==2605== by 0x855A445: PCSetUp_HYPRE (hypre.c:130) > ==2605== by 0x86256A9: PCSetUp (precon.c:794) > ==2605== by 0x85A6E62: KSPSetUp (itfunc.c:237) > ==2605== by 0x85A7EAB: KSPSolve (itfunc.c:353) > ==2605== > ... > 0 KSP Residual norm 8.368803253774e-06 > ==2605== Invalid read of size 8 > ==2605== at 0x8B1ADC0: hypre_BoomerAMGRelax (par_relax.c:196) > ==2605== by 0x8B1DFBF: hypre_BoomerAMGRelaxIF > (par_relax_interface.c:110) > ==2605== by 0x8AFC310: hypre_BoomerAMGCycle (par_cycle.c:386) > ==2605== by 0x8AEE09E: hypre_BoomerAMGSolve (par_amg_solve.c:252) > ==2605== by 0x8AE4A25: HYPRE_BoomerAMGSolve (HYPRE_parcsr_amg.c:76) > ==2605== by 0x855AAA4: PCApply_HYPRE (hypre.c:172) > ==2605== by 0x862074E: PCApply (precon.c:357) > ==2605== by 0x8606095: KSPSolve_PREONLY (preonly.c:29) > ==2605== by 0x85A85D3: KSPSolve (itfunc.c:385) > ==2605== by 0x80F5B16: applyPrecSchur(void*, _p_Vec*, _p_Vec*) > (NS3T10mpi.cxx:3741) > ==2605== by 0x851C47E: PCApply_Shell (shellpc.c:129) > ==2605== by 0x862074E: PCApply (precon.c:357) > ==2605== Address 0xcded820 is 0 bytes after a block of size 93,488 > alloc'd > ==2605== at 0x4023F5B: calloc (vg_replace_malloc.c:418) > ==2605== by 0x8B4E9C7: hypre_CAlloc (hypre_memory.c:121) > ==2605== by 0x8B4CA67: hypre_CSRMatrixInitialize (csr_matrix.c:91) > ==2605== by 0x8B32EC8: hypre_ParCSRMatrixInitialize > (par_csr_matrix.c:200) > ==2605== by 0x8AE0C44: hypre_IJMatrixInitializeParCSR > (IJMatrix_parcsr.c:272) > ==2605== by 0x8ADBE09: HYPRE_IJMatrixInitialize > (HYPRE_IJMatrix.c:302) > ==2605== by 0x891AD3A: MatHYPRE_IJMatrixFastCopy_SeqAIJ (mhyp.c:174) > ==2605== by 0x891A2E1: MatHYPRE_IJMatrixCopy (mhyp.c:131) > ==2605== by 0x855A445: PCSetUp_HYPRE (hypre.c:130) > ==2605== by 0x86256A9: PCSetUp (precon.c:794) > ==2605== by 0x85A6E62: KSPSetUp (itfunc.c:237) > ==2605== by 0x85A7EAB: KSPSolve (itfunc.c:353) > ==2605== > > > > > Matthew Knepley wrote: > > Try valgrind. > > Matt > > > On Sat, Nov 14, 2009 at 3:32 PM, Dominik Szczerba > <dominik at itis.ethz.ch <mailto:dominik at itis.ethz.ch> > <mailto:dominik at itis.ethz.ch <mailto:dominik at itis.ethz.ch>>> > wrote: > > Now for something more serious: I get a crash like this one: > > Starting KSPSolve (1/2) > 0 KSP Residual norm 2.964538623545e-06 > *** glibc detected *** /home/domel/build/solve-debug/ns3t10mpi: > malloc(): memory corruption: 0x09258008 *** > ======= Backtrace: ========= > /lib/tls/i686/cmov/libc.so.6[0x5f9ff1] > /lib/tls/i686/cmov/libc.so.6[0x5fcbb3] > /lib/tls/i686/cmov/libc.so.6(__libc_calloc+0xa9)[0x5fe009] > > /home/domel/build/solve-debug/ns3t10mpi(hypre_CAlloc+0x2c)[0x8b4ea28] > > > /home/domel/build/solve-debug/ns3t10mpi(hypre_BoomerAMGCoarsenRuge+0xb5)[0x8af2c7b] > (and so on) > > gdb invoked as: > > mpiexec -np 2 ..... -on_error_attach_debugger -display :0.0 > > does not display any backtrace after the crash. > > Any hints how to debug are highly appreciated. > > Dominik > > > > > -- > 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 > > > > > > -- > 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
