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Dear Petsc users,</div>
<div style="font-family: Calibri,Arial,Helvetica,sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
I have a code which is very strange that works for some cases and for some cases it gives an error. I run the following command:</div>
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<br>
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<span>mpiexec -np 20 valgrind --tool=memcheck -q --num-callers=20 --log-file=valgrind.log.%p ./one.out -ts_monitor -snes_fd_color -ts_max_snes_failures -1 -ts_type bdf -ts_bdf_adapt -pc_type bjacobi -snes_linesearch_type l2 -snes_type ksponly -ksp_type gmres
-ksp_gmres_restart 1001 -sub_pc_type ilu -sub_ksp_type preonly -malloc_dump<br>
</span><span></span></div>
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<br>
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the error is as following and nothing is written in valgrid log files. Can someone please help me on how to solve the problem? the system size is 600x1200 and I have two degrees of freedom per grid point. Can this be due to the fact that I need to assign a
larger number of processors?<br>
</div>
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How should I know if the problem is related to this or anything else?</div>
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<br>
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<div style="font-family: Calibri,Arial,Helvetica,sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
Thanks,</div>
<div style="font-family: Calibri,Arial,Helvetica,sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
Sepideh<br>
</div>
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<br>
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.</div>
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.</div>
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.</div>
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.</div>
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.</div>
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.<br>
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<span>[ 0]16 bytes PetscStrallocpy() line 197 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/utils/str.c<br>
</span>
<div> [0] PetscStrallocpy() line 197 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/utils/str.c<br>
</div>
<div> [0] PetscClassRegLogRegister() line 242 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/classlog.c<br>
</div>
<div> [0] PetscClassIdRegister() line 2042 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/plog.c<br>
</div>
<div> [0] PetscSysInitializePackage() line 45 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/classes/viewer/interface/dlregispetsc.c<br>
</div>
<div> [0] DMCreate() line 36 in /home/skavou1/Downloads/petsc-3.7.3/src/dm/interface/dm.c<br>
</div>
<div> [0] DMDACreate() line 460 in /home/skavou1/Downloads/petsc-3.7.3/src/dm/impls/da/dacreate.c<br>
</div>
<div> [0] DMDACreate2d() line 854 in /home/skavou1/Downloads/petsc-3.7.3/src/dm/impls/da/da2.c<br>
</div>
<div>[ 0]10032 bytes PetscSegBufferCreate() line 68 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/utils/segbuffer.c<br>
</div>
<div>[ 0]16 bytes PetscSegBufferCreate() line 67 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/utils/segbuffer.c<br>
</div>
<div>[ 0]16 bytes PetscOptionsHelpPrintedCreate() line 50 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/classes/viewer/interface/viewreg.c<br>
</div>
<div>[ 0]3200 bytes ClassPerfLogCreate() line 121 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/classlog.c<br>
</div>
<div>[ 0]16 bytes ClassPerfLogCreate() line 116 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/classlog.c<br>
</div>
<div>[ 0]16 bytes EventPerfLogCreate() line 92 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/eventlog.c<br>
</div>
<div>[ 0]16 bytes PetscStrallocpy() line 197 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/utils/str.c<br>
</div>
<div>[ 0]1600 bytes PetscClassRegLogCreate() line 36 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/classlog.c<br>
</div>
<div>[ 0]16 bytes PetscClassRegLogCreate() line 31 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/classlog.c<br>
</div>
<div>[ 0]16 bytes EventRegLogCreate() line 34 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/eventlog.c<br>
</div>
<div>[ 0]1280 bytes PetscStageLogCreate() line 635 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/stagelog.c<br>
</div>
<div>[ 0]512 bytes PetscIntStackCreate() line 177 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/stack.c<br>
</div>
<div>[ 0]16 bytes PetscIntStackCreate() line 172 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/stack.c<br>
</div>
<div>[ 0]48 bytes PetscStageLogCreate() line 628 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/logging/utils/stagelog.c<br>
</div>
<div>[ 0]10032 bytes PetscSegBufferCreate() line 68 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/utils/segbuffer.c<br>
</div>
<div>[ 0]16 bytes PetscSegBufferCreate() line 67 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/utils/segbuffer.c<br>
</div>
<div>[ 0]32 bytes PetscPushSignalHandler() line 307 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/error/signal.c<br>
</div>
<div>[0]PETSC ERROR: Memory requested 414030660<br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 MatFDColoringSetUpBlocked_AIJ_Private() line 122 in /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: #2 PetscTrMallocDefault() line 188 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/memory/mtr.c<br>
</div>
<div>[0]PETSC ERROR: #3 MatFDColoringSetUpBlocked_AIJ_Private() line 122 in /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: #4 MatFDColoringSetUp_SeqXAIJ() line 277 in /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: #5 MatFDColoringSetUp() line 252 in /home/skavou1/Downloads/petsc-3.7.3/src/mat/matfd/fdmatrix.c<br>
</div>
<div>[0]PETSC ERROR: #6 SNESComputeJacobianDefaultColor() line 76 in /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snesj2.c<br>
</div>
<div>[0]PETSC ERROR: #7 SNESComputeJacobian() line 2312 in /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: #8 SNESSolve_KSPONLY() line 38 in /home/skavou1/Downloads/petsc-3.7.3/src/snes/impls/ksponly/ksponly.c<br>
</div>
<div>[0]PETSC ERROR: #9 SNESSolve() line 4005 in /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: #10 TS_SNESSolve() line 160 in /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: #11 TSBDF_Restart() line 181 in /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: #12 TSStep_BDF() line 216 in /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: #13 TSStep() line 3733 in /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: #14 TSSolve() line 3982 in /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: #15 main() line 267 in /data/skavou1/Ni-Nb/Fig-3/one.c<br>
</div>
<div>[0]PETSC ERROR: PETSc Option Table entries:<br>
</div>
<div>[0]PETSC ERROR: -ksp_gmres_restart 1001<br>
</div>
<div>[0]PETSC ERROR: -ksp_type gmres<br>
</div>
<div>[0]PETSC ERROR: -malloc_dump<br>
</div>
<div>[0]PETSC ERROR: -pc_type bjacobi<br>
</div>
<div>[0]PETSC ERROR: -snes_fd_color<br>
</div>
<div>[0]PETSC ERROR: -snes_linesearch_type l2<br>
</div>
<div>[0]PETSC ERROR: -snes_type ksponly<br>
</div>
<div>[0]PETSC ERROR: -sub_ksp_type preonly<br>
</div>
<div>[0]PETSC ERROR: -sub_pc_type ilu<br>
</div>
<div>[0]PETSC ERROR: -ts_bdf_adapt<br>
</div>
<div>[0]PETSC ERROR: -ts_max_snes_failures -1<br>
</div>
<div>[0]PETSC ERROR: -ts_monitor<br>
</div>
<div>[0]PETSC ERROR: -ts_type bdf<br>
</div>
<div>[0]PETSC ERROR: ----------------End of Error Message -------send entire error message to petsc-maint@mcs.anl.gov----------<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 55) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 55) - process 0<br>
</div>
<div>[0]PETSC ERROR: ------------------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Caught signal number 15 Terminate: Some process (or the batch system) has told this process to end<br>
</div>
<div>[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger<br>
</div>
<div>[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors<br>
</div>
<div>[0]PETSC ERROR: likely location of problem given in stack below<br>
</div>
<div>[0]PETSC ERROR: --------------------- Stack Frames ------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,<br>
</div>
<div>[0]PETSC ERROR: INSTEAD the line number of the start of the function<br>
</div>
<div>[0]PETSC ERROR: is given.<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp_SeqXAIJ line 184 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp line 245 /home/skavou1/Downloads/petsc-3.7.3/src/mat/matfd/fdmatrix.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobianDefaultColor line 62 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snesj2.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNES user Jacobian function line 2311 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobian line 2270 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve_KSPONLY line 12 /home/skavou1/Downloads/petsc-3.7.3/src/snes/impls/ksponly/ksponly.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve line 3958 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] TS_SNESSolve line 159 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSBDF_Restart line 174 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep_BDF line 204 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep line 3712 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSSolve line 3933 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Signal received<br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 User provided function() line 0 in unknown file<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[0]PETSC ERROR: ------------------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Caught signal number 15 Terminate: Some process (or the batch system) has told this process to end<br>
</div>
<div>[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger<br>
</div>
<div>[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors<br>
</div>
<div>[0]PETSC ERROR: likely location of problem given in stack below<br>
</div>
<div>[0]PETSC ERROR: --------------------- Stack Frames ------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,<br>
</div>
<div>[0]PETSC ERROR: INSTEAD the line number of the start of the function<br>
</div>
<div>[0]PETSC ERROR: is given.<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUpBlocked_AIJ_Private line 67 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp_SeqXAIJ line 184 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp line 245 /home/skavou1/Downloads/petsc-3.7.3/src/mat/matfd/fdmatrix.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobianDefaultColor line 62 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snesj2.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNES user Jacobian function line 2311 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobian line 2270 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve_KSPONLY line 12 /home/skavou1/Downloads/petsc-3.7.3/src/snes/impls/ksponly/ksponly.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve line 3958 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] TS_SNESSolve line 159 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSBDF_Restart line 174 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep_BDF line 204 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep line 3712 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSSolve line 3933 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Signal received<br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 User provided function() line 0 in unknown file<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[0]PETSC ERROR: ------------------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Caught signal number 15 Terminate: Some process (or the batch system) has told this process to end<br>
</div>
<div>[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger<br>
</div>
<div>[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors<br>
</div>
<div>[0]PETSC ERROR: likely location of problem given in stack below<br>
</div>
<div>[0]PETSC ERROR: --------------------- Stack Frames ------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,<br>
</div>
<div>[0]PETSC ERROR: INSTEAD the line number of the start of the function<br>
</div>
<div>[0]PETSC ERROR: is given.<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUpBlocked_AIJ_Private line 67 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp_SeqXAIJ line 184 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp line 245 /home/skavou1/Downloads/petsc-3.7.3/src/mat/matfd/fdmatrix.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobianDefaultColor line 62 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snesj2.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNES user Jacobian function line 2311 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobian line 2270 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve_KSPONLY line 12 /home/skavou1/Downloads/petsc-3.7.3/src/snes/impls/ksponly/ksponly.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve line 3958 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] TS_SNESSolve line 159 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSBDF_Restart line 174 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep_BDF line 204 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep line 3712 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSSolve line 3933 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Signal received<br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 User provided function() line 0 in unknown file<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[0]PETSC ERROR: ------------------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Caught signal number 15 Terminate: Some process (or the batch system) has told this process to end<br>
</div>
<div>[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger<br>
</div>
<div>[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors<br>
</div>
<div>[0]PETSC ERROR: likely location of problem given in stack below<br>
</div>
<div>[0]PETSC ERROR: --------------------- Stack Frames ------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,<br>
</div>
<div>[0]PETSC ERROR: INSTEAD the line number of the start of the function<br>
</div>
<div>[0]PETSC ERROR: is given.<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUpBlocked_AIJ_Private line 67 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp_SeqXAIJ line 184 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp line 245 /home/skavou1/Downloads/petsc-3.7.3/src/mat/matfd/fdmatrix.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobianDefaultColor line 62 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snesj2.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNES user Jacobian function line 2311 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobian line 2270 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve_KSPONLY line 12 /home/skavou1/Downloads/petsc-3.7.3/src/snes/impls/ksponly/ksponly.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve line 3958 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] TS_SNESSolve line 159 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSBDF_Restart line 174 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep_BDF line 204 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep line 3712 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSSolve line 3933 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Signal received<br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 User provided function() line 0 in unknown file<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[0]PETSC ERROR: ------------------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Caught signal number 15 Terminate: Some process (or the batch system) has told this process to end<br>
</div>
<div>[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger<br>
</div>
<div>[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors<br>
</div>
<div>[0]PETSC ERROR: likely location of problem given in stack below<br>
</div>
<div>[0]PETSC ERROR: --------------------- Stack Frames ------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,<br>
</div>
<div>[0]PETSC ERROR: INSTEAD the line number of the start of the function<br>
</div>
<div>[0]PETSC ERROR: is given.<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUpBlocked_AIJ_Private line 67 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp_SeqXAIJ line 184 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp line 245 /home/skavou1/Downloads/petsc-3.7.3/src/mat/matfd/fdmatrix.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobianDefaultColor line 62 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snesj2.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNES user Jacobian function line 2311 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobian line 2270 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve_KSPONLY line 12 /home/skavou1/Downloads/petsc-3.7.3/src/snes/impls/ksponly/ksponly.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve line 3958 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] TS_SNESSolve line 159 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSBDF_Restart line 174 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep_BDF line 204 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep line 3712 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSSolve line 3933 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Signal received<br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 User provided function() line 0 in unknown file<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[0]PETSC ERROR: ------------------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Caught signal number 15 Terminate: Some process (or the batch system) has told this process to end<br>
</div>
<div>[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger<br>
</div>
<div>[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors<br>
</div>
<div>[0]PETSC ERROR: likely location of problem given in stack below<br>
</div>
<div>[0]PETSC ERROR: --------------------- Stack Frames ------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,<br>
</div>
<div>[0]PETSC ERROR: INSTEAD the line number of the start of the function<br>
</div>
<div>[0]PETSC ERROR: is given.<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp_SeqXAIJ line 184 /home/skavou1/Downloads/petsc-3.7.3/src/mat/impls/aij/seq/fdaij.c<br>
</div>
<div>[0]PETSC ERROR: [0] MatFDColoringSetUp line 245 /home/skavou1/Downloads/petsc-3.7.3/src/mat/matfd/fdmatrix.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobianDefaultColor line 62 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snesj2.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNES user Jacobian function line 2311 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESComputeJacobian line 2270 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve_KSPONLY line 12 /home/skavou1/Downloads/petsc-3.7.3/src/snes/impls/ksponly/ksponly.c<br>
</div>
<div>[0]PETSC ERROR: [0] SNESSolve line 3958 /home/skavou1/Downloads/petsc-3.7.3/src/snes/interface/snes.c<br>
</div>
<div>[0]PETSC ERROR: [0] TS_SNESSolve line 159 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSBDF_Restart line 174 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep_BDF line 204 /home/skavou1/Downloads/petsc-3.7.3/src/ts/impls/bdf/bdf.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSStep line 3712 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: [0] TSSolve line 3933 /home/skavou1/Downloads/petsc-3.7.3/src/ts/interface/ts.c<br>
</div>
<div>[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Signal received<br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 User provided function() line 0 in unknown file<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0<br>
</div>
<div>[0]PETSC ERROR: ------------------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Caught signal number 15 Terminate: Some process (or the batch system) has told this process to end<br>
</div>
<div>[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger<br>
</div>
<div>[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors<br>
</div>
<div>[0]PETSC ERROR: PetscMallocValidate: error detected at PetscSignalHandlerDefault() line 149 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/error/signal.c<br>
</div>
<div>[0]PETSC ERROR: Memory [id=0(414029056)] at address 0x2cfac680 already freed<br>
</div>
<div>[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------<br>
</div>
<div>[0]PETSC ERROR: Memory corruption: http://www.mcs.anl.gov/petsc/documentation/installation.html#valgrind<br>
</div>
<div>[0]PETSC ERROR: <br>
</div>
<div>[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.<br>
</div>
<div>[0]PETSC ERROR: Petsc Release Version 3.7.3, Jul, 24, 2016 <br>
</div>
<div>[0]PETSC ERROR: ./one.out on a one named kratos by skavou1 Wed Aug 28 12:41:38 2019<br>
</div>
<div>[0]PETSC ERROR: Configure options PETSC_ARCH=one --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack<br>
</div>
<div>[0]PETSC ERROR: #1 PetscMallocValidate() line 144 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/memory/mtr.c<br>
</div>
<div>[0]PETSC ERROR: #2 PetscSignalHandlerDefault() line 149 in /home/skavou1/Downloads/petsc-3.7.3/src/sys/error/signal.c<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 0) - process 0<br>
</div>
<div>[unset]: aborting job:<br>
</div>
<div>application called MPI_Abort(MPI_COMM_WORLD, 0) - process 0<br>
</div>
<div>--------------------------------------------------------------------------<br>
</div>
<div>mpiexec noticed that process rank 15 with PID 0 on node kratos exited on signal 9 (Killed).<br>
</div>
<div>--------------------------------------------------------------------------<br>
</div>
<div>(base) skavou1@kratos:/data/skavou1/Ni-Nb/Fig-3$ <br>
</div>
<span></span><br>
</div>
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