[petsc-users] Problem with large grid size
Fazlul Huq
huq2090 at gmail.com
Thu Nov 29 20:54:27 CST 2018
Sorry! I made mistake in running the code.
It's actually working now until matrix size of 9999999!
But when I try to extend to one order more it give me error message:
**************************************************************************************************************************
Out of memory trying to allocate 799999992 bytes
[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/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] HYPRE_SetupXXX line 322
/home/huq2090/petsc-3.10.2/src/ksp/pc/impls/hypre/hypre.c
[0]PETSC ERROR: [0] PCSetUp_HYPRE line 138
/home/huq2090/petsc-3.10.2/src/ksp/pc/impls/hypre/hypre.c
[0]PETSC ERROR: [0] PCSetUp line 894
/home/huq2090/petsc-3.10.2/src/ksp/pc/interface/precon.c
[0]PETSC ERROR: [0] KSPSetUp line 304
/home/huq2090/petsc-3.10.2/src/ksp/ksp/interface/itfunc.c
[0]PETSC ERROR: [0] KSPSolve line 678
/home/huq2090/petsc-3.10.2/src/ksp/ksp/interface/itfunc.c
[0]PETSC ERROR: --------------------- Error Message
--------------------------------------------------------------
[0]PETSC ERROR: Signal received
[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for
trouble shooting.
[0]PETSC ERROR: Petsc Release Version 3.10.2, Oct, 09, 2018
[0]PETSC ERROR: ./poisson_m on a arch-linux2-c-debug named
huq2090-XPS-15-9570 by huq2090 Thu Nov 29 20:47:50 2018
[0]PETSC ERROR: Configure options --download-hypre --download-mpich
--with-64-bit-indices
[0]PETSC ERROR: #1 User provided function() line 0 in unknown file
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
[unset]: write_line error; fd=-1 buf=:cmd=abort exitcode=59
:
system msg for write_line failure : Bad file descriptor
**************************************************************************************************************************************
I am using dell xps laptop with 32 GB RAM, Intel 8th generation core i7
processor.
Since the RAM is 32 GB, is there any way to allocate even higher order
problem in my machine?
Thanks.
Sincerely,
Huq
On Thu, Nov 29, 2018 at 8:26 PM Fazlul Huq <huq2090 at gmail.com> wrote:
> Thanks.
>
> I have configured with 64-bit and then when I run, I got the following
> error message:
>
> ***********************************************************************************************************************
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR: Out of memory. This could be due to allocating
> [0]PETSC ERROR: too large an object or bleeding by not properly
> [0]PETSC ERROR: destroying unneeded objects.
> [0]PETSC ERROR: Memory allocated 41632 Memory used by process 13361152
> [0]PETSC ERROR: Try running with -malloc_dump or -malloc_log for info.
> [0]PETSC ERROR: Memory requested 1614907707076
> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> [0]PETSC ERROR: Petsc Release Version 3.10.2, Oct, 09, 2018
> [0]PETSC ERROR: ./poisson_m on a arch-linux2-c-debug named
> huq2090-XPS-15-9570 by huq2090 Thu Nov 29 20:24:13 2018
> [0]PETSC ERROR: Configure options --download-hypre --download-mpich
> --with-64-bit-indices
> [0]PETSC ERROR: #1 VecCreate_Seq() line 35 in
> /home/huq2090/petsc-3.10.2/src/vec/vec/impls/seq/bvec3.c
> [0]PETSC ERROR: #2 PetscTrMallocDefault() line 183 in
> /home/huq2090/petsc-3.10.2/src/sys/memory/mtr.c
> [0]PETSC ERROR: #3 PetscMallocA() line 397 in
> /home/huq2090/petsc-3.10.2/src/sys/memory/mal.c
> [0]PETSC ERROR: #4 VecCreate_Seq() line 35 in
> /home/huq2090/petsc-3.10.2/src/vec/vec/impls/seq/bvec3.c
> [0]PETSC ERROR: #5 VecSetType() line 51 in
> /home/huq2090/petsc-3.10.2/src/vec/vec/interface/vecreg.c
> [0]PETSC ERROR: #6 VecSetTypeFromOptions_Private() line 1250 in
> /home/huq2090/petsc-3.10.2/src/vec/vec/interface/vector.c
> [0]PETSC ERROR: #7 VecSetFromOptions() line 1284 in
> /home/huq2090/petsc-3.10.2/src/vec/vec/interface/vector.c
> [0]PETSC ERROR: #8 main() line 57 in
> /home/huq2090/petsc-3.10.2/problems/ksp/poisson_m.c
> [0]PETSC ERROR: No PETSc Option Table entries
> [0]PETSC ERROR: ----------------End of Error Message -------send entire
> error message to petsc-maint at mcs.anl.gov----------
> application called MPI_Abort(MPI_COMM_WORLD, 55) - process 0
> [unset]: write_line error; fd=-1 buf=:cmd=abort exitcode=55
> :
> system msg for write_line failure : Bad file descriptor
>
> ************************************************************************************************************************************
>
> Thanks.
> Sincerely,
> Huq
>
> On Thu, Nov 29, 2018 at 1:51 PM Smith, Barry F. <bsmith at mcs.anl.gov>
> wrote:
>
>>
>>
>> > On Nov 29, 2018, at 1:46 PM, Fazlul Huq via petsc-users <
>> petsc-users at mcs.anl.gov> wrote:
>> >
>> > Hello PETSc Developers,
>> >
>> > I am trying to run the code (attached herewith) with the following
>> command and it works until the size of the matrix is 99999X99999. But when
>> I try to run with 999999X999999 then I got weird result.
>>
>> What is that "weird result"?
>>
>> My guess is for problems that large you need to ./configure PETSc with
>> the additional option --with-64-bit-indices since for such large problems
>> 32 bit integers are not large enough to contain values needed for storing
>> and accessing the sparse matrix.
>>
>> Barry
>>
>> >
>> > The command is:
>> > ./poisson_m -n 999999 -pc_type hypre -pc_hypre_type boomeramg
>> -ksp_view_solution
>> > Any suggestions is appreciated.
>> >
>> > Thanks.
>> > Sincerely,
>> > Huq
>> >
>> >
>> > --
>> >
>> > Fazlul Huq
>> > Graduate Research Assistant
>> > Department of Nuclear, Plasma & Radiological Engineering (NPRE)
>> > University of Illinois at Urbana-Champaign (UIUC)
>> > E-mail: huq2090 at gmail.com
>> > <poisson_m.c>
>>
>>
>
> --
>
> Fazlul Huq
> Graduate Research Assistant
> Department of Nuclear, Plasma & Radiological Engineering (NPRE)
> University of Illinois at Urbana-Champaign (UIUC)
> E-mail: huq2090 at gmail.com
>
--
Fazlul Huq
Graduate Research Assistant
Department of Nuclear, Plasma & Radiological Engineering (NPRE)
University of Illinois at Urbana-Champaign (UIUC)
E-mail: huq2090 at gmail.com
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