[petsc-users] Question about memory usage in Multigrid preconditioner

Dave May dave.mayhem23 at gmail.com
Sat Jul 9 00:38:12 CDT 2016 

On Saturday, 9 July 2016, frank <hengjiew at uci.edu
<javascript:_e(%7B%7D,'cvml','hengjiew at uci.edu');>> wrote:

> Hi Barry and Dave,
>
> Thank both of you for the advice.
>
> @Barry
> I made a mistake in the file names in last email. I attached the correct
> files this time.
> For all the three tests, 'Telescope' is used as the coarse preconditioner.
>
> == Test1:   Grid: 1536*128*384,   Process Mesh: 48*4*12
> Part of the memory usage:  Vector   125            124 3971904     0.
>                                              Matrix   101 101
> 9462372     0
>
> == Test2: Grid: 1536*128*384,   Process Mesh: 96*8*24
> Part of the memory usage:  Vector   125            124 681672     0.
>                                              Matrix   101 101
> 1462180     0.
>
> In theory, the memory usage in Test1 should be 8 times of Test2. In my
> case, it is about 6 times.
>
> == Test3: Grid: 3072*256*768,   Process Mesh: 96*8*24. Sub-domain per
> process: 32*32*32
> Here I get the out of memory error.
>
> I tried to use -mg_coarse jacobi. In this way, I don't need to set
> -mg_coarse_ksp_type and -mg_coarse_pc_type explicitly, right?
> The linear solver didn't work in this case. Petsc output some errors.
>
> @Dave
> In test3, I use only one instance of 'Telescope'. On the coarse mesh of
> 'Telescope', I used LU as the preconditioner instead of SVD.
> If my set the levels correctly, then on the last coarse mesh of MG where
> it calls 'Telescope', the sub-domain per process is 2*2*2.
> On the last coarse mesh of 'Telescope', there is only one grid point per
> process.
> I still got the OOM error. The detailed petsc option file is attached.


Do you understand the expected memory usage for the particular parallel
LU implementation you are using? I don't (seriously). Replace LU with
bjacobi and re-run this test. My point about solver debugging is still
valid.

And please send the result of KSPView so we can see what is actually used
in the computations

Thanks
  Dave


>
>
> Thank you so much.
>
> Frank
>
>
>
> On 07/06/2016 02:51 PM, Barry Smith wrote:
>
>> On Jul 6, 2016, at 4:19 PM, frank <hengjiew at uci.edu> wrote:
>>>
>>> Hi Barry,
>>>
>>> Thank you for you advice.
>>> I tried three test. In the 1st test, the grid is 3072*256*768 and the
>>> process mesh is 96*8*24.
>>> The linear solver is 'cg' the preconditioner is 'mg' and 'telescope' is
>>> used as the preconditioner at the coarse mesh.
>>> The system gives me the "Out of Memory" error before the linear system
>>> is completely solved.
>>> The info from '-ksp_view_pre' is attached. I seems to me that the error
>>> occurs when it reaches the coarse mesh.
>>>
>>> The 2nd test uses a grid of 1536*128*384 and process mesh is 96*8*24.
>>> The 3rd test uses the same grid but a different process mesh 48*4*12.
>>>
>>     Are you sure this is right? The total matrix and vector memory usage
>> goes from 2nd test
>>                Vector   384            383      8,193,712     0.
>>                Matrix   103            103     11,508,688     0.
>> to 3rd test
>>               Vector   384            383      1,590,520     0.
>>                Matrix   103            103      3,508,664     0.
>> that is the memory usage got smaller but if you have only 1/8th the
>> processes and the same grid it should have gotten about 8 times bigger. Did
>> you maybe cut the grid by a factor of 8 also? If so that still doesn't
>> explain it because the memory usage changed by a factor of 5 something for
>> the vectors and 3 something for the matrices.
>>
>>
>> The linear solver and petsc options in 2nd and 3rd tests are the same in
>>> 1st test. The linear solver works fine in both test.
>>> I attached the memory usage of the 2nd and 3rd tests. The memory info is
>>> from the option '-log_summary'. I tried to use '-momery_info' as you
>>> suggested, but in my case petsc treated it as an unused option. It output
>>> nothing about the memory. Do I need to add sth to my code so I can use
>>> '-memory_info'?
>>>
>>     Sorry, my mistake the option is -memory_view
>>
>>    Can you run the one case with -memory_view and -mg_coarse jacobi
>> -ksp_max_it 1 (just so it doesn't iterate forever) to see how much memory
>> is used without the telescope? Also run case 2 the same way.
>>
>>    Barry
>>
>>
>>
>> In both tests the memory usage is not large.
>>>
>>> It seems to me that it might be the 'telescope'  preconditioner that
>>> allocated a lot of memory and caused the error in the 1st test.
>>> Is there is a way to show how much memory it allocated?
>>>
>>> Frank
>>>
>>> On 07/05/2016 03:37 PM, Barry Smith wrote:
>>>
>>>>    Frank,
>>>>
>>>>      You can run with -ksp_view_pre to have it "view" the KSP before
>>>> the solve so hopefully it gets that far.
>>>>
>>>>       Please run the problem that does fit with -memory_info when the
>>>> problem completes it will show the "high water mark" for PETSc allocated
>>>> memory and total memory used. We first want to look at these numbers to see
>>>> if it is using more memory than you expect. You could also run with say
>>>> half the grid spacing to see how the memory usage scaled with the increase
>>>> in grid points. Make the runs also with -log_view and send all the output
>>>> from these options.
>>>>
>>>>     Barry
>>>>
>>>> On Jul 5, 2016, at 5:23 PM, frank <hengjiew at uci.edu> wrote:
>>>>>
>>>>> Hi,
>>>>>
>>>>> I am using the CG ksp solver and Multigrid preconditioner  to solve a
>>>>> linear system in parallel.
>>>>> I chose to use the 'Telescope' as the preconditioner on the coarse
>>>>> mesh for its good performance.
>>>>> The petsc options file is attached.
>>>>>
>>>>> The domain is a 3d box.
>>>>> It works well when the grid is  1536*128*384 and the process mesh is
>>>>> 96*8*24. When I double the size of grid and keep the same process mesh and
>>>>> petsc options, I get an "out of memory" error from the super-cluster I am
>>>>> using.
>>>>> Each process has access to at least 8G memory, which should be more
>>>>> than enough for my application. I am sure that all the other parts of my
>>>>> code( except the linear solver ) do not use much memory. So I doubt if
>>>>> there is something wrong with the linear solver.
>>>>> The error occurs before the linear system is completely solved so I
>>>>> don't have the info from ksp view. I am not able to re-produce the error
>>>>> with a smaller problem either.
>>>>> In addition,  I tried to use the block jacobi as the preconditioner
>>>>> with the same grid and same decomposition. The linear solver runs extremely
>>>>> slow but there is no memory error.
>>>>>
>>>>> How can I diagnose what exactly cause the error?
>>>>> Thank you so much.
>>>>>
>>>>> Frank
>>>>> <petsc_options.txt>
>>>>>
>>>>
>>> <ksp_view_pre.txt><memory_test2.txt><memory_test3.txt><petsc_options.txt>
>>>
>>
>
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