[petsc-users] hypre on gpus
Karthikeyan Chockalingam - STFC UKRI
karthikeyan.chockalingam at stfc.ac.uk
Mon Nov 22 11:41:54 CST 2021
@Matthew Knepley<mailto:knepley at gmail.com> Yes, it works with main build!
@Mark Adams<mailto:mfadams at lbl.gov> I have attached the log_view output of ex4 for your reference. But pcapply or pcsetup did not record any gpu flops.
If it is not too much trouble can you send me the log_view output of ksp/ksp/tutorial/ex45 using hypre?
Many thanks!
Karthik.
From: Matthew Knepley <knepley at gmail.com>
Date: Monday, 22 November 2021 at 15:26
To: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk>
Cc: Stefano Zampini <stefano.zampini at gmail.com>, "petsc-users at mcs.anl.gov" <petsc-users at mcs.anl.gov>
Subject: Re: [petsc-users] hypre on gpus
On Mon, Nov 22, 2021 at 10:20 AM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
Thanks Stefano,
I just did a clean build with no problems. Can you try a clean build of main?
Thanks,
Matt
I have another build without the --download-hypre-commit=origin/hypre_petsc but that gives a different error.
[kchockalingam at glados tutorials]$ ./ex4 -ksp_view -ksp_type cg -mat_type hypre -pc_type hypre
[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------
[0]PETSC ERROR: Error in external library
[0]PETSC ERROR: Error in HYPRE_IJMatrixAssemble(): error code 12
[0]PETSC ERROR: See https://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.
[0]PETSC ERROR: Petsc Release Version 3.15.3, Aug 06, 2021
[0]PETSC ERROR: ./ex4 on a named glados.dl.ac.uk<http://glados.dl.ac.uk> by kchockalingam Mon Nov 22 15:07:46 2021
[0]PETSC ERROR: Configure options --package-prefix-hash=/home/kchockalingam/petsc-hash-pkgs --with-make-test-np=2 COPTFLAGS="-g -O3 -fno-omit-frame-pointer" FOPTFLAGS="-g -O3 -fno-omit-frame-pointer" CXXOPTFLAGS="-g -O3 -fno-omit-frame-pointer" --with-cuda=1 --with-cuda-arch=70 --with-blaslapack=1 --with-cuda-dir=/apps/packages/cuda/10.1/ --with-mpi-dir=/apps/packages/gcc/7.3.0/openmpi/3.1.2 --download-hypre=1 --download-hypre-configure-arguments=HYPRE_CUDA_SM=70 --with-debugging=no PETSC_ARCH=arch-ci-linux-cuda11-double
[0]PETSC ERROR: #1 MatAssemblyEnd_HYPRE() at /home/kchockalingam/tools/petsc-3.15.3/src/mat/impls/hypre/mhypre.c:1212
[0]PETSC ERROR: #2 MatAssemblyEnd() at /home/kchockalingam/tools/petsc-3.15.3/src/mat/interface/matrix.c:5652
[0]PETSC ERROR: #3 main() at ex4.c:84
[0]PETSC ERROR: PETSc Option Table entries:
[0]PETSC ERROR: -ksp_type cg
[0]PETSC ERROR: -ksp_view
[0]PETSC ERROR: -mat_type hypre
[0]PETSC ERROR: -pc_type hypre
[0]PETSC ERROR: ----------------End of Error Message -------send entire error message to petsc-maint at mcs.anl.gov----------
--------------------------------------------------------------------------
Best,
Karthik.
From: Stefano Zampini <stefano.zampini at gmail.com<mailto:stefano.zampini at gmail.com>>
Date: Monday, 22 November 2021 at 14:46
To: Matthew Knepley <knepley at gmail.com<mailto:knepley at gmail.com>>
Cc: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>, "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
You don't need to specify the HYPRE commit. Remove --download-hypre-commit=origin/hypre_petsc from the configuration options
Il giorno lun 22 nov 2021 alle ore 17:29 Matthew Knepley <knepley at gmail.com<mailto:knepley at gmail.com>> ha scritto:
On Mon, Nov 22, 2021 at 8:50 AM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
Hi Matt,
Below is the entire error message:
I cannot reproduce this:
main $:/PETSc3/petsc/petsc-dev/src/ksp/ksp/tutorials$ ./ex4 -ksp_view -ksp_type cg -mat_type hypre -pc_type hypre
KSP Object: 1 MPI processes
type: cg
maximum iterations=10000, initial guess is zero
tolerances: relative=0.000138889, absolute=1e-50, divergence=10000.
left preconditioning
using PRECONDITIONED norm type for convergence test
PC Object: 1 MPI processes
type: hypre
HYPRE BoomerAMG preconditioning
Cycle type V
Maximum number of levels 25
Maximum number of iterations PER hypre call 1
Convergence tolerance PER hypre call 0.
Threshold for strong coupling 0.25
Interpolation truncation factor 0.
Interpolation: max elements per row 0
Number of levels of aggressive coarsening 0
Number of paths for aggressive coarsening 1
Maximum row sums 0.9
Sweeps down 1
Sweeps up 1
Sweeps on coarse 1
Relax down symmetric-SOR/Jacobi
Relax up symmetric-SOR/Jacobi
Relax on coarse Gaussian-elimination
Relax weight (all) 1.
Outer relax weight (all) 1.
Using CF-relaxation
Not using more complex smoothers.
Measure type local
Coarsen type Falgout
Interpolation type classical
linear system matrix = precond matrix:
Mat Object: 1 MPI processes
type: hypre
rows=56, cols=56
Norm of error 8.69801e-05 iterations 2
This is on the 'main' branch. So either there is some bug in release, or something is strange on your end. Since we run Hypre tests for the CI,
I am leaning toward the latter. Can you try the 'main' branch? We will have to use this anyway if we want any fixes.
Thanks,
Matt
[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------
[0]PETSC ERROR: Object is in wrong state
[0]PETSC ERROR: Must call MatXXXSetPreallocation(), MatSetUp() or the matrix has not yet been factored on argument 1 "mat" before MatGetOwnershipRange()
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Release Version 3.16.0, Sep 29, 2021
[0]PETSC ERROR: ./ex4 on a named sqg2b4.bullx by kxc07-lxm25 Mon Nov 22 11:33:41 2021
[0]PETSC ERROR: Configure options --prefix=/lustre/scafellpike/local/apps/gcc7/petsc/3.16.0-cuda11.2 --with-debugging=yes --with-blaslapack-dir=/lustre/scafellpike/local/apps/intel/intel_cs/2018.0.128/mkl --with-cuda=1 --with-cuda-arch=70 --download-hypre=yes --download-hypre-configure-arguments=HYPRE_CUDA_SM=70 --download-hypre-commit=origin/hypre_petsc --with-shared-libraries=1 --known-mpi-shared-libraries=1 --with-cc=mpicc --with-cxx=mpicxx -with-fc=mpif90
[0]PETSC ERROR: #1 MatGetOwnershipRange() at /netfs/smain01/scafellpike/local/package_build/build/rja87-build/petsc-cuda-3.16.0/src/mat/interface/matrix.c:6784
[0]PETSC ERROR: #2 main() at ex4.c:40
[0]PETSC ERROR: PETSc Option Table entries:
[0]PETSC ERROR: -ksp_type cg
[0]PETSC ERROR: -ksp_view
[0]PETSC ERROR: -mat_type hypre
[0]PETSC ERROR: -pc_type hypre
[0]PETSC ERROR: -use_gpu_aware_mpi 0
[0]PETSC ERROR: ----------------End of Error Message -------send entire error message to petsc-maint at mcs.anl.gov----------
--------------------------------------------------------------------------
I have also attached the make.log. Thank you for having a look.
Best,
Karthik.
From: Matthew Knepley <knepley at gmail.com<mailto:knepley at gmail.com>>
Date: Monday, 22 November 2021 at 13:41
To: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>
Cc: Mark Adams <mfadams at lbl.gov<mailto:mfadams at lbl.gov>>, "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
On Mon, Nov 22, 2021 at 6:47 AM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
Thank you for your response. I tried to run the same example
petsc/src/ksp/ksp/tutorials$ ./ex4 -ksp_type cg -mat_type hypre -ksp_view -pc_type hypre
but it crashed with the below error
[0]PETSC ERROR: --------------------- Error Message --------------------------------------------------------------
[0]PETSC ERROR: Object is in wrong state
[0]PETSC ERROR: Must call MatXXXSetPreallocation(), MatSetUp() or the matrix has not yet been factored on argument 1 "mat" before MatGetOwnershipRange()
Hi Karthik,
Please do not clip the error message. We need the entire output. This seems strange that you would get a logic error,
since that should be the same on any architecture. So could you also send the make.log?
Thanks,
Matt
Below are the options used to configure hypre with cuda support. Do you spot any mistakes?
--with-blaslapack-dir=/lustre/scafellpike/local/apps/intel/intel_cs/2018.0.128/mkl
--with-cuda=1
--with-cuda-arch=70
--download-hypre=yes
--download-hypre-configure-arguments=HYPRE_CUDA_SM=70
--download-hypre-commit=origin/hypre_petsc
--with-shared-libraries=1
--known-mpi-shared-libraries=1
--with-cc=mpicc
--with-cxx=mpicxx
-with-fc=mpif90
Best,
Karthik.
From: Mark Adams <mfadams at lbl.gov<mailto:mfadams at lbl.gov>>
Date: Friday, 19 November 2021 at 16:31
To: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>
Cc: "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
You should run with -options_left to check that your options are being used. It may be -mat_type hypre.
I have tested this:
petsc/src/ksp/ksp/tutorials$ srun -n2 ./ex4 -ksp_type cg -mat_type hypre -ksp_view -pc_type hypre
You can add -log_view and that will print performance data for each method like KSPSolve.
If you are configured with a GPU there will be some extra columns that give the percent of flops on the GPU.
In the past hypre has not registered flops with us, but I do get flops from hypre now, and -ksp_view showed that it did indeed use hypre.
I saw that the flops were 100% GPU in hypre.
On Fri, Nov 19, 2021 at 10:47 AM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
Hello,
I tried to solve a 3D Poisson (ksp/tutorial/ex45) using -pc_type hypre on gpus
./ex45 -da_grid_x 128 -da_grid_y 128 -da_grid_z 128 -dm_mat_type hypre -dm_vec_type cuda -ksp_type cg -pc_type hypre -pc_hypre_type boomeramg -ksp_monitor -log_view
I profiled the run using NSYS - attached you find all the relevant files.
Looking at the profile I doubt if hypre is running on gpus. The cuda kernels are barely active.
I don’t see any cuda kernel relevant to solve.
Is my assessment correct? How can I verify if hypre indeed is running on gpus?
Best,
Karthik.
From: Mark Adams <mfadams at lbl.gov<mailto:mfadams at lbl.gov>>
Date: Friday, 8 October 2021 at 18:47
To: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>
Cc: "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
I think you would want to use 'cuda' vec_type, but I .
You might ask Hypre how one verifies that the GPU is used.
Mark
On Fri, Oct 8, 2021 at 1:35 PM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
Yes, I used it for both cpu and gpu. Is that not okay?
For gpu: -dm_mat_type hypre -dm_vec_type mpicuda
For cpu: -dm_mat_type hypre -dm_vec_type mpi
From: Mark Adams <mfadams at lbl.gov<mailto:mfadams at lbl.gov>>
Date: Friday, 8 October 2021 at 18:28
To: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>
Cc: "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
Did you use -dm_mat_type hypre on the GPU case ?
On Fri, Oct 8, 2021 at 12:19 PM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
I tried a different exercise ran the same problem on two cpu cores and on two gpu:
On gpu
PCApply 6 1.0 6.0335e+00 1.0 0.00e+00 0.0 0.0e+00 0.0e+00 6.0e+00 15 0 0 0 1 15 0 0 0 1 0 0 0 0.00e+00 5 9.65e+01 0
and on cpu
PCApply 6 1.0 5.6348e+00 1.0 0.00e+00 0.0 0.0e+00 0.0e+00 0.0e+00 16 0 0 0 0 16 0 0 0 0 0
timings again are close but gpu version did a reduction 6.0e+00 but the cpu version did not 0.0e+00.
I am not sure if that is any indication if hypre ran on gpus?
Thanks,
Karthik.
From: Mark Adams <mfadams at lbl.gov<mailto:mfadams at lbl.gov>>
Date: Friday, 8 October 2021 at 16:36
To: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>
Cc: "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
On Fri, Oct 8, 2021 at 10:29 AM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
The PCApply timing on
gpu
PCApply 6 1.0 1.0235e+01 1.0 0.00e+00 0.0 0.0e+00 0.0e+00 0.0e+00 39 0 0 0 0 39 0 0 0 0 0 0 0 0.00e+00 0 0.00e+00 0
and cpu
PCApply 6 1.0 1.0242e+01 1.0 0.00e+00 0.0 0.0e+00 0.0e+00 0.0e+00 41 0 0 0 0 41 0 0 0 0 0
You don't have GPUs. probably.
Use -dm_mat_type hypre.
are close. It is hard for me tell if hypre on gpu is on or not.
Best,
Karthik.
From: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>
Date: Friday, 8 October 2021 at 14:55
To: Mark Adams <mfadams at lbl.gov<mailto:mfadams at lbl.gov>>
Cc: "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
Thanks Mark, I will try your recommendations.
Should I also change -dm_vec_type to hypre currently I have it as mpicuda?
Karthik.
From: Mark Adams <mfadams at lbl.gov<mailto:mfadams at lbl.gov>>
Date: Friday, 8 October 2021 at 14:33
To: "Chockalingam, Karthikeyan (STFC,DL,HC)" <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>>
Cc: "petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>" <petsc-users at mcs.anl.gov<mailto:petsc-users at mcs.anl.gov>>
Subject: Re: [petsc-users] hypre on gpus
Hypre does not record its flops with PETSc's timers.
Configure with and without CUDA and see if the timings change in PCApply.
Hypre does not dynamically switch between CUDA and CPU solves at this time, but you want to use -dm_mat_type hypre.
Mark
On Fri, Oct 8, 2021 at 6:59 AM Karthikeyan Chockalingam - STFC UKRI <karthikeyan.chockalingam at stfc.ac.uk<mailto:karthikeyan.chockalingam at stfc.ac.uk>> wrote:
Hello,
I am trying to run ex45 (in KSP tutorial) using hypre on gpus. I have attached the python configuration file and -log_view output from running the below command options
mpirun -n 2 ./ex45 -log_view -da_grid_x 169 -da_grid_y 169 -da_grid_z 169 -dm_mat_type mpiaijcusparse -dm_vec_type mpicuda -ksp_type gmres -pc_type hypre -pc_hypre_type boomeramg -ksp_gmres_restart 31 -pc_hypre_boomeramg_strong_threshold 0.7 -ksp_monitor
The problem was solved and converged but from the output file I suspect hypre is not running on gpus as PCApply and DMCreate does not record any gpu Mflop/s. However, some events such KSPSolve, MatMult etc are running on gpus.
Can you please let me know if I need to add any extra flag to the attached arch-ci-linux-cuda11-double-xx.py script file to get hypre working on gpus?
Thanks,
Karthik.
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--
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
https://www.cse.buffalo.edu/~knepley/<http://www.cse.buffalo.edu/~knepley/>
--
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
https://www.cse.buffalo.edu/~knepley/<http://www.cse.buffalo.edu/~knepley/>
--
Stefano
--
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
https://www.cse.buffalo.edu/~knepley/<http://www.cse.buffalo.edu/~knepley/>
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