[petsc-users] Tutorials test case cannot run in parallel

[Mark Adams]

This works for me (appended) using an up to date version of PETSc.

I would delete the architecture director and reconfigure, and make all, and
try again.

Next, you seem to be using git. Use the 'main' branch and try again.

Mark

(base) 07:09 adams/swarm-omp-pc *= ~/Codes/petsc$ cd
src/dm/impls/plex/tutorials/
(base) 07:16 adams/swarm-omp-pc *=
~/Codes/petsc/src/dm/impls/plex/tutorials$    make
PETSC_DIR=/Users/markadams/Codes/petsc PETSC_ARCH=arch-macosx-gnu-g ex3f90
gfortran-11 -Wl,-bind_at_load -Wl,-multiply_defined,suppress
-Wl,-multiply_defined -Wl,suppress -Wl,-commons,use_dylibs
-Wl,-search_paths_first -Wl,-no_compact_unwind  -fPIC -Wall
-ffree-line-length-0 -Wno-unused-dummy-argument -g -O   -fPIC -Wall
-ffree-line-length-0 -Wno-unused-dummy-argument -g -O
 -I/Users/markadams/Codes/petsc/include
-I/Users/markadams/Codes/petsc/arch-macosx-gnu-g/include     ex3f90.F90
 -Wl,-rpath,/Users/markadams/Codes/petsc/arch-macosx-gnu-g/lib
-L/Users/markadams/Codes/petsc/arch-macosx-gnu-g/lib
-Wl,-rpath,/Users/markadams/Codes/petsc/arch-macosx-gnu-g/lib
-L/Users/markadams/Codes/petsc/arch-macosx-gnu-g/lib
-Wl,-rpath,/usr/local/Cellar/gcc/11.2.0/lib/gcc/11/gcc/x86_64-apple-darwin20/11.2.0
-L/usr/local/Cellar/gcc/11.2.0/lib/gcc/11/gcc/x86_64-apple-darwin20/11.2.0
-Wl,-rpath,/usr/local/Cellar/gcc/11.2.0/lib/gcc/11
-L/usr/local/Cellar/gcc/11.2.0/lib/gcc/11 -lpetsc -lp4est -lsc -llapack
-lblas -lhdf5_hl -lhdf5 -lmetis -lz -lstdc++ -ldl -lgcc_s.1 -lgfortran
-lquadmath -lm -lquadmath -lstdc++ -ldl -lgcc_s.1 -o ex3f90
(base) 07:16 adams/swarm-omp-pc *=
~/Codes/petsc/src/dm/impls/plex/tutorials$ mpirun -np 2 ./ex3f90
DM Object: testplex 1 MPI processes
  type: plex
testplex in 3 dimensions:
  0-cells: 12
  1-cells: 20
  2-cells: 11
  3-cells: 2
Labels:
  celltype: 4 strata with value/size (0 (12), 7 (2), 4 (11), 1 (20))
  depth: 4 strata with value/size (0 (12), 1 (20), 2 (11), 3 (2))
DM Object: testplex 1 MPI processes
  type: plex
testplex in 3 dimensions:
  0-cells: 12
  1-cells: 20
  2-cells: 11
  3-cells: 2
Labels:
  celltype: 4 strata with value/size (0 (12), 7 (2), 4 (11), 1 (20))
  depth: 4 strata with value/size (0 (12), 1 (20), 2 (11), 3 (2))
cell:  0 volume:   0.5000 centroid:  -0.2500   0.5000   0.5000
cell:  1 volume:   0.5000 centroid:   0.2500   0.5000   0.5000
cell:  0 volume:   0.5000 centroid:  -0.2500   0.5000   0.5000
cell:  1 volume:   0.5000 centroid:   0.2500   0.5000   0.5000

On Fri, Oct 29, 2021 at 6:11 AM 袁煕 <yuanxi at advancesoft.jp> wrote:

> Hi,
>
> I have tried the test case ex3f90 in the folder
> \src\dm\impls\plex\tutorials to run in parallel but found it fails. When I
> run it in 1 CPU by
>
> -  mpirun -np 1 ./ex3f90
>
> Everything seems OK. But when run it in 2 CPU by
>
> -  mpirun -np 2 ./ex3f90
>
> I got the following error message
>
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR: Object is in wrong state
> [0]PETSC ERROR: This DMPlex is distributed but its PointSF has no graph set
> [0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
> [0]PETSC ERROR: Petsc Development GIT revision: v3.16.0-248-ge617e6467c
>  GIT Date: 2021-10-19 23:11:25 -0500
> [0]PETSC ERROR: ./ex3f90 on a  named pc-010-088 by  Fri Oct 29 18:48:54
> 2021
> [0]PETSC ERROR: Configure options --with-cc=mpicc --with-cxx=mpicxx
> --with-fc=mpiifort --with-fortran-bindings=1 --with-debugging=0
> --with-blaslapack-dir=/opt/intel/oneapi/mkl/2021.4.0
> --with-mkl_pardiso-dir=/opt/intel/oneapi/mkl/2021.4.0 --download-metis=1
> --download-parmetis=1 --download-cmake --force --download-superlu_dist=1
> --download-mumps=1 --download-scalapack=1 --download-hypre=1
> --download-ml=1 --with-debugging=yes --prefix=/home/yuanxi
> [0]PETSC ERROR: #1 DMPlexCheckPointSF() at
> /home/yuanxi/myprograms/petsc/src/dm/impls/plex/plex.c:8626
> [0]PETSC ERROR: #2 DMPlexOrientInterface_Internal() at
> /home/yuanxi/myprograms/petsc/src/dm/impls/plex/plexinterpolate.c:595
> [0]PETSC ERROR: #3 DMPlexInterpolate() at
> /home/yuanxi/myprograms/petsc/src/dm/impls/plex/plexinterpolate.c:1357
> [0]PETSC ERROR: #4 User provided function() at User file:0
> Abort(73) on node 0 (rank 0 in comm 16): application called
> MPI_Abort(MPI_COMM_SELF, 73) - process 0
>
> ------------------------------------------------------------------------------------------------------------------------------------
>
> It fails in calling DMPlexInterpolate. Maybe this program is not
> considered to be run in parallel. But if I wish to do so, how should I
> modify it to let it run on multiple CPUs?
>
> Much thanks for your help
>
> Yuan
>
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