I am using KSP ex56. I also found a bug and the code is running now.
I do not understand the difference between the last two args here: PetscErrorCode PCASMSetLocalSubdomains(PC pc,PetscInt n,IS is[],IS is_local[]) In looking at the web doc I would think I want to set the first, but I get an error when I do that. I am using the second and am not getting any reduction in the number of iterations. I'm still looking into this, but what should I use here? On Sun, Jul 3, 2016 at 6:17 PM, Barry Smith <[email protected]> wrote: > > Mark, > > When I try to run your example in your branch with one process I get > the error below; why is that if you do not get the error? > > ~/Src/petsc/src/snes/examples/tutorials (mark/fix-gamg-asm-aggs=) > arch-basic > $ ./ex56 -ne 3 -alpha 1.e-3 -ksp_type cg -pc_type gamg -pc_gamg_type agg > -pc_gamg_agg_nsmooths 1 -pc_gamg_coarse_eq_limit 10 > -pc_gamg_reuse_interpolation true -two_solves true -ksp_converged_reason > -use_mat_nearnullspace -mg_levels_esteig_ksp_type cg -pc_gamg_square_graph > 1 -mg_levels_ksp_type chebyshev -mg_levels_ksp_chebyshev_esteig > 0,0.05,0,1.05 -gamg_est_ksp_type cg -gamg_est_ksp_max_it 20 > -pc_gamg_asm_use_agg -mg_levels_sub_pc_type lu -ksp_monitor > -mat_block_size 3 > [0]PETSC ERROR: --------------------- Error Message > -------------------------------------------------------------- > [0]PETSC ERROR: Petsc has generated inconsistent data > [0]PETSC ERROR: !(matA_1 && !matA_1->compressedrow.use) > [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html > for trouble shooting. > [0]PETSC ERROR: Petsc Development GIT revision: v3.7.2-757-g1d88083 GIT > Date: 2016-06-28 21:49:49 -0500 > [0]PETSC ERROR: ./ex56 on a arch-basic named Barrys-MacBook-Pro.local by > barrysmith Sun Jul 3 11:15:36 2016 > [0]PETSC ERROR: Configure options --download-metis --download-parmetis > --with-mpi-dir=/Users/barrysmith/libraries PETSC_ARCH=arch-basic > [0]PETSC ERROR: #1 smoothAggs() line 333 in > /Users/barrysmith/Src/petsc/src/ksp/pc/impls/gamg/agg.c > [0]PETSC ERROR: #2 PCGAMGCoarsen_AGG() line 1001 in > /Users/barrysmith/Src/petsc/src/ksp/pc/impls/gamg/agg.c > [0]PETSC ERROR: #3 PCSetUp_GAMG() line 524 in > /Users/barrysmith/Src/petsc/src/ksp/pc/impls/gamg/gamg.c > [0]PETSC ERROR: #4 PCSetUp() line 968 in > /Users/barrysmith/Src/petsc/src/ksp/pc/interface/precon.c > [0]PETSC ERROR: #5 KSPSetUp() line 393 in > /Users/barrysmith/Src/petsc/src/ksp/ksp/interface/itfunc.c > [0]PETSC ERROR: #6 main() line 384 in > /Users/barrysmith/Src/petsc/src/snes/examples/tutorials/ex56.c > [0]PETSC ERROR: PETSc Option Table entries: > [0]PETSC ERROR: -alpha 1.e-3 > [0]PETSC ERROR: -gamg_est_ksp_max_it 20 > [0]PETSC ERROR: -gamg_est_ksp_type cg > [0]PETSC ERROR: -ksp_converged_reason > [0]PETSC ERROR: -ksp_monitor > [0]PETSC ERROR: -ksp_type cg > [0]PETSC ERROR: -malloc_test > [0]PETSC ERROR: -mat_block_size 3 > [0]PETSC ERROR: -mg_levels_esteig_ksp_type cg > [0]PETSC ERROR: -mg_levels_ksp_chebyshev_esteig 0,0.05,0,1.05 > [0]PETSC ERROR: -mg_levels_ksp_type chebyshev > [0]PETSC ERROR: -mg_levels_sub_pc_type lu > [0]PETSC ERROR: -ne 3 > [0]PETSC ERROR: -pc_gamg_agg_nsmooths 1 > [0]PETSC ERROR: -pc_gamg_asm_use_agg > [0]PETSC ERROR: -pc_gamg_coarse_eq_limit 10 > [0]PETSC ERROR: -pc_gamg_reuse_interpolation true > [0]PETSC ERROR: -pc_gamg_square_graph 1 > [0]PETSC ERROR: -pc_gamg_type agg > [0]PETSC ERROR: -pc_type gamg > [0]PETSC ERROR: -two_solves true > [0]PETSC ERROR: -use_mat_nearnullspace > [0]PETSC ERROR: ----------------End of Error Message -------send entire > error message to [email protected] > application called MPI_Abort(MPI_COMM_WORLD, 77) - process 0 > [unset]: write_line error; fd=-1 buf=:cmd=abort exitcode=77 > : > system msg for write_line failure : Bad file descriptor > ~/Src/petsc/src/snes/examples/tutorials (mark/fix-gamg-asm-aggs=) > arch-basic > > > On Jul 3, 2016, at 9:04 AM, Mark Adams <[email protected]> wrote: > > > > Barry, I have never seen an empty matrix for this problem. I am in my > branch (mark/fix-gamg-asm-aggs), which basically just has the fix to add a > dummy block for BCs to make ASM work properly, added to your branch. > > > > This (appended) is what I get with 1 proc (it is fine, it is solving) . > With 8 procs I get this stack trace. I will keep digging. > > > > > > #8 main (argc=36, args=0x7fffffff4628) at > /global/homes/m/madams/petsc/src/ksp/ksp/examples/tutorials/ex56.c:280 (at > 0x0000000000409f2e) > > #7 KSPSetUp (ksp=0x46e2f20) at > /global/u2/m/madams/petsc/src/ksp/ksp/interface/itfunc.c:393 (at > 0x000000000075d99f) > > #6 PCSetUp (pc=0x46e2f20) at > /global/u2/m/madams/petsc/src/ksp/pc/interface/precon.c:968 (at > 0x00000000007531da) > > #5 PCSetUp_GAMG (pc=0x46e2f20) at > /global/u2/m/madams/petsc/src/ksp/pc/impls/gamg/gamg.c:672 (at > 0x0000000000c28a81) > > #4 PCSetUp_MG (pc=0x4760330) at > /global/u2/m/madams/petsc/src/ksp/pc/impls/mg/mg.c:781 (at > 0x0000000000c87f7e) > > #3 KSPSetUp (ksp=0x46e2f20) at > /global/u2/m/madams/petsc/src/ksp/ksp/interface/itfunc.c:393 (at > 0x000000000075d99f) > > #2 PCSetUp (pc=0x46e2f20) at > /global/u2/m/madams/petsc/src/ksp/pc/interface/precon.c:968 (at > 0x00000000007531da) > > #1 PCSetUp_ASM (pc=0x46e2f20) at > /global/u2/m/madams/petsc/src/ksp/pc/impls/asm/asm.c:383 (at > 0x0000000000c5c499) > > #0 MatGetSubMatrices (mat=0x46e2f20, n=63418000, irow=0x21, icol=0x4a8, > scall=MAT_INITIAL_MATRIX, submat=0x2) at > /global/u2/m/madams/petsc/src/mat/interface/matrix.c:6780 (at > 0x00000000004e8bcd) > > > > > > > > 06:32 134 nid00015 ~/petsc/src/ksp/ksp/examples/tutorials$ srun -n 1 > ./ex56 -ne 3 -alpha 1.e-3 -ksp_type cg -pc_type gamg -pc_gamg_type agg > -pc_gamg_agg_nsmooths 1 -pc_gamg_coarse_eq_limit 10 > -pc_gamg_reuse_interpolation true -two_solves true -ksp_converged_reason > -use_mat_nearnullspace -mg_levels_esteig_ksp_type cg -pc_gamg_square_graph > 1 -mg_levels_ksp_type chebyshev -mg_levels_ksp_chebyshev_esteig > 0,0.05,0,1.05 -gamg_est_ksp_type cg -gamg_est_ksp_max_it 20 > -pc_gamg_asm_use_agg -mg_levels_sub_pc_type lu -ksp_monitor > > 0 KSP Residual norm 2.553528059796e+02 > > 1 KSP Residual norm 1.285760737388e+01 > > 2 KSP Residual norm 5.896306650166e-01 > > 3 KSP Residual norm 3.206061310861e-02 > > 4 KSP Residual norm 3.287356003543e-03 > > 5 KSP Residual norm 1.695272457611e-04 > > Linear solve converged due to CONVERGED_RTOL iterations 5 > > 0 KSP Residual norm 2.553528059796e-03 > > 1 KSP Residual norm 1.285760737388e-04 > > 2 KSP Residual norm 5.896306650166e-06 > > 3 KSP Residual norm 3.206061310861e-07 > > 4 KSP Residual norm 3.287356003543e-08 > > 5 KSP Residual norm 1.695272457611e-09 > > Linear solve converged due to CONVERGED_RTOL iterations 5 > > 0 KSP Residual norm 2.553528059796e-08 > > 1 KSP Residual norm 1.285760737388e-09 > > 2 KSP Residual norm 5.896306650166e-11 > > 3 KSP Residual norm 3.206061310861e-12 > > 4 KSP Residual norm 3.287356003543e-13 > > 5 KSP Residual norm 1.695272457611e-14 > > Linear solve converged due to CONVERGED_RTOL iterations 5 > > [0]main |b-Ax|/|b|=9.327411e-06, |b|=7.453560e+00, emax=9.907752e-01 > > > > On Wed, Jun 29, 2016 at 1:05 AM, Barry Smith <[email protected]> wrote: > > > > Mark > > > > When I run with exactly the options in this file on either 1 or 8 > process and MatView() the matrix you pass to KSP the matrix has ALL zeros. > So of course the GAMG solver is not happy. Is the matrix suppose to have > all zeros? When I run the command line options in the make file for runex56 > the matrix has nonzero values in it and GAMG runs fine. > > > > Barry > > > > > On Jun 27, 2016, at 6:56 AM, Mark Adams <[email protected]> wrote: > > > > > > Barry, > > > > > > I am having problems with your branch on ksp/ex56. First I was getting > an error with the increase of the overlap that you added (I don't want that > to be the default). So I set this back to 0 in gamg.c. > > > > > > Next, I get the same error with the vec out of range because ex56 has > BCs in the matrix. I created a branch mark/fix-gamg-asm-aggs from your > branch and added the dummy ASM block. But I am getting all kinds of > errors. I get errors in get MatSubMatrix and a funny error when it tries > to free a prefix string. > > > > > > I've attached the valgrind output of one process, of 8. There is a > lot of noise with string operations but it looks like the first non-string > thing is in MatGetSubMatrices. ex56 is elasticity. Maybe there is a block > size problem? > > > > > > > > > <out_val_1> > > > > > >
