[petsc-users] unsorted local columns in 3.8?
Mark Adams
mfadams at lbl.gov
Wed Nov 8 06:53:12 CST 2017
Hong, is
> 0-cells: 12 12 0 0
> 1-cells: 20 20 0 0
> 2-cells: 11 11 0 0
> 3-cells: 2 2 0 0
from the old version?
I am seeing
0-cells: 8 8 8 8
1-cells: 12 12 12 12
2-cells: 6 6 6 6
3-cells: 1 1 1 1
Thanks,
On Tue, Nov 7, 2017 at 10:13 PM, Hong <hzhang at mcs.anl.gov> wrote:
> Mark:
> I removed option '-ex56_dm_view'.
> Hong
>
> Humm, this looks a little odd, but it may be OK. Is this this diffing
>> with the old non-repartition data? (more below)
>>
>> On Tue, Nov 7, 2017 at 11:45 AM, Hong <hzhang at mcs.anl.gov> wrote:
>>
>>> Mark,
>>> The fix is merged to next branch for tests which show diff as
>>>
>>> ******* Testing: testexamples_PARMETIS *******
>>> 5c5
>>> < 1 SNES Function norm 1.983e-10
>>> ---
>>> > 1 SNES Function norm 1.990e-10
>>> 10,13c10,13
>>> < 0-cells: 8 8 8 8
>>> < 1-cells: 12 12 12 12
>>> < 2-cells: 6 6 6 6
>>> < 3-cells: 1 1 1 1
>>>
>>>
>> I assume this is the old.
>>
>>
>>> ---
>>> > 0-cells: 12 12 0 0
>>> > 1-cells: 20 20 0 0
>>> > 2-cells: 11 11 0 0
>>> > 3-cells: 2 2 0 0
>>> 15,18c15,18
>>>
>>>
>> and this is the new.
>>
>> This is funny because the processors are not fully populated. This can
>> happen on coarse grids and indeed it should happen in a test with good
>> coverage.
>>
>> I assume these diffs are views from coarse grids? That is, in the raw
>> output files do you see fully populated fine grids, with no diffs, and then
>> the diffs come on coarse grids.
>>
>> Repartitioning the coarse grids can change the coarsening, It is possible
>> that repartitioning causes faster coarsening (it does a little) and this
>> faster coarsening is tripping the aggregation switch, which gives us empty
>> processors.
>>
>> Am I understanding this correctly ...
>>
>> Thanks,
>> Mark
>>
>>
>>> < boundary: 1 strata with value/size (1 (23))
>>> < Face Sets: 4 strata with value/size (1 (1), 2 (1), 4 (1), 6 (1))
>>> < marker: 1 strata with value/size (1 (15))
>>> < depth: 4 strata with value/size (0 (8), 1 (12), 2 (6), 3 (1))
>>> ---
>>> > boundary: 1 strata with value/size (1 (39))
>>> > Face Sets: 5 strata with value/size (1 (2), 2 (2), 4 (2), 5 (1), 6 (1))
>>> > marker: 1 strata with value/size (1 (27))
>>> > depth: 4 strata with value/size (0 (12), 1 (20), 2 (11), 3 (2))
>>>
>>> see http://ftp.mcs.anl.gov/pub/petsc/nightlylogs/archive/2017/11/07/examples_full_next-tmp.log
>>>
>>> I guess parmetis produces random partition on different machines (I made output file for ex56_1 on my imac). Please take a look at the differences. If the outputs are correct, I will remove option '-ex56_dm_view'
>>>
>>> Hong
>>>
>>>
>>> On Sun, Nov 5, 2017 at 9:03 PM, Hong <hzhang at mcs.anl.gov> wrote:
>>>
>>>> Mark:
>>>> Bug is fixed in branch hzhang/fix-submat_samerowdist
>>>> https://bitbucket.org/petsc/petsc/branch/hzhang/fix-submat_samerowdist
>>>>
>>>> I also add the test runex56. Please test it and let me know if there is
>>>> a problem.
>>>> Hong
>>>>
>>>> Also, I have been using -petscpartition_type but now I see
>>>>> -pc_gamg_mat_partitioning_type. Is -petscpartition_type depreciated
>>>>> for GAMG?
>>>>>
>>>>> Is this some sort of auto generated portmanteau? I can not find
>>>>> pc_gamg_mat_partitioning_type in the source.
>>>>>
>>>>> On Thu, Nov 2, 2017 at 6:44 PM, Mark Adams <mfadams at lbl.gov> wrote:
>>>>>
>>>>>> Great, thanks,
>>>>>>
>>>>>> And could you please add these parameters to a regression test? As I
>>>>>> recall we have with-parmetis regression test.
>>>>>>
>>>>>> On Thu, Nov 2, 2017 at 6:35 PM, Hong <hzhang at mcs.anl.gov> wrote:
>>>>>>
>>>>>>> Mark:
>>>>>>> I used petsc/src/ksp/ksp/examples/tutorials/ex56.c :-(
>>>>>>> Now testing src/snes/examples/tutorials/ex56.c with your options, I
>>>>>>> can reproduce the error.
>>>>>>> I'll fix it.
>>>>>>>
>>>>>>> Hong
>>>>>>>
>>>>>>> Hong,
>>>>>>>>
>>>>>>>> I've tested with master and I get the same error. Maybe the
>>>>>>>> partitioning parameters are wrong. -pc_gamg_mat_partitioning_type is new to
>>>>>>>> me.
>>>>>>>>
>>>>>>>> Can you run this (snes ex56) w/o the error?
>>>>>>>>
>>>>>>>>
>>>>>>>> 17:33 *master* *= ~*/Codes/petsc/src/snes/examples/tutorials*$
>>>>>>>> make runex
>>>>>>>> /Users/markadams/Codes/petsc/arch-macosx-gnu-g/bin/mpiexec -n 4
>>>>>>>> ./ex56 -cells 2,2,1 -max_conv_its 3 -petscspace_order 2 -snes_max_it 2
>>>>>>>> -ksp_max_it 100 -ksp_type cg -ksp_rtol 1.e-11 -ksp_norm_type
>>>>>>>> unpreconditioned -snes_rtol 1.e-10 -pc_type gamg -pc_gamg_type agg
>>>>>>>> -pc_gamg_agg_nsmooths 1 -pc_gamg_coarse_eq_limit 10
>>>>>>>> -pc_gamg_reuse_interpolation true -pc_gamg_square_graph 1
>>>>>>>> -pc_gamg_threshold 0.05 -pc_gamg_threshold_scale .0 -ksp_converged_reason
>>>>>>>> -snes_monitor_short -ksp_monitor_short -snes_converged_reason
>>>>>>>> -use_mat_nearnullspace true -mg_levels_ksp_max_it 1 -mg_levels_ksp_type
>>>>>>>> chebyshev -mg_levels_esteig_ksp_type cg -mg_levels_esteig_ksp_max_it 10
>>>>>>>> -mg_levels_ksp_chebyshev_esteig 0,0.05,0,1.05 -mg_levels_pc_type
>>>>>>>> jacobi -pc_gamg_mat_partitioning_type parmetis -mat_block_size 3 -matrap 0
>>>>>>>> -matptap_scalable -ex56_dm_view -run_type 1 -pc_gamg_repartition true
>>>>>>>> [0] 27 global equations, 9 vertices
>>>>>>>> [0] 27 equations in vector, 9 vertices
>>>>>>>> 0 SNES Function norm 122.396
>>>>>>>> 0 KSP Residual norm 122.396
>>>>>>>> <snip>
>>>>>>>> depth: 4 strata with value/size (0 (27), 1 (54), 2 (36), 3 (8))
>>>>>>>> [0] 4725 global equations, 1575 vertices
>>>>>>>> [0] 4725 equations in vector, 1575 vertices
>>>>>>>> 0 SNES Function norm 17.9091
>>>>>>>> [0]PETSC ERROR: --------------------- Error Message
>>>>>>>> --------------------------------------------------------------
>>>>>>>> [0]PETSC ERROR: No support for this operation for this object type
>>>>>>>> [0]PETSC ERROR: unsorted iscol_local is not implemented yet
>>>>>>>> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/d
>>>>>>>> ocumentation/faq.html for trouble shooting.
>>>>>>>>
>>>>>>>>
>>>>>>>> On Thu, Nov 2, 2017 at 1:35 PM, Hong <hzhang at mcs.anl.gov> wrote:
>>>>>>>>
>>>>>>>>> Mark :
>>>>>>>>> I realize that using maint or master branch, I cannot reproduce
>>>>>>>>> the same error.
>>>>>>>>> For this example, you must use a parallel partitioner,
>>>>>>>>> e.g.,'current' gives me following error:
>>>>>>>>> [0]PETSC ERROR: This is the DEFAULT NO-OP partitioner, it
>>>>>>>>> currently only supports one domain per processor
>>>>>>>>> use -pc_gamg_mat_partitioning_type parmetis or chaco or ptscotch
>>>>>>>>> for more than one subdomain per processor
>>>>>>>>>
>>>>>>>>> Please rebase your branch with maint or master, then see if you
>>>>>>>>> still have problem.
>>>>>>>>>
>>>>>>>>> Hong
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> On Thu, Nov 2, 2017 at 11:07 AM, Hong <hzhang at mcs.anl.gov> wrote:
>>>>>>>>>>
>>>>>>>>>>> Mark,
>>>>>>>>>>> I can reproduce this in an old branch, but not in current maint
>>>>>>>>>>> and master.
>>>>>>>>>>> Which branch are you using to produce this error?
>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> I am using a branch from Matt. Let me try to merge it with master.
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>> Hong
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> On Thu, Nov 2, 2017 at 9:28 AM, Mark Adams <mfadams at lbl.gov>
>>>>>>>>>>> wrote:
>>>>>>>>>>>
>>>>>>>>>>>> I am able to reproduce this with snes ex56 with 2 processors
>>>>>>>>>>>> and adding -pc_gamg_repartition true
>>>>>>>>>>>>
>>>>>>>>>>>> I'm not sure how to fix it.
>>>>>>>>>>>>
>>>>>>>>>>>> 10:26 1 knepley/feature-plex-boxmesh-create *=
>>>>>>>>>>>> ~/Codes/petsc/src/snes/examples/tutorials$ make
>>>>>>>>>>>> PETSC_DIR=/Users/markadams/Codes/petsc
>>>>>>>>>>>> PETSC_ARCH=arch-macosx-gnu-g runex
>>>>>>>>>>>> /Users/markadams/Codes/petsc/arch-macosx-gnu-g/bin/mpiexec -n
>>>>>>>>>>>> 2 ./ex56 -cells 2,2,1 -max_conv_its 3 -petscspace_order 2 -snes_max_it 2
>>>>>>>>>>>> -ksp_max_it 100 -ksp_type cg -ksp_rtol 1.e-11 -ksp_norm_type
>>>>>>>>>>>> unpreconditioned -snes_rtol 1.e-10 -pc_type gamg -pc_gamg_type agg
>>>>>>>>>>>> -pc_gamg_agg_nsmooths 1 -pc_gamg_coarse_eq_limit 10
>>>>>>>>>>>> -pc_gamg_reuse_interpolation true -pc_gamg_square_graph 1
>>>>>>>>>>>> -pc_gamg_threshold 0.05 -pc_gamg_threshold_scale .0 -ksp_converged_reason
>>>>>>>>>>>> -snes_monitor_short -ksp_monitor_short -snes_converged_reason
>>>>>>>>>>>> -use_mat_nearnullspace true -mg_levels_ksp_max_it 1 -mg_levels_ksp_type
>>>>>>>>>>>> chebyshev -mg_levels_esteig_ksp_type cg -mg_levels_esteig_ksp_max_it 10
>>>>>>>>>>>> -mg_levels_ksp_chebyshev_esteig 0,0.05,0,1.05
>>>>>>>>>>>> -mg_levels_pc_type jacobi -petscpartitioner_type simple -mat_block_size 3
>>>>>>>>>>>> -matrap 0 -matptap_scalable -ex56_dm_view -run_type 1 -pc_gamg_repartition
>>>>>>>>>>>> true
>>>>>>>>>>>> [0] 27 global equations, 9 vertices
>>>>>>>>>>>> [0] 27 equations in vector, 9 vertices
>>>>>>>>>>>> 0 SNES Function norm 122.396
>>>>>>>>>>>> 0 KSP Residual norm 122.396
>>>>>>>>>>>> 1 KSP Residual norm 20.4696
>>>>>>>>>>>> 2 KSP Residual norm 3.95009
>>>>>>>>>>>> 3 KSP Residual norm 0.176181
>>>>>>>>>>>> 4 KSP Residual norm 0.0208781
>>>>>>>>>>>> 5 KSP Residual norm 0.00278873
>>>>>>>>>>>> 6 KSP Residual norm 0.000482741
>>>>>>>>>>>> 7 KSP Residual norm 4.68085e-05
>>>>>>>>>>>> 8 KSP Residual norm 5.42381e-06
>>>>>>>>>>>> 9 KSP Residual norm 5.12785e-07
>>>>>>>>>>>> 10 KSP Residual norm 2.60389e-08
>>>>>>>>>>>> 11 KSP Residual norm 4.96201e-09
>>>>>>>>>>>> 12 KSP Residual norm 1.989e-10
>>>>>>>>>>>> Linear solve converged due to CONVERGED_RTOL iterations 12
>>>>>>>>>>>> 1 SNES Function norm 1.990e-10
>>>>>>>>>>>> Nonlinear solve converged due to CONVERGED_FNORM_RELATIVE
>>>>>>>>>>>> iterations 1
>>>>>>>>>>>> DM Object: Mesh (ex56_) 2 MPI processes
>>>>>>>>>>>> type: plex
>>>>>>>>>>>> Mesh in 3 dimensions:
>>>>>>>>>>>> 0-cells: 12 12
>>>>>>>>>>>> 1-cells: 20 20
>>>>>>>>>>>> 2-cells: 11 11
>>>>>>>>>>>> 3-cells: 2 2
>>>>>>>>>>>> Labels:
>>>>>>>>>>>> boundary: 1 strata with value/size (1 (39))
>>>>>>>>>>>> Face Sets: 5 strata with value/size (1 (2), 2 (2), 3 (2), 5
>>>>>>>>>>>> (1), 6 (1))
>>>>>>>>>>>> marker: 1 strata with value/size (1 (27))
>>>>>>>>>>>> depth: 4 strata with value/size (0 (12), 1 (20), 2 (11), 3
>>>>>>>>>>>> (2))
>>>>>>>>>>>> [0] 441 global equations, 147 vertices
>>>>>>>>>>>> [0] 441 equations in vector, 147 vertices
>>>>>>>>>>>> 0 SNES Function norm 49.7106
>>>>>>>>>>>> 0 KSP Residual norm 49.7106
>>>>>>>>>>>> 1 KSP Residual norm 12.9252
>>>>>>>>>>>> 2 KSP Residual norm 2.38019
>>>>>>>>>>>> 3 KSP Residual norm 0.426307
>>>>>>>>>>>> 4 KSP Residual norm 0.0692155
>>>>>>>>>>>> 5 KSP Residual norm 0.0123092
>>>>>>>>>>>> 6 KSP Residual norm 0.00184874
>>>>>>>>>>>> 7 KSP Residual norm 0.000320761
>>>>>>>>>>>> 8 KSP Residual norm 5.48957e-05
>>>>>>>>>>>> 9 KSP Residual norm 9.90089e-06
>>>>>>>>>>>> 10 KSP Residual norm 1.5127e-06
>>>>>>>>>>>> 11 KSP Residual norm 2.82192e-07
>>>>>>>>>>>> 12 KSP Residual norm 4.62364e-08
>>>>>>>>>>>> 13 KSP Residual norm 7.99573e-09
>>>>>>>>>>>> 14 KSP Residual norm 1.3028e-09
>>>>>>>>>>>> 15 KSP Residual norm 2.174e-10
>>>>>>>>>>>> Linear solve converged due to CONVERGED_RTOL iterations 15
>>>>>>>>>>>> 1 SNES Function norm 2.174e-10
>>>>>>>>>>>> Nonlinear solve converged due to CONVERGED_FNORM_RELATIVE
>>>>>>>>>>>> iterations 1
>>>>>>>>>>>> DM Object: Mesh (ex56_) 2 MPI processes
>>>>>>>>>>>> type: plex
>>>>>>>>>>>> Mesh in 3 dimensions:
>>>>>>>>>>>> 0-cells: 45 45
>>>>>>>>>>>> 1-cells: 96 96
>>>>>>>>>>>> 2-cells: 68 68
>>>>>>>>>>>> 3-cells: 16 16
>>>>>>>>>>>> Labels:
>>>>>>>>>>>> marker: 1 strata with value/size (1 (129))
>>>>>>>>>>>> Face Sets: 5 strata with value/size (1 (18), 2 (18), 3 (18),
>>>>>>>>>>>> 5 (9), 6 (9))
>>>>>>>>>>>> boundary: 1 strata with value/size (1 (141))
>>>>>>>>>>>> depth: 4 strata with value/size (0 (45), 1 (96), 2 (68), 3
>>>>>>>>>>>> (16))
>>>>>>>>>>>> [0] 4725 global equations, 1575 vertices
>>>>>>>>>>>> [0] 4725 equations in vector, 1575 vertices
>>>>>>>>>>>> 0 SNES Function norm 17.9091
>>>>>>>>>>>> [0]PETSC ERROR: --------------------- Error Message
>>>>>>>>>>>> --------------------------------------------------------------
>>>>>>>>>>>> [0]PETSC ERROR: No support for this operation for this object
>>>>>>>>>>>> type
>>>>>>>>>>>> [0]PETSC ERROR: unsorted iscol_local is not implemented yet
>>>>>>>>>>>> [1]PETSC ERROR: --------------------- Error Message
>>>>>>>>>>>> --------------------------------------------------------------
>>>>>>>>>>>> [1]PETSC ERROR: No support for this operation for this object
>>>>>>>>>>>> type
>>>>>>>>>>>> [1]PETSC ERROR: unsorted iscol_local is not implemented yet
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> On Thu, Nov 2, 2017 at 9:51 AM, Mark Adams <mfadams at lbl.gov>
>>>>>>>>>>>> wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> On Wed, Nov 1, 2017 at 9:36 PM, Randy Michael Churchill <
>>>>>>>>>>>>> rchurchi at pppl.gov> wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>> Doing some additional testing, the issue goes away when
>>>>>>>>>>>>>> removing the gamg preconditioner line from the petsc.rc:
>>>>>>>>>>>>>> -pc_type gamg
>>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> Yea, this is GAMG setup.
>>>>>>>>>>>>>
>>>>>>>>>>>>> This is the code. findices is create with ISCreateStride, so
>>>>>>>>>>>>> it is sorted ...
>>>>>>>>>>>>>
>>>>>>>>>>>>> Michael is repartitioning the coarse grids. Maybe we don't
>>>>>>>>>>>>> have a regression test with this...
>>>>>>>>>>>>>
>>>>>>>>>>>>> I will try to reproduce this.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Michael: you can use hypre for now, or turn repartitioning off
>>>>>>>>>>>>> (eg, -fsa_fieldsplit_lambda_upper_pc_gamg_repartition false),
>>>>>>>>>>>>> but I'm not sure this will fix this.
>>>>>>>>>>>>>
>>>>>>>>>>>>> You don't have hypre parameters for all of your all of your
>>>>>>>>>>>>> solvers. I think 'boomeramg' is the default pc_hypre_type. That should be
>>>>>>>>>>>>> good enough for you.
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> {
>>>>>>>>>>>>> IS findices;
>>>>>>>>>>>>> PetscInt Istart,Iend;
>>>>>>>>>>>>> Mat Pnew;
>>>>>>>>>>>>>
>>>>>>>>>>>>> ierr = MatGetOwnershipRange(Pold, &Istart,
>>>>>>>>>>>>> &Iend);CHKERRQ(ierr);
>>>>>>>>>>>>> #if defined PETSC_GAMG_USE_LOG
>>>>>>>>>>>>> ierr = PetscLogEventBegin(petsc_gamg_
>>>>>>>>>>>>> setup_events[SET15],0,0,0,0);CHKERRQ(ierr);
>>>>>>>>>>>>> #endif
>>>>>>>>>>>>> ierr = ISCreateStride(comm,Iend-Istar
>>>>>>>>>>>>> t,Istart,1,&findices);CHKERRQ(ierr);
>>>>>>>>>>>>> ierr = ISSetBlockSize(findices,f_bs);CHKERRQ(ierr);
>>>>>>>>>>>>> ierr = MatCreateSubMatrix(Pold, findices,
>>>>>>>>>>>>> new_eq_indices, MAT_INITIAL_MATRIX, &Pnew);CHKERRQ(ierr);
>>>>>>>>>>>>> ierr = ISDestroy(&findices);CHKERRQ(ierr);
>>>>>>>>>>>>>
>>>>>>>>>>>>> #if defined PETSC_GAMG_USE_LOG
>>>>>>>>>>>>> ierr = PetscLogEventEnd(petsc_gamg_se
>>>>>>>>>>>>> tup_events[SET15],0,0,0,0);CHKERRQ(ierr);
>>>>>>>>>>>>> #endif
>>>>>>>>>>>>> ierr = MatDestroy(a_P_inout);CHKERRQ(ierr);
>>>>>>>>>>>>>
>>>>>>>>>>>>> /* output - repartitioned */
>>>>>>>>>>>>> *a_P_inout = Pnew;
>>>>>>>>>>>>> }
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> On Wed, Nov 1, 2017 at 8:23 PM, Hong <hzhang at mcs.anl.gov>
>>>>>>>>>>>>>> wrote:
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Randy:
>>>>>>>>>>>>>>> Thanks, I'll check it tomorrow.
>>>>>>>>>>>>>>> Hong
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> OK, this might not be completely satisfactory, because it
>>>>>>>>>>>>>>>> doesn't show the partitioning or how the matrix is created, but this
>>>>>>>>>>>>>>>> reproduces the problem. I wrote out my matrix, Amat, from the larger
>>>>>>>>>>>>>>>> simulation, and load it in this script. This must be run with MPI rank
>>>>>>>>>>>>>>>> greater than 1. This may be some combination of my petsc.rc, because when I
>>>>>>>>>>>>>>>> use the PetscInitialize with it, it throws the error, but when using
>>>>>>>>>>>>>>>> default (PETSC_NULL_CHARACTER) it runs fine.
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> On Tue, Oct 31, 2017 at 9:58 AM, Hong <hzhang at mcs.anl.gov>
>>>>>>>>>>>>>>>> wrote:
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>> Randy:
>>>>>>>>>>>>>>>>> It could be a bug or a missing feature in our new
>>>>>>>>>>>>>>>>> MatCreateSubMatrix_MPIAIJ_SameRowDist().
>>>>>>>>>>>>>>>>> It would be helpful if you can provide us a simple example
>>>>>>>>>>>>>>>>> that produces this example.
>>>>>>>>>>>>>>>>> Hong
>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>> I'm running a Fortran code that was just changed over to
>>>>>>>>>>>>>>>>>> using petsc 3.8 (previously petsc 3.7.6). An error was thrown during a
>>>>>>>>>>>>>>>>>> KSPSetUp() call. The error is "unsorted iscol_local is not implemented yet"
>>>>>>>>>>>>>>>>>> (see full error below). I tried to trace down the difference in the source
>>>>>>>>>>>>>>>>>> files, but where the error occurs (MatCreateSubMatrix_MPIAIJ_SameRowDist())
>>>>>>>>>>>>>>>>>> doesn't seem to have existed in v3.7.6, so I'm unsure how to compare. It
>>>>>>>>>>>>>>>>>> seems the error is that the order of the columns locally are unsorted,
>>>>>>>>>>>>>>>>>> though I don't think I specify a column order in the creation of the matrix:
>>>>>>>>>>>>>>>>>> call MatCreate(this%comm,AA,ierr)
>>>>>>>>>>>>>>>>>> call MatSetSizes(AA,npetscloc,npets
>>>>>>>>>>>>>>>>>> cloc,nreal,nreal,ierr)
>>>>>>>>>>>>>>>>>> call MatSetType(AA,MATAIJ,ierr)
>>>>>>>>>>>>>>>>>> call MatSetup(AA,ierr)
>>>>>>>>>>>>>>>>>> call MatGetOwnershipRange(AA,low,high,ierr)
>>>>>>>>>>>>>>>>>> allocate(d_nnz(npetscloc),o_nnz(npetscloc))
>>>>>>>>>>>>>>>>>> call getNNZ(grid,npetscloc,low,high
>>>>>>>>>>>>>>>>>> ,d_nnz,o_nnz,this%xgc_petsc,nreal,ierr)
>>>>>>>>>>>>>>>>>> call MatSeqAIJSetPreallocation(AA,P
>>>>>>>>>>>>>>>>>> ETSC_NULL_INTEGER,d_nnz,ierr)
>>>>>>>>>>>>>>>>>> call MatMPIAIJSetPreallocation(AA,P
>>>>>>>>>>>>>>>>>> ETSC_NULL_INTEGER,d_nnz,PETSC_NULL_INTEGER,o_nnz,ierr)
>>>>>>>>>>>>>>>>>> deallocate(d_nnz,o_nnz)
>>>>>>>>>>>>>>>>>> call MatSetOption(AA,MAT_IGNORE_OFF
>>>>>>>>>>>>>>>>>> _PROC_ENTRIES,PETSC_TRUE,ierr)
>>>>>>>>>>>>>>>>>> call MatSetOption(AA,MAT_KEEP_NONZE
>>>>>>>>>>>>>>>>>> RO_PATTERN,PETSC_TRUE,ierr)
>>>>>>>>>>>>>>>>>> call MatSetup(AA,ierr)
>>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: --------------------- Error Message
>>>>>>>>>>>>>>>>>> ------------------------------
>>>>>>>>>>>>>>>>>> --------------------------------
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: No support for this operation for this
>>>>>>>>>>>>>>>>>> object type
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: unsorted iscol_local is not implemented
>>>>>>>>>>>>>>>>>> yet
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: See http://www.mcs.anl.gov/petsc/d
>>>>>>>>>>>>>>>>>> ocumentation/faq.html for trouble shooting.
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: Petsc Release Version 3.8.0,
>>>>>>>>>>>>>>>>>> unknown[62]PETSC ERROR: #1 MatCreateSubMatrix_MPIAIJ_SameRowDist()
>>>>>>>>>>>>>>>>>> line 3418 in /global/u1/r/rchurchi/petsc/3.
>>>>>>>>>>>>>>>>>> 8.0/src/mat/impls/aij/mpi/mpiaij.c
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: #2 MatCreateSubMatrix_MPIAIJ() line 3247
>>>>>>>>>>>>>>>>>> in /global/u1/r/rchurchi/petsc/3.
>>>>>>>>>>>>>>>>>> 8.0/src/mat/impls/aij/mpi/mpiaij.c
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: #3 MatCreateSubMatrix() line 7872 in
>>>>>>>>>>>>>>>>>> /global/u1/r/rchurchi/petsc/3.8.0/src/mat/interface/matrix.c
>>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: #4 PCGAMGCreateLevel_GAMG() line 383 in
>>>>>>>>>>>>>>>>>> /global/u1/r/rchurchi/petsc/3.
>>>>>>>>>>>>>>>>>> 8.0/src/ksp/pc/impls/gamg/gamg.c
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: #5 PCSetUp_GAMG() line 561 in
>>>>>>>>>>>>>>>>>> /global/u1/r/rchurchi/petsc/3.
>>>>>>>>>>>>>>>>>> 8.0/src/ksp/pc/impls/gamg/gamg.c
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: #6 PCSetUp() line 924 in
>>>>>>>>>>>>>>>>>> /global/u1/r/rchurchi/petsc/3.
>>>>>>>>>>>>>>>>>> 8.0/src/ksp/pc/interface/precon.c
>>>>>>>>>>>>>>>>>> [62]PETSC ERROR: #7 KSPSetUp() line 378 in
>>>>>>>>>>>>>>>>>> /global/u1/r/rchurchi/petsc/3.
>>>>>>>>>>>>>>>>>> 8.0/src/ksp/ksp/interface/itfunc.c
>>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>>> --
>>>>>>>>>>>>>>>>>> R. Michael Churchill
>>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> --
>>>>>>>>>>>>>>>> R. Michael Churchill
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> --
>>>>>>>>>>>>>> R. Michael Churchill
>>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>
>>>>>>>
>>>>>>
>>>>>
>>>>
>>>
>>
>
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