[petsc-users] unsorted local columns in 3.8?
Hong
hzhang at mcs.anl.gov
Tue Nov 7 21:13:03 CST 2017
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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