Unscalable ASM? about ibamr HOT 13 CLOSED

On Mon, Jul 13, 2015 at 1:44 PM, Amneet Bhalla [email protected]
wrote:

Ref:

IBAMR/ibtk/src/solvers/impls/PETScLevelSolver.cpp

Line 309 in 68a0c2d

TBOX_ASSERT(num_subdomains > 0);

This seems like an unscalable approach. All processors must own atleast
one patch on a particular level.
This is not guaranteed(?).

When would you have processors with no work? I could see if you are talking
about some level of multigrid
where we want to neck down the process set.

Thanks,

 Matt

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#21.

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

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Yes, this is for MG preconditioning. Basically we are forming level solvers as MG-smoothers. Some processors can be devoid of patches on some levels in SAMRAI, which will trigger an error.

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On Jul 13, 2015, at 3:08 PM, Amneet Bhalla [email protected] wrote:

Yes, this is for MG preconditioning. Basically we are forming level solvers as MG-smoothers. Some processors can be devoid of patches on some levels in SAMRAI, which will trigger an error.

To be clear: this only happens in coarser levels.

Matt, can we add in "dummy" subdomains that do not have empty index sets in this case? Or do we need to make sub-communicators that include only MPI ranks with active DOFs?

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On Mon, Jul 13, 2015 at 3:01 PM, Boyce Griffith [email protected]
wrote:

On Jul 13, 2015, at 3:08 PM, Amneet Bhalla [email protected]
wrote:

Yes, this is for MG preconditioning. Basically we are forming level
solvers as MG-smoothers. Some processors can be devoid of patches on some
levels in SAMRAI, which will trigger an error.

To be clear: this only happens in coarser levels.

Matt, can we add in "dummy" subdomains that do not have empty index sets
in this case? Or do we need to make sub-communicators that include only MPI
ranks with active DOFs?

Ideally one day we want subcommunicators, but it is currently not easy to
make work. Thus I think empty index sets are the best.
I assume PETSc is choking on empties? I can fix that. It should not.

Thanks,

Matt

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Reply to this email directly or view it on GitHub
#21 (comment).

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

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On Jul 13, 2015, at 4:02 PM, Matthew Knepley [email protected] wrote:

On Mon, Jul 13, 2015 at 3:01 PM, Boyce Griffith [email protected]
wrote:

On Jul 13, 2015, at 3:08 PM, Amneet Bhalla [email protected]
wrote:

Yes, this is for MG preconditioning. Basically we are forming level
solvers as MG-smoothers. Some processors can be devoid of patches on some
levels in SAMRAI, which will trigger an error.

To be clear: this only happens in coarser levels.

Matt, can we add in "dummy" subdomains that do not have empty index sets
in this case? Or do we need to make sub-communicators that include only MPI
ranks with active DOFs?

Ideally one day we want subcommunicators, but it is currently not easy to
make work. Thus I think empty index sets are the best.
I assume PETSc is choking on empties? I can fix that. It should not.

I don't think that Amneet has sent in empty IS'es, just noticed that PETSc chokes if there are no subdomains.

@amneetb, can you setup code to pass "dummy" empty IS'es for cases in which there are no local DOFs?

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Sure.

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Adding code like:

        int num_subdomains = static_cast<int>(d_overlap_is.size());
        if (num_subdomains == 0)
        {
            d_overlap_is.resize(1);
            ierr = ISCreate(PETSC_COMM_SELF, &d_overlap_is[0]);
            IBTK_CHKERRQ(ierr);

            d_nonoverlap_is.resize(1);
            ierr = ISCreate(PETSC_COMM_SELF, &d_nonoverlap_is[0]);
            IBTK_CHKERRQ(ierr);
        }
        ierr = PCASMSetLocalSubdomains(ksp_pc, num_subdomains, &d_overlap_is[0],   &d_nonoverlap_is[0]);
        IBTK_CHKERRQ(ierr);

Gives PETSc error:

[4]PETSC ERROR: Argument out of range
[4]PETSC ERROR: Each process must have 1 or more blocks, n = 0

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On Mon, Jul 13, 2015 at 5:41 PM, Amneet Bhalla [email protected]
wrote:

Adding code like:

    int num_subdomains = static_cast<int>(d_overlap_is.size());
    if (num_subdomains == 0)
    {
        d_overlap_is.resize(1);
        ierr = ISCreate(PETSC_COMM_SELF, &d_overlap_is[0]);
        IBTK_CHKERRQ(ierr);

        d_nonoverlap_is.resize(1);
        ierr = ISCreate(PETSC_COMM_SELF, &d_nonoverlap_is[0]);
        IBTK_CHKERRQ(ierr);
    }
    ierr = PCASMSetLocalSubdomains(ksp_pc, num_subdomains, &d_overlap_is[0],   &d_nonoverlap_is[0]);
    IBTK_CHKERRQ(ierr);

Gives PETSc error:

[4]PETSC ERROR: Argument out of range
[4]PETSC ERROR: Each process must have 1 or more blocks, n = 0

This is definitely a silly requirement that I can eliminate. However, can
you give it one block with an empty
IS to see if that works?

Thanks,

Matt

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#21 (comment).

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

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Runs but gives a seg fault...

Program received signal EXC_BAD_ACCESS, Could not access memory.
Reason: KERN_INVALID_ADDRESS at address: 0x0000000000000000
0x0000000000000000 in ?? ()
(gdb) where
#0 0x0000000000000000 in ?? ()
#1 0x000000010d83cc9a in ISSort (is=0x7f8fca203660) at index.c:831
#2 0x000000010e5cf3a8 in PCSetUp_ASM (pc=0x7f8fca931a60) at asm.c:257
#3 0x000000010e65e1d5 in PCSetUp (pc=0x7f8fca931a60) at precon.c:982
#4 0x000000010e75d5bd in KSPSetUp (ksp=0x7f8fca1ee260) at itfunc.c:332
#5 0x000000010e75fac9 in KSPSolve (ksp=0x7f8fca1ee260, b=0x7f8fca1b0a60, x=0x7f8fcb1aee60) at itfunc.c:546
#6 0x0000000109ecc88e in IBTK::PETScLevelSolver::solveSystem () at PETScLevelSolver.cpp:168

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Okay, I will fix it.

Thanks,

 Matt

On Mon, Jul 13, 2015 at 10:53 PM, Amneet Bhalla [email protected]
wrote:

Runs but gives a seg fault...

Program received signal EXC_BAD_ACCESS, Could not access memory.
Reason: KERN_INVALID_ADDRESS at address: 0x0000000000000000
0x0000000000000000 in ?? ()
(gdb) where
#0 0x0000000000000000 in ?? ()
#1 #1 0x000000010d83cc9a in ISSort
(is=0x7f8fca203660) at index.c:831
#2 #2 0x000000010e5cf3a8 in
PCSetUp_ASM (pc=0x7f8fca931a60) at asm.c:257
#3 #3 0x000000010e65e1d5 in
PCSetUp (pc=0x7f8fca931a60) at precon.c:982
#4 #4 0x000000010e75d5bd in
KSPSetUp (ksp=0x7f8fca1ee260) at itfunc.c:332
#5 #5 0x000000010e75fac9 in KSPSolve
(ksp=0x7f8fca1ee260, b=0x7f8fca1b0a60, x=0x7f8fcb1aee60) at itfunc.c:546
#6 #6 0x0000000109ecc88e in
IBTK::PETScLevelSolver::solveSystem () at PETScLevelSolver.cpp:168

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#21 (comment).

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

from ibamr.

I do not see the same error. I am not sure what is different here. Can you take a look at https://bitbucket.org/petsc/petsc/branch/knepley/test-asm-empty-subdomain ? This is my branch which has KSP ex6. It uses both the default and by-hand versions of ASM with an empty subdomain and does not crash.

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@knepley OK; the example helps. So we changed the way the empty IS is created. Before it was

IS is_empty
ISCreate(PETSC_COMM_SELF, &is_empty);

Now following your example it is changed to

IS is_empty;
ISCreateGeneral(PETSC_COMM_SELF, 0, NULL, PETSC_OWN_POINTER, &is_empty);

This made the code in IBAMR to work. Probably you want to make even the first call to succeed in the ASM code for the case of empty subdomain (?).

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On Wed, Jul 29, 2015 at 1:18 PM, Amneet Bhalla [email protected]
wrote:

@knepley https://github.com/knepley OK; the example helps. So we
changed the way the empty IS is created. Before it was

IS is_empty
ISCreate(PETSC_COMM_SELF, &is_empty);

Now following your example it is changed to
IS is_empty;
ISCreateGeneral(PETSC_COMM_SELF, 0, NULL, PETSC_OWN_POINTER, &is_empty);

This made the code in IBAMR to work. Probably you want to make even the
first call work to succeed in the ASM code for the case of empty subdomain
(?).

This case is slightly different. *Create() creates a PETSc object
container, but until the type is set, it
has no virtual table, so calls to any member function fail. I think we
should require an actual object
here.

Thanks,

 Matt

—
Reply to this email directly or view it on GitHub
#21 (comment).

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

from ibamr.