[petsc-dev] corrupted ta->count with GAMG

Thu Oct 25 09:56:09 CDT 2012

On Thu, Oct 25, 2012 at 9:43 AM, John Mousel <john.mousel at gmail.com> wrote:

> Jed,
>
> That had occurred to me too. Unfortunately, my sys admins insist on using
> OpenMPI due to some issues they have with getting SGE to properly clean up
> processes with MVAPICH and MPICH2. Long story. Is there an option to get
> back to the previous default behavior? I couldn't find the documentation
> for -mat_bypass_jeds_more_efficient_algorithm_because_sysadmins_make_me.

Pull

https://bitbucket.org/petsc/petsc-dev/changeset/43e28ef1a420

>
>
> John
>
>
> On Thu, Oct 25, 2012 at 9:33 AM, Jed Brown <jedbrown at mcs.anl.gov> wrote:
>
>> It's an Open MPI bug. I'll write the work-around, but have deadlines
>> first.
>>
>>
>> https://bitbucket.org/petsc/petsc-dev/issue/9/implement-petscsf-without-one-sided
>>
>>
>> On Thu, Oct 25, 2012 at 9:23 AM, Mark F. Adams <mark.adams at columbia.edu>wrote:
>>
>>> The problem is detected in MatTranspose and Jed was messing with this a
>>> few weeks ago ...
>>>
>>>
>>> On Oct 25, 2012, at 6:48 AM, John Mousel <john.mousel at gmail.com> wrote:
>>>
>>> Mark,
>>>
>>> Yes, this worked before pulling. I hadn't pulled on that machine in a
>>> few weeks though.
>>>
>>> John
>>>
>>> On Thu, Oct 25, 2012 at 1:18 AM, Mark F. Adams <mark.adams at columbia.edu>wrote:
>>>
>>>> Did this work before the pull?
>>>>
>>>> Mark
>>>>
>>>> On Oct 24, 2012, at 8:04 PM, John Mousel <john.mousel at gmail.com> wrote:
>>>>
>>>> > I just pulled and I'm getting the error below when running with GAMG.
>>>> >
>>>> > [20]PETSC ERROR: --------------------- Error Message
>>>> ------------------------------------
>>>> > [20]PETSC ERROR: Corrupted Petsc object!
>>>> > [20]PETSC ERROR: corrupted ta->count!
>>>> > [20]PETSC ERROR:
>>>> ------------------------------------------------------------------------
>>>> > [20]PETSC ERROR: Petsc Development HG revision:
>>>> 2b3cccd7bd8ff536f48616e4402b164ba9cd12d0  HG Date: Wed Oct 24 21:15:30 2012
>>>> -0500
>>>> > [20]PETSC ERROR: See docs/changes/index.html for recent updates.
>>>> > [73]PETSC ERROR: [20]PETSC ERROR: --------------------- Error Message
>>>> ------------------------------------
>>>> > See docs/faq.html for hints about trouble shooting.
>>>> > [73]PETSC ERROR: [20]PETSC ERROR: See docs/index.html for manual
>>>> pages.
>>>> > Corrupted Petsc object!
>>>> > [20]PETSC ERROR: [73]PETSC ERROR:
>>>> ------------------------------------------------------------------------
>>>> > corrupted ta->count!
>>>> > [253]PETSC ERROR: --------------------- Error Message
>>>> ------------------------------------
>>>> > [253]PETSC ERROR: Corrupted Petsc object!
>>>> > [253]PETSC ERROR: corrupted ta->count!
>>>> > [253]PETSC ERROR:
>>>> ------------------------------------------------------------------------
>>>> > [253]PETSC ERROR: Petsc Development HG revision:
>>>> 2b3cccd7bd8ff536f48616e4402b164ba9cd12d0  HG Date: Wed Oct 24 21:15:30 2012
>>>> -0500
>>>> > [253]PETSC ERROR: See docs/changes/index.html for recent updates.
>>>> > [253]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>>>> > [253]PETSC ERROR: See docs/index.html for manual pages.
>>>> > [253]PETSC ERROR:
>>>> ------------------------------------------------------------------------
>>>> > [253]PETSC ERROR: /nfsscratch/Users/jmousel/MHV/MHV_exe on a
>>>> intel-opt named compute-6-165.local by jmousel Wed Oct 24 21:59:50 2012
>>>> > [253]PETSC ERROR: Libraries linked from
>>>> /Users/jmousel/SOFT/petsc-dev/intel-opt/lib
>>>> > [253]PETSC ERROR: Configure run at Wed Oct 24 21:41:09 2012
>>>> > [253]PETSC ERROR: Configure options --download-blacs=1
>>>> --download-cmake=1 --download-hypre=1 --download-metis=1 --download-ml=1
>>>> --download-parmetis=1 --download-scalapack=1
>>>> --with-blas-lapack-dir=/opt/intel/mkl/10.2.5.035/lib/em64t--with-debugging=0 --with-mpi-dir=/opt/openmpi/1.4.3/intel COPTFLAGS=-O2
>>>> FOPTFLAGS=-O2 PETSC_ARCH=intel-opt
>>>> > [253]PETSC ERROR:
>>>> ------------------------------------------------------------------------
>>>> > [253]PETSC ERROR: PetscTableAddExpand() line 145 in
>>>> src/sys/utils/ctable.c
>>>> > [253]PETSC ERROR: PetscTableAdd() line 75 in
>>>> src/sys/sf//Users/jmousel/SOFT/petsc-dev/include/petscctable.h
>>>> > [253]PETSC ERROR: PetscSFSetGraph() line 327 in src/sys/sf/sf.c
>>>> > [253]PETSC ERROR: PetscSFSetGraphLayout() line 595 in
>>>> src/vec/vec/impls/mpi/pmap.c
>>>> > [253]PETSC ERROR: MatTranspose_MPIAIJ() line 2130 in
>>>> src/mat/impls/aij/mpi/mpiaij.c
>>>> > [253]PETSC ERROR: MatTranspose() line 4350 in
>>>> src/mat/interface/matrix.c
>>>> > [253]PETSC ERROR: PCGAMGFilterGraph() line 136 in
>>>> src/ksp/pc/impls/gamg/tools.c
>>>> > [253]PETSC ERROR: PCGAMGgraph_AGG() line 979 in
>>>> src/ksp/pc/impls/gamg/agg.c
>>>> > [253]PETSC ERROR: PCSetUp_GAMG() line 685 in
>>>> src/ksp/pc/impls/gamg/gamg.c
>>>> > [253]PETSC ERROR: PCSetUp() line 832 in src/ksp/pc/interface/precon.c
>>>> > [253]PETSC ERROR: KSPSetUp() line 278 in
>>>> src/ksp/ksp/interface/itfunc.c
>>>> > [253]PETSC ERROR: KSPSolve() line 402 in
>>>> src/ksp/ksp/interface/itfunc.c
>>>> > [73]PETSC ERROR: [20]PETSC ERROR:
>>>> ------------------------------------------------------------------------
>>>> > /nfsscratch/Users/jmousel/MHV/MHV_exe on a intel-opt named
>>>> compute-1-16.local by jmousel Wed Oct 24 21:59:50 2012
>>>> > [73]PETSC ERROR: [20]PETSC ERROR: Libraries linked from
>>>> /Users/jmousel/SOFT/petsc-dev/intel-opt/lib
>>>> > [35]PETSC ERROR: Petsc Development HG revision:
>>>> 2b3cccd7bd8ff536f48616e4402b164ba9cd12d0  HG Date: Wed Oct 24 21:15:30 2012
>>>> -0500
>>>> > [20]PETSC ERROR: [73]PETSC ERROR: See docs/changes/index.html for
>>>> recent updates.
>>>> > Configure run at Wed Oct 24 21:41:09 2012
>>>> > --------------------- Error Message
>>>> ------------------------------------
>>>> > [73]PETSC ERROR: [20]PETSC ERROR: [35]PETSC ERROR: Configure options
>>>> --download-blacs=1 --download-cmake=1 --download-hypre=1 --download-metis=1
>>>> --download-ml=1 --download-parmetis=1 --download-scalapack=1
>>>> --with-blas-lapack-dir=/opt/intel/mkl/10.2.5.035/lib/em64t--with-debugging=0 --with-mpi-dir=/opt/openmpi/1.4.3/intel COPTFLAGS=-O2
>>>> FOPTFLAGS=-O2 PETSC_ARCH=intel-opt
>>>> > See docs/faq.html for hints about trouble shooting.
>>>>
>>>>
>>>
>>>
>>
>
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