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. >>>> >>>> >>> >>> >> > -------------- next part -------------- An HTML attachment was scrubbed... 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