[petsc-users] Double free in KSPDestroy
mailinglists at xgm.de
Tue Jul 14 02:14:05 CDT 2015
Am Montag, 13. Juli 2015, 12:26:21 schrieb Barry Smith:
> Run under valgrind first, see if it gives any more details about the memory issue http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind
I tried running it like that:
valgrind --tool=memcheck ./pmpi A -malloc off
(pmpi is my application, no mpirun)
but it reported no errors at all.
> Can you send the code that produces this problem?
I was not able to isolate that problem, you can of course have a look at our application:
git clone git at github.com:precice/precice.git
MPI_CXX="clang++" scons -j 4 boost_inst=on python=off petsc=on mpi=on compiler=mpic++ build=debug
The test client:
git clone git at github.com:floli/prempi.git
you need to adapt line 5 in SConstruct: preciceRoot
Take one terminal run ./pmpi A, another to run ./pmpi B
Thanks for taking a look! Mail me if any problem with the build occurs.
> > On Jul 13, 2015, at 10:56 AM, Florian Lindner <mailinglists at xgm.de> wrote:
> > Hello,
> > our petsc application suffers from a memory error (double free or corruption).
> > Situation is a like that:
> > A KSP is private member of a C++ class. In its constructor I call KSPCreate. Inbetween it may haben that I call KSPREset. In the class' destructor I call KSPDestroy. That's where the memory error appears:
> > gdb backtrace:
> > #4 0x00007ffff490b8db in _int_free () from /usr/lib/libc.so.6
> > #5 0x00007ffff6188c9c in PetscFreeAlign (ptr=0xfcd990, line=258, func=0x7ffff753c4c8 <__func__.20304> "KSPReset_GMRES", file=0x7ffff753b8b0 "/home/florian/software/petsc/src/ksp/ksp/impls/gmres/gmres.c")
> > at /home/florian/software/petsc/src/sys/memory/mal.c:72
> > #6 0x00007ffff6ff6cdc in KSPReset_GMRES (ksp=0xf48470) at /home/florian/software/petsc/src/ksp/ksp/impls/gmres/gmres.c:258
> > #7 0x00007ffff70ad804 in KSPReset (ksp=0xf48470) at /home/florian/software/petsc/src/ksp/ksp/interface/itfunc.c:885
> > #8 0x00007ffff70ae2e8 in KSPDestroy (ksp=0xeb89d8) at /home/florian/software/petsc/src/ksp/ksp/interface/itfunc.c:933
> > #9 0x0000000000599b24 in precice::mapping::PetRadialBasisFctMapping<precice::mapping::Gaussian>::~PetRadialBasisFctMapping (this=0xeb8960) at src/mapping/PetRadialBasisFctMapping.hpp:148
> > #10 0x0000000000599bc9 in precice::mapping::PetRadialBasisFctMapping<precice::mapping::Gaussian>::~PetRadialBasisFctMapping (this=0xeb8960) at src/mapping/PetRadialBasisFctMapping.hpp:146
> > Complete backtrace at http://pastebin.com/ASjibeNF
> > Could it be a problem it objects set by KSPSetOperators are destroyed afterwards? I don't think so, since KSPReset is called before.
> > I've wrapped a class (just a bunch of helper function, no encapsulating wrapper) round Mat and Vec objects. Nothing fancy, the ctor calls MatCreate, the dtor MatDestroy, you can have a look at https://github.com/precice/precice/blob/develop/src/mapping/petnum.cpp / .hpp.
> > These objects are also members of the same class like KSP, so their dtor is called after KSPDestroy.
> > What could cause the memory corruption here?
> > Thanks a lot,
> > Florian
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