[petsc-dev] Error in PetscMallocValidate

Tue Sep 24 09:49:56 CDT 2013

I cloned a fresh repo and built from scratch. I'm seeing the same error I
previously reported with both intel and gnu compilers. Also, I get warnings
in MatSOR_SeqAIJ_Inode during the build.

src/mat/impls/aij/seq/inode.c: In function ‘MatSOR_SeqAIJ_Inode’:
src/mat/impls/aij/seq/inode.c:2758: warning: ‘sum2’ may be used
uninitialized in this function
src/mat/impls/aij/seq/inode.c:2758: warning: ‘sum3’ may be used
uninitialized in this function
src/mat/impls/aij/seq/inode.c:2758: warning: ‘sum4’ may be used
uninitialized in this function
src/mat/impls/aij/seq/inode.c:2758: warning: ‘sum5’ may be used
uninitialized in this function
src/mat/impls/aij/seq/inode.c:2761: warning: ‘v2’ may be used uninitialized
in this function
src/mat/impls/aij/seq/inode.c:2761: warning: ‘v3’ may be used uninitialized
in this function
src/mat/impls/aij/seq/inode.c:2761: warning: ‘v4’ may be used uninitialized
in this function
src/mat/impls/aij/seq/inode.c:2761: warning: ‘v5’ may be used uninitialized
in this function
src/mat/impls/aij/seq/inode.c:2758: warning: ‘sum1’ may be used
uninitialized in this function
src/mat/impls/aij/seq/inode.c:2761: warning: ‘v1’ may be used uninitialized
in this function

John

On Mon, Sep 23, 2013 at 6:50 PM, John Mousel <john.mousel at gmail.com> wrote:

> Make test ran correctly for both debug and optimized builds. It runs fine
> with plain bJacobi/ilu preconditioning.
>
>
> On Monday, September 23, 2013, Matthew Knepley wrote:
>
>> On Mon, Sep 23, 2013 at 1:14 PM, John Mousel <john.mousel at gmail.com>wrote:
>>
>>> I just pulled from petsc-dev and I'm now getting the following error.
>>> The result from valgrind is pasted below the error message.
>>> Any help would be appreciated.
>>>
>>
>> Looks like BLAS errors, but valgrind has a problem with StateIncrease().
>> Jed just changed the size of the
>> state counter. Are you sure everything rebuilt correctly?
>>
>>   Matt
>>
>>
>> John
>>
>>
>> [0]PETSC ERROR: PetscMallocValidate: error detected at MatScale_SeqAIJ()
>> line 2464 in src/mat/impls/aij/seq/aij.c
>> [0]PETSC ERROR: [1]PETSC ERROR: [2]PETSC ERROR: Memory [id=0(48)] at
>> address 0x8483450 is corrupted (probably write past end of array)
>> [0]PETSC ERROR: Memory originally allocated in
>> PetscObjectComposedDataIncreaseReal() line 171 in src/sys/objects/state.c
>> PetscMallocValidate: error detected at MatScale_SeqAIJ() line 2464 in
>> src/mat/impls/aij/seq/aij.c
>> PetscMallocValidate: error detected at MatScale_SeqAIJ() line 2464 in
>> src/mat/impls/aij/seq/aij.c
>> [2]PETSC ERROR: [1]PETSC ERROR: [0]PETSC ERROR: ---------------------
>> Error Message ------------------------------------
>> [0]PETSC ERROR: Memory corruption!
>> [0]PETSC ERROR:  !
>> [0]PETSC ERROR:
>> ------------------------------------------------------------------------
>> [0]PETSC ERROR: Petsc Development GIT revision:
>> b4e904d1358c92c43842a940440f995d2117e40b  GIT Date: 2013-09-23 12:36:08
>> +0100
>> [0]PETSC ERROR: See docs/changes/index.html for recent updates.
>> [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>> [0]PETSC ERROR: See docs/index.html for manual pages.
>> [0]PETSC ERROR:
>> ------------------------------------------------------------------------
>> [0]PETSC ERROR: ../src/CYLINDER_EXE on a gnu-debug named
>> wv.iihr.uiowa.edu by jmousel Mon Sep 23 15:07:15 2013
>> [0]PETSC ERROR: Libraries linked from
>> /home/jmousel/NumericalLibraries/petsc/gnu-debug/lib
>> [0]PETSC ERROR: Configure run at Mon Sep 23 15:04:14 2013
>> [0]PETSC ERROR: Configure options --download-cmake=1
>> --download-f-blas-lapack=1 --download-metis=1 --download-mpich=1
>> --download-parmetis=1 --with-cc=gcc --with-cxx=g++ --with-fc=gfortran
>> PETSC_ARCH=gnu-debug
>> [0]PETSC ERROR:
>> ------------------------------------------------------------------------
>> [0]PETSC ERROR: PetscMallocValidate() line 149 in src/sys/memory/mtr.c
>> [0]PETSC ERROR: MatScale_SeqAIJ() line 2464 in src/mat/impls/aij/seq/aij.c
>> [0]PETSC ERROR: MatScale() line 4758 in src/mat/interface/matrix.c
>> [0]PETSC ERROR: MatScale_MPIAIJ() line 1262 in
>> src/mat/impls/aij/mpi/mpiaij.c
>> [0]PETSC ERROR: MatScale() line 4758 in src/mat/interface/matrix.c
>> [0]PETSC ERROR: MatAYPX() line 279 in src/mat/utils/axpy.c
>> [0]PETSC ERROR: PCGAMGOptprol_AGG() line 1331 in
>> src/ksp/pc/impls/gamg/agg.c
>> [0]PETSC ERROR: PCSetUp_GAMG() line 597 in src/ksp/pc/impls/gamg/gamg.c
>> [0]PETSC ERROR: PCSetUp() line 890 in src/ksp/pc/interface/precon.c
>> [0]PETSC ERROR: KSPSetUp() line 278 in src/ksp/ksp/interface/itfunc.c
>> [0]PETSC ERROR: KSPSolve() line 399 in src/ksp/ksp/interface/itfunc.c
>> Memory [id=0(48)] at address 0x8556ca0 is corrupted (probably write past
>> end of array)
>> [1]PETSC ERROR: Memory originally allocated in
>> PetscObjectComposedDataIncreaseReal() line 171 in src/sys/objects/state.c
>> [1]PETSC ERROR: Memory [id=0(48)] at address 0x9308690 is corrupted
>> (probably write past end of array)
>> --------------------- Error Message ------------------------------------
>> [2]PETSC ERROR: Memory originally allocated in
>> PetscObjectComposedDataIncreaseReal() line 171 in src/sys/objects/state.c
>> [1]PETSC ERROR: Memory corruption!
>> [1]PETSC ERROR:  !
>> [1]PETSC ERROR:
>> ------------------------------------------------------------------------
>> [1]PETSC ERROR: Petsc Development GIT revision:
>> b4e904d1358c92c43842a940440f995d2117e40b  GIT Date: 2013-09-23 12:36:08
>> +0100
>> [1]PETSC ERROR: See docs/changes/index.html for recent updates.
>> [1]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>> [1]PETSC ERROR: See docs/index.html for manual pages.
>> [1]PETSC ERROR:
>> ------------------------------------------------------------------------
>> [1]PETSC ERROR: ../src/CYLINDER_EXE on a gnu-debug named
>> wv.iihr.uiowa.edu by jmousel Mon Sep 23 15:07:15 2013
>> [1]PETSC ERROR: Libraries linked from
>> /home/jmousel/NumericalLibraries/petsc/gnu-debug/lib
>> [1]PETSC ERROR: Configure run at Mon Sep 23 15:04:14 2013
>> [1]PETSC ERROR: Configure options --download-cmake=1
>> --download-f-blas-lapack=1 --download-metis=1 --download-mpich=1
>> --download-parmetis=1 --with-cc=gcc --with-cxx=g++ --with-fc=gfortran
>> PETSC_ARCH=gnu-debug
>> [1]PETSC ERROR:
>> ------------------------------------------------------------------------
>> [1]PETSC ERROR: PetscMallocValidate() line 149 in src/sys/memory/mtr.c
>> [2]PETSC ERROR: --------------------- Error Message
>> ------------------------------------
>> [2]PETSC ERROR: Memory corruption!
>> [2]PETSC ERROR:  !
>> [2]PETSC ERROR:
>> ------------------------------------------------------------------------
>> [2]PETSC ERROR: Petsc Development GIT revision: b4e904d1
>>
>>
>>
>>
>> --
>> 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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