[petsc-users] dmplex with block size error

[Rongliang Chen]

Hi Matt,

Thanks for your help. I will fix this first.

Best,
Rongliang

On 08/18/2016 06:08 PM, Matthew Knepley wrote:
> On Thu, Aug 18, 2016 at 5:05 AM, Rongliang Chen 
> <rongliang.chan at gmail.com <mailto:rongliang.chan at gmail.com>> wrote:
>
>     Hi Matt,
>
>     The log of the valgrind is attached. When I run with valgrind, the
>     following error message comes up.
>
>
> The valgrind log says your code is writing over memory. Fix that first.
>
>    Matt
>
>     -------------------------
>     [1]PETSC ERROR: --------------------- Error Message
>     --------------------------------------------------------------
>     [1]PETSC ERROR: Arguments are incompatible
>     [1]PETSC ERROR: Cannot change block size 3670016 to 7
>     [1]PETSC ERROR: See
>     http://www.mcs.anl.gov/petsc/documentation/faq.html
>     <http://www.mcs.anl.gov/petsc/documentation/faq.html> for trouble
>     shooting.
>     [1]PETSC ERROR: Petsc Release Version 3.6.3, Dec, 03, 2015
>     [1]PETSC ERROR: ./fsi on a 64bit-debug named rlchen by rlchen Thu
>     Aug 18 17:59:43 2016
>     [1]PETSC ERROR: Configure options --download-blacs
>     --download-scalapack --download-metis --download-parmetis
>     --download-exodusii --download-netcdf --download-hdf5
>     --with-mpi-dir=/home/rlchen/soft/Program/mpich2-shared
>     --with-debugging=1 --download-fblaslapack --with-64-bit-indices
>     [1]PETSC ERROR: #1 PetscLayoutSetBlockSize() line 424 in
>     /home/rlchen/soft/petsc-3.6.3/src/vec/is/utils/pmap.c
>     [1]PETSC ERROR: #2 MatSetBlockSize() line 6920 in
>     /home/rlchen/soft/petsc-3.6.3/src/mat/interface/matrix.c
>     [1]PETSC ERROR: #3 MatXAIJSetPreallocation() line 282 in
>     /home/rlchen/soft/3D_fluid/FSI/Spmcs-v1.5/Fluid-petsc-3.6/src/application/Fluid/gcreate.c
>     ----------------------
>
>     Best regards,
>     Rongliang
>
>     On 08/18/2016 05:52 PM, Matthew Knepley wrote:
>>     Run with valgrind and send the log.
>>
>>       Thanks,
>>
>>          Matt
>>
>>     On Thu, Aug 18, 2016 at 3:59 AM, Rongliang Chen
>>     <rongliang.chan at gmail.com <mailto:rongliang.chan at gmail.com>> wrote:
>>
>>         Dear All,
>>
>>         I try to use the block matrix (BAIJ) for the dmplex data
>>         structure with the option "-dm_mat_type baij" (the block size
>>         is 7). The code works fine when np = 1 but the following
>>         error comes up when np>1. And the code also works fine for
>>         np>1 if I set the block size to be 1. Any suggestions are
>>         highly appreciated.
>>
>>         ----------------------------------------------------
>>         [1]PETSC ERROR: PetscMallocValidate: error detected at
>>         VecAXPY_Seq() line 89 in
>>         /home/rlchen/soft/petsc-3.6.3/src/vec/vec/impls/seq/bvec1.c
>>         [1]PETSC ERROR: Memory at address 0x1332571 is corrupted
>>         [1]PETSC ERROR: Probably write past beginning or end of array
>>         [1]PETSC ERROR: Last intact block allocated in
>>         PetscStrallocpy() line 188 in
>>         /home/rlchen/soft/petsc-3.6.3/src/sys/utils/str.c
>>         [1]PETSC ERROR: --------------------- Error Message
>>         --------------------------------------------------------------
>>         [1]PETSC ERROR: Memory corruption:
>>         http://www.mcs.anl.gov/petsc/documentation/installation.html#valgrind
>>         <http://www.mcs.anl.gov/petsc/documentation/installation.html#valgrind>
>>         [1]PETSC ERROR:
>>         [1]PETSC ERROR: See
>>         http://www.mcs.anl.gov/petsc/documentation/faq.html
>>         <http://www.mcs.anl.gov/petsc/documentation/faq.html> for
>>         trouble shooting.
>>         [1]PETSC ERROR: Petsc Release Version 3.6.3, Dec, 03, 2015
>>         [1]PETSC ERROR: ./fsi on a 64bit-debug named rlchen by rlchen
>>         Thu Aug 18 16:42:34 2016
>>         [1]PETSC ERROR: Configure options --download-blacs
>>         --download-scalapack --download-metis --download-parmetis
>>         --download-exodusii --download-netcdf --download-hdf5
>>         --with-mpi-dir=/home/rlchen/soft/Program/mpich2-shared
>>         --with-debugging=1 --download-fblaslapack --with-64-bit-indices
>>         [1]PETSC ERROR: #1 PetscMallocValidate() line 136 in
>>         /home/rlchen/soft/petsc-3.6.3/src/sys/memory/mtr.c
>>         [1]PETSC ERROR: #2 VecAXPY_Seq() line 89 in
>>         /home/rlchen/soft/petsc-3.6.3/src/vec/vec/impls/seq/bvec1.c
>>         [1]PETSC ERROR: #3 VecAXPY() line 640 in
>>         /home/rlchen/soft/petsc-3.6.3/src/vec/vec/interface/rvector.c
>>         ---------------------------------------------------
>>
>>         Best regards,
>>         Rongliang
>>
>>
>>
>>
>>     -- 
>>     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
>
>
>
>
> -- 
> 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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