PaStiX crash

[Barry Smith]

    I think if you compile all the code (including Scotch) with the -g  
option as Satish suggested then it should show exact line numbers in  
the source code where the corruption occurs and you could report it to  
the Scotch developers. As it is without the line numbers it may be  
difficult for the Scotch developers to determine the problem.


    Barry

On Oct 21, 2009, at 10:49 AM, Andreas Grassl wrote:

> Satish Balay schrieb:
>> Perhaps you can try running in valgrind to see here the problem is.
>>
>> You can also try --with-debugging=0 COPTFLAGS='-g -O' - and see if it
>> crashes.  If so - run in a debugger to determine the problem.
>
> here you find the output of valgrind:
>
> http://pastebin.com/m16478dcf
>
> It seems the problem is around the scotch library. Trying to  
> substitute the
> library with the working version from the debugging-branch did not  
> work and I
> found no options to change the ordering algorithm to e.g. (par)metis  
> installed
> for mumps
>
> Any ideas?
>
> Cheers,
>
> ando
>
>>
>> Satish
>>
>> On Tue, 20 Oct 2009, Andreas Grassl wrote:
>>
>>> Hello,
>>>
>>> I wanted to use PaStix and have the problem, that the debugging  
>>> version works
>>> and PETSc compiled with option --with-debugging=0 gives following  
>>> error:
>>>
>>> what could be wrong?
>>>
>>>
>>> + 
>>> --------------------------------------------------------------------+
>>> +              PaStiX : Parallel Sparse matriX  
>>> package               +
>>> + 
>>> --------------------------------------------------------------------+
>>> Matrix size                                  7166 x 7166
>>> Number of nonzeros                           177831
>>> + 
>>> --------------------------------------------------------------------+
>>> +   
>>> Options                                                           +
>>> + 
>>> --------------------------------------------------------------------+
>>>       Version             :                  exported
>>>       SMP_SOPALIN         :                  Defined
>>>       VERSION MPI         :                  Defined
>>>       PASTIX_BUBBLE       :                  Not defined
>>>       STATS_SOPALIN       :                  Not defined
>>>       NAPA_SOPALIN        :                  Defined
>>>       TEST_IRECV          :                  Not defined
>>>       TEST_ISEND          :                  Defined
>>>       THREAD_COMM         :                  Not defined
>>>       THREAD_FUNNELED     :                  Not defined
>>>       TAG                 :                  Exact Thread
>>>       FORCE_CONSO         :                  Not defined
>>>       RECV_FANIN_OR_BLOCK :                  Not defined
>>>       OUT_OF_CORE         :                  Not defined
>>>       DISTRIBUTED         :                  Not defined
>>>       FLUIDBOX            :                  Not defined
>>>       METIS               :                  Not defined
>>>       INTEGER TYPE        :                  int32_t
>>>       FLOAT TYPE          :                  double
>>> + 
>>> --------------------------------------------------------------------+
>>> Check : ordering                OK
>>> Check : Sort CSC                OK
>>> [0]PETSC ERROR:
>>> ------------------------------------------------------------------------
>>> [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation  
>>> Violation, probably
>>> memory access out of range
>>> [0]PETSC ERROR: Try option -start_in_debugger or - 
>>> on_error_attach_debugger
>>> [0]PETSC ERROR: or see
>>> http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal 
>>> [0]PETSC
>>> ERROR: or try http://valgrind.org on linux or man libgmalloc on  
>>> Apple to find
>>> memory corruption errors
>>> [0]PETSC ERROR: configure using --with-debugging=yes, recompile,  
>>> link, and run
>>> [0]PETSC ERROR: to get more information on the crash.
>>> [0]PETSC ERROR: --------------------- Error Message
>>> ------------------------------------
>>> [0]PETSC ERROR: Signal received!
>>> [0]PETSC ERROR:
>>> ------------------------------------------------------------------------
>>> [0]PETSC ERROR: Petsc Release Version 3.0.0, Patch 8, Fri Aug 21  
>>> 14:02:12 CDT 2009
>>> [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: ./standalonesolver on a linux32-i named login.leo1  
>>> by c702174
>>> Tue Oct 20 11:55:24 2009
>>> [0]PETSC ERROR: Libraries linked from
>>> /mnt/x4540/hpc-scratch/c702174/leo1/petsc/petsc-3.0.0-p8/linux32- 
>>> intel-c-leo1/lib
>>> [0]PETSC ERROR: Configure run at Tue Oct 20 00:39:27 2009
>>> [0]PETSC ERROR: Configure options --with-scalar-type=real --with- 
>>> debugging=0
>>> --with-precision=double --with-shared=0 --with-mpi=1
>>> --with-mpi-dir=/usr/site/hpc/x86_64/glibc-2.5/italy/openmpi/1.3.3/ 
>>> intel-11.0
>>> --with-scalapack=1 --download-scalapack=ifneeded
>>> --download-f-blas-lapack=ifneeded --with-blacs=1 --download- 
>>> blacs=ifneeded
>>> --with-parmetis=1 --download-parmetis=ifneeded --with-mumps=1
>>> --download-mumps=ifneeded --with-spooles=1 --download- 
>>> spooles=ifneeded
>>> --with-superlu_dist=1 --download-superlu_dist=ifneeded --with- 
>>> scotch=1
>>> --download-scotch=ifneeded --with-pastix=1 --download- 
>>> pastix=ifneeded
>>> --with-umfpack=1 --download-umfpack=ifneeded PETSC_ARCH=linux32- 
>>> intel-c-leo1
>>> [0]PETSC ERROR:
>>> ------------------------------------------------------------------------
>>> [0]PETSC ERROR: User provided function() line 0 in unknown  
>>> directory unknown file
>>>
>>>
>>> Cheers,
>>>
>>> ando
>>>
>>
>
>
> -- 
> /"\                               Grassl Andreas
> \ /    ASCII Ribbon Campaign      Uni Innsbruck Institut f. Mathematik
>  X      against HTML email        Technikerstr. 13 Zi 709
> / \                               +43 (0)512 507 6091