[petsc-users] Re-initializing petsc again
Suraj Prabhakaran
suraj.prabhakaran at gmail.com
Tue Sep 3 22:01:07 CDT 2013
Thanks a lot for the confirmation!!
I am now compiling it with 3.4.2, but I get a strange error and could be great if someone can just point out whats wrong. (Might be something stupid, but just in case...)
Thanks in advance!
Suraj
-------------------------------ERROR-----------------------------
In file included from /opt/petsc-3.4.2/include/petsc.h:8,
from Main/time_integration_dir/compute_tau_w_mean.c:91:
/opt/petsc-3.4.2/include/petscbt.h: In function ‘compute_tau_w_mean’:
/opt/petsc-3.4.2/include/petscbt.h:33: error: invalid storage class for function ‘PetscBTLength’
/opt/petsc-3.4.2/include/petscbt.h:38: error: invalid storage class for function ‘PetscBTMemzero’
/opt/petsc-3.4.2/include/petscbt.h:43: error: invalid storage class for function ‘PetscBTDestroy’
/opt/petsc-3.4.2/include/petscbt.h:48: error: invalid storage class for function ‘PetscBTLookup’
/opt/petsc-3.4.2/include/petscbt.h: In function ‘PetscBTLookup’:
/opt/petsc-3.4.2/include/petscbt.h:47: warning: declaration of ‘index’ shadows a global declaration
/usr/include/string.h:489: warning: shadowed declaration is here
/opt/petsc-3.4.2/include/petscbt.h: In function ‘compute_tau_w_mean’:
/opt/petsc-3.4.2/include/petscbt.h:59: error: invalid storage class for function ‘PetscBTView’
/opt/petsc-3.4.2/include/petscbt.h:74: error: invalid storage class for function ‘PetscBTCreate’
/opt/petsc-3.4.2/include/petscbt.h:79: error: invalid storage class for function ‘PetscBTLookupSet’
/opt/petsc-3.4.2/include/petscbt.h: In function ‘PetscBTLookupSet’:
/opt/petsc-3.4.2/include/petscbt.h:78: warning: declaration of ‘index’ shadows a global declaration
/usr/include/string.h:489: warning: shadowed declaration is here
/opt/petsc-3.4.2/include/petscbt.h: In function ‘compute_tau_w_mean’:
/opt/petsc-3.4.2/include/petscbt.h:91: error: invalid storage class for function ‘PetscBTSet’
/opt/petsc-3.4.2/include/petscbt.h: In function ‘PetscBTSet’:
/opt/petsc-3.4.2/include/petscbt.h:90: warning: declaration of ‘index’ shadows a global declaration
/usr/include/string.h:489: warning: shadowed declaration is here
/opt/petsc-3.4.2/include/petscbt.h: In function ‘compute_tau_w_mean’:
/opt/petsc-3.4.2/include/petscbt.h:103: error: invalid storage class for function ‘PetscBTLookupClear’
/opt/petsc-3.4.2/include/petscbt.h: In function ‘PetscBTLookupClear’:
/opt/petsc-3.4.2/include/petscbt.h:102: warning: declaration of ‘index’ shadows a global declaration
/usr/include/string.h:489: warning: shadowed declaration is here
/opt/petsc-3.4.2/include/petscbt.h: In function ‘compute_tau_w_mean’:
/opt/petsc-3.4.2/include/petscbt.h:115: error: invalid storage class for function ‘PetscBTClear’
/opt/petsc-3.4.2/include/petscbt.h: In function ‘PetscBTClear’:
/opt/petsc-3.4.2/include/petscbt.h:114: warning: declaration of ‘index’ shadows a global declaration
/usr/include/string.h:489: warning: shadowed declaration is here
In file included from /opt/petsc-3.4.2/include/petsc.h:9,
from Main/time_integration_dir/compute_tau_w_mean.c:91:
/opt/petsc-3.4.2/include/petscctable.h: In function ‘compute_tau_w_mean’:
/opt/petsc-3.4.2/include/petscctable.h:20: error: invalid storage class for function ‘PetscHash’
/opt/petsc-3.4.2/include/petscctable.h:40: error: invalid storage class for function ‘PetscTableAdd’
In file included from /opt/petsc-3.4.2/include/petsc.h:9,
from Main/time_integration_dir/compute_tau_w_mean.c:91:
/opt/petsc-3.4.2/include/petscctable.h:83: error: invalid storage class for function ‘PetscTableAddCount’
/opt/petsc-3.4.2/include/petscctable.h:120: error: invalid storage class for function ‘PetscTableFind’
In file included from /opt/petsc-3.4.2/include/petscsnesfas.h:3,
from /opt/petsc-3.4.2/include/petsc.h:27,
from Main/time_integration_dir/compute_tau_w_mean.c:91:
/opt/petsc-3.4.2/include/petscsnes.h:585: error: invalid storage class for function ‘SNESGetSNESLineSearch’
/opt/petsc-3.4.2/include/petscsnes.h:586: error: invalid storage class for function ‘SNESSetSNESLineSearch’
Main/time_integration_dir/compute_tau_w_mean.c:223: warning: implicit declaration of function ‘wall_thermoquants’
Main/time_integration_dir/compute_tau_w_mean.c:155: warning: unused variable ‘iface_plus_one’
Main/time_integration_dir/compute_tau_w_mean.c:330: warning: value computed is not used
Main/time_integration_dir/compute_tau_w_mean.c:116: warning: unused variable ‘ierr’
Main/time_integration_dir/compute_tau_w_mean.c:111: warning: unused variable ‘icell’
Main/time_integration_dir/compute_tau_w_mean.c:105: warning: unused variable ‘mach’
/opt/petsc-3.4.2/include/petscts.h:328: warning: unused variable ‘TSRegisterAllCalled’
/opt/petsc-3.4.2/include/petscts.h:327: warning: unused variable ‘TSList’
/opt/petsc-3.4.2/include/petscts.h:168: warning: unused variable ‘DMTS_CLASSID’
/opt/petsc-3.4.2/include/petscts.h:167: warning: unused variable ‘TS_CLASSID’
/opt/petsc-3.4.2/include/petscts.h:163: warning: unused variable ‘TSExactFinalTimeOptions’
/opt/petsc-3.4.2/include/petscts.h:101: warning: unused variable ‘TSConvergedReasons’
/opt/petsc-3.4.2/include/petscts.h:80: warning: unused variable ‘TSEquationTypes’
/opt/petsc-3.4.2/include/petscsnesfas.h:19: warning: unused variable ‘SNESFASTypes’
/opt/petsc-3.4.2/include/petscsnes.h:679: warning: unused variable ‘SNESQNRestartTypes’
/opt/petsc-3.4.2/include/petscsnes.h:675: warning: unused variable ‘SNESQNScaleTypes’
/opt/petsc-3.4.2/include/petscsnes.h:667: warning: unused variable ‘SNESNCGTypes’
/opt/petsc-3.4.2/include/petscsnes.h:654: warning: unused variable ‘SNESNGMRESSelectTypes’
/opt/petsc-3.4.2/include/petscsnes.h:648: warning: unused variable ‘SNESNGMRESRestartTypes’
/opt/petsc-3.4.2/include/petscsnes.h:474: warning: unused variable ‘SNESLineSearch_Apply’
/opt/petsc-3.4.2/include/petscsnes.h:473: warning: unused variable ‘SNESLineSearchList’
/opt/petsc-3.4.2/include/petscsnes.h:472: warning: unused variable ‘SNESLineSearchRegisterAllCalled’
/opt/petsc-3.4.2/include/petscsnes.h:471: warning: unused variable ‘SNESLINESEARCH_CLASSID’
/opt/petsc-3.4.2/include/petscsnes.h:470: warning: unused variable ‘SNESList’
/opt/petsc-3.4.2/include/petscsnes.h:469: warning: unused variable ‘SNESRegisterAllCalled’
/opt/petsc-3.4.2/include/petscsnes.h:356: warning: unused variable ‘SNESNormTypes’
/opt/petsc-3.4.2/include/petscsnes.h:217: warning: unused variable ‘SNESConvergedReasons’
/opt/petsc-3.4.2/include/petscsnes.h:50: warning: unused variable ‘DMSNES_CLASSID’
/opt/petsc-3.4.2/include/petscsnes.h:49: warning: unused variable ‘SNES_CLASSID’
/opt/petsc-3.4.2/include/petsccharacteristic.h:44: warning: unused variable ‘CharacteristicList’
/opt/petsc-3.4.2/include/petsccharacteristic.h:43: warning: unused variable ‘CharacteristicRegisterAllCalled’
/opt/petsc-3.4.2/include/petscdmda.h:27: warning: unused variable ‘DMDABoundaryTypes’
/opt/petsc-3.4.2/include/petscpf.h:50: warning: unused variable ‘PFRegisterAllCalled’
/opt/petsc-3.4.2/include/petscpf.h:40: warning: unused variable ‘PF_CLASSID’
/opt/petsc-3.4.2/include/petscpf.h:12: warning: unused variable ‘PFList’
/opt/petsc-3.4.2/include/petscdm.h:34: warning: unused variable ‘DMRegisterAllCalled’
/opt/petsc-3.4.2/include/petscdm.h:33: warning: unused variable ‘DMList’
/opt/petsc-3.4.2/include/petscdm.h:11: warning: unused variable ‘DM_CLASSID’
/opt/petsc-3.4.2/include/petscdraw.h:239: warning: unused variable ‘PETSC_DRAWHG_CLASSID’
/opt/petsc-3.4.2/include/petscdraw.h:225: warning: unused variable ‘PETSC_DRAWSP_CLASSID’
/opt/petsc-3.4.2/include/petscdraw.h:206: warning: unused variable ‘PETSC_DRAWLG_CLASSID’
/opt/petsc-3.4.2/include/petscdraw.h:195: warning: unused variable ‘PETSC_DRAWAXIS_CLASSID’
/opt/petsc-3.4.2/include/petscdraw.h:26: warning: unused variable ‘PetscDrawList’
/opt/petsc-3.4.2/include/petscdraw.h:9: warning: unused variable ‘PETSC_DRAW_CLASSID’
/opt/petsc-3.4.2/include/petscmatlab.h:8: warning: unused variable ‘MATLABENGINE_CLASSID’
/opt/petsc-3.4.2/include/petscthreadcomm.h:35: warning: unused variable ‘PetscThreadCommReductionOps’
/opt/petsc-3.4.2/include/petscthreadcomm.h:32: warning: unused variable ‘PetscThreadCommList’
On Sep 3, 2013, at 9:03 PM, Satish Balay wrote:
> Also you would have to call MPI_Init() before the first PetscInitialize() [and
> similarly MPI_Finalize() after the last call to PetscFinalize()]
>
> Satish
>
> On Tue, 3 Sep 2013, Barry Smith wrote:
>
>>
>> There is a problem with the 3.3 series when reinitializing PETSc. Can you switch to PETSc 3.4 which properly supports calling PetscInitialize() several times.
>>
>> Barry
>>
>> On Sep 3, 2013, at 1:58 PM, Suraj Prabhakaran <suraj.prabhakaran at gmail.com> wrote:
>>
>>> Hello,
>>>
>>> Again, this relates to finalizing and initializing petsc in my application. I basically want to finalize petsc and initialize it again with a different MPI communicator. A rough sketch of my quite huge application is as follows.
>>>
>>>
>>> main()
>>> {
>>> PetscInitialize()
>>> ...
>>> ...
>>> AOCreate()..
>>> AO operations..
>>> AODestroy()..
>>> ...
>>> ...
>>> PetscFinalize()
>>> PETSC_COMM_WORLD = A new communicator (which includes more processes)
>>> PetscInitialize()
>>> ...
>>> ...
>>> AOCreate()..
>>> AO operations..
>>> AODestroy()
>>> ...
>>> ...
>>> PetscFinalize()
>>> }
>>>
>>> So after finalizing and initializing it back, I always get an error with one of the AO calls. Given below is the complete error I get when running with 8 procs. Can anyone give me a hint what the problem could be? I was told earlier, that finalizing and initializing petsc should not be a problem!
>>>
>>> Best,
>>> Suraj
>>>
>>> -------------------------ERROR starts here-------------------------------
>>> [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/documentation/faq.html#valgrind[0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [0]PETSC ERROR: likely location of problem given in stack below
>>> [0]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [0]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [0]PETSC ERROR: is given.
>>> [0]PETSC ERROR: [0] PetscStrcmp line 414 /root/petsc/petsc-3.3-p7/src/sys/utils/str.c
>>> [0]PETSC ERROR: [0] PetscFListAdd line 202 /root/petsc/petsc-3.3-p7/src/sys/dll/reg.c
>>> [0]PETSC ERROR: [0] AORegister line 99 /root/petsc/petsc-3.3-p7/src/dm/ao/interface/aoreg.c
>>> [0]PETSC ERROR: [0] AORegisterAll line 28 /root/petsc/petsc-3.3-p7/src/dm/ao/interface/aoregall.c
>>> [0]PETSC ERROR: [0] AOInitializePackage line 49 /root/petsc/petsc-3.3-p7/src/dm/ao/interface/dlregisdm.c
>>> [0]PETSC ERROR: [0] AOCreate line 530 /root/petsc/petsc-3.3-p7/src/dm/ao/interface/ao.c
>>> [0]PETSC ERROR: [0] AOCreateBasicIS line 381 /root/petsc/petsc-3.3-p7/src/dm/ao/impls/basic/aobasic.c
>>> [0]PETSC ERROR: [0] AOCreateBasic line 336 /root/petsc/petsc-3.3-p7/src/dm/ao/impls/basic/aobasic.c
>>> [0]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [0]PETSC ERROR: Signal received!
>>> [0]PETSC ERROR: ------------------------------------------------------------------------
>>> [0]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [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: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [0]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [0]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [0]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [0]PETSC ERROR: ------------------------------------------------------------------------
>>> [0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> --------------------------------------------------------------------------
>>> MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_WORLD
>>> with errorcode 59.
>>>
>>> NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes.
>>> You may or may not see output from other processes, depending on
>>> exactly when Open MPI kills them.
>>> --------------------------------------------------------------------------
>>> [1]PETSC ERROR: ------------------------------------------------------------------------
>>> [1]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>>> [1]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>>> [1]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[1]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [1]PETSC ERROR: likely location of problem given in stack below
>>> [1]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [1]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [1]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [1]PETSC ERROR: is given.
>>> [1]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [1]PETSC ERROR: Signal received!
>>> [1]PETSC ERROR: ------------------------------------------------------------------------
>>> [1]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [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: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [1]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [1]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [1]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [1]PETSC ERROR: ------------------------------------------------------------------------
>>> [1]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> [2]PETSC ERROR: ------------------------------------------------------------------------
>>> [2]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>>> [2]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>>> [2]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[2]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [2]PETSC ERROR: likely location of problem given in stack below
>>> [2]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [2]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [2]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [2]PETSC ERROR: is given.
>>> [2]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [2]PETSC ERROR: Signal received!
>>> [2]PETSC ERROR: ------------------------------------------------------------------------
>>> [2]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [2]PETSC ERROR: See docs/changes/index.html for recent updates.
>>> [2]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>>> [2]PETSC ERROR: See docs/index.html for manual pages.
>>> [2]PETSC ERROR: ------------------------------------------------------------------------
>>> [2]PETSC ERROR: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [2]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [2]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [2]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [2]PETSC ERROR: ------------------------------------------------------------------------
>>> [2]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> [3]PETSC ERROR: ------------------------------------------------------------------------
>>> [3]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>>> [3]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>>> [3]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[3]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [3]PETSC ERROR: likely location of problem given in stack below
>>> [3]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [3]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [3]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [3]PETSC ERROR: is given.
>>> [3]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [3]PETSC ERROR: Signal received!
>>> [3]PETSC ERROR: ------------------------------------------------------------------------
>>> [3]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [3]PETSC ERROR: See docs/changes/index.html for recent updates.
>>> [3]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>>> [3]PETSC ERROR: See docs/index.html for manual pages.
>>> [3]PETSC ERROR: ------------------------------------------------------------------------
>>> [3]PETSC ERROR: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [3]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [3]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [3]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [3]PETSC ERROR: ------------------------------------------------------------------------
>>> [3]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> [4]PETSC ERROR: ------------------------------------------------------------------------
>>> [4]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>>> [4]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>>> [4]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[4]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [4]PETSC ERROR: likely location of problem given in stack below
>>> [4]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [4]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [4]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [4]PETSC ERROR: is given.
>>> [4]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [4]PETSC ERROR: Signal received!
>>> [4]PETSC ERROR: ------------------------------------------------------------------------
>>> [4]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [4]PETSC ERROR: See docs/changes/index.html for recent updates.
>>> [4]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>>> [4]PETSC ERROR: See docs/index.html for manual pages.
>>> [4]PETSC ERROR: ------------------------------------------------------------------------
>>> [4]PETSC ERROR: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [4]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [4]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [4]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [4]PETSC ERROR: ------------------------------------------------------------------------
>>> [4]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> [5]PETSC ERROR: ------------------------------------------------------------------------
>>> [5]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>>> [5]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>>> [5]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[5]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [5]PETSC ERROR: likely location of problem given in stack below
>>> [5]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [5]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [5]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [5]PETSC ERROR: is given.
>>> [5]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [5]PETSC ERROR: Signal received!
>>> [5]PETSC ERROR: ------------------------------------------------------------------------
>>> [5]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [5]PETSC ERROR: See docs/changes/index.html for recent updates.
>>> [5]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>>> [5]PETSC ERROR: See docs/index.html for manual pages.
>>> [5]PETSC ERROR: ------------------------------------------------------------------------
>>> [5]PETSC ERROR: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [5]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [5]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [5]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [5]PETSC ERROR: ------------------------------------------------------------------------
>>> [5]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> [6]PETSC ERROR: ------------------------------------------------------------------------
>>> [6]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>>> [6]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>>> [6]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[6]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [6]PETSC ERROR: likely location of problem given in stack below
>>> [6]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [6]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [6]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [6]PETSC ERROR: is given.
>>> [6]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [6]PETSC ERROR: Signal received!
>>> [6]PETSC ERROR: ------------------------------------------------------------------------
>>> [6]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [6]PETSC ERROR: See docs/changes/index.html for recent updates.
>>> [6]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>>> [6]PETSC ERROR: See docs/index.html for manual pages.
>>> [6]PETSC ERROR: ------------------------------------------------------------------------
>>> [6]PETSC ERROR: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [6]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [6]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [6]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [6]PETSC ERROR: ------------------------------------------------------------------------
>>> [6]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> [7]PETSC ERROR: ------------------------------------------------------------------------
>>> [7]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>>> [7]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>>> [7]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[7]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS X to find memory corruption errors
>>> [7]PETSC ERROR: likely location of problem given in stack below
>>> [7]PETSC ERROR: --------------------- Stack Frames ------------------------------------
>>> [7]PETSC ERROR: Note: The EXACT line numbers in the stack are not available,
>>> [7]PETSC ERROR: INSTEAD the line number of the start of the function
>>> [7]PETSC ERROR: is given.
>>> [7]PETSC ERROR: --------------------- Error Message ------------------------------------
>>> [7]PETSC ERROR: Signal received!
>>> [7]PETSC ERROR: ------------------------------------------------------------------------
>>> [7]PETSC ERROR: Petsc Release Version 3.3.0, Patch 7, Sat May 11 22:15:24 CDT 2013
>>> [7]PETSC ERROR: See docs/changes/index.html for recent updates.
>>> [7]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>>> [7]PETSC ERROR: See docs/index.html for manual pages.
>>> [7]PETSC ERROR: ------------------------------------------------------------------------
>>> [7]PETSC ERROR: ./quadflow on a arch-linu named grsacc17 by grsprabh Tue Sep 3 20:56:21 2013
>>> [7]PETSC ERROR: Libraries linked from /opt/petsc3.3-1/lib
>>> [7]PETSC ERROR: Configure run at Mon Aug 19 13:56:50 2013
>>> [7]PETSC ERROR: Configure options --with-cc=mpicc --with-fc=mpif90 --with-cxx=mpiCC --download-f-blas-lapack --prefix=/opt/petsc3.3-1 --with-debugging
>>> [7]PETSC ERROR: ------------------------------------------------------------------------
>>> [7]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>>> --------------------------------------------------------------------------
>>> mpiexec has exited due to process rank 0 with PID 2670 on
>>> node grsacc17 exiting improperly. There are two reasons this could occur:
>>>
>>> 1. this process did not call "init" before exiting, but others in
>>> the job did. This can cause a job to hang indefinitely while it waits
>>> for all processes to call "init". By rule, if one process calls "init",
>>> then ALL processes must call "init" prior to termination.
>>>
>>> 2. this process called "init", but exited without calling "finalize".
>>> By rule, all processes that call "init" MUST call "finalize" prior to
>>> exiting or it will be considered an "abnormal termination"
>>>
>>> This may have caused other processes in the application to be
>>> terminated by signals sent by mpiexec (as reported here).
>>
>>
>
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