[petsc-users] Re-initializing petsc again
Suraj Prabhakaran
suraj.prabhakaran at gmail.com
Tue Sep 3 22:21:10 CDT 2013
Hi Barry,
Thanks a lot! Here are the files attached.
Suraj
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On Sep 4, 2013, at 5:13 AM, Barry Smith wrote:
>
> Something is going wrong with the PETSC_STATIC_INLINE definition. Please send configure.log and make.log
>
> Barry
>
> On Sep 3, 2013, at 10:01 PM, Suraj Prabhakaran <suraj.prabhakaran at gmail.com> wrote:
>
>> 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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