# [petsc-users] Problem with fortran version of ex29 in ksp

TAY wee-beng zonexo at gmail.com
Tue May 1 16:48:19 CDT 2012

```Hi,

Do you mean my method is wrong?

I am following the template of ex22f,

where the variables are declared as :

PetscScalar  v(5)

MatStencil   row(4),col(4,5)

Hence,

for the neumann BC

num = 1

if (j/=0) then

v(num) = -rho*HxdHy

col(MatStencil_i,num) = i

col(MatStencil_j,num) = j-1

num = num + 1

end if

if (i/=0) then

v(num) = -rho*HydHx

col(MatStencil_i,num) = i-1

col(MatStencil_j,num) = j

num = num + 1

end if

if (i/=mx-1) then

v(num) = -rho*HydHx

col(MatStencil_i,num) = i+1

col(MatStencil_j,num) = j

num = num + 1

end if

if (j/=my-1) then

v(num) = -rho*HxdHy

col(MatStencil_i,num) = i

col(MatStencil_j,num) = j+1

num = num + 1

end if

v(num) = ((num-1)/2.0)*rho*(HxdHy + HydHx)

print *, v

col(MatStencil_i,num) = i

col(MatStencil_j,num) = j

!num = num + 1

call
MatSetValuesStencil(jac,i1,row,num,col,v,INSERT_VALUES,ierr)

I do not get any more out of range error. However,my ans is still
different from that of ex29 in C.

Yours sincerely,

TAY wee-beng

On 27/4/2012 1:22 AM, Barry Smith wrote:
>     From the manual page for MatSetValuesStencil():
>
>     MatSetValuesStencil() uses 0-based row and column numbers in Fortran
>     as well as in C.
>
>
> On Apr 26, 2012, at 5:21 PM, TAY wee-beng wrote:
>
>> Hi,
>>
>> I managed to remove the out of range error by removing
>>
>>     num = num + 1 from
>>
>> col(MatStencil_i,num) = i
>>
>>                  col(MatStencil_j,num) = j+1
>>
>>                  num = num + 1
>>
>>                  call MatSetValuesStencil(jac,i1,row,num,col,v,INSERT_VALUES,ierr)
>>
>> In C, num will give the number 5 since num start from 0.
>>
>> In fortran, num starts from 1 so num = num + 1 before MatSetValuesStencil must be removed.
>>
>> I still can't get the same ans. I will try to figure it out. Just to confirm, this subroutine:
>>
>> call MatNullSpaceRemove(nullspace,b,PETSC_NULL,ierr)
>>
>> is not added in fortran, although it is used in C.
>> Yours sincerely,
>>
>> TAY wee-beng
>>
>>
>> On 26/4/2012 9:29 PM, Matthew Knepley wrote:
>>> On Thu, Apr 26, 2012 at 3:26 PM, TAY wee-beng<zonexo at gmail.com>  wrote:
>>> Hi,
>>>
>>> Thanks for pointing out my mistake. I'm still learning about the code. I corrected but I still get the error:
>>>
>>> I am sure its another simple bug. Go in with the debugger. When it says you are inserting a new nonzero,
>>> back up the stack to your routine and see what indices you are tying to insert. If its not part of the stencil,
>>> you have found the bug.
>>>
>>>    Matt
>>>
>>> [0]PETSC ERROR: --------------------- Error Message ----------------------------
>>> --------
>>> [0]PETSC ERROR: Argument out of range!
>>> [0]PETSC ERROR: New nonzero at (2,4) caused a malloc!
>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>
>>> boundary condition region:
>>>
>>> num = 1
>>>
>>>                  if (j/=0) then
>>>
>>>                      v(num) = -rho*HxdHy
>>>
>>>                      col(MatStencil_i,num) = i
>>>
>>>                      col(MatStencil_j,num) = j-1
>>>
>>>                      num = num + 1
>>>
>>>                  end if
>>>
>>>                  if (i/=0) then
>>>
>>>                      v(num) = -rho*HydHx
>>>
>>>                      col(MatStencil_i,num) = i-1
>>>
>>>                      col(MatStencil_j,num) = j
>>>
>>>                      num = num + 1
>>>
>>>                  end if
>>>
>>>                  if (i/=mx-1) then
>>>
>>>                      v(num) = -rho*HydHx
>>>
>>>                      col(MatStencil_i,num) = i+1
>>>
>>>                      col(MatStencil_j,num) = j
>>>
>>>                      num = num + 1
>>>
>>>                  end if
>>>
>>>                  if (j/=my-1) then
>>>
>>>                      v(num) = -rho*HxdHy
>>>
>>>                      col(MatStencil_i,num) = i
>>>
>>>                      col(MatStencil_j,num) = j+1
>>>
>>>                      num = num + 1
>>>
>>>                  end if
>>>
>>>                  v(num) = (num/2.0)*rho*(HxdHy + HydHx)
>>>
>>>                  col(MatStencil_i,num) = i
>>>
>>>                  col(MatStencil_j,num) = j+1
>>>
>>>                  num = num + 1
>>>
>>>                  call MatSetValuesStencil(jac,i1,row,num,col,v,INSERT_VALUES,ierr)
>>> Yours sincerely,
>>>
>>> TAY wee-beng
>>>
>>>
>>> On 26/4/2012 2:45 PM, Matthew Knepley wrote:
>>>> On Thu, Apr 26, 2012 at 8:27 AM, TAY wee-beng<zonexo at gmail.com>  wrote:
>>>> Hi,
>>>>
>>>> Is there an answer to the question below?
>>>>   I still can't get it working.
>>>>
>>>> Thanks.
>>>>
>>>>
>>>> Hi,
>>>>
>>>> There's no error now but I didn't get the same ans as ex29. I believe the error lies in the boundary evaluation of v.
>>>>
>>>> In c, the code is :
>>>>
>>>> else if (user->bcType == NEUMANN) {
>>>>            num = 0;
>>>>            if (j!=0) {
>>>>              v[num] = -rho*HxdHy;              col[num].i = i;   col[num].j = j-1;
>>>>                                                                    ^^^ See this?
>>>>              num++;
>>>>            }
>>>>            if (i!=0) {
>>>>              v[num] = -rho*HydHx;              col[num].i = i-1; col[num].j = j;
>>>>              num++;
>>>>            }
>>>>            if (i!=mx-1) {
>>>>              v[num] = -rho*HydHx;              col[num].i = i+1; col[num].j = j;
>>>>              num++;
>>>>            }
>>>>            if (j!=my-1) {
>>>>              v[num] = -rho*HxdHy;              col[num].i = i;   col[num].j = j+1;
>>>>              num++;
>>>>            }
>>>>            v[num]   = (num/2.0)*rho*(HxdHy + HydHx); col[num].i = i;   col[num].j = j;
>>>>            num++;
>>>>            ierr = MatSetValuesStencil(jac,1,&row,num,col,v,INSERT_VALUES);CHKERRQ(ierr);
>>>>
>>>> In fortran, I have changed to :
>>>>
>>>> else if (bc_cond == 2) then
>>>>
>>>>                  num = 1
>>>>
>>>>                  if (j/=0) then
>>>>
>>>>                      v(num) = -rho*HxdHy
>>>>
>>>>                      col(MatStencil_i,1) = i
>>>>                                                 ^^ Why is this 1 in stead of 'num'?
>>>>
>>>>     Matt
>>>>
>>>>
>>>>                      col(MatStencil_j,2) = j-1
>>>>
>>>>                      num = num + 1
>>>>
>>>>                  end if
>>>>
>>>>                  if (i/=0) then
>>>>
>>>>                      v(num) = -rho*HydHx
>>>>
>>>>                      col(MatStencil_i,1) = i-1
>>>>
>>>>                      col(MatStencil_j,2) = j
>>>>
>>>>                      num = num + 1
>>>>
>>>>                  end if
>>>>
>>>>                  if (i/=mx-1) then
>>>>
>>>>                      v(num) = -rho*HydHx
>>>>
>>>>                      col(MatStencil_i,1) = i+1
>>>>
>>>>                      col(MatStencil_j,2) = j
>>>>
>>>>                      num = num + 1
>>>>
>>>>                  end if
>>>>
>>>>                  if (j/=my-1) then
>>>>
>>>>                      v(num) = -rho*HxdHy
>>>>
>>>>                      col(MatStencil_i,1) = i
>>>>
>>>>                      col(MatStencil_j,2) = j+1
>>>>
>>>>                      num = num + 1
>>>>
>>>>                  end if
>>>>
>>>>                  v(num) = (num/2.0)*rho*(HxdHy + HydHx)
>>>>
>>>>                  col(MatStencil_i,1) = i
>>>>
>>>>                  col(MatStencil_j,2) = j+1
>>>>
>>>>                  num = num + 1
>>>>
>>>>                  call MatSetValuesStencil(jac,i1,row,num,col,v,INSERT_VALUES,ierr)
>>>>
>>>> However, I got the error:
>>>>
>>>> [0]PETSC ERROR: --------------------- Error Message ---------------------------
>>>> --------
>>>> [0]PETSC ERROR: Argument out of range!
>>>> [0]PETSC ERROR: New nonzero at (1,3) caused a malloc!
>>>> [0]PETSC ERROR: ---------------------------------------------------------------
>>>>
>>>> How such is be defined in Fortran?
>>>>
>>>> Thank you
>>>> Yours sincerely,
>>>>
>>>> TAY wee-beng
>>>>
>>>>
>>>> On 25/4/2012 12:06 AM, Matthew Knepley wrote:
>>>>> On Tue, Apr 24, 2012 at 4:57 PM, TAY wee-beng<zonexo at gmail.com>  wrote:
>>>>> Hi,
>>>>>
>>>>> I still got the same error the moment this subroutine is called, after changing to :
>>>>>
>>>>> call MatNullSpaceCreate(PETSC_COMM_WORLD,PETSC_TRUE,PETSC_NULL_INTEGER,PETSC_NULL_OBJECT,nullspace,ierr)
>>>>>
>>>>> Argument 3 should be 0.
>>>>>
>>>>>    Matt
>>>>>
>>>>> [0]PETSC ERROR: Null argument, when expecting valid pointer!
>>>>> [0]PETSC ERROR: Null Object: Parameter # 4!
>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>> --------
>>>>> [0]PETSC ERROR: Petsc Development HG revision: fc934c1d84bc6ba8e2686702a8a99539d
>>>>> 50af122  HG Date: Mon Apr 23 11:39:32 2012 -0500
>>>>> [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: c:\obj_tmp\ex29f\Debug\ex29f.exe on a petsc-3.2 named USER-PC by
>>>>>   User Tue Apr 24 22:54:50 2012
>>>>> [0]PETSC ERROR: Libraries linked from /cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008
>>>>> /lib
>>>>> [0]PETSC ERROR: Configure run at Mon Apr 23 21:45:20 2012
>>>>> [0]PETSC ERROR: Configure options --with-cc="win32fe cl" --with-fc="win32fe ifor
>>>>> las-lapack=1 --prefix=/cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008 --with-debuggin
>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>> --------
>>>>> [0]PETSC ERROR: MatNullSpaceCreate() line 250 in src/mat/interface/C:\temp\PETSC
>>>>> -~1\src\mat\INTERF~1\matnull.c
>>>>> Yours sincerely,
>>>>>
>>>>> TAY wee-beng
>>>>>
>>>>>
>>>>> On 24/4/2012 10:37 PM, Matthew Knepley wrote:
>>>>>> On Tue, Apr 24, 2012 at 4:32 PM, TAY wee-beng<zonexo at gmail.com>  wrote:
>>>>>> Hi,
>>>>>>
>>>>>> I'm trying to rewrite ex29 (KSP^Laplacian, 2d) from c to fortran version. The fortran version is based on the template of ex22f, which is in 3d.
>>>>>>
>>>>>> I have attached the code below. I have 2 problems.
>>>>>>
>>>>>> 1. When i3 = -3, in dirichlet BC, I got the same answer as ex29 in c version.
>>>>>>
>>>>>> However, when I change i3 to -4, I got the following error:
>>>>>>
>>>>>> [0]PETSC ERROR: --------------------- Error Message ----------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Argument out of range!
>>>>>> [0]PETSC ERROR: New nonzero at (9,1) caused a malloc!
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Petsc Development HG revision: fc934c1d84bc6ba8e2686702a8a99539d
>>>>>> 50af122  HG Date: Mon Apr 23 11:39:32 2012 -0500
>>>>>> [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: c:\obj_tmp\ex29f\Debug\ex29f.exe on a petsc-3.2 named USER-PC by
>>>>>>   User Tue Apr 24 22:08:46 2012
>>>>>> [0]PETSC ERROR: Libraries linked from /cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008
>>>>>> /lib
>>>>>> [0]PETSC ERROR: Configure run at Mon Apr 23 21:45:20 2012
>>>>>> [0]PETSC ERROR: Configure options --with-cc="win32fe cl" --with-fc="win32fe ifor
>>>>>> las-lapack=1 --prefix=/cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008 --with-debuggin
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: MatSetValues_SeqAIJ() line 331 in src/mat/impls/aij/seq/C:\temp\
>>>>>> PETSC-~1\src\mat\impls\aij\seq\aij.c
>>>>>> [0]PETSC ERROR: MatSetValues() line 1148 in src/mat/interface/C:\temp\PETSC-~1\s
>>>>>> rc\mat\INTERF~1\matrix.c
>>>>>> [0]PETSC ERROR: MatSetValuesLocal() line 2003 in src/mat/interface/C:\temp\PETSC
>>>>>> -~1\src\mat\INTERF~1\matrix.c
>>>>>> [0]PETSC ERROR: MatSetValuesStencil() line 1379 in src/mat/interface/C:\temp\PET
>>>>>> SC-~1\src\mat\INTERF~1\matrix.c
>>>>>> [0]PETSC ERROR: --------------------- Error Message ----------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Argument out of range!
>>>>>> [0]PETSC ERROR: New nonzero at (10,2) caused a malloc!
>>>>>>
>>>>>> ...
>>>>>>
>>>>>> What did I do wrong?
>>>>>>
>>>>>>
>>>>>> 2. When I wanted to use the neumann BC, following ex29, I added :
>>>>>>
>>>>>> In subroutine ComputeRHS
>>>>>>
>>>>>> call MatNullSpaceCreate(PETSC_COMM_WORLD,PETSC_TRUE,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,nullspace,ierr)
>>>>>>
>>>>>> call MatNullSpaceRemove(nullspace,b,PETSC_NULL,ierr)
>>>>>>
>>>>>> call MatNullSpaceDestroy(nullspace,ierr)
>>>>>>
>>>>>> and in subroutine ComputeMatrix
>>>>>>
>>>>>> call MatNullSpaceCreate(PETSC_COMM_WORLD,PETSC_TRUE,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,nullspace,ierr)
>>>>>>
>>>>>> call MatSetNullSpace(jac,nullspace,ierr)
>>>>>>
>>>>>> call MatNullSpaceDestroy(nullspace,ierr)
>>>>>>
>>>>>> When I compile, it says unresolved external symbol MatNullSpaceRemove. Removing MatNullSpaceRemove, I can compile but running gives the error:
>>>>>>
>>>>>> [0]PETSC ERROR: --------------------- Error Message ----------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Corrupt argument:
>>>>>> seehttp://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind!
>>>>>> [0]PETSC ERROR: Invalid Pointer to Object: Parameter # 4!
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Petsc Development HG revision: fc934c1d84bc6ba8e2686702a8a99539d
>>>>>> 50af122  HG Date: Mon Apr 23 11:39:32 2012 -0500
>>>>>> [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: c:\obj_tmp\ex29f\Debug\ex29f.exe on a petsc-3.2 named USER-PC by
>>>>>>   User Tue Apr 24 22:30:31 2012
>>>>>> [0]PETSC ERROR: Libraries linked from /cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008
>>>>>> /lib
>>>>>> [0]PETSC ERROR: Configure run at Mon Apr 23 21:45:20 2012
>>>>>> [0]PETSC ERROR: Configure options --with-cc="win32fe cl" --with-fc="win32fe ifor
>>>>>> las-lapack=1 --prefix=/cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008 --with-debuggin
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: MatNullSpaceCreate() line 250 in src/mat/interface/C:\temp\PETSC
>>>>>> -~1\src\mat\INTERF~1\matnull.c
>>>>>> [0]PETSC ERROR: --------------------- Error Message ----------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Invalid argument!
>>>>>> [0]PETSC ERROR: Wrong type of object: Parameter # 1!
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Petsc Development HG revision: fc934c1d84bc6ba8e2686702a8a99539d
>>>>>> 50af122  HG Date: Mon Apr 23 11:39:32 2012 -0500
>>>>>> [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: c:\obj_tmp\ex29f\Debug\ex29f.exe on a petsc-3.2 named USER-PC by
>>>>>>   User Tue Apr 24 22:30:31 2012
>>>>>> [0]PETSC ERROR: Libraries linked from /cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008
>>>>>> /lib
>>>>>> [0]PETSC ERROR: Configure run at Mon Apr 23 21:45:20 2012
>>>>>> [0]PETSC ERROR: Configure options --with-cc="win32fe cl" --with-fc="win32fe ifor
>>>>>> las-lapack=1 --prefix=/cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008 --with-debuggin
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: MatNullSpaceDestroy() line 305 in src/mat/interface/C:\temp\PETS
>>>>>> C-~1\src\mat\INTERF~1\matnull.c
>>>>>> [0]PETSC ERROR: ourdmfunction() line 30 in src/dm/interface/ftn-custom/C:\temp\P
>>>>>> ETSC-~1\src\dm\INTERF~1\FTN-CU~1\zdmf.c
>>>>>> [0]PETSC ERROR: DMComputeFunction() line 1783 in src/dm/interface/C:\temp\PETSC-
>>>>>> ~1\src\dm\INTERF~1\dm.c
>>>>>> [0]PETSC ERROR: KSPSetUp() line 218 in src/ksp/ksp/interface/C:\temp\PETSC-~1\sr
>>>>>> c\ksp\ksp\INTERF~1\itfunc.c
>>>>>> [0]PETSC ERROR: --------------------- Error Message ----------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Corrupt argument:
>>>>>> seehttp://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind!
>>>>>> [0]PETSC ERROR: Invalid Pointer to Object: Parameter # 4!
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Petsc Development HG revision: fc934c1d84bc6ba8e2686702a8a99539d
>>>>>> 50af122  HG Date: Mon Apr 23 11:39:32 2012 -0500
>>>>>> [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: c:\obj_tmp\ex29f\Debug\ex29f.exe on a petsc-3.2 named USER-PC by
>>>>>>   User Tue Apr 24 22:30:31 2012
>>>>>> [0]PETSC ERROR: Libraries linked from /cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008
>>>>>> /lib
>>>>>> [0]PETSC ERROR: Configure run at Mon Apr 23 21:45:20 2012
>>>>>> [0]PETSC ERROR: Configure options --with-cc="win32fe cl" --with-fc="win32fe ifor
>>>>>> las-lapack=1 --prefix=/cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008 --with-debuggin
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: MatNullSpaceCreate() line 250 in src/mat/interface/C:\temp\PETSC
>>>>>> -~1\src\mat\INTERF~1\matnull.c
>>>>>> [0]PETSC ERROR: --------------------- Error Message ----------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Invalid argument!
>>>>>> [0]PETSC ERROR: Wrong type of object: Parameter # 1!
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: Petsc Development HG revision: fc934c1d84bc6ba8e2686702a8a99539d
>>>>>> 50af122  HG Date: Mon Apr 23 11:39:32 2012 -0500
>>>>>> [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: c:\obj_tmp\ex29f\Debug\ex29f.exe on a petsc-3.2 named USER-PC by
>>>>>>   User Tue Apr 24 22:30:31 2012
>>>>>> [0]PETSC ERROR: Libraries linked from /cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008
>>>>>> /lib
>>>>>> [0]PETSC ERROR: Configure run at Mon Apr 23 21:45:20 2012
>>>>>> [0]PETSC ERROR: Configure options --with-cc="win32fe cl" --with-fc="win32fe ifor
>>>>>> las-lapack=1 --prefix=/cygdrive/d/Lib/petsc-3.2-dev_win32_vs2008 --with-debuggin
>>>>>> [0]PETSC ERROR: ----------------------------------------------------------------
>>>>>> --------
>>>>>> [0]PETSC ERROR: MatNullSpaceDestroy() line 305 in src/mat/interface/C:\temp\PETS
>>>>>> C-~1\src\mat\INTERF~1\matnull.c
>>>>>> [0]PETSC ERROR: ourdmfunction() line 30 in src/dm/interface/ftn-custom/C:\temp\P
>>>>>> ETSC-~1\src\dm\INTERF~1\FTN-CU~1\zdmf.c
>>>>>> [0]PETSC ERROR: DMComputeFunction() line 1783 in src/dm/interface/C:\temp\PETSC-
>>>>>> ~1\src\dm\INTERF~1\dm.c
>>>>>> [0]PETSC ERROR: KSPSetUp() line 218 in src/ksp/ksp/interface/C:\temp\PETSC-~1\sr
>>>>>> c\ksp\ksp\INTERF~1\itfunc.c
>>>>>> [0]PETSC ERROR: KSPSolve() line 402 in src/ksp/ksp/interface/C:\temp\PETSC-~1\sr
>>>>>> c\ksp\ksp\INTERF~1\itfunc.c
>>>>>> Vector Object:Vec_0000000084000000_0 1 MPI processes
>>>>>>    type: mpi
>>>>>> Process [0]
>>>>>>
>>>>>> What's wrong?
>>>>>>
>>>>>>
>>>>>> program ex29f
>>>>>>
>>>>>> implicit none
>>>>>>
>>>>>> ! - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
>>>>>> !                    Include files
>>>>>> ! - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
>>>>>> !
>>>>>> !     petscsys.h  - base PETSc routines      petscvec.h - vectors
>>>>>> !     petscmat.h - matrices
>>>>>> !     petscksp.h    - Krylov subspace methods  petscpc.h  - preconditioners
>>>>>>
>>>>>> #include "finclude/petsc.h90"
>>>>>>
>>>>>> PetscErrorCode   ierr
>>>>>>
>>>>>> DM               da
>>>>>>
>>>>>> KSP              ksp
>>>>>>
>>>>>> Vec              x
>>>>>>
>>>>>> external         ComputeRHS,ComputeMatrix
>>>>>>
>>>>>> PetscInt i1,i3
>>>>>>
>>>>>> call  PetscInitialize(PETSC_NULL_CHARACTER,ierr)
>>>>>>
>>>>>> i3 = -4
>>>>>>
>>>>>> i1 = 1
>>>>>>
>>>>>> call KSPCreate(MPI_COMM_WORLD,ksp,ierr)
>>>>>>
>>>>>> call DMDACreate2d(PETSC_COMM_WORLD,DMDA_BOUNDARY_NONE,DMDA_BOUNDARY_NONE,DMDA_STENCIL_STAR,i3,i3,PETSC_DECIDE,PETSC_DECIDE,i1,i1,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,da,ierr)
>>>>>> call DMSetFunction(da,ComputeRHS,ierr)
>>>>>> call DMSetJacobian(da,ComputeMatrix,ierr)
>>>>>> call KSPSetDM(ksp,da,ierr)
>>>>>>
>>>>>> call KSPSetFromOptions(ksp,ierr)
>>>>>> call KSPSetUp(ksp,ierr)
>>>>>> call KSPSolve(ksp,PETSC_NULL_OBJECT,PETSC_NULL_OBJECT,ierr)
>>>>>> call KSPGetSolution(ksp,x,ierr)
>>>>>> call VecView(x,PETSC_VIEWER_STDOUT_WORLD,ierr)
>>>>>> call KSPDestroy(ksp,ierr)
>>>>>> call DMDestroy(da,ierr)
>>>>>> call PetscFinalize(ierr)
>>>>>>
>>>>>> end program ex29f
>>>>>>
>>>>>> subroutine ComputeRHS(da,x,b,ierr)
>>>>>>
>>>>>> implicit none
>>>>>>
>>>>>> #include "finclude/petsc.h90"
>>>>>>
>>>>>> PetscErrorCode  ierr
>>>>>> PetscInt i,j,mx,my,xm,ym,xs,ys
>>>>>> PetscScalar  h,nu,rho
>>>>>> PetscScalar Hx,Hy
>>>>>> PetscScalar,pointer :: array(:,:)
>>>>>> Vec          x,b
>>>>>> DM           da
>>>>>> MatNullSpace nullspace    !>neumann BC
>>>>>>
>>>>>> nu = 0.1
>>>>>>
>>>>>> call DMDAGetInfo(da,PETSC_NULL_INTEGER,mx,my,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,ierr)
>>>>>>
>>>>>> Hx = 1.d0 / (mx-1)
>>>>>>
>>>>>> Hy = 1.d0 / (my-1)
>>>>>>
>>>>>> call DMDAGetCorners(da,xs,ys,PETSC_NULL_INTEGER,xm,ym,PETSC_NULL_INTEGER,ierr)
>>>>>>
>>>>>> call DMDAVecGetArrayF90(da,b,array,ierr)
>>>>>>
>>>>>> do j = ys,ys+ym-1
>>>>>>
>>>>>>      do i = xs,xs+xm-1
>>>>>>
>>>>>>          array(i,j) = exp(-(i*Hx)*(i*Hx)/nu)*exp(-(j*Hy)*(j*Hy)/nu)*Hx*Hy
>>>>>>
>>>>>>      end do
>>>>>>
>>>>>> end do
>>>>>>
>>>>>> call DMDAVecRestoreArrayF90(da,b,array,ierr)
>>>>>>
>>>>>> call VecAssemblyBegin(b,ierr)
>>>>>>
>>>>>> call VecAssemblyEnd(b,ierr)
>>>>>>
>>>>>> !call MatNullSpaceCreate(PETSC_COMM_WORLD,PETSC_TRUE,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,nullspace,ierr)
>>>>>>
>>>>>> 4th argument should be PETSC_NULL_OBJECT.
>>>>>>
>>>>>>     Matt
>>>>>>
>>>>>> !call MatNullSpaceRemove(nullspace,b,PETSC_NULL,ierr)
>>>>>>
>>>>>> !call MatNullSpaceDestroy(nullspace,ierr)
>>>>>>
>>>>>> end subroutine ComputeRHS
>>>>>>
>>>>>>
>>>>>> subroutine ComputeMatrix(da,x,JJ,jac,str,ierr)
>>>>>>
>>>>>> implicit none
>>>>>>
>>>>>> #include "finclude/petsc.h90"
>>>>>>
>>>>>> Mat          jac,JJ
>>>>>>
>>>>>> PetscErrorCode    ierr
>>>>>>
>>>>>> DM           da
>>>>>>
>>>>>> PetscInt    i,j,k,mx,my,xm
>>>>>>
>>>>>> PetscInt    ym,xs,ys,i1,i5
>>>>>>
>>>>>> PetscScalar  v(5),Hx,Hy,rho,centerRho
>>>>>>
>>>>>> PetscScalar  HydHx
>>>>>>
>>>>>> PetscScalar  HxdHy
>>>>>>
>>>>>> MatStencil   row(4),col(4,5)
>>>>>>
>>>>>> Vec          x
>>>>>>
>>>>>> MatStructure str
>>>>>>
>>>>>> MatNullSpace nullspace    !>neumann BC
>>>>>>
>>>>>> rho = 1.0
>>>>>>
>>>>>> i1 = 1
>>>>>>
>>>>>> i5 = 5
>>>>>>
>>>>>> centerRho = rho
>>>>>>
>>>>>> call DMDAGetInfo(da,PETSC_NULL_INTEGER,mx,my,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,ierr)
>>>>>>
>>>>>> Hx = 1.d0 / (mx-1)
>>>>>>
>>>>>> Hy = 1.d0 / (my-1)
>>>>>>
>>>>>> HxdHy = Hx/Hy
>>>>>>
>>>>>> HydHx = Hy/Hx
>>>>>>
>>>>>> call DMDAGetCorners(da,xs,ys,PETSC_NULL_INTEGER,xm,ym,PETSC_NULL_INTEGER,ierr)
>>>>>>
>>>>>> do j=ys,ys+ym-1
>>>>>>
>>>>>>      do i=xs,xs+xm-1
>>>>>>
>>>>>>          row(MatStencil_i) = i
>>>>>>
>>>>>>          row(MatStencil_j) = j
>>>>>>
>>>>>>          call ComputeRho(i,j,mx,my,centerRho,rho)
>>>>>>
>>>>>>          if (i.eq.0 .or. j.eq.0 .or. i.eq.mx-1 .or. j.eq.my-1) then
>>>>>>
>>>>>>              v(1) = 2.0*rho*(HxdHy + HydHx)
>>>>>>
>>>>>>              call MatSetValuesStencil(jac,i1,row,i1,row,v,INSERT_VALUES,ierr)
>>>>>>
>>>>>>          else
>>>>>>
>>>>>>              v(1) = -rho*HxdHy
>>>>>>
>>>>>>              col(MatStencil_i,1) = i
>>>>>>
>>>>>>              col(MatStencil_j,2) = j-1
>>>>>>
>>>>>> Cut and paste error above.
>>>>>>
>>>>>>    Matt
>>>>>>
>>>>>>              v(2) = -rho*HydHx
>>>>>>
>>>>>>              col(MatStencil_i,2) = i-1
>>>>>>
>>>>>>              col(MatStencil_j,2) = j
>>>>>>
>>>>>>              v(3) = 2.0*rho*(HxdHy + HydHx)
>>>>>>
>>>>>>              col(MatStencil_i,3) = i
>>>>>>
>>>>>>              col(MatStencil_j,3) = j
>>>>>>
>>>>>>              v(4) = -rho*HydHx
>>>>>>
>>>>>>              col(MatStencil_i,4) = i+1
>>>>>>
>>>>>>              col(MatStencil_j,4) = j
>>>>>>
>>>>>>              v(5) = -rho*HxdHy
>>>>>>
>>>>>>              col(MatStencil_i,5) = i
>>>>>>
>>>>>>              col(MatStencil_j,5) = j+1
>>>>>>
>>>>>>              call MatSetValuesStencil(jac,i1,row,i5,col,v,INSERT_VALUES,ierr)
>>>>>>
>>>>>>          end if
>>>>>>
>>>>>>      end do
>>>>>>
>>>>>> end do
>>>>>>
>>>>>> call MatAssemblyBegin(jac,MAT_FINAL_ASSEMBLY,ierr)
>>>>>>
>>>>>> call MatAssemblyEnd(jac,MAT_FINAL_ASSEMBLY,ierr)
>>>>>>
>>>>>> !call MatNullSpaceCreate(PETSC_COMM_WORLD,PETSC_TRUE,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,nullspace,ierr)
>>>>>>
>>>>>> !call MatSetNullSpace(jac,nullspace,ierr)
>>>>>>
>>>>>> !call MatNullSpaceDestroy(nullspace,ierr)
>>>>>>
>>>>>> end subroutine ComputeMatrix
>>>>>>
>>>>>> subroutine ComputeRho(i,j,mx,my,centerRho,rho)
>>>>>>
>>>>>> PetscInt    i,j,mx,my
>>>>>>
>>>>>> PetscScalar  rho,centerRho
>>>>>>
>>>>>> if ((i>  mx/3.0) .and. (i<  2.0*mx/3.0) .and. (j>  my/3.0) .and. (j<  2.0*my/3.0)) then
>>>>>>
>>>>>>      rho = centerRho
>>>>>>
>>>>>> else
>>>>>>
>>>>>>      rho = 1.0
>>>>>>
>>>>>> end if
>>>>>>
>>>>>>
>>>>>> end subroutine ComputeRho
>>>>>> --
>>>>>> Yours sincerely,
>>>>>>
>>>>>> TAY wee-beng
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> 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
>>>>
>>>> --
>>>> 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
```