[petsc-users] Error configuring PETSc with SUNDIALS (to solve stiff PDE)

[namu patel]

I didn't try the --with-mpicc flag, however, the configuration is
successful for PETSc 3.5.4.

On Sun, Nov 29, 2015 at 11:56 AM, Matthew Knepley <knepley at gmail.com> wrote:

> On Sun, Nov 29, 2015 at 11:50 AM, namu patel <namu.patel7 at gmail.com>
> wrote:
>
>> Attached is my configuration log file.
>>
>
> Satish, the idiotic Sundials configure cannot find mpicc even when its
> passed in as the C compiler:
>
> MPI-C Settings
> --------------
> checking if using MPI-C script... yes
> checking if absolute path to mpicc was given... no
> checking for mpicc... none
>    Unable to find a functional MPI-C compiler.
>    Try using --with-mpicc to specify a MPI-C compiler script,
>    --with-mpi-incdir, --with-mpi-libdir and --with-mpi-libs
>    to specify the locations of all relevant MPI files, or
>    --with-mpi-root to specify the base installation directory
>    of the MPI implementation to be used.
>    Disabling the parallel NVECTOR module and all parallel examples...
>
> Do we have to give -with-mpicc as an argument?
>
>   Thanks,
>
>      Matt
>
>
>> Thanks,
>> Namu
>>
>> On Sun, Nov 29, 2015 at 11:48 AM, Matthew Knepley <knepley at gmail.com>
>> wrote:
>>
>>> You must send configure.log
>>>
>>>   Thanks,
>>>
>>>     Matt
>>>
>>> On Sun, Nov 29, 2015 at 11:42 AM, namu patel <namu.patel7 at gmail.com>
>>> wrote:
>>>
>>>> Hello All,
>>>>
>>>> I was trying to configure PETSc with SUNDIALS so that I may use PVODE
>>>> to solve a stiff hyperbolic PDE of the form
>>>>
>>>> A(x) u_tt = K [B(x) u_x - F(x, u, u_x, t)]_x ,  t > 0,  0 < x < L ,
>>>> u_x(0, t) = u_x(L, t) = 0 ,
>>>> u(x, 0) = u_t(x, 0) = 0 ,
>>>>
>>>> where K >> 1. I was reading around to see what may be a good numerical
>>>> implementation for such a problem and it can be tricky here because the
>>>> stiffness is both in the linear part and the nonlinear forcing term.
>>>>
>>>> I want to try PVODE availble in the SUNDIALS package. When I try to
>>>> configure PETSc with SUNDIALS, I get the message:
>>>>
>>>> Downloaded sundials could not be used. Please check install in
>>>> /Users/namupatel/Softwares/PETSc/3.6.2/linux-dbg
>>>>
>>>>
>>>> *******************************************************************************
>>>>
>>>>   File "./config/configure.py", line 363, in petsc_configure
>>>>
>>>>     framework.configure(out = sys.stdout)
>>>>
>>>>   File
>>>> "/Users/namupatel/Softwares/PETSc/3.6.2/config/BuildSystem/config/framework.py",
>>>> line 1081, in configure
>>>>
>>>>     self.processChildren()
>>>>
>>>>   File
>>>> "/Users/namupatel/Softwares/PETSc/3.6.2/config/BuildSystem/config/framework.py",
>>>> line 1070, in processChildren
>>>>
>>>>     self.serialEvaluation(self.childGraph)
>>>>
>>>>   File
>>>> "/Users/namupatel/Softwares/PETSc/3.6.2/config/BuildSystem/config/framework.py",
>>>> line 1051, in serialEvaluation
>>>>
>>>>     child.configure()
>>>>
>>>>   File
>>>> "/Users/namupatel/Softwares/PETSc/3.6.2/config/BuildSystem/config/package.py",
>>>> line 677, in configure
>>>>
>>>>     self.executeTest(self.configureLibrary)
>>>>
>>>>   File
>>>> "/Users/namupatel/Softwares/PETSc/3.6.2/config/BuildSystem/config/base.py",
>>>> line 126, in executeTest
>>>>
>>>>     ret = test(*args,**kargs)
>>>>
>>>>   File
>>>> "/Users/namupatel/Softwares/PETSc/3.6.2/config/BuildSystem/config/package.py",
>>>> line 592, in configureLibrary
>>>>
>>>>     for location, directory, lib, incl in self.generateGuesses():
>>>>
>>>>   File
>>>> "/Users/namupatel/Softwares/PETSc/3.6.2/config/BuildSystem/config/package.py",
>>>> line 332, in generateGuesses
>>>>
>>>>     raise RuntimeError('Downloaded '+self.package+' could not be used.
>>>> Please check install in '+d+'\n')
>>>>
>>>> Two questions:
>>>>
>>>> 1. How can I resolve the above error?
>>>>
>>>> 2. Are there any recommendations to solving the stiff PDE stated above
>>>> so that I can experiment to see what may be an efficient implementation?
>>>>
>>>> Thank you,
>>>>
>>>> Namu
>>>>
>>>>
>>>>
>>>
>>>
>>> --
>>> 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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