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

[namu patel]

Same error with PETSc 3.6.2 when I use

export LD_LIBRARY_PATH=/Users/namupatel/Softwares/OpenMPI/1.10.0/lib


On Sun, Nov 29, 2015 at 12:29 PM, Satish Balay <balay at mcs.anl.gov> wrote:

> > --LDFLAGS="-L/Users/namupatel/Softwares/OpenMPI/1.10.0/lib
> -Wl,-rpath,/Users/namupatel/Softwares/OpenMPI/1.10.0/lib"
>
> Try:
>
> export LD_LIBRARY_PATH=/Users/namupatel/Softwares/OpenMPI/1.10.0/lib
>
> And then rerun configure
>
> Satish
>
> On Sun, 29 Nov 2015, namu patel wrote:
>
> > 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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