[petsc-users] WHY "C++ error! MPI_Finalize() could not be located!"? Thanks.

[Jerry]

Thanks, Matthew.

I thought "--with-cc" "--with-cxx "  "--with-fc" are all needed, according
to the following webpage
http://www.mcs.anl.gov/petsc/documentation/installation.html

Now, I configured as follows, and then compile. It seems ok.

./configure --prefix=/usr/local --with-cc=gcc --with-cxx=0 --with-fc=0
--with-mpi-include=/usr/include/mpi --with-mpi-lib=/usr/lib/libmpi.so


2015-01-17 11:29 GMT-08:00 Matthew Knepley <knepley at gmail.com>:

> On Sat, Jan 17, 2015 at 1:18 PM, Jerry <orzgodlo at gmail.com> wrote:
>
>> Hi, Matthew.
>>
>> Please find attached the configure log. Thanks.
>>
>
> There are problems with C++ and this MPI install:
>
> Executing: g++  -o /tmp/petsc-FhcRYT/config.libraries/conftest    -Wall
> -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -O0
>  /tmp/petsc-FhcRYT/config.libraries/conftest.o  -Wl,-rpath,/usr/lib
> -L/usr/lib -lmpi -Wl,-rpath,/usr/lib/gcc/x86_64-linux-gnu/4.8
> -L/usr/lib/gcc/x86_64-linux-gnu/4.8 -Wl,-rpath,/usr/lib/x86_64-linux-gnu
> -L/usr/lib/x86_64-linux-gnu -Wl,-rpath,/lib/x86_64-linux-gnu
> -L/lib/x86_64-linux-gnu -Wl,-rpath,/usr/lib/x86_64-linux-gnu
> -L/usr/lib/x86_64-linux-gnu -ldl -lgcc_s -ldl
> Possible ERROR while running linker: exit code 256
> stderr:
> /tmp/petsc-FhcRYT/config.libraries/conftest.o: In function
> `MPI::Intracomm::Intracomm()':
> /usr/include/mpi/openmpi/ompi/mpi/cxx/intracomm.h:25: undefined reference
> to `MPI::Comm::Comm()'
> /tmp/petsc-FhcRYT/config.libraries/conftest.o: In function
> `MPI::Intracomm::Intracomm(ompi_communicator_t*)':
> /usr/include/mpi/openmpi/ompi/mpi/cxx/intracomm_inln.h:23: undefined
> reference to `MPI::Comm::Comm()'
> /tmp/petsc-FhcRYT/config.libraries/conftest.o: In function
> `MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&),
> bool)':
> /usr/include/mpi/openmpi/ompi/mpi/cxx/op_inln.h:122: undefined reference
> to `ompi_mpi_cxx_op_intercept'
> /tmp/petsc-FhcRYT/config.libraries/conftest.o:(.data.rel.ro._ZTVN3MPI3WinE[_ZTVN3MPI3WinE]+0x48):
> undefined reference to `MPI::Win::Free()'
> /tmp/petsc-FhcRYT/config.libraries/conftest.o:(.data.rel.ro._ZTVN3MPI8DatatypeE[_ZTVN3MPI8DatatypeE]+0x78):
> undefined reference to `MPI::Datatype::Free()'
> collect2: error: ld returned 1 exit status
>
> If you are using your own installation of MPI, it is best to use its
> compiler wrappers:
>
>   --with-cc=/usr/bin/mpicc --with-cxx=/usr/bin/mpicxx
>
> instead of the MPI flags (since it looks like you missed a library). Also,
> do you really
> need to build PETSc with C++? If not, leave it out using
>
>   --with-cxx=0
>
>   Thanks,
>
>      Matt
>
>
>> -Jerry
>>
>> 2015-01-17 4:52 GMT-08:00 Matthew Knepley <knepley at gmail.com>:
>>
>>> Send the whole configure.log
>>>
>>>   Thanks,
>>>
>>>      Matt
>>>
>>> On Sat, Jan 17, 2015 at 4:07 AM, Jerry <orzgodlo at gmail.com> wrote:
>>>
>>>> Hi, all.
>>>>
>>>> I am trying to configure&compile petsc. However, during configuring, I
>>>> got the following error (C++ error! MPI_Finalize() could not be located!).
>>>> I am also copying the last few lines in configure.log.
>>>>
>>>> But I am sure mpi.h is under the folder I specified
>>>> (--with-mpi-include=/usr/include/mpi )
>>>>
>>>> Any idea about the problem? Thanks.
>>>>
>>>>
>>>> $$ ./configure --prefix=~/local --with-cc=gcc --with-cxx=g++
>>>> --with-fc=gfortran --with-mpi-include=/usr/include/mpi
>>>> --with-mpi-lib=/usr/lib/libmpi.so
>>>>
>>>>
>>>> ===============================================================================
>>>>              Configuring PETSc to compile on your
>>>> system
>>>>
>>>> ===============================================================================
>>>> TESTING: CxxMPICheck from
>>>> config.packages.MPI(config/BuildSystem/config/packages*******************************************************************************
>>>>          UNABLE to CONFIGURE with GIVEN OPTIONS    (see configure.log
>>>> for details):
>>>>
>>>> -------------------------------------------------------------------------------
>>>> C++ error! MPI_Finalize() could not be located!
>>>>
>>>> *******************************************************************************
>>>>
>>>>
>>>>
>>>> ===========  Last few lines from configure.log ================
>>>>
>>>>
>>>>
>>>> *******************************************************************************
>>>>   File "./config/configure.py", line 272, in petsc_configure
>>>>     framework.configure(out = sys.stdout)
>>>>   File
>>>> "/home/delia/workspace/programs/petsc/config/BuildSystem/config/framework.py",
>>>> line 941, in configure
>>>>     child.configure()
>>>>   File
>>>> "/home/delia/workspace/programs/petsc/config/BuildSystem/config/package.py",
>>>> line 606, in configure
>>>>     self.executeTest(self.configureLibrary)
>>>>   File
>>>> "/home/delia/workspace/programs/petsc/config/BuildSystem/config/base.py",
>>>> line 126, in executeTest
>>>>     ret = test(*args,**kargs)
>>>>   File
>>>> "/home/delia/workspace/programs/petsc/config/BuildSystem/config/packages/MPI.py",
>>>> line 660, in CxxMPICheck
>>>>     raise RuntimeError('C++ error! MPI_Finalize() could not be
>>>> located!')
>>>>
>>>> ================================================================================
>>>> Finishing Configure Run at Sat Jan 17 01:34:31 2015
>>>>
>>>> ================================================================================
>>>>
>>>>
>>>> Jerry
>>>>
>>>
>>>
>>>
>>> --
>>> 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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