[Trilinos-Users] [Pytrilinos-users] Some Days the Fun Never Stops

[Daniel Wheeler]

After unmangling the symbol:

   $ c++filt _ZN3MPI2Op4InitEPFvPKvPviRKNS_8DatatypeEEb
   MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool)

it appears that this is an mpi call that is somehow not working. I
also noticed that there are two sets of mpich libraries,
/opt/mpich/ch-p4/lib/libmpich.a and
/opt/mpich/ch-p4mpd/lib/libmpich.a. The link wasn't specified so my
guess is that the wrong version was used. I should have done all this
before spamming the list.

On Mon, Mar 16, 2009 at 1:56 PM, Daniel Wheeler
<daniel.wheeler2 at gmail.com> wrote:
> Apologies for replying to myself, but I realized I was using the wrong
> version of mpirun, no when I use the correct version of mpirun I get
> the same error as in the case when I'm not using mpi, which at least
> is consistent.
>
> On Mon, Mar 16, 2009 at 12:34 PM, Daniel Wheeler
> <daniel.wheeler2 at gmail.com> wrote:
>> Hi,
>>
>> I have recently built trilinos on the following architecture,
>>
>>          Linux Something 2.6.16.60-0.23.PTF.403865.0-default #1 SMP
>> Thu May 15 06:38:31 UTC 2008 ia64 ia64 ia64 GNU/Linux
>>
>> I used the following configure command to do this,
>>
>>         $ ../configure CC=icc CXX=icc F77=ifort CFLAGS="-O3 -fPIC"
>> CXXFLAGS="-O3 -fPIC -LANG:std -LANG:ansi -DMPI_NO_CPPBIND" FFLAGS="-O3
>> -fPIC" --prefix=${USR} --with-install=/usr/bin/install -p
>> --with-blas="-L/opt/intel/Compiler/11.0/074/mkl/lib/ 64
>> -lmkl_intel_lp64 -lmkl_intel_thread -lmkl_lapack -lmkl_core -liomp5
>> -lpthread" --with-lapack="-L/opt/intel/Compiler/11.0/074/mkl/lib/64
>> -lmkl _intel_lp64 -lmkl_intel_thread -lmkl_lapack -lmkl_core -liomp5
>> -lpthread" --enable-mpi --enable-amesos --enable-ifpack
>> --enable-shared --enable -aztecoo --enable-epetra --enable-epetraext
>> --enable-external --enable-ml --enable-threadpool --enable-thyra
>> --enable-stratimikos --enable-triu tils --enable-galeri
>> --cache-file=config.cache &&make && make install
>>
>> Everything seems cool with the build.
>>
>> Currently when I try to run without mpi I get the following:
>>
>>       $ ./input.py
>>       Traceback (most recent call last):
>>       File "./input.py", line 321, in ?
>>       from PyTrilinos import Epetra
>>       File "/users/wd15/usr/ia64/2.6.16.60-0.23.PTF.403865.0-default//lib/python2.4/site-packages/PyTrilinos/Epetra.py",
>> line 59, in ?
>>       import _Epetra
>>       ImportError:
>> /users/wd15/usr/ia64/2.6.16.60-0.23.PTF.403865.0-default//lib/libteuchos.so:
>> undefined symbol:    _ZN3MPI2Op4InitEPFvPKvPviRKNS_8DatatypeEEb
>>
>> If I try to run with mpi I get the following:
>>
>>    $mpirun -np 1 ./input.py
>>    MPI: could not run executable (case #3)
>>    MPI: No details available, no log files found
>>    Killed
>>
>> Any bright ideas?
>>
>> Regarding Matt's problem with the undefined symbol. Did the problem go
>> away when running under mpi as Bill suggested?
>>
>> Thanks
>>
>> On Sat, Mar 7, 2009 at 5:05 PM, Bill Spotz <wfspotz at sandia.gov> wrote:
>>> No, this is an improvement.  But shared libraries can be a little more
>>> touchy to use.  This message is saying that the libraries are found
>>> but that an (actually all) MPI symbol(s) is (are) undefined.
>>>
>>> Different systems and MPI versions behave differently, but you appear
>>> to need to run PyTrilinos scripts under mpirun or mpiexec, etc.
>>>
>>> On Mar 7, 2009, at 3:53 PM, Matt G wrote:
>>>
>>>> I came up with a new interesting glitch:
>>>>
>>>> Originally my installation (prefixed to my home directory on the HPC
>>>> here)  could not find "libteuchos.so" located in my local lib
>>>> directory, but after doing:
>>>>
>>>> export LD_LIBRARY_PATH=/home/u27/mgoodman/lib
>>>>
>>>> I get a new and not very meaningful error message:
>>>>
>>>> In [1]: from PyTrilinos import *
>>>> ---------------------------------------------------------------------------
>>>> ImportError                               Traceback (most recent
>>>> call last)
>>>>
>>>> /homeB/home4/u24/agh/<ipython console> in <module>()
>>>>
>>>> /home/u27/mgoodman/lib/python2.6/site-packages/PyTrilinos/Teuchos.py
>>>> in <module>()
>>>>      43 """
>>>>      44
>>>> ---> 45 import _Teuchos
>>>>      46 import new
>>>>      47 new_instancemethod = new.instancemethod
>>>>
>>>> ImportError: /home/u27/mgoodman/lib/libepetra.so: undefined symbol:
>>>> _ZN3MPI2Op4InitEPFvPKvPviRKNS_8DatatypeEEb
>>>>
>>>> Which looks much uglier, frankly.  Are my libraries landing in the
>>>> wrong directories somehow?
>>>>
>>>> Any thoughts?
>>>> -Matt
>>>> <ATT00001.txt>
>>>
>>> ** Bill Spotz                                              **
>>> ** Sandia National Laboratories  Voice: (505)845-0170      **
>>> ** P.O. Box 5800                 Fax:   (505)284-0154      **
>>> ** Albuquerque, NM 87185-0370    Email: wfspotz at sandia.gov **
>>>
>>>
>>>
>>>
>>>
>>> _______________________________________________
>>> Pytrilinos-users mailing list
>>> Pytrilinos-users at software.sandia.gov
>>> http://software.sandia.gov/mailman/listinfo/pytrilinos-users
>>>
>>>
>>
>>
>>
>> --
>> Daniel Wheeler
>>
>
>
>
> --
> Daniel Wheeler
>
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>



-- 
Daniel Wheeler