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[Murtazo Nazarov <question124644@xxxxxxxxxxxxxxxxxxxxx>]

Question #124644 on DOLFIN changed:
https://answers.launchpad.net/dolfin/+question/124644

    Status: Answered => Open

Murtazo Nazarov is still having a problem:
On 09/09/2010 05:21 PM, Anders Logg wrote:
> Question #124644 on DOLFIN changed:
> https://answers.launchpad.net/dolfin/+question/124644
>
>      Status: Open =>  Answered
>
> Anders Logg proposed the following answer:
> On Thu, Sep 09, 2010 at 05:18:42PM +0200, Murtazo Nazarov wrote:
>    
>> On 09/09/2010 12:30 AM, Anders Logg wrote:
>>      
>>> Question #124644 on DOLFIN changed:
>>> https://answers.launchpad.net/dolfin/+question/124644
>>>
>>>      Status: Open =>   Answered
>>>
>>> Anders Logg proposed the following answer:
>>> On Wed, Sep 08, 2010 at 09:57:24PM -0000, Murtazo Nazarov wrote:
>>>        
>>>> Question #124644 on DOLFIN changed:
>>>> https://answers.launchpad.net/dolfin/+question/124644
>>>>
>>>> Murtazo Nazarov gave more information on the question:
>>>> Murtazo Nazarov wrote:
>>>>          
>>>>> Question #124644 on DOLFIN changed:
>>>>> https://answers.launchpad.net/dolfin/+question/124644
>>>>>
>>>>>      Status: Answered =>   Open
>>>>>
>>>>> Murtazo Nazarov is still having a problem:
>>>>> Anders Logg wrote:
>>>>>
>>>>>            
>>>>>> Question #124644 on DOLFIN changed:
>>>>>> https://answers.launchpad.net/dolfin/+question/124644
>>>>>>
>>>>>>      Status: Open =>   Answered
>>>>>>
>>>>>> Anders Logg proposed the following answer:
>>>>>> On Wed, Sep 08, 2010 at 05:50:29PM -0000, Murtazo Nazarov wrote:
>>>>>>
>>>>>>
>>>>>>              
>>>>>>> Question #124644 on DOLFIN changed:
>>>>>>> https://answers.launchpad.net/dolfin/+question/124644
>>>>>>>
>>>>>>>      Status: Answered =>   Open
>>>>>>>
>>>>>>> Murtazo Nazarov is still having a problem:
>>>>>>> There was some problem with dolfin.pc. Actually I modified the file. It
>>>>>>> looks like the following:
>>>>>>>
>>>>>>> # pkg-config configuration for DOLFIN
>>>>>>> prefix=/NOBACKUP/murtazo/fenics
>>>>>>> exec_prefix=/NOBACKUP/murtazo/fenics
>>>>>>> libdir=${exec_prefix}/lib
>>>>>>> includedir=${prefix}/include
>>>>>>> compiler=/usr/bin/mpicxx
>>>>>>> definitions= -DBOOST_UBLAS_NDEBUG -DHAS_PETSC -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH -DHAS_PARMETIS -DHAS_CGAL -DHAS_ZLIB -DHAS_CPPUNIT -DHAS_MPI -DMPICH_IGNORE_CXX_SEEK
>>>>>>> swigcflags=
>>>>>>> extlibs=
>>>>>>>
>>>>>>> Name: DOLFIN
>>>>>>> Description: Dynamic Object-oriented Library for FINite element computation
>>>>>>> Version: 0.9.9
>>>>>>> Requires: ufc-1 libxml-2.0
>>>>>>> Conflicts:
>>>>>>> Libs:  -L${libdir} -ldolfin
>>>>>>> Cflags:  -DBOOST_UBLAS_NDEBUG -DHAS_PETSC -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH -DHAS_PARMETIS -DHAS_CGAL -DHAS_ZLIB -DHAS_CPPUNIT -DHAS_MPI -DMPICH_IGNORE_CXX_SEEK  -DBOOST_UBLAS_NDEBUG -DHAS_PETSC -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH -DHAS_PARMETIS -DHAS_CGAL -DHAS_ZLIB -DHAS_CPPUNIT -DHAS_MPI -DMPICH_IGNORE_CXX_SEEK  -frounding-math -I/usr/lib/openmpi/include/openmpi -I/usr/include/cppunit -I/usr/include/suitesparse -I/usr/lib/openmpi/lib -I/usr/lib/openmpi/include -I/NOBACKUP/murtazo/fenics/src/petsc-3.1-p4/include -I/NOBACKUP/murtazo/fenics/src/petsc-3.1-p4/linux-gnu-cxx-opt/include -I/usr/include -I/NOBACKUP/murtazo/fenics/include -I/usr/include/libxml2 -I/NOBACKUP/murtazo/fenics/src/dolfin-0.9.9  -I${includedir}
>>>>>>>
>>>>>>>
>>>>>>>                
>>>>>> Keep modifying it. Looks like you are missing some flags like -lpetsc.
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>              
>>>>> I tried to include -lpetsc and even more:
>>>>>
>>>>> Libs:  -L${libdir} -lpetscts -lpetscsnes -lpetscksp -lpetscdm -lpetscmat
>>>>> -lpetscvec -lpetsc -lX11 -ldolfin
>>>>>
>>>>> Still there is the same error.
>>>>>
>>>>> murtazo
>>>>>
>>>>>
>>>>>            
>>>> I have to say that despite my solver all demos work perfectly even
>>>> without adding this petsc links.
>>>>          
>>> I think that is because the demos are compiled using CMake, and the
>>> generated DOLFIN CMake file is correct while the DOLFIN pkg-config
>>> file is missing some important flags.
>>>
>>>        
>> Then, is CMake the only way for the fenics-apps or is there
>> generality for make and scons for example?
>>
>> murtazo
>>      
> Johannes pushed a fix for the pkg-config problem today. Try to pull
> the latest version and see if it solves your problem.
>
> --
> Anders
>
>    

I installed again the latest unstable dolfin, but the problem is still 
there:
...
g_entropy/unicorn/EntRes_2_2D.o -L/NOBACKUP/murtazo/unicorn/local/lib 
-L/usr/local/lib -L/NOBACKUP/murtazo/fenics_latest/src/lib 
-L/usr/lib/atlas -L/usr/lib/gcc/x86_64-linux-gnu/4.4.3 
-L/NOBACKUP/murtazo/fenics_latest/src/petsc-3.1-p4/linux-gnu-cxx-opt/lib 
-L/NOBACKUP/murtazo/fenics_latest/src/slepc-3.1-p2/linux-gnu-cxx-opt/lib 
-lunicorn -lopen-pal -lopen-rte -lmpi -lmpi_cxx -lcppunit -lz 
-lboost_thread-mt -lgmp -lmpfr -lgmpxx -lCGAL -lptscotcherr -lptscotch 
-llapack -lccolamd -lcolamd -lcamd -lcholmod -latlas -lamd -lumfpack 
-ldl -lpthread -lgcc_s -lutil -lnsl -lstdc++ -lm -lgfortran -lmpi_f77 
-lmpi_f90 -lblas -lHYPRE -lblacs -lscalapack -lmetis -lparmetis -lpord 
-lmumps_common -lzmumps -lsmumps -ldmumps -lcmumps -lX11 -lpetsc -lslepc 
-lboost_system -lboost_program_options -lboost_filesystem -larmadillo 
-ldolfin -lxml2
scons: done building targets.
na09:run > ./demo
./demo: symbol lookup error: 
/NOBACKUP/murtazo/fenics_latest/src/lib/libdolfin.so.0: undefined 
symbol: _Z26KSPMonitorTrueResidualNormP6_p_KSPidPv

It seems to me there all links there. Dolfin demos work without any
problem.

murtazo

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