dolfin team mailing list archive

["Timothy Crone" <crone@xxxxxxxxxxxxxxxxx>]

I get other interesting errors when running other demos. When running
/dolfin/demo/pde/stokes/stabilized/python/demo.py, I get:

0 - <NO ERROR MESSAGE> : Could not convert index 1676168288 into a pointer
The index may be an incorrect argument.
Possible sources of this problem are a missing "include 'mpif.h'",
a misspelled MPI object (e.g., MPI_COM_WORLD instead of MPI_COMM_WORLD)
or a misspelled user variable for an MPI object (e.g.,
com instead of comm).
[0]  Aborting program !
[0] Aborting program!



On Mon, Aug 25, 2008 at 3:42 PM, Timothy Crone <crone@xxxxxxxxxxxxxxxxx> wrote:
> Thanks for your reply Garth. I get a seg fault when I run the poisson demo:
>
> ~/computer/fenics/dolfin/dolfin/demo/pde/poisson/python$ python demo.py
> Segmentation fault
>
> No other information is given. Any ideas? Should I just forget about
> the Python interface until someone fixes swig upstream?
>
> Thanks,
> Tim
>
>
> On Mon, Aug 25, 2008 at 3:01 PM, Garth N. Wells <gnw20@xxxxxxxxx> wrote:
>>
>>
>> Timothy Crone wrote:
>>>
>>> Hello,
>>>
>>> Does anyone know a workaround to the problem of compiling the Pydolfin
>>> file dolfin_wrap.cc with mpicxx version 4.3.1? I get several warnings
>>> during compile, and segmentation faults at runtime. I am using Debian
>>> Lenny, which uses 4.3.1 as the default compiler. SWIG is version
>>> 1.3.33. Any help in this matter would be greatly appreciated.
>>>
>>
>> It's a swig problem that leads to the errors as far I see and I don't think
>> that there's much we can do about it. I wouldn't expect it to lead to seg
>> faults though. When exactly to you get a seg fault?
>>
>> Garth
>>
>>> Here are the errors when enableDebug=no:
>>>
>>> mpicxx -o dolfin/swig/dolfin_wrap.os -c -Wall -pipe -ansi -DNDEBUG -O3
>>> -DHAS_MPI=1 -DMPICH_IGNORE_CXX_SEEK -DPACKAGE_VERSION=\"0.8.0\"
>>> -DHAS_PETSC=1 -DHAS_UMFPACK=1 -DHAS_GTS=1 -DHAS_CHOLMOD=1
>>> -fno-strict-aliasing -fPIC -I. -I/usr/include/libxml2
>>> -I/usr/lib/petscdir/2.3.3/bmake/linux-gnu-c-opt
>>> -I/usr/lib/petscdir/2.3.3/include -I/usr/lib/openmpi/include
>>> -I/usr/lib/openmpi/lib -Idolfin -I/usr/include/suitesparse
>>> -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include
>>> -I/usr/include/suitesparse -I/usr/include/python2.5
>>> -I/usr/include/python2.5
>>> -I/usr/lib/python2.5/site-packages/numpy/core/include
>>> -I/usr/include/libxml2 -I/usr/lib/petscdir/2.3.3/bmake/linux-gnu-c-opt
>>> -I/usr/lib/petscdir/2.3.3/include -I/usr/lib/openmpi/include
>>> -I/usr/lib/openmpi/lib -Idolfin -I/usr/include/suitesparse
>>> -I/usr/include/glib-2.0 -I/usr/lib/glib-2.0/include
>>> -I/usr/include/suitesparse dolfin/swig/dolfin_wrap.cc
>>> dolfin/swig/dolfin_wrap.cc: In constructor
>>> 'swig::PyObject_ptr::PyObject_ptr(PyObject*, bool)':
>>> dolfin/swig/dolfin_wrap.cc:3286: warning: suggest explicit braces to
>>> avoid ambiguous 'else'
>>> dolfin/swig/dolfin_wrap.cc: In destructor
>>> 'swig::PySequence_Cont<T>::~PySequence_Cont()':
>>> dolfin/swig/dolfin_wrap.cc:4727: warning: suggest explicit braces to
>>> avoid ambiguous 'else'
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_summary(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:29893: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_ios_base_sync_with_stdio(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:17337: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_TimeDependent(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:28067: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_BoundaryMesh(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:90450: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_MeshTopology(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:74482: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_MeshConnectivity(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:76492: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_MeshGeometry(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:75192: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_Vector(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:50862: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_uBLASVector(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:41746: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_uBLASILUPreconditioner(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:50585: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_PETScVector(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:44047: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_Table(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:30960: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> dolfin/swig/dolfin_wrap.cc: In function 'PyObject*
>>> _wrap_new_Mesh(PyObject*, PyObject*)':
>>> dolfin/swig/dolfin_wrap.cc:78823: warning: 'argv[0]' may be used
>>> uninitialized in this function
>>> mpicxx -o dolfin/swig/_dolfin.so -pthread -Wl,--export-dynamic -shared
>>> dolfin/swig/dolfin_wrap.os -Ldolfin
>>> -L/usr/lib/petscdir/2.3.3/lib/linux-gnu-c-opt -L/usr/lib/atlas
>>> -L/usr/lib/atlas -lxml2 -lpetscts -lpetscsnes -lpetscksp -lpetscdm
>>> -lpetscmat -lpetscvec -lpetsc -lblas -lumfpack -lamd -lgts -lm
>>> -lgthread-2.0 -lrt -lgmodule-2.0 -ldl -lglib-2.0 -llapack -lblas
>>> -lcholmod -lamd -lcolamd -ldolfin
>>> scons: done building targets.
>>>
>>> Thanks,
>>> Tim
>>> _______________________________________________
>>> DOLFIN-dev mailing list
>>> DOLFIN-dev@xxxxxxxxxx
>>> http://www.fenics.org/mailman/listinfo/dolfin-dev
>>
>>
>
>
>
> --
> Timothy J. Crone
> Lamont-Doherty Earth Observatory
> Columbia University
> 61 Route 9W
> Palisades, NY 10964
> Tel: 845-365-8687
>
> http://dactyl.ldeo.columbia.edu
>



-- 
Timothy J. Crone
Lamont-Doherty Earth Observatory
Columbia University
61 Route 9W
Palisades, NY 10964
Tel: 845-365-8687

http://dactyl.ldeo.columbia.edu