[gpaw-users] Import Error After Installation

[Christian Glinsvad]

Hi

I think the fact that you're using gcc for the serial compile and mpif90
for the parallel compile might lead to conflicts. The undefined __divdc3
is a very basic math function (computes quotient of two complex numbers).
How are you running your scripts - with the python or gpaw-python binary?

Also, could you try compiling mpicompiler='mpicc' or is that out of the
question? Alternatively, please post the output of the command:
mpif90 -showme

Regards
Christian Glinsvad

On Wed, 10 Nov 2010, Jibiao Li wrote:

> Hi, Marcin Dulak
> Python scripts can now be run quite successfully with your suggestions. But the import error still there when I try to generate xes1s file by
> gpaw-setup command. Could you please provide further suggestions?
> 
>   File "/usr/bin/gpaw-setup", line 60, in <module>
>     from gpaw.atom.generator import Generator, parameters
>   File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/__init__.py", line 255, in <module>
>     from gpaw.aseinterface import GPAW
>   File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/aseinterface.py", line 11, in <module>
>     from gpaw.paw import PAW
>   File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/paw.py", line 14, in <module>
>     import gpaw.io
>   File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/io/__init__.py", line 10, in <module>
>     import gpaw.mpi as mpi
>   File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/mpi/__init__.py", line 13, in <module>
>     from gpaw.utilities import is_contiguous
>   File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/utilities/__init__.py", line 13, in <module>
>     import _gpaw
> ImportError: /home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/_gpaw.so: undefined symbol: __divdc3
> 
> In the customize.py file, I specify the following parameters while all others are commented. (the path of gcclib.so was specified in my .bashrc file.)
> compiler = 'gcc'
> mpicompiler = 'mpif90'
> mpi_library_dirs = ['../openmpi-1.3.4/lib']
> mpi_include_dirs = ['../openmpi-1.3.4/include']
> 
> 
> 
> On Sat, Oct 16, 2010 at 1:17 PM, Jibiao Li <jibiaoli at gmail.com> wrote:
>       Hi, Marcin Dulak
> The problem has been solved with your suggestions. Thanks
> 
> On Sat, Oct 16, 2010 at 12:00 PM, Marcin Dulak <Marcin.Dulak at fysik.dtu.dk> wrote:
>       Hi,
>
>       first thing i would recommend is to update to Fedora 13,
>       and then install GPAW using RPMS as described at https://wiki.fysik.dtu.dk/gpaw/install/Linux/Fedora.html#fedora
>       If you prefer not to update then please post the customize.py that you used for building.
>       Do you use a custom gcc installation, as __divdc3 comes from libgcc.a?
>       What is the output of
>       rpm -q gcc && gcc -v
>       What is the output of
>       ldd `find /home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw -name _gpaw.so`
>       Anyway, maybe it's better to choose the root of installation to a different location and keep the source directory untouched, like:
>       /home/jibiaoli/Install/gpaw-0.7.2.6974-1 (first build of gpaw-0.7.2.6974)
>
>       Marcin
>
>       Jibiao Li wrote:
>             Hi All
>             An import error appeared as I test GPAW after a new intallation on my laptop(with Fedora 10),  Could you tell me how to
>             tackle this trival problem?  $ gpaw-setup
>             Traceback (most recent call last):
>              File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/bin/gpaw-setup", line 5, in <module>
>                from gpaw.atom.gpaw_setup import main
>              File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/__init__.py", line 255, in <module>
>                from gpaw.aseinterface import GPAW
>              File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/aseinterface.py", line 11, in <module>
>                from gpaw.paw import PAW
>              File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/paw.py", line 14, in <module>
>    import gpaw.io <http://gpaw.io>
>  File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/io/__init__.py", line 10, in <module>
>    import gpaw.mpi as mpi
>  File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/mpi/__init__.py", line 13, in <module>
>    from gpaw.utilities import is_contiguous
>  File "/home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/gpaw/utilities/__init__.py", line 13, in <module>
>    import _gpaw
> ImportError: /home/jibiaoli/Install/gpaw-0.7.2.6974/gpaw/lib/python/_gpaw.so: undefined symbol: __divdc3
> ------------------------------------------------------------------------
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> --
> ***********************************
> 
> Marcin Dulak
> Technical University of Denmark
> Department of Physics
> Building 307, Room 229
> DK-2800 Kongens Lyngby
> Denmark
> Tel.: (+45) 4525 3157
> Fax.: (+45) 4593 2399
> email: Marcin.Dulak at fysik.dtu.dk
> 
> ***********************************
> 
> 
> 
> 
>