Hello,
I'm sitting on a Debian / Jessie system and I've had a working installation
of FEniCS for some months now but a few days ago it suddenly stopped
working. I try to remember what the initial error message said but I have
forgotten. I think it complained on the FFC or something. Anyway, so I
thought I needed a refresh of my packages and saw that FEniCS was marked as
to be removed. "No problem", I thought, as I just figured I'd reinstall it
right after the updates. But of course now I can't locate FEniCS anywhere
in aptitude. Instead I've tried installing it manually from source,
manually adding some FEniCS PPA to my APT sources, as well as using Dorsal.
All attempts have showed very little success.
When trying to install DOLFIN manually, I first downloaded the source code
for FFC, FIAT, Instant and UFL and followed the given instructions. Then,
for DOLFIN, I downloaded the source and as instructed did cmake into a
build directory like so:
mkdir build
cd build
cmake-gui ..
This results in:
CMake Warning at dolfin/CMakeLists.txt:318 (message):
UFC compiled with different version of SWIG. Please install SWIG version
2.0.11 or recompile UFC with present SWIG.
After some hassle I finally managed to install SWIG version 2.0.11, so I
removed the build directory of DOLFIN, created a new one and ran cmake only
to find:
CMake Warning at dolfin/CMakeLists.txt:318 (message):
UFC compiled with different version of SWIG. Please install SWIG version
*2.0.7* or recompile UFC with present SWIG.
So downloading yet another SWIG version and running ./configure (with the
option --without-octave to get it to work) I ran both make and make install
successfully. Then once again I removed the DOLFIN build directory and
repeated the steps above, but still got the same warning message. Now I
didn't know if this warning message was important or not, so I decided to
press on with the hope that it would work anyway. The cmake did after all
create a make-file so why not try it?
Running make, that beautiful list started to appear in the console:
*Scanning dependencies of target dolfin*
[ 0%] Building CXX object
dolfin/CMakeFiles/dolfin.dir/nls/TAOLinearBoundSolver.cpp.o
[ 1%] Building CXX object
dolfin/CMakeFiles/dolfin.dir/nls/PETScSNESSolver.cpp.o
[ 1%] Building CXX object
dolfin/CMakeFiles/dolfin.dir/nls/NewtonSolver.cpp.o
and so on... until after some tens of minutes it ended with:
[ 98%] Building CXX object
dolfin/CMakeFiles/dolfin.dir/fem/CCFEMAssembler.cpp.o
[100%] Building CXX object dolfin/CMakeFiles/dolfin.dir/fem/Form.cpp.o
[100%] Building CXX object dolfin/CMakeFiles/dolfin.dir/fem/UFC.cpp.o
*Linking CXX shared library libdolfin.so*
/usr/bin/ld: /usr/local/lib/vtk-5.10/libvtkCommon.a(vtkDataArray.cxx.o):
relocation R_X86_64_32 against `.bss' can not be used when making a shared
object; recompile with -fPIC
/usr/local/lib/vtk-5.10/libvtkCommon.a: error adding symbols: Bad value
collect2: error: ld returned 1 exit status
dolfin/CMakeFiles/dolfin.dir/build.make:6366: recipe for target
'dolfin/libdolfin.so.1.4.0' failed
make[2]: *** [dolfin/libdolfin.so.1.4.0] Error 1
CMakeFiles/Makefile2:202: recipe for target
'dolfin/CMakeFiles/dolfin.dir/all' failed
make[1]: *** [dolfin/CMakeFiles/dolfin.dir/all] Error 2
Makefile:116: recipe for target 'all' failed
make: *** [all] Error 2
I don't know how to solve this. Is it some problem with VTK?
When trying to run the demo_poisson.py code I get:
Traceback (most recent call last):
File "demo_poisson.py", line 37, in <module>
from dolfin import *
File "/usr/lib/python2.7/dist-packages/dolfin/__init__.py", line 16, in
<module>
import cpp
File "/usr/lib/python2.7/dist-packages/dolfin/cpp/__init__.py", line 42,
in <module>
exec("import %s" % module_name)
File "<string>", line 1, in <module>
ImportError: No module named common
In another FEniCS support thread, Johannes Ring's says that this problem of
"No module named common" comes from DOLFIN and UFC not being built with the
same version of SWIG, or that DOLFIN is not built with support for CGAL. He
recommends building FEniCS from source to get DOLFIN with CGAL support. But
I am building DOLFIN from source, and I don't know what to do with that
SWIG problem. Is there anything blatantly wrong with my attempts here? To
be fair, it is recommended to use Dorsal, but there is no supported
platform-file for the system I am on (Debain / Jessie). I am going to try
to tailor my own platform-file for but I don't have high hopes of that
working since I'm fairly new to all of this.
I would be happy for any help I can get!
Best regards,
Lukas Wensby
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