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Re: Installing on a mac

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Hi!

Den 21.10.10 15.11, skrev Peter Monk:

Thank you everyone who has addressed my question.  I regret that the fixes do not seem to work.  Here is what I did:

1) I deleted all of macports and the ported software following the uninstall directions in macports documentation (the idea being to start as close as possible to my friend's computer that successfully installed FEniCS).

2) I reinstalled a new version macports and  installed only  what is needed by dorsal.  This failed because swig-python has a bug that doesn't install pcre.  Porting pcre  and then swig-python fixes that problem.

3) I edited platforms/supported/snowleopard.platform and added

default LAPACKANDBLAS_DIR=/opt/intel/Compiler/11.1/088/Frameworks/mkl/Libraries/em64t
I have never tried this one, but snow leopard already comes with an optimized version (vecLib framework) from Apple. Does it not suit your needs? 


to try to get a good LAPACK and BLAS

4) I edited packages/dolfin.package and dolfin-stable.package as suggested by Dr Ring and added

CONFOPTS="-DMETIS_LIBRARY=${INSTALL_PATH}/lib/libmetis.a"
Just for the sake of limiting error sources, could you check whether metis is also installed from macports and temporarily uninstall/deactivate it? 


5) I reinstalled a fresh version of FEniCS

6) I then got the following error message during the configuring of petsc


Building petsc-3.1-p4
===============================================================================
              Configuring PETSc to compile on your system
===============================================================================
===============================================================================
                  WARNING! Compiling PETSc with no debugging, this should
                                only be done for timing and production runs. All developme
                       be done when configured using --with-debugging=1          ===============================================================================
TESTING: FortranMPICheck from config.packages.MPI(config/BuildSystem/config/pack
*******************************************************************************
          UNABLE to CONFIGURE with GIVEN OPTIONS    (see configure.log for details):
-------------------------------------------------------------------------------
Fortran error! mpif.h could not be located at: [ ]
*

Thats odd because mpif.h exists in petsc's own directory structure but the location seems empty....
Which compiler and mpi are you using right now? If you use Apple's gcc ( and Apple's openmpi) then there no fortran bindings included. 
Does your snowleopard platform contain really petsccore (instead of petsc) ?

7) So I  installed openmpi using macports (I need this for another project anyway).  I note that by this time there are metis libraries in /opt/local/lib and in ~/FEniCS/lib.  Then I remade a fresh version of FEniCS.  This time dorsal.sh completed without an obvious failure. I tried the poisson demo in python and got
Strange. You installed openmpi and petsc worked out? Usually openmpi from macports with "open" prefix for the binaries, making petsc unable to find it, unless you do something with your compiler environment variables. Just to ensure you could check then mpi libs petsc was linked with with "otool -L <PETSCHLIB>" 
I expect that it is still linked against apple's openmpi.


Peter-Monks-MacBook:python monk$ python demo.pyTraceback (most recent call last):
   File "demo.py", line 22, in<module>
     from dolfin import *
   File "/Users/monk/FEniCS/lib/python2.6/site-packages/dolfin/__init__.py", line 13, in<module>
     import dolfin.cpp as cpp
   File "/Users/monk/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", line 28, in<module>
     _cpp = swig_import_helper()
   File "/Users/monk/FEniCS/lib/python2.6/site-packages/dolfin/cpp.py", line 24, in swig_import_helper
     _mod = imp.load_module('_cpp', fp, pathname, description)
ImportError: dlopen(/Users/monk/FEniCS/lib/python2.6/site-packages/dolfin/_cpp.so, 2): Symbol not found: _METIS_mCPartGraphRecursive2
   Referenced from: /Users/monk/FEniCS/src/petsc-3.1-p4/darwin10.0.0-cxx-opt/lib/libpetsc.dylib
   Expected in: flat namespace
  in /Users/monk/FEniCS/src/petsc-3.1-p4/darwin10.0.0-cxx-opt/lib/libpetsc.dylib
You probably still use somehow the wrong metis lib I guess. As suggested above you should deactivate metis from macports and build FEniCS again. 
--
Andre



So I regret that the suggested fixes don't seem to work.  The problem seems to center around petsc.

Thanks again
Peter



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