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[ferret_users] Pyferret, jupyter notebook and ferretmagic



Hello,

I have a functional PyFerret 7.4 on Mac OS X Sierra, with python 3.7 from HomeBrew. I'm now trying to use jupyter notebook and the ferretmagic module from Patrick (https://github.com/PBrockmann/ipython_ferretmagic)

What I get is : 

import pyferret
---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
<ipython-input-12-1563948a3fc8> in <module>()
----> 1 import pyferret

~/local/softs/PyFerret7.4_python3.7/lib/python3.7/site-packages/pyferret/__init__.py in <module>()
     43 import readline
     44 
---> 45 from pyferret import libpyferret
     46 # also import everything (not starting with an underscore) from libpyferret
     47 # so constants in that module are seen as part of this module

ImportError: dlopen(/Users/marti/local/softs/PyFerret7.4_python3.7/lib/python3.7/site-packages/pyferret/libpyferret.cpython-37m-darwin.so, 2): Library not loaded: /Users/ksmith/.local/opt/gcc/lib/gcc/8/libgfortran.5.dylib
  Referenced from: /Users/marti/local/softs/PyFerret7.4_python3.7/lib/python3.7/site-packages/pyferret/libpyferret.cpython-37m-darwin.so
  Reason: image not found


It means that python does not find libgfortran.5.dylib in any known path, and tries to load the default /Users/ksmith/.local/opt/gcc/lib/gcc/8/libgfortran.5.dylib hardwired in the pyferret library.

When launching pyferret from the shell, you have to set the environment variable DYLD_FALLBACK_LIBRARY_PATH to make pyferret available to find libgfortran.5.dylib.
I can't find a way to do that in a jupyter notebook :

Environment variables from the shell (PYTHONPATHDYLD_FALLBACK_LIBRARY_PATH) are not recognized by jupyter

Setting PYTHONPATH in the notebook allows to find the pyferret module, libpyferret.so and libpyferret.cpython-37m-darwin.soBut I can't find a way to force pyferret to find /Users/marti/local/softs/PyFerret7.4_python3.7/dylibs/libgfortran.5.dylib

No success when adding : os.environ['DYLD_FALLBACK_LIBRARY_PATH'] = '/Users/marti/local/softs/PyFerret7.4_python3.7/dylibs'
      
 Any idea ??

Olivier 

-- 
Dr. Olivier Marti  - mailto:olivier.marti@xxxxxxxxxxxx
Laboratoire des Sciences du Climat et de l'Environnement
Institut Pierre Simon Laplace
Laboratoire CEA-CNRS-UVSQ  -  UMR 8212
Tel : +33 1 69 08 77 27 - Mob : +33 6 45 36 43 74
Fax : +33 1 69 08 30 73




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