numpy would not load: libgcc_s vs. libgfortran

[Karl Young]

Olivier Duchateau(duchateau.olivier at gmail.com)@2016.01.04 23:17:57 +0000:
> On Mon, 04 Jan 2016 16:29:56 -0500
> "Mikhail T." <mi+thun at aldan.algebra.com> wrote:
> 
> > On 04.01.2016 16:31, Olivier Duchateau wrote:
> > > After all it's perhaps Numpy's problem, but nobody reported this issue.
> > Well, I decided to try figuring this out myself and got the following
> > error from a very simply one line script consisting of "import numpy;":
> > 
> >     Traceback (most recent call last):
> >       File "tn.py", line 1, in <module>
> >         import numpy;
> >       File "/opt/lib/python2.7/site-packages/numpy/__init__.py", line
> >     180, in <module>
> >         from . import add_newdocs
> >       File "/opt/lib/python2.7/site-packages/numpy/add_newdocs.py", line
> >     13, in <module>
> >         from numpy.lib import add_newdoc
> >       File "/opt/lib/python2.7/site-packages/numpy/lib/__init__.py",
> >     line 8, in <module>
> >         from .type_check import *
> >       File "/opt/lib/python2.7/site-packages/numpy/lib/type_check.py",
> >     line 11, in <module>
> >         import numpy.core.numeric as _nx
> >       File "/opt/lib/python2.7/site-packages/numpy/core/__init__.py",
> >     line 14, in <module>
> >         from . import multiarray
> >     ImportError:
> >     /opt/lib/python2.7/site-packages/numpy/core/multiarray.so: Undefined
> >     symbol "cblas_cdotc_sub"

Googlng on Undefined symbol "cblas_cdotc_sub"

has a few results, but no definitive solution.

Looks like a missing dependency.  Maybe run 

ldd -a /opt/lib/python2.7/site-packages/numpy/core/multiarray.so

and see what libraries are missing?

-karl

> > 
> > Any ideas? Thanks!
> > 
> >     -mi
> > 
> 
> It's strange. Unfortunately I can't reproduce this behaviour.
> 
> Under Python session (simply run python):
> 
> % python
> >>> import sys
> >>> import numpy
> 
> if no errors
> 
> >>> sys.modules # display loaded modules (numpy should be here)
> 
> >>> keys = sys.modules.keys()
> >>> for k in keys:
> ...  if 'numpy' in k:
> ...   print k
> ...
> 
> On my system I get this:
> 
> numpy.core.info
> numpy.lib.numpy
> numpy.core.numerictypes
> numpy.polynomial.legendre
> numpy.random.mtrand
> numpy.matrixlib.defmatrix
> numpy.random.info
> numpy.linalg
> numpy.polynomial.laguerre
> numpy.testing
> numpy.core.umath
> numpy.lib._version
> numpy.linalg.info
> numpy.polynomial._polybase
> numpy.lib.arraysetops
> numpy.version
> numpy.core.machar
> numpy.lib.type_check
> numpy.core._internal
> numpy.random.operator
> numpy.lib._datasource
> numpy.fft.fftpack_lite
> numpy.core.multiarray
> numpy.linalg._umath_linalg
> numpy.polynomial
> numpy.add_newdocs
> numpy.core.getlimits
> numpy.matrixlib
> numpy.ma.extras
> numpy.testing.decorators
> numpy.lib.npyio
> numpy.core.shape_base
> numpy.random.threading
> numpy.fft.helper
> numpy.lib.info
> numpy.core.memmap
> numpy.fft.fftpack
> numpy.linalg.lapack_lite
> numpy.ma
> numpy.random
> numpy.lib.twodim_base
> numpy.ma.core
> numpy.lib.arrayterator
> numpy.lib.financial
> numpy.core.arrayprint
> numpy.core._methods
> numpy.core.function_base
> numpy.lib.stride_tricks
> numpy
> numpy.polynomial.chebyshev
> numpy.polynomial.hermite_e
> numpy.__config__
> numpy.testing.utils
> numpy.core.fromnumeric
> numpy.ctypeslib
> numpy.lib.scimath
> numpy.fft
> numpy.lib
> numpy.lib.nanfunctions
> numpy.random.numpy
> numpy.lib.function_base
> numpy.random.warnings
> numpy.compat.py3k
> numpy.lib.polynomial
> numpy.compat
> numpy._import_tools
> numpy.polynomial.hermite
> numpy.fft.info
> numpy.core.records
> numpy.polynomial.polynomial
> numpy.core.numeric
> numpy.core
> numpy.lib.ufunclike
> numpy.lib._iotools
> numpy.lib.index_tricks
> numpy.lib.utils
> numpy.core.defchararray
> numpy.polynomial.polyutils
> numpy.lib.shape_base
> numpy.compat._inspect
> numpy.lib.format
> numpy.testing.nosetester
> numpy.lib.arraypad
> numpy.linalg.linalg
> 
> 'multiarray' library is even available:
> 
> >>> from numpy.core import multiarray
> >>> multiarray.__file__
> '/usr/local/lib/python2.7/site-packages/numpy/core/multiarray.so'
> >>> multiarray.__version__
> '3.1'
> >>>
> 
> Tested on 9.3 (i386) and 10.2 (amd64) machines. 
> 
> -- 
> olivier
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