[MacPorts] #47276: Scipy packages not importing ("cannot import" .integrate, .specfun, .special, .sparse)

[MacPorts]

#47276: Scipy packages not importing ("cannot import" .integrate, .specfun,
.special, .sparse)
---------------------------------------------+-----------------------------
 Reporter:  alison.mansheim@…                |      Owner:  macports-
     Type:  defect                           |  tickets@…
 Priority:  Normal                           |     Status:  new
Component:  ports                            |  Milestone:
 Keywords:  scipy, import, special, specfun  |    Version:  2.3.3
                                             |       Port:  scipy
---------------------------------------------+-----------------------------
 I have had this problem with every version of scipy I've tried since
 0.14.0 (currently am running the latest 15.1). Each time scipy and
 dependencies installed cleanly using macports for py27 on mac OSX 10.6.8.
 After upgrading to 0.14.0, some of the functions will not import ( those
 inside scipy.integrate, .specfun, .special, .sparse). I tried uninstalling
 and re-installing everything and still no luck. I found some older threads
 that reported a similar problem for older versions, but then closed
 because they were fixed in an upgrade.

 For example, when I run a function that uses scipy.integrate.quad():

 In [10]: cosmo.ProjectedLength(0.5)
 ---------------------------------------------------------------------------
 AttributeError                            Traceback (most recent call
 last)
 <ipython-input-10-38d57df266ec> in <module>()
 ----> 1 cosmo.ProjectedLength(0.5)
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/cluster_tools/cosmo.pyc in ProjectedLength(z, h, Om, Ol)
      58     Assumes small angles (i.e.: Da*Theta = Projected Length, i.e.
 sin(Theta)=Theta)
      59     """
 ---> 60     return Da(z,h,Om,Ol)/3437.75 #given that 1 radian = 3437.75
 arcminutes
      61
      62 def lensgeo(zl,zs,h=0.7,Om=0.3,Ol=0.7):
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/cluster_tools/cosmo.pyc in Da(z, h, Om, Ol)
      38     Returns the cosmological angular diameter distance (in units
 of Mpc)
      39     """
 ---> 40     f0 = scipy.integrate.quad(lambda x: chi(x,Om,Ol),0,z)[0]
      41     #f0 = Integral(chi(x,Om,Ol),(x,0,z))
      42     da = c/(100.0*h)/(1+z)*f0.n()
 AttributeError: 'module' object has no attribute 'integrate'

 When I try to import one of the packages I also get an error:

 In [15]: import scipy.integrate
 ---------------------------------------------------------------------------
 ImportError                               Traceback (most recent call
 last)
 <ipython-input-15-4d37fa311919> in <module>()
 ----> 1 import scipy.integrate
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/integrate/__init__.py in <module>()
      49 from __future__ import division, print_function, absolute_import
      50
 ---> 51 from .quadrature import *
      52 from .odepack import *
      53 from .quadpack import *
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/integrate/quadrature.py in <module>()
       4            'cumtrapz','newton_cotes']
       5
 ----> 6 from scipy.special.orthogonal import p_roots
       7 from scipy.special import gammaln
       8 from numpy import sum, ones, add, diff, isinf, isscalar, \
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/special/__init__.py in <module>()
     547
     548 from .basic import *
 --> 549 from . import specfun
     550 from . import orthogonal
     551 from .orthogonal import *
 ImportError: cannot import name specfun

 I looked in the scipy directories and the /integrate/quadrature.pyc and
 special/orthogonal.pyc and /special/specfun.so exist. I had similar
 problems that I traced to other .so's, so I thought there was an issue
 with my compiler, but I thought macports would have detected this. I did
 not have this problem with older versions of scipy.

 I posted this problem on scipy git and they replied "You can try asking
 the macports people for support with their Scipy packaging."

 I would appreciate any help you can offer! There are a lot of useful
 packages that rely on these functions.

 Thank you, Alison

-- 
Ticket URL: <https://trac.macports.org/ticket/47276>
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