[MacPorts] #50283: py-scipy @0.16.1 +atlas build failure due to new atlas variants

[MacPorts]

#50283: py-scipy @0.16.1 +atlas build failure due to new atlas variants
------------------------+----------------------
  Reporter:  chanmhy@…  |      Owner:  sean@…
      Type:  defect     |     Status:  assigned
  Priority:  Normal     |  Milestone:
 Component:  ports      |    Version:  2.3.4
Resolution:             |   Keywords:
      Port:  py-scipy   |
------------------------+----------------------

Comment (by sean@…):

 Ok, I was finally able to build a bunch of versions of atlas and test the
 fix with scipy. Unfortunately, the test suite fails to run due to:

 {{{
 ======================================================================
 ERROR: Failure: ImportError
 (dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/_flapack.so, 2): Symbol not found: _cgegv_
   Referenced from:
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/_flapack.so
   Expected in: flat namespace
  in
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/_flapack.so)
 ----------------------------------------------------------------------
 Traceback (most recent call last):
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/nose/loader.py", line 418, in loadTestsFromName
     addr.filename, addr.module)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/nose/importer.py", line 47, in importFromPath
     return self.importFromDir(dir_path, fqname)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/nose/importer.py", line 94, in importFromDir
     mod = load_module(part_fqname, fh, filename, desc)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/spatial/__init__.py", line 94, in <module>
     from ._procrustes import procrustes
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/spatial/_procrustes.py", line 11, in <module>
     from scipy.linalg import orthogonal_procrustes
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/__init__.py", line 172, in <module>
     from .misc import *
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/misc.py", line 6, in <module>
     from .lapack import get_lapack_funcs
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/lapack.py", line 356, in <module>
     from scipy.linalg import _flapack
 ImportError:
 dlopen(/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/_flapack.so, 2): Symbol not found: _cgegv_
   Referenced from:
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/_flapack.so
   Expected in: flat namespace
  in
 /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/linalg/_flapack.so

 ======================================================================
 ERROR: Failure: ImportError (cannot import name specfun)
 ----------------------------------------------------------------------
 Traceback (most recent call last):
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/nose/loader.py", line 418, in loadTestsFromName
     addr.filename, addr.module)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/nose/importer.py", line 47, in importFromPath
     return self.importFromDir(dir_path, fqname)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/nose/importer.py", line 94, in importFromDir
     mod = load_module(part_fqname, fh, filename, desc)
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/special/__init__.py", line 603, in <module>
     from .basic import *
   File
 "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7
 /site-packages/scipy/special/basic.py", line 17, in <module>
     from . import specfun
 ImportError: cannot import name specfun
 }}}

 This is due to scipy using the, now removed, function `cgegv`. The scipy
 0.17-rc2 fixes this and I just tested it. When it is released everything
 should run smoothly again. I'll push my local change up soon.

-- 
Ticket URL: <https://trac.macports.org/ticket/50283#comment:5>
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