Linking source installed pandas to homebrew'd python

Question

I am attempting to install the python package pandas .

All my existing python gear has been installed using home-brew / easy_install / pip, however pip and easy_install both fail on pandas -- claiming that i do not have numpy > 1.6 (though when in python numpy.__version__ returns 1.6.2).

Despite this pip install numpy --upgrade reports that I am up-to-date.

To hack around this, I git-cloned the source code down, and ran python setup.py install in my /Library/Python/... directory. It seemed to build okay, however when i import pandas, i get an error and i'm not sure what to do about it.

Can anyone help me link the compiled library to my existing install?

The error follows:

dlopen(/usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas-0.9.1.dev_5a152bd-py2.7-macosx-10.7-x86_64.egg/pandas/lib.so, 2): Symbol not found: _floatify
  Referenced from: /usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas-0.9.1.dev_5a152bd-py2.7-macosx-10.7-x86_64.egg/pandas/lib.so
Expected in: flat namespace
in /usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas-0.9.1.dev_5a152bd-py2.7-macosx-10.7-x86_64.egg/pandas/lib.so
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas-0.9.1.dev_5a152bd-py2.7-macosx-10.7-x86_64.egg/pandas/__init__.py", line 10, in <module>
import pandas.lib as lib
ImportError: dlopen(/usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas-0.9.1.dev_5a152bd-py2.7-macosx-10.7-x86_64.egg/pandas/lib.so, 2): Symbol not found: _floatify
Referenced from: /usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas-0.9.1.dev_5a152bd-py2.7-macosx-10.7-x86_64.egg/pandas/lib.so
Expected in: flat namespace
in /usr/local/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas-0.9.1.dev_5a152bd-py2.7-macosx-10.7-x86_64.egg/pandas/lib.so

Answer 1

This was discussed and resolved on GitHub: https://github.com/pydata/pandas/issues/2188 . The issue had to due with Clang's C99 behavior wrt inline C functions.

Answer 2

Fixed the root problem ( pip install pandas failing) on my MBP, and then tested it on another box -- the problem seems to be a conflict between the old version of numpy that comes with the mac install, and the newer one subsequently installed using pip . Pandas sees the old numpy, and fails.

To fix this, cd to the location of the default packages. Yours is probably the same as mine:

$ cd /System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/ 
$ sudo rm -r numpy

$ sudo pip install pandas

With that out of the way, sudo pip install pandas worked for me on both boxes.