[lsst-dm-stack-users] Trying out the Anaconda python with a RHEL6 installation

[Chris Walter]

Hi Heather,

> 
> Ok.. so here's the real issue I think..  when I go to run one of our
> scripts that uses scipy, I receive an error:
> 
> RuntimeError: module compiled against API version 7 but this version of
> numpy is 6

I went ahead and built everything on our RHEL6 system yesterday using anaconda 1.8 and Summer2013.  I saw this too, and for me it was a bug in the anaconda system.

I did a 'conda update ananconda' after I finished and it downgraded the numpy version for some reason.  It seems to be some bug related to their package system now.  See here:

Here is a bug report of someone else who saw it:

https://groups.google.com/a/continuum.io/forum/#!topic/conda/xigGqdqeHfw

Since I compiled DM with the python version before I did this (numpy version 2.7) I got this error.  In the end, I wiped out and re-downloaded Anaconda and it started working again.  

So check that you have the right version by doing a 

conda list numpy

and see if you have the same problem.

-Chris



> Traceback (most recent call last):
>  File
> "/astro/astronfs01/workarea/lsst/software/lsstCameraSensor/eotest/bin/run_sims.py",
> line 13, in <module>
>    from lsst.eotest.sensor.PhotodiodeResponse \
>  File
> "/astro/astronfs01/workarea/lsst/software/lsstCameraSensor/eotest/python/lsst/eotest/sensor/__init__.py",
> line 9, in <module>
>    from fe55_psf import PsfGaussFit
>  File
> "/astro/astronfs01/workarea/lsst/software/lsstCameraSensor/eotest/python/lsst/eotest/sensor/fe55_psf.py",
> line 10, in <module>
>    import scipy.optimize
>  File
> "/astro/astronfs01/workarea/lsst/software/anaconda/1.8.0/lib/python2.7/site-packages/scipy/optimize/__init__.py",
> line 146, in <module>
>    from .optimize import *
>  File
> "/astro/astronfs01/workarea/lsst/software/anaconda/1.8.0/lib/python2.7/site-packages/scipy/optimize/optimize.py",
> line 35, in <module>
>    from .linesearch import (line_search_BFGS, line_search_wolfe1,
>  File
> "/astro/astronfs01/workarea/lsst/software/anaconda/1.8.0/lib/python2.7/site-packages/scipy/optimize/linesearch.py",
> line 16, in <module>
>    from scipy.optimize import minpack2
> ImportError: numpy.core.multiarray failed to import
> 
> 
> Anaconda came along with numpy 1.7.1, but the DMstack is expecting
> 1.6.2+1..and I suspect downloaded it and used it rather than the
> Anaconda version.  Does that seem possible?
> Similiarly I see matplotlib 1.1.1+2 installed under DM while Anaconda
> has 1.3.1.  Definitely need the Anaconda version of numpy to be used,
> while maybe it doesn't matter for matplotlib.
> 
> If I fire up python, I see:
> Python 2.7.5 |Anaconda 1.8.0 (64-bit)| (default, Nov  4 2013, 15:30:26)
> [GCC 4.1.2 20080704 (Red Hat 4.1.2-54)] on linux2
> Type "help", "copyright", "credits" or "license" for more information.
>>>> import numpy
>>>> print numpy.__version__
> 1.6.2
> 
> so somehow my environment picks that older version of numpy up rather
> than the Anaconda version.  Help!  :)
> 
> Take care,
> Heather
> 
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