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

[Chris Walter]

Hi Heather,

> If I do:
> bash-4.1$ conda list numpy
> # packages in environment at
> /astro/astronfs01/workarea/lsst/software/anaconda/1.8.0:
> #
> numpy                     1.7.1                    py27_0
> 
> 
> I'm trying Winter 2013 (as that has been the version we've stuck with
> for awhile)..and it does seem to be set up to use numpy 1.6.  I'm
> thinking I need to move to Summer2013...   I'll try that
> now and cross my fingers.

Hmm... OK, well it sounds like you accidentally still built numpy when you built Winter2013.  Check that you did the manifest remap steps correctly.  If you do it right you won't have any numpy1.6 for eups to load.

Good luck,

-Chris


> Take care,
> Heather
> 
> On 2/7/2014 12:01 PM, Chris Walter wrote:
>> 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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