[yt-users] SciPy installation problem

Caroline Van Borm borm at astro.rug.nl
Mon Jan 19 08:51:12 PST 2015


Hi all,

Thank you all for your suggestions! It turns out that iraf is installed 
on my work desktop and it somehow changes the F77 environment variable. 
After changing it back to /usr/bin/f77 I was able to install SciPy. 
However, when I now try to do 'from scipy.integrate import odeint' for 
example, I get the following error message:

    In [2]: from scipy.interpolate import odeint
    ---------------------------------------------------------------------------
    ImportError                               Traceback (most recent
    call last)
    /data/users/borm/YT/yt-x86_64/src/yt-hg/scripts/iyt in <module>()
    ----> 1 from scipy.interpolate import odeint

    /data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/interpolate/__init__.py
    in <module>()
         148 from __future__ import division, print_function,
    absolute_import
         149
    --> 150 from .interpolate import *
         151 from .fitpack import *
         152

    /data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/interpolate/interpolate.py
    in <module>()
          10                   dot, poly1d, asarray, intp
          11 import numpy as np
    ---> 12 import scipy.special as spec
          13 import math
          14

    /data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/special/__init__.py
    in <module>()
         527 from __future__ import division, print_function,
    absolute_import
         528
    --> 529 from ._ufuncs import *
         530 from ._ufuncs_cxx import *
         531

    ImportError:
    /data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/scipy/special/_ufuncs.so:
    undefined symbol: s_stop


It seems this is again related to the compiler, but I'm not sure what to 
do about it. I have tried once more to set the NUMPY_ARGS to the 
different options in the install script, and also to install yt without 
SciPy and then install it using 'pip install scipy', but every time I 
get the same error. My OS is Scientific Linux 6, by the way.

Cheers,
Caroline



On 01/14/2015 05:32 PM, Peter Teuben wrote:
> I suspect this is a side-effect of the iraf virus.  I too have often 
> run into the f77 trojan that comes to light
> in some (all?) iraf installations, and configure doesn't deal with it 
> very well.
>
>
> On 01/13/2015 12:10 PM, Caroline Van Borm wrote:
>> Dear yt users,
>>
>> I'm having some trouble installing SciPy. I can install yt just fine 
>> using the install script, but if I turn the option for installing 
>> SciPy on, I get the following error:
>>
>>     creating build/temp.linux-x86_64-2.7/scipy/fftpack/src/dfftpack
>>     compile options:
>>     '-I/data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/numpy/core/include
>>     -c'
>>     f77.sh:f77: scipy/fftpack/src/dfftpack/dsint.f
>>     Cannot open file dsint.f
>>     gcc: dsint.c: No such file or directory
>>     gcc: no input files
>>     Cannot open file dsint.f
>>     gcc: dsint.c: No such file or directory
>>     gcc: no input files
>>     error: Command "/iraf/iraf/unix/hlib//f77.sh -Wall -ffixed-form
>>     -fno-second-underscore -fPIC -O3 -funroll-loops
>>     -I/data/users/borm/YT/yt-x86_64/lib/python2.7/site-packages/numpy/core/include
>>     -c -c scipy/fftpack/src/dfftpack/dsint.f -o
>>     build/temp.linux-x86_64-2.7/scipy/fftpack/src/dfftpack/dsint.o"
>>     failed with exit status 1
>>
>> I've tried uncommenting the NUMPY_ARGS lines one by one as suggested 
>> in the script, but none of that seems to work.
>> I'm using yt version 2.6.1, changeset e0906fc5b6d5, if that helps.
>>
>> Any ideas on how to fix this? Thanks!
>>
>> Cheers,
>> Caroline
>>
>>
>> _______________________________________________
>> yt-users mailing list
>> yt-users at lists.spacepope.org
>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>
>
>
> _______________________________________________
> yt-users mailing list
> yt-users at lists.spacepope.org
> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.spacepope.org/pipermail/yt-users-spacepope.org/attachments/20150119/1bc86886/attachment.htm>
-------------- next part --------------
_______________________________________________
yt-users mailing list
yt-users at lists.spacepope.org
http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org


More information about the yt-users mailing list