[yt-users] SciPy and YT problem

[trobolo dinni]

The installation worked fine and I can now import yt while in the system
python as a standard library. Now I'll check if every feature works fine.
Thank you very much for the help Mike!

Cheers,
               Roberto


2012/8/26 trobolo dinni <trobolo.trobolo.dinni5 at gmail.com>

> Hi Mike,
>
> Thank you very much for the suggestion, I will try this way.
>
> Cheers,
>                Roberto
>
>
> 2012/8/26 Michael Kuhlen <mqk at astro.berkeley.edu>
>
>> Hi Roberto
>>
>> This is one reason why I typically install yt manually using the
>> system's python installation, instead of running the yt install
>> script. It's really quite straightforward, just go to $YTDIR/ and do
>> "python ./setup.py build", followed by "python ./setup.py install
>> --prefix=$HOME/local", and then make sure that your PYTHONPATH
>> environment variable includes $HOME/local/lib/python2.7/site-packages.
>> Of course with this approach you also have to install all the other
>> yt-dependencies using you system's python (using apt-get,
>> easy_install, pip, or whatever). If you decide to go down this route
>> you may want to start from scratch with your yt installation, since if
>> you did run the yt install script then it probably installed all those
>> packages with the yt-provided python. YMMV.
>>
>> Apologies to the yt dev's if I'm giving non-standard recommendations
>> here, but this works for me.
>>
>> Mike
>>
>>
>> On Sat, Aug 25, 2012 at 8:45 AM, j s oishi <jsoishi at gmail.com> wrote:
>> > The libraries may be, but the headers necessary to build them probably
>> are
>> > not. If you're on ubuntu, you may need to install the blas-dev package
>> or
>> > whatever it may be called. Or you could build Blas and atlas from
>> sources.
>> > This difficulty with building is why we avoid shipping scipy with yt.
>> Sorry
>> > it's such a pain!
>> >
>> > I am away from my computer, so I am afraid I can't help further.
>> >
>> > On Aug 25, 2012 11:11 AM, "trobolo dinni" <
>> trobolo.trobolo.dinni5 at gmail.com>
>> > wrote:
>> >>
>> >> Hi Jeff,
>> >>
>> >> I already tried that way and I get the same error about Alias and Blas
>> >> libraries missing (attached)...
>> >> My question is: since SciPy works fine with the system python, don't
>> those
>> >> libraries should be already in the system?
>> >>
>> >>
>> >> Thanks,
>> >>                 Roberto
>> >>
>> >>
>> >> 2012/8/25 j s oishi <jsoishi at gmail.com>
>> >>>
>> >>> Hi Roberto,
>> >>>
>> >>> Try activating yt and then typing
>> >>>
>> >>> pip install scipy
>> >>>
>> >>> I am not sure that will work, but if it does, scipy will certainly be
>> in
>> >>> the right place.
>> >>>
>> >>> Jeff
>> >>>
>> >>> On Aug 25, 2012 10:42 AM, "roberto iaconi" <robertoiaconi at yahoo.it>
>> >>> wrote:
>> >>>>
>> >>>> Dear YT users,
>> >>>>
>> >>>> I have a problem in installing the SciPy library when using YT
>> python,
>> >>>> what happens is that:
>> >>>>
>> >>>> -when installing from packages, also after activating yt (i.e.
>> through
>> >>>> the command sudo apt-get install python-scipy) I get the
>> confirmation that
>> >>>> SciPy is correctly installed but i cannot import it in YT python,
>> since
>> >>>> probably the installation is connected to the system python instead.
>> >>>> -when installing from source (by downloading the packages) I get a
>> lot
>> >>>> of errors concerning missing libraries (mainly blas and atlas).
>> >>>> I installed them and added the paths to a "site.cfg" file, but I am
>> >>>> still getting the same error.
>> >>>>
>> >>>> Also, I appended the system SciPy path through the sys.path.append()
>> >>>> function, in this way I can succesfully import SciPy, but I cannot
>> import
>> >>>> any sublibrary such as SciPy.optimize (which is the one I
>> particularly
>> >>>> need).
>> >>>>
>> >>>> By browsing the YT Mailing List I found a user with a similar problem
>> >>>> (
>> http://lists.spacepope.org/htdig.cgi/yt-users-spacepope.org/2011-July/001694.html
>> ),
>> >>>> but there are no suggestions in reply.
>> >>>>
>> >>>> I would like to ask if there is a way to get SciPy installed under
>> YT or
>> >>>> make it available to be included.
>> >>>>
>> >>>> Cheers,
>> >>>>                 Roberto
>> >>>>
>> >>>> _______________________________________________
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>> >>>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>> >>>>
>> >>>
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>> >>
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>>
>> --
>> *********************************************************************
>> *                                                                   *
>> *  Dr. Michael Kuhlen              Theoretical Astrophysics Center  *
>> *  email: mqk at astro.berkeley.edu   UC Berkeley                      *
>> *  cell phone: (831) 588-1468      B-116 Hearst Field Annex # 3411  *
>> *  skype username: mikekuhlen      Berkeley, CA 94720               *
>> *                                                                   *
>> *********************************************************************
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