[yt-users] SciPy and YT problem

trobolo dinni trobolo.trobolo.dinni5 at gmail.com
Sun Aug 26 00:43:59 PDT 2012


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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