[yt-users] SciPy and YT problem
Matthew Turk
matthewturk at gmail.com
Mon Aug 27 13:49:26 PDT 2012
Hi Roberto and Mike,
Would it be worthwhile to try to make PPAs on Ubuntu for this?
-Matt
On Mon, Aug 27, 2012 at 5:32 AM, trobolo dinni
<trobolo.trobolo.dinni5 at gmail.com> wrote:
> 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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>>>
>>> --
>>> *********************************************************************
>>> * *
>>> * 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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