[yt-users] SciPy and YT problem
Michael Kuhlen
mqk at astro.berkeley.edu
Mon Aug 27 14:25:07 PDT 2012
If you've done this before, or know how to do it quickly, yes please!
I imagine a PPA would be useful for quite a few users.
I've never made a PPA myself. But from a quick googling I found the
following docs, with which I could probably figure it out:
http://askubuntu.com/questions/28562/how-do-i-create-a-ppa-for-a-working-program
https://wiki.ubuntu.com/PackagingGuide/Complete
https://help.launchpad.net/Packaging/PPA/Uploading
Would you like me to give it a try?
Mike
On Mon, Aug 27, 2012 at 1:49 PM, Matthew Turk <matthewturk at gmail.com> wrote:
> 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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>>>> >>>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
>>>> >>>>
>>>> >>>
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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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* Dr. Michael Kuhlen Theoretical Astrophysics Center *
* email: mqk at astro.berkeley.edu UC Berkeley *
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