[yt-users] Error on installation of yt on system python
Michael Kuhlen
mqk at astro.berkeley.edu
Wed Feb 20 12:47:03 PST 2013
Yeah, I did figure out the problem. It's that the debian/ubuntu packaging
program dpkg-source doesn't include newly created empty files into the diff
that it uses to build the updated package:
dpkg-source: warning: newly created empty file
'yt/frontends/_skeleton/misc.py' will not be represented in diff
dpkg-source: warning: newly created empty file
'yt/frontends/_skeleton/definitions.py' will not be represented in diff
dpkg-source: warning: newly created empty file
'yt/frontends/athena/misc.py' will not be represented in diff
dpkg-source: warning: newly created empty file
'yt/frontends/athena/__init__.py' will not be represented in diff
The last one is the culprit, because as a result the athena/__init__.py
file doesn't make it into the package, and hence the import fails. Arrgh.
For the life of me I couldn't figure out how to force dpkg-source to
include those newly created empty files, and so in the end I opted for the
slightly hackish fix of adding a comment ("### comment to allow inclusion
in dpkg-source diff file.") to those files. Now the package works, and I've
just uploaded it to my PPA. Should be available in a few hours, once it's
built.
Cheers,
Mike
On Wed, Feb 20, 2013 at 11:25 AM, Matthew Turk <matthewturk at gmail.com>wrote:
> Hey Mike,
>
> I just verified, and in stable we *do* add Athena as a subpackage, so
> I think this should be working. Any ideas as to what might be
> different between the install and the deb?
>
> -MAtt
>
> On Wed, Feb 20, 2013 at 2:23 PM, Michael Kuhlen <mqk at astro.berkeley.edu>
> wrote:
> > OK, the updated Ubuntu packages are available. I just tried them out on
> my
> > ubuntu 12.04.2 LTS and yt-devel works great. With the stable version
> (yt) I
> > get an import error:
> >
> > In [1]: from yt.mods import *
> >
> ---------------------------------------------------------------------------
> > ImportError Traceback (most recent call
> last)
> > <ipython-input-1-c31905f7fc2e> in <module>()
> > ----> 1 from yt.mods import *
> >
> > /usr/lib/pymodules/python2.7/yt/mods.py in <module>()
> > 97 GDFStaticOutput, GDFFieldInfo, add_gdf_field
> > 98
> > ---> 99 from yt.frontends.athena.api import \
> > 100 AthenaStaticOutput, AthenaFieldInfo, add_athena_field
> > 101
> >
> > ImportError: No module named athena.api
> >
> >
> > This is weird, because when I install that exact same changeset
> > (329d11eeff22) from source (with python ./setup.py develop
> > --prefix=$HOME/local) it works just fine. I'll have to investigate. But
> if
> > you're ok with using the development package (yt-devel), then you should
> be
> > good to go.
> >
> > Mike
> >
> >
> >
> >
> > On Wed, Feb 20, 2013 at 2:02 AM, Michael Kuhlen <mqk at astro.berkeley.edu>
> > wrote:
> >>
> >> Hi Roberto
> >>
> >> I'm the maintainer of that ubuntu PPA, sorry you're having trouble with
> >> it. I think maybe all you need to do is to run 'sudo add-apt-repository
> >> ppa:kuhlen/ppa'. Note the trailing '/ppa'. Can you give that a try?
> >>
> >> Otherwise, can you look under /etc/apt/sources.list.d/ and see if
> there's
> >> a file named 'kuhlen-ppa-precise.list'? If there is, what is its
> content?
> >>
> >> I've been a bit remiss in keeping these packages up-to-date, but spurned
> >> by your email I just re-packaged updates to the most recent versions
> (yt:
> >> 329d11eeff22, yt-devel: 09a0fd75818b). Should be available there some
> time
> >> tomorrow.
> >>
> >> Cheers,
> >> Mike
> >>
> >>
> >>
> >>
> >> On Tue, Feb 19, 2013 at 11:32 PM, Kacper Kowalik <
> xarthisius.kk at gmail.com>
> >> wrote:
> >>>
> >>> On 02/18/2013 12:58 AM, trobolo dinni wrote:
> >>> > Hi Nathan,
> >>> >
> >>> > sorry for the delay in replying.
> >>> >
> >>> > To install yt on the system python I followed the procedure you
> >>> > mentioned:
> >>> > entered the yt directory cloned from bitbucket, run "python setup.py
> >>> > install".
> >>> > I did that again to check another time but the error persists.
> >>> >
> >>> > As I said I just reinstalled the same Ubuntu version on the same
> >>> > computer
> >>> > where before yt was usually installed by following the procedure
> above
> >>> > and
> >>> > it was normally running.
> >>> >
> >>> > Could reinstall cython help to solve the problem?
> >>> >
> >>> > Thanks,
> >>> > Roberto
> >>>
> >>> Hi Roberto,
> >>> could you run the following command in your $YT_HG directory:
> >>>
> >>> find . -name "data_point_utilities.*"
> >>>
> >>> and post the output? Also if you could try installing again but provide
> >>> us with build.log.gz from:
> >>>
> >>> cd $YT_HG
> >>> bash ./clean.sh
> >>> python setup.py build | gzip --fast > build.log.gz
> >>>
> >>> What version of ubuntu are you using?
> >>> Cheers,
> >>> Kacper
> >>>
> >>>
> >>>
> >>> _______________________________________________
> >>> yt-users mailing list
> >>> yt-users at lists.spacepope.org
> >>> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org
> >>>
> >>
> >>
> >>
> >> --
> >> *********************************************************************
> >> * *
> >> * 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 *
> >> * *
> >> *********************************************************************
> >
> >
> >
> >
> > --
> > *********************************************************************
> > * *
> > * 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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> >
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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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