Re: [Pytables-users] PyTables broke in Ubuntu 12.10

[Jason M. <moo...@gm...>]

I'll post the bug report, but I'd like to get this working on my system.
I've always had trouble compiling pytables from source due to the
dependencies. Right now I just need to get this working because I can no
longer use my software now that PyTabes is broken.

Question 1:

What are the exact command for installing for source (including all flags)?
I can't find this explicitly in the documentation especially how to use the
--hdf5 flag and other flags to point to where the dependencies are
installed. I'm trying:

sudo python setup.py build_ext --inplace --hdf5=/usr/lib/libhdf5.so.7

But having little luck. It still can't find my hdf5 library.

Question 2:

I tried your pytables2.4 ppa but it also can't find the hdf5 library. How
can I install the old /usr/lib/lbhdf5.so.6 file? I also remember it being
painful to install the HDF5 libraries from source. Is this file available
in the Ubuntu repositories?

Jason

On Fri, Oct 26, 2012 at 10:16 AM, Antonio Valentino <
ant...@ti...> wrote:

> Hi Jason,
>
> Il 26/10/2012 18:44, Jason Moore ha scritto:
> > Where exactly do I submit the bug report? There doesn't seem to be a bug
> > option here: https://launchpad.net/ubuntu/quantal/+package/python-tables
> >
> > Jason
>
> of course you need a launchpad account, than you can follow instruction
> of the ReportingBugs page on the ubuntu wiki [1]
>
> [1] https://help.ubuntu.com/community/ReportingBugs
>
>
> ciao
>
> > On Thu, Oct 25, 2012 at 11:27 PM, Antonio Valentino <
> > ant...@ti...> wrote:
> >
> >> Hi Jason,
> >>
> >> Il giorno 26/ott/2012, alle ore 07:28, Jason Moore <
> moo...@gm...>
> >> ha scritto:
> >>
> >>> So it looks like python-tables in Ubuntu 12.10 requires libhdf5-7 and
> >> libhdf5-7 has /usr/lib/libhdf5.so.7 not libhdf5.so.6.
> >>
> >> Correct, the hdf5 package has been updated in ubuntu 12.10.
> >> If you use the standard python-tables package from ubuntu repositories
> >> please file a bug report on launchpad.
> >>
> >>
> >>> Jason
> >>>
> >>> On Thu, Oct 25, 2012 at 4:10 PM, Aquil Abdullah <
> >> aqu...@gm...> wrote:
> >>> Can you check to see if libhdf5.so is in your path? If not, you can add
> >> it to the path where it resides to your PATH variable.
> >>>
> >>> Hopefully, that helps.
> >>>
> >>> Aquil H. Abdullah
> >>>
> >>> On Oct 25, 2012, at 18:42, Jason Moore <moo...@gm...> wrote:
> >>>
> >>>> I just updated to Ubuntu 12.10 and my pytables install is broken. I
> >> reinstalled and it seems like I have hdf5 1.8.4 installed but I get this
> >> error:
> >>>>
> >>>> moorepants@moorepants-LT:BicycleDataProcessor(master)$ vitables
> >> InstrumentedBicycleData.h5
> >>>> Traceback (most recent call last):
> >>>>    File "/usr/bin/vitables", line 105, in <module>
> >>>>      main(sys.argv)
> >>>>    File "/usr/bin/vitables", line 48, in main
> >>>>      from vitables.vtapp import VTApp
> >>>>    File "/usr/share/vitables/vitables/vtapp.py", line 35, in <module>
> >>>>      import tables
> >>>>    File "/usr/local/lib/python2.7/dist-packages/tables/__init__.py",
> >> line 30, in <module>
> >>>>      from tables.utilsExtension import getPyTablesVersion,
> getHDF5Version
> >>>> ImportError: libhdf5.so.6: cannot open shared object file: No such
> file
> >> or directory
> >>>>
> >>>> What am I missing?
> >>>>
> >>>> Jason
> >>
> >>
> >> Anyway you can also use the eotools PPA [1] that has a more updated
> >> version of pytables: 2.4 against 2.3.1 of the official universe repo.
> >>
> >> [1]
> >>
> https://launchpad.net/~a.valentino/+archive/eotools?field.series_filter=quantal
> >>
> >> best regards
> >>
> >>
> >> --
> >> Antonio Valentino
>
>
>
> --
> Antonio Valentino
>
>
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