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Groups > linux.debian.maint.python > #8018

Re: Enabling Python bindings for jellyfish

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I think the respective maintainers should talk and then discuss with their 
upstreams as the collision potential isn't just in Debian.

Scott K

On Tuesday, December 29, 2015 12:27:37 PM Paul Tagliamonte wrote:
> Just FYI - there's a Python module called Jellyfish about to be uploaded;
> can we resolve the name collision early?
> 
> https://pypi.python.org/pypi/jellyfish
> 
> Paul
> 
> On Tue, Dec 29, 2015 at 12:06 PM, Scott Kitterman <debian@kitterman.com>
> 
> wrote:
> > On Tuesday, December 29, 2015 11:52:07 AM Scott Kitterman wrote:
> > > On Tuesday, December 29, 2015 12:30:14 AM Andreas Tille wrote:
> > > > Hi,
> > > > 
> > > > I realised that for jellyfish[1] Python bindings can be activated.  I
> > > > tried to do so and configuring and building works fine - but I have no
> > > > idea how to sensibly install the files into the python-jellyfish
> > > > package.  Any idea how to call swig/python/setup.py or do something
> > 
> > else
> > 
> > > > to install the files into the right location.
> > > > 
> > > > Any help?
> > > > 
> > > > Kind regards
> > > > 
> > > >         Andreas.
> > > > 
> > > > [1] git://anonscm.debian.org/debian-med/jellyfish.git
> > > 
> > > I haven't been able to actually test this since when I try to build it,
> > > I
> > > get this error:
> > > 
> > > jellyfish_wrap.cxx:3104:33: fatal error: jellyfish/mer_dna.hpp: No such
> > 
> > file
> > 
> > > or directory
> > > 
> > > I think it should ~work.  Note that these bindings are for python3, not
> > > python.  I've adjusted things accordingly.  The configure changes I made
> > 
> > (so
> > 
> > > that configure wouldn't fail) mean perl bindings don't get built
> > 
> > either.  I
> > 
> > > didn't check if that was working before.
> > > 
> > > Scott K
> > 
> > Correction: It's not in the diff, but I had to remove the auto-configure
> > override to get through configure.
> > 
> > Scott K

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Thread

Enabling Python bindings for jellyfish Andreas Tille <andreas@an3as.eu> - 2015-12-29 00:40 +0100
  Re: Enabling Python bindings for jellyfish Scott Kitterman <debian@kitterman.com> - 2015-12-29 18:00 +0100
    Re: Enabling Python bindings for jellyfish Scott Kitterman <debian@kitterman.com> - 2015-12-29 18:10 +0100
      Re: Enabling Python bindings for jellyfish Paul Tagliamonte <paultag@ubuntu.com> - 2015-12-29 18:30 +0100
        Re: Enabling Python bindings for jellyfish Paul Tagliamonte <paultag@ubuntu.com> - 2015-12-29 19:00 +0100
          Re: Enabling Python bindings for jellyfish Scott Kitterman <debian@kitterman.com> - 2015-12-29 20:30 +0100
        Re: Enabling Python bindings for jellyfish Scott Kitterman <debian@kitterman.com> - 2015-12-29 19:00 +0100
          Re: Enabling Python bindings for jellyfish "Diego M. Rodriguez" <diego.plan9@gmail.com> - 2015-12-29 19:30 +0100
            Re: Enabling Python bindings for jellyfish Paul Tagliamonte <paultag@ubuntu.com> - 2015-12-29 20:10 +0100
              Re: Enabling Python bindings for jellyfish Andreas Tille <andreas@an3as.eu> - 2015-12-29 21:50 +0100
              Re: Enabling Python bindings for jellyfish "Diego M. Rodriguez" <diego.plan9@gmail.com> - 2015-12-31 18:40 +0100
                Re: Enabling Python bindings for jellyfish Scott Kitterman <debian@kitterman.com> - 2015-12-31 18:50 +0100
                Re: Enabling Python bindings for jellyfish "Diego M. Rodriguez" <diego.plan9@gmail.com> - 2015-12-31 20:30 +0100
                Re: Enabling Python bindings for jellyfish Andreas Tille <andreas@fam-tille.de> - 2015-12-31 21:40 +0100
                Re: Enabling Python bindings for jellyfish Guillaume Marcais <gmarcais@umd.edu> - 2016-01-01 00:50 +0100
                Re: Enabling Python bindings for jellyfish Andreas Tille <andreas@an3as.eu> - 2016-01-01 19:30 +0100

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