akes sense to remove this copy of bioperl
> even in your distribution. What do you think?
>
> Kind regards
>
>Andreas.
>
>
> --
> http://fam-tille.de
>
--
*Lincoln Stein*
Scientific Director (Interim), Ontario Institute for Cancer Research
Director, Informatics and
oln,
>
>
>
> On Wed, Jan 18, 2017 at 07:07:55AM -0500, Lincoln Stein wrote:
>
> >
>
> > There appears to be a new dependency on libbio-coordinate. Probably best
> to
>
> > add a "use Bio::Coordinate" and the dependency to Bio::Graphics. Then the
:Coordinate" and the dependency to Bio::Graphics. Then the
problem will disappear.
Lincoln
On Wed, Jan 18, 2017 at 7:00 AM, Lincoln Stein
wrote:
> Ok, here is the last key piece of information. Replacing source-built
> Bioperl with the debian bioperl-1.7.1-1 package from
> https
both versions of bioperl), but this has no effect one way
or another.
Conclusion: something in the bioperl debian 1.7.1-1 package is causing the
test failures.
Lincoln
On Wed, Jan 18, 2017 at 6:43 AM, Lincoln Stein
wrote:
> Hi,
>
> Unfortunately I can't reproduce the testing failures
the libbio-graphics package? In any case, I'm
stuck in the "works for me" phase.
Lincoln
On Tue, Jan 17, 2017 at 2:07 AM, Andreas Tille wrote:
> Hi Lincoln,
>
> On Mon, Jan 16, 2017 at 06:14:34PM -0500, Lincoln Stein wrote:
> > I need a little help to reproduce
n 17, 2017 at 6:27 PM gregor herrmann wrote:
> On Tue, 17 Jan 2017 18:06:02 -0500, Lincoln Stein wrote:
>
>
>
> > Not good! But I believe that Gregor found that all these were caused by
> the
>
> > testing suite not finding the proper data files due to an assu
to get up to the same point you got to?
Lincoln
On Tue, Jan 17, 2017 at 2:07 AM, Andreas Tille wrote:
> Hi Lincoln,
>
> On Mon, Jan 16, 2017 at 06:14:34PM -0500, Lincoln Stein wrote:
> > I need a little help to reproduce Gregor's failed tests, given that I'm a
> >
oundation
> Europe
>`- NP: Michael Penn: Trampoline
>
> -BEGIN PGP SIGNATURE-
>
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> aXNzdWVyLWZwckBub3RhdGlvbnMub3BlbnBncC5maWZ0aGhvcnNlbWFuLm5ldEQx
> RTEzMTZFOTNBNzYwQTgxMDREODVGQUJCM0E2ODAxODY0OUFB
Oh dear. What happens when you just "Build test" on the git checkout?
Sounds like path issues. I can try applying the Deb patches and try to
reproduce. Unfortunately I am a Deb packaging newbie.
Lincoln
On Mon, Jan 16, 2017 at 3:01 PM gregor herrmann wrote:
> On Mon, 16 Jan 2017 16:45:52 +0
g
> > fix branch:
> >
> > https://github.com/GMOD/GBrowse/pull/59
> >
> > Scott
> >
> >
> > On Thu, Jan 12, 2017 at 1:57 PM, Lincoln Stein
> > wrote:
> >
> > > Hi Andreas,
> > >
> > > I was able to remove the va
>> So as far as I can see if we can solve the gbrowse issue the migration
> >> to 1.7.1 seems possible.
> >>
> >> What do you think?
> >
> > I decided to go with version 1.7.1 for Stretch since all rdepends except
> > gbrowse are working an
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