Re: Remaining issue with gbrowse - any help (Was: Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: ...)
- To: Lincoln Stein <lincoln.stein@gmail.com>
- Cc: Scott Cain <scott@scottcain.net>, 848236@bugs.debian.org, "Fields, Christopher J" <cjfields@illinois.edu>, Debian Med Project List <debian-med@lists.debian.org>, Charles Plessy <charles@plessy.org>, Olivier Sallou <olivier.sallou@irisa.fr>, Sascha Steinbiss <satta@debian.org>, Carnë Draug <carandraug+dev@gmail.com>, debian-perl@lists.debian.org
- Subject: Re: Remaining issue with gbrowse - any help (Was: Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: ...)
- From: Andreas Tille <andreas@an3as.eu>
- Date: Mon, 16 Jan 2017 05:55:20 +0100
- Message-id: <[🔎] 20170116045520.GN5019@an3as.eu>
- In-reply-to: <CAOS1dzx1U+N9BJAbTVsV4hF9u3GDHuD6mPJw1Pp2phREOaxNJg@mail.gmail.com>
- References: <20161216120635.GA14084@an3as.eu> <20161217221530.GA5014@an3as.eu> <20161221214239.GG3332@an3as.eu> <32E5B2BF-0994-4486-9001-B066949103A7@illinois.edu> <CAOS1dzy53i_wCR0zxzWwZn50p3-=WerYEZ3nCU3gooAvWWJk9Q@mail.gmail.com> <[🔎] 20170112183920.GB16547@an3as.eu> <CAOS1dzwCfkF61qzE0HTyP+VBMEnBtOxrszNQhBQonOq_S=_7dA@mail.gmail.com> <[🔎] CA+JTaoyJ5gxts9fLRRfu9f1Y+9PD9_b5BzD1RLxbhiCxM6f09g@mail.gmail.com> <[🔎] 20170113043717.GE16547@an3as.eu> <CAOS1dzx1U+N9BJAbTVsV4hF9u3GDHuD6mPJw1Pp2phREOaxNJg@mail.gmail.com>
Hi Lincoln,
On Sun, Jan 15, 2017 at 04:25:46PM -0500, Lincoln Stein wrote:
> The bug in the memory adaptor that Scott found turns out to have been from
> using the old perl 1.6.9 installed by the Debian package. Updating to 1.7.1
> (1.007001) fixes the problem.
>
> I have merged all GBrowse changes into git version 2.56 and have made a
> CPAN release. I think you can go ahead and package it.
thanks a lot for your work on this.
For the Debian packaging[1] I imported the new version and tried to
adapt the patches[2] (BTW, I have no idea whether any previous
maintainer of the package pointed to it but some of these might be
interesting to integrate into the upstream code).
Since I learned from Perl team (in CC) that I can exclude tests via
debian/tests/pkg-perl/smoke-skip
I tried to use this feature. Unfortunately this does not work as
expected - at least in the build process. Could anybody with better
Perl skills than me please have a look at the failed build time tests?
Thanks to all who provided help so far to finally fix gbrowse for the
next Debian stable release
Andreas.
[1] https://anonscm.debian.org/git/debian-med/gbrowse.git
[2] https://anonscm.debian.org/cgit/debian-med/gbrowse.git/tree/debian/patches
--
http://fam-tille.de
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