Re: [MoM] deepnano getting info from maintainer

Hi Andreas, I push some changes for deepnano. Used a few poretools data for the deepnano-data because poretools use pybuild for packaging. When I create new package in control file (for split packaging) poretools package created with empty package. I dont want to change the way this package builde

Re: Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: Fails to build from source since bioperl upgrade has broken libbio-graphics-perl)

Hi all, In the short term, I’m actually listed as co-maint on Bio-Graphics and BioPerl-Run. I can work on a new release for BioPerl-Run that address those specific issues (as well as other missing dependencies I found), but Bio-Graphics has some additional versioning problems with CPAN that ne

Re: [Bioperl-l] Latest BioPerl (version 1.7.1) is lacking wrapper support

Hi Christopher, On Fri, Dec 16, 2016 at 12:38:03PM +, Fields, Christopher J wrote: > >bioperl-run (adding bioperl mailing list to CC) but can Debian patch > >bioperl-run to include those files like upstream has done for the > >next release? > > > >Carnë > > > >[1] > >https://github.com/bioper

Re: [Bioperl-l] Latest BioPerl (version 1.7.1) is lacking wrapper support

On 12/16/16, 5:11 AM, "Bioperl-l on behalf of Carnë Draug" wrote: >On 16 December 2016 at 10:02, Andreas Tille wrote: >> Hi, >> >> when trying to run Bioperl-run unit tests while BioPerl 1.7.1 is >> installed (on a Debian system with the current Debian package in >> unstable) I get lots of er

Re: Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: Fails to build from source since bioperl upgrade has broken libbio-graphics-perl)

Hello everybody, and thanks Carnë for the quick answer ! Le Fri, Dec 16, 2016 at 01:06:35PM +0100, Andreas Tille a écrit : > > On Fri, Dec 16, 2016 at 11:38:02AM +, Carnë Draug wrote: > > > For example, there is now > > bio-biblio, bio-eutilities, and bio-coordinates which were previously pa

Re: Latest BioPerl (version 1.7.1) is lacking wrapper support

On Fri, Dec 16, 2016 at 01:08:50PM +0100, Andreas Tille wrote: > > bioperl-run (adding bioperl mailing list to CC) but can Debian patch > > bioperl-run to include those files like upstream has done for the > > next release? > > I'd prefer an official release but if there is no better chance we > c

Re: Latest BioPerl (version 1.7.1) is lacking wrapper support

Hi Carnë, On Fri, Dec 16, 2016 at 11:11:33AM +, Carnë Draug wrote: > > That module (Bio::Tools::Run::WrapperBase) is now part of bioperl-run [1]. > Unfortunately, it seems that there has been no new release of bioperl-run > since that change. Thanks for this valuable information. > I am no

Re: Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: Fails to build from source since bioperl upgrade has broken libbio-graphics-perl)

Hi Carnë, On Fri, Dec 16, 2016 at 11:38:02AM +, Carnë Draug wrote: > >> The cause is most probably that libbio-graphics-perl does not work > >> together with bioperl 1.7.1 (see also #848105). I'm now becoming aware > >> that with the naive upgrade to bioperl 1.7.1 we have triggered problems >

Application for approval of the Debian Med Sprint 2017

The DebianMed team is planning to hold a Sprint meeting in Bucharest, Romania from January 12th to January 16th, 2017.. This is the 7th sprint event of the team. More info will come on the wiki page: https://wiki.debian.org/Sprints/2017/DebianMed2017 The goals of this sprint is to progress on med

Re: Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: Fails to build from source since bioperl upgrade has broken libbio-graphics-perl)

On 16 December 2016 at 09:50, Andreas Tille wrote: > On Thu, Dec 15, 2016 at 02:45:06PM +0100, Andreas Tille wrote: >> Package: src:gbrowse >> Severity: serious >> Justification: FTBFS >> >> Hi, >> >> when trying to build gbrowse it fails to build from source: >> >> ... >> CGI::param called in lis

Re: Latest BioPerl (version 1.7.1) is lacking wrapper support

On 16 December 2016 at 10:02, Andreas Tille wrote: > Hi, > > when trying to run Bioperl-run unit tests while BioPerl 1.7.1 is > installed (on a Debian system with the current Debian package in > unstable) I get lots of errors of type > >Can't locate Bio/Tools/Run/WrapperBase.pm in @INC (you ma

Bug#848335: src:filo: Please add autopkgtest

Package: src:filo Severity: normal Tags: newcomer Hi, please add an autopkgtest to filo and join our advent calendar bug squashing party by doing so. Kind regards Andreas. -- System Information: Debian Release: 8.6 APT prefers stable-updates APT policy: (500, 'stable-updates'), (50

Bug#848332: src:poa: Please add autopkgtest

Package: src:poa Severity: normal Tags: newcomer Hi, please add an autopkgtest to poa and join our advent calendar bug squashing party by doing so. Kind regards Andreas. -- System Information: Debian Release: 8.6 APT prefers stable-updates APT policy: (500, 'stable-updates'), (500,

Bug#848334: src:picard-tools: Please add autopkgtest

Package: src:picard-tools Severity: normal Tags: newcomer Hi, please add an autopkgtest to picard-tools and join our advent calendar bug squashing party by doing so. Kind regards Andreas. -- System Information: Debian Release: 8.6 APT prefers stable-updates APT policy: (500, 'stable-u

Bug#848333: src:proda: Please add autopkgtest

Package: src:proda Severity: normal Tags: newcomer Hi, please add an autopkgtest to proda and join our advent calendar bug squashing party by doing so. Kind regards Andreas. -- System Information: Debian Release: 8.6 APT prefers stable-updates APT policy: (500, 'stable-updates'),

Bug#848329: src:prank: Please add autopkgtest

Package: src:prank Severity: normal Tags: newcomer Hi, please add an autopkgtest to prank and join our advent calendar bug squashing party by doing so. Kind regards Andreas. -- System Information: Debian Release: 8.6 APT prefers stable-updates APT policy: (500, 'stable-updates'), (500

Bug#848330: src:dialign-t: Please add autopkgtest

Package: src:dialign-t Severity: normal Tags: newcomer Hi, please add an autopkgtest to dialign-t and join our advent calendar bug squashing party by doing so. Kind regards Andreas. -- System Information: Debian Release: 8.6 APT prefers stable-updates APT policy: (500, 'stable-update

Bug#848328: src:fsa: Please add autopkgtest

Package: src:fsa Severity: normal Tags: newcomer Hi, please add an autopkgtest to fsa and join the Debian Med advent calendar bug squashing party by doing so. Kind regards Andreas. -- System Information: Debian Release: 8.6 APT prefers stable-updates APT policy: (500, 'stable-updates

Bug#848326: src:mapdamage: Please add autopkgtest

Package: src:mapdamage Severity: normal Tags: newcomer Hi, I'm filing a set of bugs for packages where an autopkgtest would make some sense considering its importance due to the number of active users (based on popcon values). Since adding tests should be a task for newcomers the bugs will be ta

Re: Debianmed sprint

Hello, Right, we need to get the DPL's approval, even though I never asked my expenses to be covered ;o/ I can prepare for that together with Michael. Please all just add your names on the Sprint page. Something else that came to mind, which is that we should think about lowering mental hurdles

Latest BioPerl (version 1.7.1) is lacking wrapper support

Hi, when trying to run Bioperl-run unit tests while BioPerl 1.7.1 is installed (on a Debian system with the current Debian package in unstable) I get lots of errors of type Can't locate Bio/Tools/Run/WrapperBase.pm in @INC (you may need to install the Bio::Tools::Run::WrapperBase module) Wh

Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: Fails to build from source since bioperl upgrade has broken libbio-graphics-perl)

Hi, this is a very *urgent* call to all BioPerl users to raise their opinion. To verify what else might be broken by the new BioPerl I tested its rdepends. I stumbled upon bioperl-run which is making heavy use of /usr/share/perl5/Bio/Tools/Run/WrapperBase.pm which is also removed from late