[Debian-med-packaging] Bug#921495: libbio-perl-perl: Package not upgradable, file conflicts.

[Andreas Tille]

Hi Carnë,

On Wed, Feb 06, 2019 at 01:18:26PM +0000, Carnë Draug wrote:
> This is by design and is mentioned on the release Changes file:
> 
>     * The following modules are new in the BioPerl distribution.  They
>       have been previously released in the BioPerl-Run distribution.
>       This will enable smaller distributions that provide a
>       Bio::Tool::Run interface, to be only dependent on the BioPerl
>       distribution instead of the whole (very large) BioPerl-Run:
> 
>           Bio::Tools::Run::Analysis
>           Bio::Tools::Run::AnalysisFactory
>           Bio::Tools::Run::Phylo::PhyloBase
>           Bio::Tools::Run::WrapperBase
>           Bio::Tools::Run::WrapperBase::CommandExts

Thanks for the clarification.
 
> I guess the fix for this is to have in bioperl's d/control:
> 
>     Breaks: libbio-perl-run-perl (<< 1.7.3)
> 
> It would be nice if upstream did a new release of bioperl-run soon
> without those modules.  I have prepared the upstream repository and
> have requested them to make a release but I don't know when it will
> happen.
> 
> Alternatively, you could remove those files in Debian and have a
> bioperl-run version 1.7.2-4.

This is what I've though about: Removing the files from bioperl-run
(which would be 1.7.2-5 then)

Kind regards

       Andreas.


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