[Biojava-dev] BioJava3 on Maven Central?

[Andreas Prlic]

Hi Michael,

you are probably one of the biggest Maven experts on the list, would you
like to take on the project to get BioJava set up on Maven Central? I
believe you already did it once for one of the 1.X versions...

That would be great help...

Andreas




On Sun, May 8, 2011 at 9:07 PM, Michael Heuer <heuermh at acm.org> wrote:

> I think we need to try (again) to push our external dependencies to
> publish to Maven Central so that we can in turn, or remove or replace
> those external dependencies if that is not possible.
>
> Sonatype will explicitly not allow option 1) below, see
>
>
> https://docs.sonatype.org/display/Repository/Sonatype+OSS+Maven+Repository+Usage+Guide#SonatypeOSSMavenRepositoryUsageGuide-6.CentralSyncRequirement
>
> and I can't imagine Apache would allow the rsync option from the biojava
> repository, as they aren't really supporting that any more.
>
>   michael
>
>
> On Thu, 5 May 2011, Andreas Prlic wrote:
>
> > Hi Trevor,
> >
> > I guess in principle we would like to have all of BioJava  in Maven
> > central, however as you already know there is the issue with the
> > external dependencies...
> >
> > Not all of the modules have external dependencies. However I am not
> > sure how helpful a partial upload of BioJava would be, containing only
> > a sub-set of the available libraries...
> >
> > Andreas
> >
> >
> >
> >
> > On Thu, May 5, 2011 at 7:08 AM, PATERSON Trevor
> > <trevor.paterson at roslin.ed.ac.uk> wrote:
> > > Hi guys
> > >
> > > We are keen to publish our JEnsembl artifacts on Maven Central, and our
> JEnsembl code depends on the biojava3-core artifact.
> > >
> > > (see http://jensembl.sourceforge.net/).
> > >
> > > Central now strongly discourage referring to external repositories
> (like biojava) because there is no guarantee of permanence.
> > >
> > > (see
> http://www.sonatype.com/people/2010/03/why-external-repos-are-being-phased-out-of-central/
> ).
> > >
> > > I know that external dependencies were a snafu last time publishing
> biojava on Central was discussed - is that still the case?
> > >
> > > Unless you have considered again publishing to Central, if we do go
> ahead with publishing JEnsembl on Central we will have to either
> > >
> > > 1. ignore Central's recommendations and include the reference to the
> biojava repository (if they let us get away with that)
> > >
> > > or
> > >
> > > 2. upload biojava3-core to Central  ourselves, as an external
> dependency
> > >
> > > (see
> https://docs.sonatype.org/display/Repository/Uploading+3rd-party+Artifacts+to+Maven+Central
> ).
> > >
> > > this would involve bundling up and signing the pom/binary/source and
> javdoc artifacts and uploading through Sonatype.
> > > (NB biojava yourself wouldn't be allowed to do this as you are not 3rd
> party!)
> > >
> > > My personal preference would be option 1, as option 2 seems a bit
> 'cheeky' aswell as redundant and smelly,
> > > and personally I have no concerns about the reliability of the biojava
> repo in the medium term.
> > >
> > > However Maven central documents seem to be really heavily against
> this....
> > >
> > > what are your thought on this?
> > >
> > > The Maven etiquette on uploading 3rd party dependencies suggests that
> the first step is confirming whether you have any plans to upload to
> Central....
> > >
> > > cheers
> > > trevor
> > >
> > >
> > >
> > > Trevor Paterson PhD
> > > trevor.paterson at roslin.ed.ac.uk<mailto:trevor.paterson at roslin.ed.ac.uk
> >
> > >
> > > Bioinformatics
> > > The Roslin Institute
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> > > Scotland UK
> > >
> > > phone +44 (0)131 651 9157
> > >
> > > http://bioinformatics.roslin.ed.ac.uk/
> > >
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> >
> > --
> > -----------------------------------------------------------------------
> > Dr. Andreas Prlic
> > Senior Scientist, RCSB PDB Protein Data Bank
> > University of California, San Diego
> > (+1) 858.246.0526
> > -----------------------------------------------------------------------
> >
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>


-- 
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Dr. Andreas Prlic
Senior Scientist, RCSB PDB Protein Data Bank
University of California, San Diego
(+1) 858.246.0526
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