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Re: BioMAJ and getData

----- Mail original -----
> De: "Steffen Möller" <steffen_moeller@gmx.de>
> À: "Debian Med Project List" <debian-med@lists.debian.org>
> Envoyé: Lundi 22 Août 2011 09:10:47
> Objet: BioMAJ and getData
> Dear all,
> with BioMAJ [1] and getData [2], our distro has now two tools in the
> distribution that address the retrieval and post-processing
> of public (or not so public) databases. Hilmar from the OBF has just
> pointed me to an again very different approach towards the
> same by the Open Knowledge Foundation named datapkg [3,4] which is not
> with us, yet. Please have a look at those tools and think
> about which may be the most appropriate for you. My personal hope is
> that we can come up with some way that allows package
> maintainers to specify instructions for associated data to be
> downloaded and suggest to also install the respective data
> management tool. This would allow for a decentralisation of the data
> organisation and help it to scale beyond the most prominent ones.

I made a quick google search, and unfortunately, EBI/NCBI does not seem to provide CKAN links/data.
While I need to investigate further on CKAN, it looks a very interesting solution (but is it enough to describe data, I do not know). It could worth checking with EBI/NCBI guys if such solutions could be deployed.
Indeed, communities (Debian or other) could help to provide packages that describe some data, but those organisms manage the data itself. And, from what I saw, CKAN/datapkg hold the data itself in the package, it does not seem to describe the data/data location. With the existing (and to come) amount of data, it would be quite difficult (this is my point of view) to maintain the packages with the data itself (some databases change every week).

> Cheers,
> Steffen
> [1] http://biomaj.genouest.org/
> [2] http://wiki.debian.org/getData
> [3] http://okfn.org/projects/datapkg/
> [4] http://blog.okfn.org/2010/02/23/introducing-datapkg/
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