Re: [Treebase-devel] Dryad API, advice on cyberinfastructure

[Carl B. <cbo...@gm...>]

Hi Dryad team, Treebase team,

Thanks Hilmar, here's an example:

For instance, this Dryad
entry<http://datadryad.org/handle/10255/dryad.8661> does
not point to this treebase
entry,<http://treebase.org/treebase-web/search/study/anyObjectAsRDF.rdf?namespacedGUID=TB2:S11266>
Perhaps
this is just because it is a recent entry?
The treebase entry in this cahas the Dryad id under a tag I didn't
expect: <tb:title.study
xmlns:tb="http://treebase.org/terms#">dryad_8661</tb:title.study>

Meanwhile this Dryad
entry<http://datadryad.org/handle/10255/dryad.4939?show=full> does
have the treebase identifer, but the treebase entry doesn't have the dryad
identifier<http://treebase.org/treebase-web/search/study/anyObjectAsRDF.rdf?namespacedGUID=TB2:S84>
.

-Carl

On Wed, May 11, 2011 at 7:04 AM, Hilmar Lapp <hl...@ne...> wrote:

> Hi Carl -
>
> first off, the perfect place to ask these and related questions is the
> Dryad Developers Google Group [1], which is public. I'm copying some of this
> thread there.
>
> The DataONE API implementation in R is as far as I understand not pretty
> and far from mature, but in principle functional. I'm copying Dave Vieglais,
> who should be able to point you to the appropriate places in the DataONE svn
> repository.
>
> Our handshaking mechanism with TreeBASE is in principle designed (or was in
> my understanding) such that TreeBASE studyIDs and Dryad DOIs are harvested
> and updated on the respective ends. (Completing a TreeBASE submission is
> asynchronous from, and can take a lot longer than, completing the
> "containing" Dryad submission.) If you have an example for where that
> doesn't seem to have worked, can you post that here?
>
> Cheers,
>
> -hilmar
>
> [1] http://groups.google.com/group/dryad-dev
>
> On May 10, 2011, at 1:30 AM, Carl Boettiger wrote:
>
> Hi Ryan,
>
> I am working on implementing the TreeBASE API in R, and am implemented in
> extending this to the DataDryad and DataONE APIs.  (In case you're curious,
> the project development is currently hosted on github<https://github.com/cboettig/treeBASE>.
> Pretty straight forward, so far just done the PhyloWS side, hoping to do the
> OAI-PMH side next).
>
> Todd suggests that there is already an implementation of the DataONE API in
> R, which is great to hear.  Do you know who's involved in this, and what
> state it's in?  I'd be happy to help test or whatnot.  I've started looking
> at what's available for the investigator-level API<http://mule1.dataone.org/ArchitectureDocs-current/apis/index.html>for DataONE; is this the current documentation?
>
> William Piel also forwarded you a question from my about getting the
> treebase and dryad data better integrated -- the treebase metadata doesn't
> currently include the dryad dois, and it seems the dryad dois don't include
> the treebase study ids.  Certainly this would be a pretty valuable to have,
> though I suppose a work-around might be possible by matching other metadata
> in the search?
>
> Anyway, nice to meet you, and look forward to hearing a bit more about what
> directions you're heading with this.  Is there an appropriate forum /
> mailing list to discuss the APIs for Dryad and DataONE?
>
> Thanks much,
>
> Carl
>
> --
> Carl Boettiger
> UC Davis
> http://www.carlboettiger.info/
>
>
>  --
> ===========================================================
> : Hilmar Lapp  -:- Durham, NC -:- informatics.nescent.org :
> ===========================================================
>
>
>
>


-- 
Carl Boettiger
UC Davis
http://www.carlboettiger.info/