Re: [Myexperiment-discuss] "Intelligent" storage of workflows

[Marco Roos]

Hi Alan and others,

My two cents:

David's RDF work is very important for all sorts of activities that try 
to link and provide useful information from scientific experiments. RDF 
I think allows a structured, yet flexible way to query information, 
useful for distributed queries, meta-analysis, and to build new 
applications on.

RDF is not a requirement per sé for all analyses. For your information:
1. my colleague Edgar Meij made a workflow to create an index from what 
he could obtain via the myExperiment REST API; this allows us to perform 
(Lucene) queries to retrieve content from myExperiment. We used this in 
a (proof-of-principle) application. If the myExperiment API provides a 
look inside workflows, it may be possible to retrieve the desired 
information via a personalised index.
2. Ingo Wassink just submitted a paper where he analysed the contents of 
workflows in myExperiment, again via a workflow.

Both are on cc; I'm sure they are willing to provide more information 
upon request.

Cheers,
Marco.

Paolo Missier wrote:
> Hi,
> Marco should be also interested in Don's answer -- in general, 
> primitives for mining workflows off myExperiment are going to be 
> useful soon (i.e., in combination with dynamic provenance)
> -Paolo
> > Hi,
> >
> > The API allows you to query for the separate components of a workflow, e.g.:
> >
> >   http://www.myexperiment.org/workflow.xml?id=172&elements=components
> >
> > This is available for Taverna 1 workflows at present.  If Taverna 2 beta
> > workflows
> > are important for this, then I can prioritise getting that available.
> >
> > David Newman will correct me if I'm wrong, but this breakdown hasn't made it
> > into
> > the RDF yet, so right now you would have to trawl myExperiment live via the
> > API for
> > all the workflow components.
> >
> > It's a query that looks like SPARQL might be the best way forward.  The
> > myExperiment
> > SPARQL endpoint is at:
> >
> >   http://rdf.myexperiment.org/sparql
> >
> > So I think David Newman and myself are probably the best people to talk to
> > about
> > doing this.
> >
> > Regards,
> > Don.
>
>
> Alan R Williams wrote:
> > Hello,
> >
> > I'm at the Taverna workshop.  One of the Taverna users is interested in
> > the storage of workflows so that they can be queried for their content
> > e.g. what processors are used, what connections are made.  For
> > example:
> >
> >     display all workflows that have a connection between a blast
> >     and an alignment service
> >
> > Does anyone here know of where to look for ideas on how to do this, or
> > people for him to co-operate with?
> >
> > His e-mail is address@hidden - but I'm interested in the answers
> > as well :-)
> >
> > Thanks in advance,
> >
> > Alan
> >   
>
>
>
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--

Marco Roos
Faculty of Science
University of Amsterdam
Kruislaan 403, room F1.02
1098 SJ Amsterdam
tel. +31 (0) 20 525 7522
http://home.medewerker.uva.nl/m.roos1 (includes links to social networks)
Note the change of e-mail address to address@hidden