[Psidev-pi-dev] Issue 42 in psi-pi: Issues with the CV

[<cod...@go...>]

Comment #57 on issue 42 by a.bertsch0815: Issues with the CV
http://code.google.com/p/psi-pi/issues/detail?id=42

Do we allow internal nodes of the PSI:PI ontology show up in an axml  
instance?

E.g. at
/AnalysisXML/AnalysisProtocolCollection/ProteinDetectionProtocol/AnalysisParams  
the
mapping file currently specifies that only the child terms of
"PI:00194 - quality estimation with decoy database" are allowed. However,  
the MPC
example uses exactly this term, to say that a quality estimation was done  
using a
decoy database. What I like to do is moving all the children of PI:00194 up  
into
"search input details -> quality estimation options" and keep the term as an
indicator that quality estimation was done by decoy database.

To generalize this, I would enforce through semantic validation hat only  
leaves of
the ontology can be used. This makes the ontology kind of flat, however, it  
reduces
the complexity while interpreting the used terms and is much clearer I  
think.

I haven't tried how many changes are needed, but IMO only smaller changes  
to the CV
would be necessary. Any comments? Maybe we could discuss it during the  
telcon today.

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