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[bioontology-support] Ontology Abbreviations

Eamonn Maguire maguire at
Mon Jul 27 05:14:53 PDT 2009


Some ontologies have no abbreviation, which i find strange since a lot  
of resources are uniquely identified by their Source + the accession  
for the term, e.g. CHEBI:229231 or whatever. Is there any way to  
enforce this?

Also, on another point, what are you guys using to build the Ontology  
trees for displaying OWL or OBO files? I am using the mindswap pellet  
reasoner to perform recursive analysis of each term and it's  
subsequent subclasses, but it is very slow at classifying ontologies  
like OBI at times (I say at times because they are spawning off  
threads in the classification code which are either not working  
properly, or get locked for extended periods of time depending on time  
of execution. Sometimes i can process OBI in 13 seconds, other times  
it will take 177 seconds or something ridiculous like that, and  
sometimes it doesn't complete at all since it runs out of memory).  
Your input would be very much appreciated!


* 	maguire at

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