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[Gofriends] Alert: proposal to remove underscores from root term names

Harold Drabkin hjd at informatics.jax.org
Thu Jun 4 10:05:29 PDT 2009


Our SE's took a look at a test file and yes it will brake a lot of 
stuff, so we object to the change also.

hjd

Midori Harris wrote:
> Dear GO and Friends,
>
> A proposal has been made to remove the underscores from the names of 
> the three ontology roots in GO:
>
>   name: biological_process    -->    name: biological process
>   name: cellular_component    -->    name: cellular component
>   name: molecular_function    -->    name: molecular function
>
> The reason for this change is consistency: at present these are the 
> only term names that contain underscores instead of spaces.
>
> The namespaces will be unaffected; i.e. they will still contain 
> underscores.
>
> This will affect you if you are using the root name as a surrogate for 
> the ontology name (obo namespace) in a space-delimited file, or if you 
> have any sfotware that assumes that the root name is exactly the same 
> as the ontology name (note that OBO namespaces do not allow spaces, 
> but in many ontologies, including GO, spaces are allowed in term names).
>
> If there are no objections raised, we will make this change on Friday, 
> June 19, 2009.
>
> Thanks,
> Midori
> on behalf of GO's ontology developers
>
>
> ============================
> Midori A. Harris, Ph.D.
> GO Editor
> EMBL - EBI
> Wellcome Trust Genome Campus
> Hinxton
> Cambridge CB10 1SD UK
>
> Tel: +44 (0) 1223 494667
> Fax: +44 (0) 1223 494468
> Email: midori at ebi.ac.uk
> _______________________________________________
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> Gofriends at geneontology.org
> http://fafner.stanford.edu/mailman/listinfo/gofriends




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