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drdozer / oboformat

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Missing annotations for xref clauses #55

Open GoogleCodeExporter opened 9 years ago

GoogleCodeExporter commented 9 years ago 
During the conversion of obo2owl the annotations for xref clauses are lost. For 
example:

xref: Reactome:REACT_100439 "lactose + H2O => D-glucose + D-galactose, Gallus 
gallus"

is after the round trip

xref: Reactome:REACT_10043

See test case: org.obolibrary.obo2owl.test.RoundTripXrefTest

Original issue reported on code.google.com by HDie...@lbl.gov on 6 Oct 2011 at 10:36

GoogleCodeExporter commented 9 years ago 
The spec should be changed to treat these as rdfs:label axiom annotations on 
the annotation assertion, and then the code should follow suit.

The spec should also have an informative note that xref annotations are not 
encouraged

Original comment by cmung...@gmail.com on 6 Oct 2011 at 10:43

GoogleCodeExporter commented 9 years ago 
GO (http://www.geneontology.org/ontology/editors/gene_ontology_write.obo) 
contains quite a number of xref clauses with annotations.

Original comment by HDie...@lbl.gov on 6 Oct 2011 at 10:48

GoogleCodeExporter commented 9 years ago 
implemented round trip in revision r306.

Specification update needed.

Original comment by HDie...@lbl.gov on 6 Oct 2011 at 11:47

GoogleCodeExporter commented 9 years ago

Original comment by HDie...@lbl.gov on 12 Jan 2012 at 11:20