[Biojava-l] BioJava, BioSQL versions

[Len Trigg]

"Gang Wu" <gwu at molbio.mgh.harvard.edu> wrote:
> I got the following exceptions:
> Exception in thread "main" org.biojava.bio.BioException: Error accessing
> ontologies
> Caused by: java.sql.SQLException: Base table or view not found,  message
> from server: "Table 'biosqldb.term_relationship_term' doesn't exist"

The BioJava Ontologies require an extra table in the schema, which
isn't part of the official BioSQL (this should *really* be resolved,
guys). A bit of searching on the archives will reveal more (I don't
recall the details myself).

It should also be possible to postpone creation of the core ontology
until it's actually needed, since many applications don't use it at
all (I've never used them).


Cheers,
Len.