Hi Len -
I think it's probably worth committing the tests. It will serve as a
warning that we know something doesn't work as advertised until someone
gets around to fixing it.
- Mark
Mark Schreiber
Principal Scientist (Bioinformatics)
Novartis Institute for Tropical Diseases (NITD)
1 Science Park Road
#04-14 The Capricorn
Singapore 117528
phone +65 6722 2973
fax +65 6722 2910
Len Trigg <[EMAIL PROTECTED]>
Sent by: [EMAIL PROTECTED]
02/09/2004 09:09 AM
To: "Frederik Decouttere" <[EMAIL PROTECTED]>
cc: [EMAIL PROTECTED]
Subject: Re: [Biojava-l] 2 problems found in
org.biojava.bio.seq.db.biosql code
"Frederik Decouttere" <[EMAIL PROTECTED]> wrote:
> After doing some tests with the biojava - biosql code I think there are
> 2 (little) bugs in there:
>
> - when persisting a Sequence which contains a Feature with
> BetweenLocation this Location gets converted to a RangeLocation upon
> retrieval
>
> - when persisting a Sequence which contains (a) Feature(s) in 2
> different biodatabases an exception is thrown in the ontology code part
> of biojava
I have got as far as inserting your example code into the BioSQL JUnit
test and it replicates the problem perfectly. I think I know what's
going on with the ontology bug, but haven't looked into the Location
one. I probably won't be able to look at it in more detail for a
couple more days though (if anyone wants to jump the gun, I can commit
the test so the tests start failing :-)).
Cheers,
Len.
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