Definitely something is wrong.
at least:
http://beta.sparql.uniprot.org/sparql?query=describe+%3chttp%3a%2f%2fpurl.uniprot.org%2fcitations%2f19660865%3e+%0d%0afrom+%3chttp%3a%2f%2fwww.ontotext.com%2fexplicit%3e
shows that the statements are there but not visible ...
will Investigate that
Damyan
On 12/19/2012 1:56 PM, Jerven Bolleman wrote:
On 12/19/2012 12:01 PM, Vassil Momtchev wrote:
Jerven,
May I rephrase your issue and double check if I correctly understood it.
After upgrading to OWLIM version 5.3 revision 5689 you observed missing
sameAs triples. The system to reproduce this behavior is
beta.sparql.uniprot.org.
Yes.
I see a difference in the posted resources P68359 vs P68353 (is it
sameAs the link between the two resources?). Could you clarify the
following points:
* What's the missing statement?
Lets use a simpler example
http://beta.sparql.uniprot.org/sparql?query=DESCRIBE+%3Chttp%3A%2F%2Fpurl.uniprot.org%2Fcitations%2F19660865%3E
i.e.
DESCRIBE <http://purl.uniprot.org/citations/19660865>
with source data
http://www.uniprot.org/citations/19660865.nt
Misses
<http://purl.uniprot.org/citations/19660865>
<http://www.w3.org/2002/07/owl#sameAs>
<http://www.ncbi.nlm.nih.gov/pubmed/19660865>
once loaded into OWLIM
* Is it only a single triple or all statement with owl:sameAs
predicate?
all triples with the owl:sameAs predicate
* What's the original resource loaded to OWLIM?
ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/rdf/citations.rdf.gz
Which contains the owl:sameAs links
This is enough to demonstrate the problem.
* Did you use the same revision to load the data or you simply updated
the OWLIM database?
Same revision. Started totally from scratch.
Regards,
Jerven
Thanks,
V.
On 12/19/2012 11:52 AM, Jerven Bolleman wrote:
Dear ontotext developers,
I am missing a lot of owl:sameAs statements in our data.
I can reproduce the problem both on the linkedlifedata.com as at
beta.sparql.uniprot.org
The version is OwlimSchemaRepository: version: 5.3, revision: 5689
An example is
*MailScanner has detected a possible fraud attempt from
"linkedlifedata.com" claiming to be*
http://linkedlifedata.com/sparql?query=DESCRIBE+%3Chttp%3A%2F%2Fpurl.uniprot.org%2Fintact%2FEBI-530927%3E&_implicit=false&implicit=true&_equivalent=false&_form=%2Fsparql
The following triple is missing
<http://purl.uniprot.org/intact/EBI-530932>
<http://www.w3.org/2002/07/owl#sameAs>
<http://purl.uniprot.org/uniprot/P68359> .
Which you can find in the source data i.e.
http://www.uniprot.org/uniprot/P68353.nt
This is messing up quite a few queries on our end could you please look
into this as soon as possible. This also affects select and ask
queries so its not just describe.
Regards,
Jerven
--
----------------------------------------------------------
Vassil Momtchev
Head of Life Science R&D of Ontotext AD
http://www.ontotext.com
Skype: vassil_momtchev
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