Hi Núria,
From your previous email I note that your build is from the 9th Jan 2014 and
there have been a number of fixes in the Virtuoso cost optimiser since then,
which is the likely cause of the problem. Thus I would suggest updating your
open source build to the latest git build either develop/7 or coincidentally he
official open source 7.1 stable/7 release was made yesterday, thus you could
build from that branch also to get the latest updates, and retest to see if the
query now runs ...
Best Regards
Hugh Williams
Professional Services
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On 18 Feb 2014, at 15:07, QUERALT ROSINACH, NÚRIA <nuria.quer...@upf.edu> wrote:
> Dear all,
>
>
> I would like to found out the reason why the following query works in a
> virtuoso v6.1.6 instance but it does not work in one of virtuoso v7.0.1:
>
> PREFIX atlasterms: <http://rdf.ebi.ac.uk/terms/atlas/>
> SELECT DISTINCT ?gdassoc ?associationType ?disease ?gene ?snp ?uniprot
> ?expressionValue WHERE
> {
> ?gdassoc rdf:type sio:SIO_001123 .
> ?gdassoc rdf:type ?associationType .
> ?gdassoc sio:SIO_000628 ?disease,?gene .
> ?disease rdf:type ncit:C7057 .
> ?gene rdf:type ncit:C16612 .
> ?gene sio:SIO_010078 ?protein .
> ?protein owl:sameAs ?uniprot .
> ?gdassoc sio:SIO_000001 ?snp .
> ?snp rdf:type ncit:C18279 .
> # Get the expression for the proteins from GXA
> SERVICE <http://www.ebi.ac.uk/rdf/services/atlas/sparql> {
> ?probe atlasterms:dbXref ?uniprot .
> ?value atlasterms:isMeasurementOf ?probe .
> ?value atlasterms:pValue ?pvalue .
> ?value rdfs:label ?expressionValue . } }
> LIMIT 100
>
> The error that come up is one of the 'Time out transaction'. Let me know what
> information you need. Many thanks in advance.
>
> best,
> nuria
>
>
>
> --
> ********************************************************************
> Núria Queralt Rosinach
> Research Programme on Biomedical Informatics (GRIB)
> Department of Experimental and Health Sciences
> Universitat Pompeu Fabra
> IMIM (Hospital del Mar Medical Research Institute)
> C/Dr. Aiguader 88, 08003
> Barcelona, Spain
> Tel.: +34 93 316 0536
> E-mail: nuria.quer...@upf.edu
> http://ibi.imim.es/
> ********************************************************************
> ------------------------------------------------------------------------------
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