Erick,
I would like to make you aware that the new VOS 5.0.5 release can be
downloaded from:
http://sf.net/projects/virtuoso/files
I have compiled his myself and can confirm that the segmentation fault you
reported has been resolved.
I note the query returns any empty result set, what are you expecting to be
returned ?
Best Regards,
Hugh Williams
Professional Services
OpenLink Software
Web: http://www.openlinksw.com
Universal Data Access & Data Integration Technology Providers
On 06/02/2008 15:46, "Erick Antezana" <er...@psb.ugent.be> wrote:
> Hi Pierre, Hugh,
>
> thanks for your support. We will wait then some news from you (release
> 5.0.5).
>
> cheers,
> Erick
>
> Pierre De Wilde wrote:
>> It was a possible workaround. I have used FILTER(isIRI(?o) =
>> false) instead of FILTER(!isIRI(?o)) in 5.0.3, but it doesn't seem to
>> work with sameTerm().
>>
>> Regarding 5.0.4, it may be safer to wait the 'official' confirmation
>> that your problem is solved.
>>
>> Pierre
>>
>> 2008/2/6, Erick Antezana <er...@psb.ugent.be
>> <mailto:er...@psb.ugent.be>>:
>>
>> Hi Pierre,
>>
>> I tried out the line:
>>
>> FILTER(sameTerm(?prot,cco:CCO_B0001243) = false)
>>
>> and some variants like:
>>
>> FILTER(sameTerm(?prot,cco:CCO_B0001243) = 'false')
>>
>> I've got the following message:
>>
>> 37000 Error SQ074: Line 9: syntax error at '=' before 'isnull'
>>
>> SPARQL query:
>> define sql:signal-void-variables 1 define output:valmode "LONG"
>> define input:default-graph-uri
>> <http://www.cellcycleontology.org/ontology/rdf/CCO> PREFIX
>> rdfs:<http://www.w3.org/2000/01/rdf-schema#>
>> PREFIX cco:<http://www.cellcycleontology.org/ontology/rdf/CCO#>
>>
>> SELECT ?prot
>> WHERE{
>> cco:CCO_B0001243 cco:is_a ?ortholog_cluster .
>> ?prot cco:is_a ?ortholog_cluster .
>> FILTER(sameTerm(?prot,cco:CCO_B0001243)=false)
>> }
>>
>>
>>
>> We will probably then install 5.0.4, unless you have any other
>> suggestion?
>>
>> thanks,
>> Erick
>>
>> Pierre De Wilde wrote:
>>> Hi Erick,
>>>
>>>
>>> In 5.0.3, FILTER(!...) may not work properly. Instead, try
>>> this: FILTER(sameTerm(?prot,cco:CCO_B0001243) = false)
>>> In 5.0.4, FILTER(!...) seems to work properly.
>>>
>>>
>>> Pierre
>>>
>>> 2008/2/6, Erick Antezana <er...@psb.ugent.be
>> <mailto:er...@psb.ugent.be>
>>> <mailto:er...@psb.ugent.be <mailto:er...@psb.ugent.be>>>:
>>>
>>> Hi,
>>>
>>> we're running 5.0.3 on a linux box. So far everything was
>> going
>>> perfectly until we tested the following query which is very
>> simple
>>> against a huge graph (that could be found here:
>>> http://www.cellcycleontology.org/ontology/rdf/cco.rdf):
>>>
>>> PREFIX rdfs:<http://www.w3.org/2000/01/rdf-schema#>
>>> PREFIX cco:<http://www.cellcycleontology.org/ontology/rdf/CCO#>
>>>
>>> SELECT ?prot
>>> WHERE{
>>> cco:CCO_B0001243 cco:is_a ?ortholog_cluster .
>>> ?prot cco:is_a ?ortholog_cluster .
>>> FILTER(!sameTerm(?prot,cco:CCO_B0001243))
>>> }
>>>
>>> the endpoint is: http://crunch.fvms.ugent.be:8890/sparql
>>>
>>> It seems that the "sameTerm" is causing this problem. I
>> tried to play
>>> with the parameters int he INI file by increasing the buffers,
>>> etc, etc
>>> but no success...Any hints would be appreciated.
>>>
>>> In the logs, we got:
>>>
>>> 15:11:52 LTRS_1 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Commit transact 0x354ffcf890 0
>>> 15:11:52 LTRS_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Restart transact 0x354ffcf890
>>> 15:11:52 LTRS_1 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Commit transact 0x354ffcf890 0
>>> 15:11:52 LTRS_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Restart transact 0x354ffcf890
>>> 15:14:38 LTRS_1 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Commit transact 0x354ffcf890 0
>>> 15:14:38 LTRS_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Restart transact 0x354ffcf890
>>> 15:14:38 COMP_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Compile text: isnull
>>> (sparql_to_sql_text (?))
>>> 15:14:38 COMP_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Compile text: sparql define
>>> output:valmode "LONG" define input:default-graph-uri
>>> <http://www.cellcycleontology.org/ontology/rdf/CCO> PREFIX
>>> rdfs:<http://www.w3.org/2000/01/rdf-schema#>
>>> PREFIX cco:<http://www.cellcycleontology.org/ontology/rdf/CCO#>
>>>
>>> SELECT ?prot
>>> WHERE{
>>> cco:CCO_B0001243 cco:is_a ?ortholog_cluster .
>>> ?prot cco:is_a ?ortholog_cluster .
>>> FILTER(!sameTerm(?prot,cco:CCO_B0001243))
>>> }
>>>
>>> and we also got:
>>>
>>> 15:11:52 LTRS_1 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Commit transact 0x354ffcf890 0
>>> 15:11:52 LTRS_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Restart transact 0x354ffcf890
>>> 15:11:52 LTRS_1 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Commit transact 0x354ffcf890 0
>>> 15:11:52 LTRS_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Restart transact 0x354ffcf890
>>> 15:14:38 LTRS_1 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Commit transact 0x354ffcf890 0
>>> 15:14:38 LTRS_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Restart transact 0x354ffcf890
>>> 15:14:38 COMP_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Compile text: isnull
>>> (sparql_to_sql_text (?))
>>> 15:14:38 COMP_2 0 130.88.195.199 <http://130.88.195.199>
>> <http://130.88.195.199> Internal
>>> Compile text: sparql define
>>> output:valmode "LONG" define input:default-graph-uri
>>> <http://www.cellcycleontology.org/ontology/rdf/CCO> PREFIX
>>> rdfs:<http://www.w3.org/2000/01/rdf-schema#>
>>> PREFIX cco:<http://www.cellcycleontology.org/ontology/rdf/CCO#>
>>>
>>> SELECT ?prot
>>> WHERE{
>>> cco:CCO_B0001243 cco:is_a ?ortholog_cluster .
>>> ?prot cco:is_a ?ortholog_cluster .
>>> FILTER(!sameTerm(?prot,cco:CCO_B0001243))
>>> }
>>>
>>> thanks,
>>> Erick
>>> p.s. Here it is the HTTP line:
>>>
>>
>> http://crunch.fvms.ugent.be:8890/sparql?default-graph-uri=http%3A%2F%2Fwww.ce
>> llcycleontology.org%2Fontology%2Frdf%2FCCO&query=PREFIX+rdfs%3A%3Chttp%3A%2F%
>> 2Fwww.w3.org%2F2000%2F01%2Frdf-schema%23%3E%0D%0APREFIX+cco%3A%3Chttp%3A%2F%2
>> Fwww.cellcycleontology.org%2Fontology%2Frdf%2FCCO%23%3E%0D%0A%0D%0ASELECT+%3F
>> prot%0D%0AWHERE%7B%0D%0A+++cco%3ACCO_B0001243+cco%3Ais_a+%3Fortholog_cluster+
>> .%0D%0A+++%3Fprot+cco%3Ais_a+%3Fortholog_cluster+.%0D%0A+++FILTER%28%21sameTe
>> rm%28%3Fprot%2Ccco%3ACCO_B0001243%29%29%0D%0A%7D&format=text%2Fhtml&debug=on
>>
>> <http://crunch.fvms.ugent.be:8890/sparql?default-graph-uri=http%3A%2F%2Fwww.c
>> ellcycleontology.org%2Fontology%2Frdf%2FCCO&query=PREFIX+rdfs%3A%3Chttp%3A%2F
>> %2Fwww.w3.org%2F2000%2F01%2Frdf-schema%23%3E%0D%0APREFIX+cco%3A%3Chttp%3A%2F%
>> 2Fwww.cellcycleontology.org%2Fontology%2Frdf%2FCCO%23%3E%0D%0A%0D%0ASELECT+%3
>> Fprot%0D%0AWHERE%7B%0D%0A+++cco%3ACCO_B0001243+cco%3Ais_a+%3Fortholog_cluster
>> +.%0D%0A+++%3Fprot+cco%3Ais_a+%3Fortholog_cluster+.%0D%0A+++FILTER%28%21sameT
>>
erm%28%3Fprot%2Ccco%3ACCO_B0001243%29%29%0D%0A%7D&format=text%2Fhtml&debug=on>>
>
>>>
>>
>> <http://crunch.fvms.ugent.be:8890/sparql?default-graph-uri=http%3A%2F%2Fwww.c
>> ellcycleontology.org%2Fontology%2Frdf%2FCCO&query=PREFIX+rdfs%3A%3Chttp%3A%2F
>> %2Fwww.w3.org%2F2000%2F01%2Frdf-schema%23%3E%0D%0APREFIX+cco%3A%3Chttp%3A%2F%
>> 2Fwww.cellcycleontology.org%2Fontology%2Frdf%2FCCO%23%3E%0D%0A%0D%0ASELECT+%3
>> Fprot%0D%0AWHERE%7B%0D%0A+++cco%3ACCO_B0001243+cco%3Ais_a+%3Fortholog_cluster
>> +.%0D%0A+++%3Fprot+cco%3Ais_a+%3Fortholog_cluster+.%0D%0A+++FILTER%28%21sameT
>> erm%28%3Fprot%2Ccco%3ACCO_B0001243%29%29%0D%0A%7D&format=text%2Fhtml&debug=on
>>
>> <http://crunch.fvms.ugent.be:8890/sparql?default-graph-uri=http%3A%2F%2Fwww.c
>> ellcycleontology.org%2Fontology%2Frdf%2FCCO&query=PREFIX+rdfs%3A%3Chttp%3A%2F
>> %2Fwww.w3.org%2F2000%2F01%2Frdf-schema%23%3E%0D%0APREFIX+cco%3A%3Chttp%3A%2F%
>> 2Fwww.cellcycleontology.org%2Fontology%2Frdf%2FCCO%23%3E%0D%0A%0D%0ASELECT+%3
>> Fprot%0D%0AWHERE%7B%0D%0A+++cco%3ACCO_B0001243+cco%3Ais_a+%3Fortholog_cluster
>> +.%0D%0A+++%3Fprot+cco%3Ais_a+%3Fortholog_cluster+.%0D%0A+++FILTER%28%21sameT
>> erm%28%3Fprot%2Ccco%3ACCO_B0001243%29%29%0D%0A%7D&format=text%2Fhtml&debug=on
>> >>
>>>
>>>
>>>
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