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Posted to users@jena.apache.org by June <zh...@gmail.com> on 2013/12/02 15:33:57 UTC
HTTPException:500 exception while executing a federated SPARQL query
with Jena ARQ
Dear list,
I am trying to perform a federated SPARQL query by Jena arq for the
first time, and I am using the latest version of Jena.
But I encountered a HTTPException:500 exception for executing the
following query. It will be very helpful if you can give me some tips
about this problem.
PREFIX drugbank:
<http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
PREFIX sider:
<http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
SELECT ?drug ?enzyme
WHERE
{ ?drug rdf:type drugbank:drugs .
?drug drugbank:enzyme ?enzyme .
?enzyme rdf:type drugbank:enzymes
SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
{ ?drugInSider owl:sameAs ?drug .
?drugInSider rdf:type sider:drugs .
?drugInSider sider:sideEffect ?sideEffect .
?sideEffect rdf:type sider:side_effects
}
}
LIMIT 10
The codes I am using are:
val query = QueryFactory.create(qStr)
val qexec =
QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
query)
try {
val results = qexec.execSelect()
while (results.hasNext()) {
val result = results.next
println(result.get("drug") + "\t" + result.get("enzyme"))// +
"\t" + result.get("sideEffect"))
}
} finally {
qexec.close();
}
Many thanks!
Best wishes,
June
Re: HTTPException:500 exception while executing a federated SPARQL
query with Jena ARQ
Posted by June <zh...@gmail.com>.
On 12/03/2013 05:43 PM, Andy Seaborne wrote:
> On 03/12/13 08:32, Andy Seaborne wrote:
>> 500 is "Internal Server", an error from the server that means it went
>> wrong. Without any more information, it is impossible to say why.
>>
>> Try other queries, both with and without SERVICE to see if anything
>> works at all. Try also querying
>> http://wifo5-04.informatik.uni-mannheim.de/sider/sparq directly.
>>
>> The standard installation of Fuseki logs all requests and errors at the
>> server. If /drugbank/sparql has changed that, then I suggest undoing
>> the change.
>>
Thanks a lot Andy, this is very helpful!
Best wishes,
June
> http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql and
> .../sider/sparql are both Joseki server (v3.4.4) , not Fuseki. The
> SPARQL engine is very out of date.
>
> Andy
>
>> Andy
>>
>>
>> On 03/12/13 03:35, June wrote:
>>> Hi Andy,
>>>
>>> I tried to configure log4j but failed, and I want to leave it at the
>>> moment ...
>>>
>>> I debugged the codes, and I found that in QueryEngineHTTP.execSelect
>>> method, the HTTPQuery actually is
>>>
>>> "http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql?query=PREFIX++drugbank%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fdrugbank%2Fresource%2Fdrugbank%2F%3E%0APREFIX++sider%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fresource%2Fsider%2F%3E%0APREFIX++owl%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23%3E%0APREFIX++rdf%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F1999%2F02%2F22-rdf-syntax-ns%23%3E%0A%0ASELECT++%3Fdrug+%3Fenzyme+%3FsideEffect%0AWHERE%0A++%7B+%3Fdrug+rdf%3Atype+drugbank%3Adrugs+.%0A++++%3Fdrug+drugbank%3Aenzyme+%3Fenzyme+.%0A++++%3Fenzyme+rdf%3Atype+drugbank%3Aenzymes%0A++++SERVICE+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fsparql%3E%0A++++++%7B+%3FdrugInSider+owl%3AsameAs+%3Fdrug+.%0A++++++++%3FdrugInSider+rdf%3Atype+sider%3Adrugs+.%0A++++++++%3FdrugInSider+sider%3AsideEffect+%3FsideEffect+.%0A++++++++%3FsideEffect+rdf%3Atype+sider%3Aside_effects%0A++++++%7D%0A++%7D%0ALIMIT+++10%0A&timeout=10000"
>>>
>>> which is simply transformed from the SPARQL query I wrote. If I open it
>>> in a web browser, "HTTP ERROR 500" appears.
>>>
>>> It seems that the query is sent to one single endpoint which doesn't
>>> support this SERVICE extension, instead of sending subqueries to
>>> different SPARQL endpoints (which I guess is the way this SERVICE
>>> extension works).
>>>
>>> So I guess maybe the codes I wrote are incorrect, but I didn't find the
>>> correct way to do it. Could you please give me some helps? Many thanks
>>> for that!
>>>
>>> Best wishes,
>>>
>>> June
>>>
>>> On 12/03/2013 02:09 AM, Andy Seaborne wrote:
>>>> On 02/12/13 16:37, zhuman.private wrote:
>>>>> Hi Andy,
>>>>>
>>>>> Sorry for the confusions. http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql is a SPARQL endpoint, so is http://wifo5-04.informatik.uni-mannheim.de/sider/sparql.
>>>>> I tried queries separately on the two end points, and both of them are working well. But not when querying on both of them.
>>>>>
>>>>> best regards
>>>>> June
>>>> June,
>>>>
>>>> What are the messages (and stacktrace) from the server log files?
>>>>
>>>> Andy
>>>>
>>>>>> 在 2013年12月2日，23:26，Andy Seaborne <an...@apache.org> 写道：
>>>>>>
>>>>>>> On 02/12/13 14:33, June wrote:
>>>>>>> Dear list,
>>>>>>>
>>>>>>> I am trying to perform a federated SPARQL query by Jena arq for the
>>>>>>> first time, and I am using the latest version of Jena.
>>>>>>>
>>>>>>> But I encountered a HTTPException:500 exception for executing the
>>>>>>> following query. It will be very helpful if you can give me some tips
>>>>>>> about this problem.
>>>>>> What is http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql running? Is it Jena or another system?
>>>>>>
>>>>>> If it's Fuseki, what are the messages (and stacktrace) from the server log file?
>>>>>>
>>>>>> Andy
>>>>>>
>>>>>>> PREFIX drugbank:
>>>>>>> <http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
>>>>>>> PREFIX sider:
>>>>>>> <http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
>>>>>>> PREFIX owl: <http://www.w3.org/2002/07/owl#>
>>>>>>> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>>>>>>>
>>>>>>> SELECT ?drug ?enzyme
>>>>>>> WHERE
>>>>>>> { ?drug rdf:type drugbank:drugs .
>>>>>>> ?drug drugbank:enzyme ?enzyme .
>>>>>>> ?enzyme rdf:type drugbank:enzymes
>>>>>>> SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
>>>>>>> { ?drugInSider owl:sameAs ?drug .
>>>>>>> ?drugInSider rdf:type sider:drugs .
>>>>>>> ?drugInSider sider:sideEffect ?sideEffect .
>>>>>>> ?sideEffect rdf:type sider:side_effects
>>>>>>> }
>>>>>>> }
>>>>>>> LIMIT 10
>>>>>>>
>>>>>>> The codes I am using are:
>>>>>>>
>>>>>>> val query = QueryFactory.create(qStr)
>>>>>>> val qexec =
>>>>>>> QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
>>>>>>> query)
>>>>>>> try {
>>>>>>> val results = qexec.execSelect()
>>>>>>> while (results.hasNext()) {
>>>>>>> val result = results.next
>>>>>>> println(result.get("drug") + "\t" + result.get("enzyme"))// +
>>>>>>> "\t" + result.get("sideEffect"))
>>>>>>> }
>>>>>>> } finally {
>>>>>>> qexec.close();
>>>>>>> }
>>>>>>>
>>>>>>> Many thanks!
>>>>>>>
>>>>>>> Best wishes,
>>>>>>>
>>>>>>> June
>>>
--
----------------
Zhu Man, (+86)13851764837
School of Computer Science & Engineering
Southeast University, Nanjing
Re: HTTPException:500 exception while executing a federated SPARQL
query with Jena ARQ
Posted by Andy Seaborne <an...@apache.org>.
On 03/12/13 08:32, Andy Seaborne wrote:
> 500 is "Internal Server", an error from the server that means it went
> wrong. Without any more information, it is impossible to say why.
>
> Try other queries, both with and without SERVICE to see if anything
> works at all. Try also querying
> http://wifo5-04.informatik.uni-mannheim.de/sider/sparq directly.
>
> The standard installation of Fuseki logs all requests and errors at the
> server. If /drugbank/sparql has changed that, then I suggest undoing
> the change.
>
http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql and
.../sider/sparql are both Joseki server (v3.4.4) , not Fuseki. The
SPARQL engine is very out of date.
Andy
> Andy
>
>
> On 03/12/13 03:35, June wrote:
>> Hi Andy,
>>
>> I tried to configure log4j but failed, and I want to leave it at the
>> moment ...
>>
>> I debugged the codes, and I found that in QueryEngineHTTP.execSelect
>> method, the HTTPQuery actually is
>>
>> "http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql?query=PREFIX++drugbank%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fdrugbank%2Fresource%2Fdrugbank%2F%3E%0APREFIX++sider%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fresource%2Fsider%2F%3E%0APREFIX++owl%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23%3E%0APREFIX++rdf%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F1999%2F02%2F22-rdf-syntax-ns%23%3E%0A%0ASELECT++%3Fdrug+%3Fenzyme+%3FsideEffect%0AWHERE%0A++%7B+%3Fdrug+rdf%3Atype+drugbank%3Adrugs+.%0A++++%3Fdrug+drugbank%3Aenzyme+%3Fenzyme+.%0A++++%3Fenzyme+rdf%3Atype+drugbank%3Aenzymes%0A++++SERVICE+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fsparql%3E%0A++++++%7B+%3FdrugInSider+owl%3AsameAs+%3Fdrug+.%0A++++++++%3FdrugInSider+rdf%3Atype+sider%3Adrugs+.%0A++++++++%3FdrugInSider+sider%3AsideEffect+%3FsideEffect+.%0A++++++++%3FsideEffect+rdf%3Atype+sider%3Aside_effects%0A++++++%7D%0A++%7D%0ALIMIT+++10%0A&timeout=10000"
>>
>> which is simply transformed from the SPARQL query I wrote. If I open it
>> in a web browser, "HTTP ERROR 500" appears.
>>
>> It seems that the query is sent to one single endpoint which doesn't
>> support this SERVICE extension, instead of sending subqueries to
>> different SPARQL endpoints (which I guess is the way this SERVICE
>> extension works).
>>
>> So I guess maybe the codes I wrote are incorrect, but I didn't find the
>> correct way to do it. Could you please give me some helps? Many thanks
>> for that!
>>
>> Best wishes,
>>
>> June
>>
>> On 12/03/2013 02:09 AM, Andy Seaborne wrote:
>>> On 02/12/13 16:37, zhuman.private wrote:
>>>> Hi Andy,
>>>>
>>>> Sorry for the confusions. http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql is a SPARQL endpoint, so is http://wifo5-04.informatik.uni-mannheim.de/sider/sparql.
>>>> I tried queries separately on the two end points, and both of them are working well. But not when querying on both of them.
>>>>
>>>> best regards
>>>> June
>>> June,
>>>
>>> What are the messages (and stacktrace) from the server log files?
>>>
>>> Andy
>>>
>>>>> 在 2013年12月2日，23:26，Andy Seaborne <an...@apache.org> 写道：
>>>>>
>>>>>> On 02/12/13 14:33, June wrote:
>>>>>> Dear list,
>>>>>>
>>>>>> I am trying to perform a federated SPARQL query by Jena arq for the
>>>>>> first time, and I am using the latest version of Jena.
>>>>>>
>>>>>> But I encountered a HTTPException:500 exception for executing the
>>>>>> following query. It will be very helpful if you can give me some tips
>>>>>> about this problem.
>>>>> What is http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql running? Is it Jena or another system?
>>>>>
>>>>> If it's Fuseki, what are the messages (and stacktrace) from the server log file?
>>>>>
>>>>> Andy
>>>>>
>>>>>> PREFIX drugbank:
>>>>>> <http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
>>>>>> PREFIX sider:
>>>>>> <http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
>>>>>> PREFIX owl: <http://www.w3.org/2002/07/owl#>
>>>>>> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>>>>>>
>>>>>> SELECT ?drug ?enzyme
>>>>>> WHERE
>>>>>> { ?drug rdf:type drugbank:drugs .
>>>>>> ?drug drugbank:enzyme ?enzyme .
>>>>>> ?enzyme rdf:type drugbank:enzymes
>>>>>> SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
>>>>>> { ?drugInSider owl:sameAs ?drug .
>>>>>> ?drugInSider rdf:type sider:drugs .
>>>>>> ?drugInSider sider:sideEffect ?sideEffect .
>>>>>> ?sideEffect rdf:type sider:side_effects
>>>>>> }
>>>>>> }
>>>>>> LIMIT 10
>>>>>>
>>>>>> The codes I am using are:
>>>>>>
>>>>>> val query = QueryFactory.create(qStr)
>>>>>> val qexec =
>>>>>> QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
>>>>>> query)
>>>>>> try {
>>>>>> val results = qexec.execSelect()
>>>>>> while (results.hasNext()) {
>>>>>> val result = results.next
>>>>>> println(result.get("drug") + "\t" + result.get("enzyme"))// +
>>>>>> "\t" + result.get("sideEffect"))
>>>>>> }
>>>>>> } finally {
>>>>>> qexec.close();
>>>>>> }
>>>>>>
>>>>>> Many thanks!
>>>>>>
>>>>>> Best wishes,
>>>>>>
>>>>>> June
>>
>>
>
Re: HTTPException:500 exception while executing a federated SPARQL
query with Jena ARQ
Posted by Andy Seaborne <an...@apache.org>.
500 is "Internal Server", an error from the server that means it went
wrong. Without any more information, it is impossible to say why.
Try other queries, both with and without SERVICE to see if anything
works at all. Try also querying
http://wifo5-04.informatik.uni-mannheim.de/sider/sparq directly.
The standard installation of Fuseki logs all requests and errors at the
server. If /drugbank/sparql has changed that, then I suggest undoing
the change.
Andy
On 03/12/13 03:35, June wrote:
> Hi Andy,
>
> I tried to configure log4j but failed, and I want to leave it at the
> moment ...
>
> I debugged the codes, and I found that in QueryEngineHTTP.execSelect
> method, the HTTPQuery actually is
>
> "http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql?query=PREFIX++drugbank%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fdrugbank%2Fresource%2Fdrugbank%2F%3E%0APREFIX++sider%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fresource%2Fsider%2F%3E%0APREFIX++owl%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23%3E%0APREFIX++rdf%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F1999%2F02%2F22-rdf-syntax-ns%23%3E%0A%0ASELECT++%3Fdrug+%3Fenzyme+%3FsideEffect%0AWHERE%0A++%7B+%3Fdrug+rdf%3Atype+drugbank%3Adrugs+.%0A++++%3Fdrug+drugbank%3Aenzyme+%3Fenzyme+.%0A++++%3Fenzyme+rdf%3Atype+drugbank%3Aenzymes%0A++++SERVICE+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fsparql%3E%0A++++++%7B+%3FdrugInSider+owl%3AsameAs+%3Fdrug+.%0A++++++++%3FdrugInSider+rdf%3Atype+sider%3Adrugs+.%0A++++++++%3FdrugInSider+sider%3AsideEffect+%3FsideEffect+.%0A++++++++%3FsideEffect+rdf%3Atype+sider%3Aside_effects%0A++++++%7D%0A++%7D%0ALIMIT+++10%0A&timeout=10000"
>
> which is simply transformed from the SPARQL query I wrote. If I open it
> in a web browser, "HTTP ERROR 500" appears.
>
> It seems that the query is sent to one single endpoint which doesn't
> support this SERVICE extension, instead of sending subqueries to
> different SPARQL endpoints (which I guess is the way this SERVICE
> extension works).
>
> So I guess maybe the codes I wrote are incorrect, but I didn't find the
> correct way to do it. Could you please give me some helps? Many thanks
> for that!
>
> Best wishes,
>
> June
>
> On 12/03/2013 02:09 AM, Andy Seaborne wrote:
>> On 02/12/13 16:37, zhuman.private wrote:
>>> Hi Andy,
>>>
>>> Sorry for the confusions. http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql is a SPARQL endpoint, so is http://wifo5-04.informatik.uni-mannheim.de/sider/sparql.
>>> I tried queries separately on the two end points, and both of them are working well. But not when querying on both of them.
>>>
>>> best regards
>>> June
>> June,
>>
>> What are the messages (and stacktrace) from the server log files?
>>
>> Andy
>>
>>>> 在 2013年12月2日，23:26，Andy Seaborne <an...@apache.org> 写道：
>>>>
>>>>> On 02/12/13 14:33, June wrote:
>>>>> Dear list,
>>>>>
>>>>> I am trying to perform a federated SPARQL query by Jena arq for the
>>>>> first time, and I am using the latest version of Jena.
>>>>>
>>>>> But I encountered a HTTPException:500 exception for executing the
>>>>> following query. It will be very helpful if you can give me some tips
>>>>> about this problem.
>>>> What is http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql running? Is it Jena or another system?
>>>>
>>>> If it's Fuseki, what are the messages (and stacktrace) from the server log file?
>>>>
>>>> Andy
>>>>
>>>>> PREFIX drugbank:
>>>>> <http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
>>>>> PREFIX sider:
>>>>> <http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
>>>>> PREFIX owl: <http://www.w3.org/2002/07/owl#>
>>>>> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>>>>>
>>>>> SELECT ?drug ?enzyme
>>>>> WHERE
>>>>> { ?drug rdf:type drugbank:drugs .
>>>>> ?drug drugbank:enzyme ?enzyme .
>>>>> ?enzyme rdf:type drugbank:enzymes
>>>>> SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
>>>>> { ?drugInSider owl:sameAs ?drug .
>>>>> ?drugInSider rdf:type sider:drugs .
>>>>> ?drugInSider sider:sideEffect ?sideEffect .
>>>>> ?sideEffect rdf:type sider:side_effects
>>>>> }
>>>>> }
>>>>> LIMIT 10
>>>>>
>>>>> The codes I am using are:
>>>>>
>>>>> val query = QueryFactory.create(qStr)
>>>>> val qexec =
>>>>> QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
>>>>> query)
>>>>> try {
>>>>> val results = qexec.execSelect()
>>>>> while (results.hasNext()) {
>>>>> val result = results.next
>>>>> println(result.get("drug") + "\t" + result.get("enzyme"))// +
>>>>> "\t" + result.get("sideEffect"))
>>>>> }
>>>>> } finally {
>>>>> qexec.close();
>>>>> }
>>>>>
>>>>> Many thanks!
>>>>>
>>>>> Best wishes,
>>>>>
>>>>> June
>
>
Re: HTTPException:500 exception while executing a federated SPARQL
query with Jena ARQ
Posted by June <zh...@gmail.com>.
Hi Andy,
I tried to configure log4j but failed, and I want to leave it at the
moment ...
I debugged the codes, and I found that in QueryEngineHTTP.execSelect
method, the HTTPQuery actually is
"http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql?query=PREFIX++drugbank%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fdrugbank%2Fresource%2Fdrugbank%2F%3E%0APREFIX++sider%3A+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fresource%2Fsider%2F%3E%0APREFIX++owl%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23%3E%0APREFIX++rdf%3A++%3Chttp%3A%2F%2Fwww.w3.org%2F1999%2F02%2F22-rdf-syntax-ns%23%3E%0A%0ASELECT++%3Fdrug+%3Fenzyme+%3FsideEffect%0AWHERE%0A++%7B+%3Fdrug+rdf%3Atype+drugbank%3Adrugs+.%0A++++%3Fdrug+drugbank%3Aenzyme+%3Fenzyme+.%0A++++%3Fenzyme+rdf%3Atype+drugbank%3Aenzymes%0A++++SERVICE+%3Chttp%3A%2F%2Fwifo5-04.informatik.uni-mannheim.de%2Fsider%2Fsparql%3E%0A++++++%7B+%3FdrugInSider+owl%3AsameAs+%3Fdrug+.%0A++++++++%3FdrugInSider+rdf%3Atype+sider%3Adrugs+.%0A++++++++%3FdrugInSider+sider%3AsideEffect+%3FsideEffect+.%0A++++++++%3FsideEffect+rdf%3Atype+sider%3Aside_effects%0A++++++%7D%0A++%7D%0ALIMIT+++10%0A&timeout=10000"
which is simply transformed from the SPARQL query I wrote. If I open it
in a web browser, "HTTP ERROR 500" appears.
It seems that the query is sent to one single endpoint which doesn't
support this SERVICE extension, instead of sending subqueries to
different SPARQL endpoints (which I guess is the way this SERVICE
extension works).
So I guess maybe the codes I wrote are incorrect, but I didn't find the
correct way to do it. Could you please give me some helps? Many thanks
for that!
Best wishes,
June
On 12/03/2013 02:09 AM, Andy Seaborne wrote:
> On 02/12/13 16:37, zhuman.private wrote:
>> Hi Andy,
>>
>> Sorry for the confusions. http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql is a SPARQL endpoint, so is http://wifo5-04.informatik.uni-mannheim.de/sider/sparql.
>> I tried queries separately on the two end points, and both of them are working well. But not when querying on both of them.
>>
>> best regards
>> June
> June,
>
> What are the messages (and stacktrace) from the server log files?
>
> Andy
>
>>> 在 2013年12月2日，23:26，Andy Seaborne <an...@apache.org> 写道：
>>>
>>>> On 02/12/13 14:33, June wrote:
>>>> Dear list,
>>>>
>>>> I am trying to perform a federated SPARQL query by Jena arq for the
>>>> first time, and I am using the latest version of Jena.
>>>>
>>>> But I encountered a HTTPException:500 exception for executing the
>>>> following query. It will be very helpful if you can give me some tips
>>>> about this problem.
>>> What is http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql running? Is it Jena or another system?
>>>
>>> If it's Fuseki, what are the messages (and stacktrace) from the server log file?
>>>
>>> Andy
>>>
>>>> PREFIX drugbank:
>>>> <http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
>>>> PREFIX sider:
>>>> <http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
>>>> PREFIX owl: <http://www.w3.org/2002/07/owl#>
>>>> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>>>>
>>>> SELECT ?drug ?enzyme
>>>> WHERE
>>>> { ?drug rdf:type drugbank:drugs .
>>>> ?drug drugbank:enzyme ?enzyme .
>>>> ?enzyme rdf:type drugbank:enzymes
>>>> SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
>>>> { ?drugInSider owl:sameAs ?drug .
>>>> ?drugInSider rdf:type sider:drugs .
>>>> ?drugInSider sider:sideEffect ?sideEffect .
>>>> ?sideEffect rdf:type sider:side_effects
>>>> }
>>>> }
>>>> LIMIT 10
>>>>
>>>> The codes I am using are:
>>>>
>>>> val query = QueryFactory.create(qStr)
>>>> val qexec =
>>>> QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
>>>> query)
>>>> try {
>>>> val results = qexec.execSelect()
>>>> while (results.hasNext()) {
>>>> val result = results.next
>>>> println(result.get("drug") + "\t" + result.get("enzyme"))// +
>>>> "\t" + result.get("sideEffect"))
>>>> }
>>>> } finally {
>>>> qexec.close();
>>>> }
>>>>
>>>> Many thanks!
>>>>
>>>> Best wishes,
>>>>
>>>> June
--
----------------
Zhu Man, (+86)13851764837
School of Computer Science & Engineering
Southeast University, Nanjing
Re: HTTPException:500 exception while executing a federated SPARQL
query with Jena ARQ
Posted by Andy Seaborne <an...@apache.org>.
On 02/12/13 16:37, zhuman.private wrote:
> Hi Andy,
>
> Sorry for the confusions. http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql is a SPARQL endpoint, so is http://wifo5-04.informatik.uni-mannheim.de/sider/sparql.
> I tried queries separately on the two end points, and both of them are working well. But not when querying on both of them.
>
> best regards
> June
June,
What are the messages (and stacktrace) from the server log files?
Andy
>
>> 在 2013年12月2日，23:26，Andy Seaborne <an...@apache.org> 写道：
>>
>>> On 02/12/13 14:33, June wrote:
>>> Dear list,
>>>
>>> I am trying to perform a federated SPARQL query by Jena arq for the
>>> first time, and I am using the latest version of Jena.
>>>
>>> But I encountered a HTTPException:500 exception for executing the
>>> following query. It will be very helpful if you can give me some tips
>>> about this problem.
>>
>> What is http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql running? Is it Jena or another system?
>>
>> If it's Fuseki, what are the messages (and stacktrace) from the server log file?
>>
>> Andy
>>
>>>
>>> PREFIX drugbank:
>>> <http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
>>> PREFIX sider:
>>> <http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
>>> PREFIX owl: <http://www.w3.org/2002/07/owl#>
>>> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>>>
>>> SELECT ?drug ?enzyme
>>> WHERE
>>> { ?drug rdf:type drugbank:drugs .
>>> ?drug drugbank:enzyme ?enzyme .
>>> ?enzyme rdf:type drugbank:enzymes
>>> SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
>>> { ?drugInSider owl:sameAs ?drug .
>>> ?drugInSider rdf:type sider:drugs .
>>> ?drugInSider sider:sideEffect ?sideEffect .
>>> ?sideEffect rdf:type sider:side_effects
>>> }
>>> }
>>> LIMIT 10
>>>
>>> The codes I am using are:
>>>
>>> val query = QueryFactory.create(qStr)
>>> val qexec =
>>> QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
>>> query)
>>> try {
>>> val results = qexec.execSelect()
>>> while (results.hasNext()) {
>>> val result = results.next
>>> println(result.get("drug") + "\t" + result.get("enzyme"))// +
>>> "\t" + result.get("sideEffect"))
>>> }
>>> } finally {
>>> qexec.close();
>>> }
>>>
>>> Many thanks!
>>>
>>> Best wishes,
>>>
>>> June
>>
Re: HTTPException:500 exception while executing a federated SPARQL query with Jena ARQ
Posted by "zhuman.private" <zh...@gmail.com>.
Hi Andy,
Sorry for the confusions. http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql is a SPARQL endpoint, so is http://wifo5-04.informatik.uni-mannheim.de/sider/sparql.
I tried queries separately on the two end points, and both of them are working well. But not when querying on both of them.
best regards
June
> 在 2013年12月2日，23:26，Andy Seaborne <an...@apache.org> 写道：
>
>> On 02/12/13 14:33, June wrote:
>> Dear list,
>>
>> I am trying to perform a federated SPARQL query by Jena arq for the
>> first time, and I am using the latest version of Jena.
>>
>> But I encountered a HTTPException:500 exception for executing the
>> following query. It will be very helpful if you can give me some tips
>> about this problem.
>
> What is http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql running? Is it Jena or another system?
>
> If it's Fuseki, what are the messages (and stacktrace) from the server log file?
>
> Andy
>
>>
>> PREFIX drugbank:
>> <http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
>> PREFIX sider:
>> <http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
>> PREFIX owl: <http://www.w3.org/2002/07/owl#>
>> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>>
>> SELECT ?drug ?enzyme
>> WHERE
>> { ?drug rdf:type drugbank:drugs .
>> ?drug drugbank:enzyme ?enzyme .
>> ?enzyme rdf:type drugbank:enzymes
>> SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
>> { ?drugInSider owl:sameAs ?drug .
>> ?drugInSider rdf:type sider:drugs .
>> ?drugInSider sider:sideEffect ?sideEffect .
>> ?sideEffect rdf:type sider:side_effects
>> }
>> }
>> LIMIT 10
>>
>> The codes I am using are:
>>
>> val query = QueryFactory.create(qStr)
>> val qexec =
>> QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
>> query)
>> try {
>> val results = qexec.execSelect()
>> while (results.hasNext()) {
>> val result = results.next
>> println(result.get("drug") + "\t" + result.get("enzyme"))// +
>> "\t" + result.get("sideEffect"))
>> }
>> } finally {
>> qexec.close();
>> }
>>
>> Many thanks!
>>
>> Best wishes,
>>
>> June
>
Re: HTTPException:500 exception while executing a federated SPARQL
query with Jena ARQ
Posted by Andy Seaborne <an...@apache.org>.
On 02/12/13 14:33, June wrote:
> Dear list,
>
> I am trying to perform a federated SPARQL query by Jena arq for the
> first time, and I am using the latest version of Jena.
>
> But I encountered a HTTPException:500 exception for executing the
> following query. It will be very helpful if you can give me some tips
> about this problem.
What is http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql
running? Is it Jena or another system?
If it's Fuseki, what are the messages (and stacktrace) from the server
log file?
Andy
>
> PREFIX drugbank:
> <http://wifo5-04.informatik.uni-mannheim.de/drugbank/resource/drugbank/>
> PREFIX sider:
> <http://wifo5-04.informatik.uni-mannheim.de/sider/resource/sider/>
> PREFIX owl: <http://www.w3.org/2002/07/owl#>
> PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
>
> SELECT ?drug ?enzyme
> WHERE
> { ?drug rdf:type drugbank:drugs .
> ?drug drugbank:enzyme ?enzyme .
> ?enzyme rdf:type drugbank:enzymes
> SERVICE <http://wifo5-04.informatik.uni-mannheim.de/sider/sparql>
> { ?drugInSider owl:sameAs ?drug .
> ?drugInSider rdf:type sider:drugs .
> ?drugInSider sider:sideEffect ?sideEffect .
> ?sideEffect rdf:type sider:side_effects
> }
> }
> LIMIT 10
>
> The codes I am using are:
>
> val query = QueryFactory.create(qStr)
> val qexec =
> QueryExecutionFactory.sparqlService("http://wifo5-04.informatik.uni-mannheim.de/drugbank/sparql",
> query)
> try {
> val results = qexec.execSelect()
> while (results.hasNext()) {
> val result = results.next
> println(result.get("drug") + "\t" + result.get("enzyme"))// +
> "\t" + result.get("sideEffect"))
> }
> } finally {
> qexec.close();
> }
>
> Many thanks!
>
> Best wishes,
>
> June