[
https://issues.apache.org/jira/browse/JENA-2069?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel
]
Andy Seaborne updated JENA-2069:
--------------------------------
Description:
The Jena JSON-LD serialiser uses the @vocab keyword to represent the default
namespace when a Jena Model object has the default namespace URI defined.
However, explicitly setting a base URI does not seem to work and only the
default namespace is serialised.
RDFWriterBuilder writerBuilder =
RDFWriter.create().source(model).format(format);
writerBuilder.base(baseUri.toString());
I believe the @base keyword should be used to represent the base URIs. For
example, in the Turtle representation, the base property can be used to infer
that the URI for the CodonOptimisationProtocol resource in the example below is
"https://sbolstandard.org/examples/CodonOptimisationProtocol";. As far as I
understand, in JSON-LD representation, the @vocab term would not be used to
infer the URIs for individual resources but for type definitions.
My temporary solution is to remove the default namespace before serialising the
model to avoid the use of the @vocab keyword for now. The use of the @vocab
keyword would be ok, if the @base is also saved.
model.removeNsPrefix("");
Please let me know if more information is needed.
Please see below.
Looking forward to hearing from you.
Thanks
-----------------------
[https://www.w3.org/TR/json-ld11/#default-vocabulary]
[https://www.w3.org/TR/json-ld11/#base-iri]
TURTLE - Both the default namespace and the base URI can be defined using Jena.
{noformat}
@base <https://sbolstandard.org/examples/> .
@prefix : <https://sbolstandard.org/examples/> .
@prefix sbol: <http://sbols.org/v3#> .
@prefix prov: <http://www.w3.org/ns/prov#> .
:CodonOptimisationProtocol
a prov:Plan ;
sbol:description "Optimisation protocol to improve the translation of mRNAs." ;
sbol:displayId "CodonOptimisationProtocol" ;
sbol:name "Codon Optimisation Protocol" .
{noformat}
JSON-LD - Can't define the base URI using Jena.
{noformat}
{
"@id" : "CodonOptimisationProtocol",
"@type" : "prov:Plan",
"description" : "Optimisation protocol to improve the translation of mRNAs.",
"displayId" : "CodonOptimisationProtocol",
"name" : "Codon Optimisation Protocol",
"@context" : {
"description" : { "@id" : "http://sbols.org/v3#description"; } ,
"name" : { "@id" : "http://sbols.org/v3#name"; } ,
"displayId" : { "@id" : "http://sbols.org/v3#displayId"; },
"@vocab" : "https://sbolstandard.org/examples/";,
"sbol" : "http://sbols.org/v3#";,
"prov" : "http://www.w3.org/ns/prov#";
}
}
{noformat}
was:
The Jena JSON-LD serialiser uses the @vocab keyword to represent the default
namespace when a Jena Model object has the default namespace URI defined.
However, explicitly setting a base URI does not seem to work and only the
default namespace is serialised.
RDFWriterBuilder writerBuilder =
RDFWriter.create().source(model).format(format);
writerBuilder.base(baseUri.toString());
I believe the @base keyword should be used to represent the base URIs. For
example, in the Turtle representation, the base property can be used to infer
that the URI for the CodonOptimisationProtocol resource in the example below is
"https://sbolstandard.org/examples/CodonOptimisationProtocol";. As far as I
understand, in JSON-LD representation, the @vocab term would not be used to
infer the URIs for individual resources but for type definitions.
My temporary solution is to remove the default namespace before serialising the
model to avoid the use of the @vocab keyword for now. The use of the @vocab
keyword would be ok, if the @base is also saved.
model.removeNsPrefix("");
Please let me know if more information is needed.
Please see below.
Looking forward to hearing from you.
Thanks
-----------------------
[https://www.w3.org/TR/json-ld11/#default-vocabulary]
[https://www.w3.org/TR/json-ld11/#base-iri]
TURTLE - Both the default namespace and the base URI can be defined using Jena.
{noformat}
@base <[https://sbolstandard.org/examples/]> .
@prefix : <[https://sbolstandard.org/examples/]> .
@prefix sbol: <[http://sbols.org/v3#]> .
@prefix prov: <[http://www.w3.org/ns/prov#]> .
:CodonOptimisationProtocol
a prov:Plan ;
sbol:description "Optimisation protocol to improve the translation of mRNAs." ;
sbol:displayId "CodonOptimisationProtocol" ;
sbol:name "Codon Optimisation Protocol" .
{noformat}
JSON-LD - Can't define the base URI using Jena.
{noformat}
{
"@id" : "CodonOptimisationProtocol",
"@type" : "prov:Plan",
"description" : "Optimisation protocol to improve the translation of mRNAs.",
"displayId" : "CodonOptimisationProtocol",
"name" : "Codon Optimisation Protocol",
"@context" : {
"description" :
{ "@id" : "http://sbols.org/v3#description"; }
,
"name" :
{ "@id" : "http://sbols.org/v3#name"; }
,
"displayId" :
{ "@id" : "http://sbols.org/v3#displayId"; }
,
"@vocab" : "https://sbolstandard.org/examples/";,
"sbol" : "http://sbols.org/v3#";,
"prov" : "http://www.w3.org/ns/prov#";
}
}
{noformat}
> JSON-LD serialisation and the base URI
> --------------------------------------
>
> Key: JENA-2069
> URL: https://issues.apache.org/jira/browse/JENA-2069
> Project: Apache Jena
> Issue Type: Bug
> Components: Jena
> Affects Versions: Jena 3.17.0
> Reporter: Goksel Misirli
> Priority: Critical
>
> The Jena JSON-LD serialiser uses the @vocab keyword to represent the default
> namespace when a Jena Model object has the default namespace URI defined.
> However, explicitly setting a base URI does not seem to work and only the
> default namespace is serialised.
> RDFWriterBuilder writerBuilder =
> RDFWriter.create().source(model).format(format);
> writerBuilder.base(baseUri.toString());
> I believe the @base keyword should be used to represent the base URIs. For
> example, in the Turtle representation, the base property can be used to infer
> that the URI for the CodonOptimisationProtocol resource in the example below
> is "https://sbolstandard.org/examples/CodonOptimisationProtocol";. As far as I
> understand, in JSON-LD representation, the @vocab term would not be used to
> infer the URIs for individual resources but for type definitions.
> My temporary solution is to remove the default namespace before serialising
> the model to avoid the use of the @vocab keyword for now. The use of the
> @vocab keyword would be ok, if the @base is also saved.
> model.removeNsPrefix("");
> Please let me know if more information is needed.
> Please see below.
> Looking forward to hearing from you.
> Thanks
> -----------------------
> [https://www.w3.org/TR/json-ld11/#default-vocabulary]
> [https://www.w3.org/TR/json-ld11/#base-iri]
> TURTLE - Both the default namespace and the base URI can be defined using
> Jena.
> {noformat}
> @base <https://sbolstandard.org/examples/> .
> @prefix : <https://sbolstandard.org/examples/> .
> @prefix sbol: <http://sbols.org/v3#> .
> @prefix prov: <http://www.w3.org/ns/prov#> .
> :CodonOptimisationProtocol
> a prov:Plan ;
> sbol:description "Optimisation protocol to improve the translation of
> mRNAs." ;
> sbol:displayId "CodonOptimisationProtocol" ;
> sbol:name "Codon Optimisation Protocol" .
> {noformat}
> JSON-LD - Can't define the base URI using Jena.
> {noformat}
> {
> "@id" : "CodonOptimisationProtocol",
> "@type" : "prov:Plan",
> "description" : "Optimisation protocol to improve the translation of mRNAs.",
> "displayId" : "CodonOptimisationProtocol",
> "name" : "Codon Optimisation Protocol",
> "@context" : {
> "description" : { "@id" : "http://sbols.org/v3#description"; } ,
> "name" : { "@id" : "http://sbols.org/v3#name"; } ,
> "displayId" : { "@id" : "http://sbols.org/v3#displayId"; },
> "@vocab" : "https://sbolstandard.org/examples/";,
> "sbol" : "http://sbols.org/v3#";,
> "prov" : "http://www.w3.org/ns/prov#";
> }
> }
> {noformat}
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