ambit2.rest.rdf.sparql

Class RDFAbstractFeatureIterator<PROPERTY>

java.lang.Object

ambit2.rest.rdf.sparql.RDFSparqlIterator<PROPERTY>

ambit2.rest.rdf.sparql.RDFAbstractFeatureIterator<PROPERTY>

Type Parameters:

PROPERTY -

All Implemented Interfaces:

Iterator<PROPERTY>

Direct Known Subclasses:

RDFFeatureIterator, RDFFeaturesIterator

public abstract class RDFAbstractFeatureIterator<PROPERTY>
extends RDFSparqlIterator<PROPERTY>

Parses an OpenTox RDF via SPAQRL query and iterates over property instances. All compound properties are represented via ot:Feature class. An ot:Feature class can have name (dc:title); units (ot:units); source of origin (ot:hasSource) , which is either ot:Algorithm, ot:Model or ot:Dataset; owl:sameAs - specifies an URI of an individual from another ontology, which this property is considered equivalent with.

Author:

nina

Field Summary

Fields

Modifier and Type	Field and Description
protected org.restlet.routing.Template	featureTemplate
protected static String	sparql

Fields inherited from class ambit2.rest.rdf.sparql.RDFSparqlIterator

baseReference, jenaModel, nextRecord, nextRecordNode, qe, record, recordIDVar, recordNode, reference, referer, resultSet

Constructor Summary

Constructors

Constructor and Description
RDFAbstractFeatureIterator(InputStream in, org.restlet.data.MediaType mediaType)
RDFAbstractFeatureIterator(com.hp.hpl.jena.rdf.model.Model model)
RDFAbstractFeatureIterator(com.hp.hpl.jena.rdf.model.Model model, String sparql)
RDFAbstractFeatureIterator(org.restlet.data.Reference reference, org.restlet.data.MediaType mediaType, String referer)
RDFAbstractFeatureIterator(org.restlet.data.Reference reference, String referer)
RDFAbstractFeatureIterator(org.restlet.representation.Representation representation, org.restlet.data.MediaType mediaType)

Method Summary

Modifier and Type	Method and Description
protected abstract PROPERTY	newProperty(com.hp.hpl.jena.rdf.model.RDFNode node)
protected PROPERTY	parse(com.hp.hpl.jena.query.QuerySolution querySolution, PROPERTY record)
void	setBaseReference(org.restlet.data.Reference baseReference)
protected abstract void	setName(PROPERTY record, String name) Property name
protected abstract void	setOrigin(PROPERTY record, com.hp.hpl.jena.rdf.model.RDFNode node)
protected abstract void	setSameAs(PROPERTY record, com.hp.hpl.jena.rdf.model.RDFNode node) URI of an individual in an ontology, owl:sameAs this property e.g.
protected abstract void	setUnits(PROPERTY record, String units) Property units

Methods inherited from class ambit2.rest.rdf.sparql.RDFSparqlIterator

close, finalize, getBaseReference, getJenaModel, getRecordURI, hasNext, isSameRecord, next, remove

Methods inherited from class java.lang.Object

clone, equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface java.util.Iterator

forEachRemaining

Field Detail

featureTemplate

protected org.restlet.routing.Template featureTemplate

sparql

protected static final String sparql

See Also:

Constant Field Values

Constructor Detail

RDFAbstractFeatureIterator

public RDFAbstractFeatureIterator(org.restlet.representation.Representation representation,
                                  org.restlet.data.MediaType mediaType)
                           throws org.restlet.resource.ResourceException,
                                  MalformedURLException,
                                  IOException

Throws:

org.restlet.resource.ResourceException

MalformedURLException

IOException

RDFAbstractFeatureIterator

public RDFAbstractFeatureIterator(org.restlet.data.Reference reference,
                                  String referer)
                           throws org.restlet.resource.ResourceException,
                                  MalformedURLException,
                                  IOException

Throws:

org.restlet.resource.ResourceException

MalformedURLException

IOException

RDFAbstractFeatureIterator

public RDFAbstractFeatureIterator(org.restlet.data.Reference reference,
                                  org.restlet.data.MediaType mediaType,
                                  String referer)
                           throws org.restlet.resource.ResourceException,
                                  MalformedURLException,
                                  IOException

Throws:

org.restlet.resource.ResourceException

MalformedURLException

IOException

RDFAbstractFeatureIterator

public RDFAbstractFeatureIterator(InputStream in,
                                  org.restlet.data.MediaType mediaType)
                           throws org.restlet.resource.ResourceException,
                                  MalformedURLException,
                                  IOException

Throws:

org.restlet.resource.ResourceException

MalformedURLException

IOException

RDFAbstractFeatureIterator

public RDFAbstractFeatureIterator(com.hp.hpl.jena.rdf.model.Model model,
                                  String sparql)
                           throws org.restlet.resource.ResourceException

Throws:

org.restlet.resource.ResourceException

RDFAbstractFeatureIterator

public RDFAbstractFeatureIterator(com.hp.hpl.jena.rdf.model.Model model)
                           throws org.restlet.resource.ResourceException

Throws:

org.restlet.resource.ResourceException

Method Detail

setBaseReference

public void setBaseReference(org.restlet.data.Reference baseReference)

Overrides:

setBaseReference in class RDFSparqlIterator<PROPERTY>

newProperty

protected abstract PROPERTY newProperty(com.hp.hpl.jena.rdf.model.RDFNode node)

Parameters:

node -

Returns:

new PROPERTY instance

parse

protected PROPERTY parse(com.hp.hpl.jena.query.QuerySolution querySolution,
                         PROPERTY record)

Specified by:

parse in class RDFSparqlIterator<PROPERTY>

setName

protected abstract void setName(PROPERTY record,
                                String name)

Property name

Parameters:

record -

name -

setUnits

protected abstract void setUnits(PROPERTY record,
                                 String units)

Property units

Parameters:

record -

units -

setOrigin

protected abstract void setOrigin(PROPERTY record,
                                  com.hp.hpl.jena.rdf.model.RDFNode node)

Parameters:

record -

node - URI resource of the algorithm or model, generating the property or URI to the dataset or a bibliographic reference the property originates.

setSameAs

protected abstract void setSameAs(PROPERTY record,
                                  com.hp.hpl.jena.rdf.model.RDFNode node)

URI of an individual in an ontology, owl:sameAs this property e.g. if BlueObelisk cheminformatics algorithm ontology or ECHA endpoints ontology, or an individual from another OWL

Parameters:

record -

node -