Adding DocumentModifiers to add values from ISF context nodes to Solr Documents.
This commit is contained in:
Brian Caruso
parent
48b8f3797f
commit
d58b031132
9 changed files with 7137 additions and 11 deletions
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@ -35,29 +35,33 @@ public class VivoAgentContextNodeFields extends ContextNodeFields{
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//queries for foaf:Agent
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static {
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/* Position */
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/* Positions for People */
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queriesForAgent.add(prefix +
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"SELECT " +
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"(str(?ContextNodeProperty) as ?contextNodeProperty) WHERE {" +
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" ?uri rdf:type foaf:Agent ; ?b ?c . " +
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" ?uri rdf:type foaf:Agent . " +
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" ?uri ?b ?c . " +
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" ?c rdf:type core:Position . " +
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" ?c core:hrJobTitle ?ContextNodeProperty . }");
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queriesForAgent.add(prefix + "SELECT " +
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"(str(?ContextNodeProperty) as ?contextNodeProperty) WHERE {" +
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" ?uri rdf:type foaf:Agent ; ?b ?c . " +
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" ?uri rdf:type foaf:Agent . " +
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" ?uri ?b ?c . " +
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" ?c rdf:type core:Position . " +
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" ?c core:involvedOrganizationName ?ContextNodeProperty . }");
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queriesForAgent.add(prefix + "SELECT " +
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"(str(?ContextNodeProperty) as ?contextNodeProperty) WHERE {" +
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" ?uri rdf:type foaf:Agent ; ?b ?c . " +
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" ?uri rdf:type foaf:Agent . " +
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" ?uri ?b ?c . " +
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" ?c rdf:type core:Position . " +
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" ?c core:positionInOrganization ?i . ?i rdfs:label ?ContextNodeProperty . }");
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queriesForAgent.add(prefix + "SELECT " +
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"(str(?ContextNodeProperty) as ?contextNodeProperty) WHERE {" +
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" ?uri rdf:type foaf:Agent ; ?b ?c . " +
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" ?uri rdf:type foaf:Agent . " +
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" ?uri ?b ?c . " +
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" ?c rdf:type core:Position . " +
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" ?c core:titleOrRole ?ContextNodeProperty . }");
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@ -15,9 +15,20 @@ import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceFactory;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.impl.RDFServiceUtils;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.CalculateParameters;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.DocumentModifier;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.ExcludeBasedOnNamespace;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.SearchIndexExcluder;
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public class VivoDocumentModifiers implements javax.servlet.ServletContextListener{
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/**
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* Exclude from the search index individuals who's URIs start with these namespaces.
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*/
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private static final String[] INDIVIDUAL_NS_EXCLUDES={
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//bdc34: seems that there are a lot of odd OBO things in the search, exclude them
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"http://purl.obolibrary.org/obo/"
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};
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@SuppressWarnings("unchecked")
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@Override
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public void contextInitialized(ServletContextEvent sce) {
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@ -26,14 +37,35 @@ public class VivoDocumentModifiers implements javax.servlet.ServletContextListen
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Dataset dataset = DatasetFactory.create(ModelAccess.on(context).getJenaOntModel());
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/* put DocumentModifiers into servlet context for use later in startup by SolrSetup */
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/* Put DocumentModifiers into servlet context for use later in startup by SolrSetup
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* This adds the code for VIVO specific additions to the building
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* of solr Documents. */
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List<DocumentModifier> modifiers = (List<DocumentModifier>)context.getAttribute("DocumentModifiers");
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if( modifiers == null ){
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modifiers = new ArrayList<DocumentModifier>();
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context.setAttribute("DocumentModifiers", modifiers);
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}
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List<DocumentModifier> modifiers = new ArrayList<DocumentModifier>();
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modifiers.add(new CalculateParameters(dataset)); //
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modifiers.add(new VivoAgentContextNodeFields(rdfServiceFactory));
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modifiers.add(new VivoInformationResourceContextNodeFields(rdfServiceFactory));
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modifiers.add(new CalculateParameters(dataset));
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modifiers.add( new VivoISFBasicFields( rdfServiceFactory ));
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modifiers.add( new VivoISFAdvisingFields( rdfServiceFactory ));
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modifiers.add( new VivoISFEducationFields( rdfServiceFactory ));
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modifiers.add( new VivoISFGrantFields( rdfServiceFactory ));
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modifiers.add( new VivoISFMemberFields( rdfServiceFactory ));
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modifiers.add(new VivoInformationResourceContextNodeFields(rdfServiceFactory));
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context.setAttribute("DocumentModifiers", modifiers);
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/*
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* Add VIVO specific code that excludes Individuals from the search index.
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*/
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List<SearchIndexExcluder> excludes =
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(List<SearchIndexExcluder>)context.getAttribute("SearchIndexExcludes");
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if( excludes == null ){
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excludes = new ArrayList<SearchIndexExcluder>();
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context.setAttribute("SearchIndexExcludes", excludes);
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}
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excludes.add(new ExcludeBasedOnNamespace(INDIVIDUAL_NS_EXCLUDES ));
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}
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@Override
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@ -0,0 +1,52 @@
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package edu.cornell.mannlib.vitro.webapp.search.solr;
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import java.util.ArrayList;
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import java.util.List;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceFactory;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.ContextNodeFields;
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/**
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* DocumentModifier for adding rdfs:labels of individuals related via
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* a advising relationship.
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*
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* @author bdc34
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*
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*/
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public class VivoISFAdvisingFields extends ContextNodeFields {
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private static String VIVONS = "http://vivoweb.org/ontology/core#";
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protected static final String prefix =
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" prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> \n"
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+ " prefix core: <" + VIVONS + "> \n"
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+ " prefix foaf: <http://xmlns.com/foaf/0.1/> \n"
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+ " prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> \n"
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+ " prefix obo: <http://purl.obolibrary.org/obo/> \n" ;
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static List<String> queries = new ArrayList<String>();
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static{
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queries.add( makeQueryForPeople() );
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}
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public VivoISFAdvisingFields(RDFServiceFactory rdfServiceFactory){
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super(queries,rdfServiceFactory);
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}
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/**
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* This query will get all the labels for the other
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* person in the relationship.
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*/
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private static String makeQueryForPeople(){
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return prefix +
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"SELECT \n" +
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"(str(?result) as ?result) WHERE \n" +
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"{\n" +
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" ?uri core:relatedBy ?rel . \n" +
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" ?rel rdf:type core:AdvisingRelationship . \n" +
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" ?rel core:relates ?other . \n" +
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" ?other rdfs:label ?result . \n" +
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"}";
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}
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}
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@ -0,0 +1,71 @@
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package edu.cornell.mannlib.vitro.webapp.search.solr;
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import java.util.ArrayList;
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import java.util.List;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceFactory;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.ContextNodeFields;
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/**
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* DocumentModifier to populate Solr fields for the basic ISF relationships.
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*
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* This will add the all rdfs:labels of the related individuals to the solr document.
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*
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* @author bdc34
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*/
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public class VivoISFBasicFields extends ContextNodeFields {
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private static String VIVONS = "http://vivoweb.org/ontology/core#";
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/**
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* Subtypes of vivo:Relationship that get handled by this class.
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*/
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private static String[] RELATIONSHIP_TYPES = {
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//VIVONS + "Relationship",
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VIVONS + "Postion",
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VIVONS + "Authorship",
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VIVONS + "Collaboration",
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VIVONS + "Affiliation"
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};
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static List<String> queries = new ArrayList<String>();
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public VivoISFBasicFields(RDFServiceFactory rdfServiceFactory){
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super(queries,rdfServiceFactory);
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}
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protected static final String prefix =
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" prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> \n"
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+ " prefix core: <" + VIVONS + "> \n"
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+ " prefix foaf: <http://xmlns.com/foaf/0.1/> \n"
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+ " prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> \n"
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+ " prefix obo: <http://purl.obolibrary.org/obo/> \n" ;
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static {
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/* make a string of the RELATIONSHIP_TYPES for use in
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* a SPARQL IN clause */
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String types = "";
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for( int i = 0 ; i < RELATIONSHIP_TYPES.length ; i++ ){
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types += RELATIONSHIP_TYPES[i];
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if( i != RELATIONSHIP_TYPES.length - 1 ){
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types += ", ";
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}
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}
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queries.add(
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prefix +
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"SELECT \n" +
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"(str(?result) as ?result) WHERE \n" +
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"{\n" +
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" ?uri core:relatedBy ?rel . \n" +
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" ?rel rdf:type ?type . \n" +
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" ?rel core:relates ?other . \n" +
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" ?other rdfs:label ?result . \n" +
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" FILTER ( ?type IN ( " + types + " ) )\n" +
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"}" );
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}
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}
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@ -0,0 +1,56 @@
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package edu.cornell.mannlib.vitro.webapp.search.solr;
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import java.util.ArrayList;
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import java.util.List;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceFactory;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.ContextNodeFields;
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public class VivoISFEducationFields extends ContextNodeFields {
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private static String VIVONS = "http://vivoweb.org/ontology/core#";
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protected static final String prefix =
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" prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> \n"
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+ " prefix core: <" + VIVONS + "> \n"
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+ " prefix foaf: <http://xmlns.com/foaf/0.1/> \n"
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+ " prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> \n"
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+ " prefix obo: <http://purl.obolibrary.org/obo/> \n" ;
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public VivoISFEducationFields(RDFServiceFactory rdfServiceFactory){
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super(queries,rdfServiceFactory);
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}
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/**
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* This query will get all the labels for the degree.
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*/
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private static String queryForDegree =
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prefix +
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"SELECT \n" +
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"(str(?result) as ?result) WHERE \n" +
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"{\n" +
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" ?uri core:relates ?deg . \n" +
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" ?deg rdf:type core:AwardedDegree . \n" +
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" ?deg rdfs:label ?result . \n" +
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"}";
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/**
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* This will get all labels for the organization.
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*/
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private static String queryForOrganization =
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prefix +
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"SELECT \n" +
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"(str(?result) as ?result) WHERE \n" +
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"{\n" +
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" ?uri core:relates ?deg . \n" +
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" ?deg rdf:type core:AwardedDegree . \n" +
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" ?deg core:assignedBy ?org . \n" +
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" ?org rdfs:label ?result . \n" +
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"}";
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static List<String> queries = new ArrayList<String>();
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static{
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queries.add( queryForDegree );
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queries.add( queryForOrganization );
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}
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}
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@ -0,0 +1,159 @@
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package edu.cornell.mannlib.vitro.webapp.search.solr;
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import java.util.ArrayList;
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import java.util.List;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceFactory;
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import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.ContextNodeFields;
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/*
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* This DocumentModifier is for the ISF style grants.
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* It will
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* add people's names to the grant's Solr Document
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* add the grant's name to the people's Solr Document
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* add the grant's name to the Organization's Solr Document
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* add the organization's name to the grant's Solr Document
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* add the grant's names to the project's Solr Document
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* add the people's names to the project's Solr Document
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* add the project's name to the grant's Solr Document
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* add the project's name to the people's Solr Document
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*/
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public class VivoISFGrantFields extends ContextNodeFields {
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private static String VIVONS = "http://vivoweb.org/ontology/core#";
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protected static final String prefix =
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" prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> \n"
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+ " prefix core: <" + VIVONS + "> \n"
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+ " prefix foaf: <http://xmlns.com/foaf/0.1/> \n"
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+ " prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> \n"
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+ " prefix obo: <http://purl.obolibrary.org/obo/> \n" ;
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public VivoISFGrantFields(RDFServiceFactory rdfServiceFactory){
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super(queries,rdfServiceFactory);
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}
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/**
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* Query to add people's names to the grant's Solr Document.
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* ?uri is the URI of a grant.
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*/
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private static String peopleForGrant =
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prefix +
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"SELECT (str(?result) as ?result) WHERE {\n" +
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" ?uri rdf:type core:Grant . \n" +
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" ?uri core:relates ?person . \n" +
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" ?person rdf:type foaf:Person . \n" +
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" ?person rdfs:label ?result . \n" +
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"}";
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/**
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* Query to add the grant's name to the people's Solr Document.
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* ?uri is the URI of a person.
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*/
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private static String grantsForPerson =
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prefix +
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"SELECT \n" +
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"(str(?result) as ?result) WHERE \n" +
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"{\n" +
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" ?uri rdf:type foaf:Person . \n" +
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" ?grant core:relates ?uri . \n" +
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" ?grant rdf:type core:Grant . \n" +
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" ?grant rdfs:label ?result . \n" +
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"}";
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/**
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* Query to add the grant's name to the Organization's Solr Document.
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* ?uri is the URI of an Organization.
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*/
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private static String grantsForOrganization =
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prefix +
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"SELECT (str(?result) as ?result) WHERE {\n" +
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" ?uri rdf:type foaf:Organization . \n" +
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" ?grant core:relates ?uri . \n" +
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" ?grant rdf:type core:Grant . \n" +
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" ?grant rdfs:label ?result . \n" +
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"}";
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/**
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* Query to add the organization's name to the grant's Solr Document.
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* ?uri is the URI of a grant.
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*/
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private static String organizationsForGrant =
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prefix +
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"SELECT (str(?result) as ?result) WHERE {\n" +
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" ?uri rdf:type core:Grant . \n" +
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" ?uri core:relates ?org . \n" +
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" ?org rdf:type foaf:Organization . \n" +
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" ?org rdfs:label ?result . \n" +
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"}";
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/**
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* Query to add the grant's names to the project's Solr Document.
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* ?uir is the URI of a Project.
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*/
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private static String grantsForProject =
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prefix +
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"SELECT (str(?result) as ?result) WHERE {\n" +
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" ?uri rdf:type core:Project . \n" +
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" ?role obo:BFO_0000054 ?uri . \n" +
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" ?grant core:relates ?role . \n" +
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" ?grant rdf:type core:Grant . \n" +
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" ?grant rdfs:label ?result . \n" +
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"}";
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/**
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* Query to add the people's names to the project's Solr Document.
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* ?uri is the URI of a Project.
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*/
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private static String peopleForProject =
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prefix +
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"SELECT (str(?result) as ?result) WHERE {\n" +
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" ?uri rdf:type core:Project . \n" +
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" ?role obo:BFO_0000054 ?uri . \n" +
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" ?role obo:RO_0000053 ?person . \n" +
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" ?person rdf:type foaf:Person . \n" +
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" ?person rdfs:label ?result . \n" +
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"}";
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/**
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* Query to add the project's name to the grant's Solr Document.
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* ?uri is the URI of a grant.
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*/
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private static String projectsForGrant =
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prefix +
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"SELECT \n" +
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"(str(?result) as ?result) WHERE \n" +
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"{\n" +
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" ?uri rdf:type core:Grant. \n" +
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" ?uri core:relates ?role . \n" +
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" ?role obo:BFO_0000054 ?project . \n" +
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" ?project rdf:type core:Project . \n" +
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" ?project rdfs:label ?result . \n" +
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"}";
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/**
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* Query to add the project's name to the people's Solr Document.
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* ?uri is the URI of a person.
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*/
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private static String projectsForPerson =
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prefix +
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"SELECT (str(?result) as ?result) WHERE {\n" +
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" ?uri rdf:type foaf:Person . \n" +
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" ?uri obo:RO_0000053 ?role . \n" +
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" ?role obo:BFO_0000054 ?project . \n" +
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" ?project rdf:type core:Project . \n" +
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" ?project rdfs:label ?result . \n" +
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"}";
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static List<String> queries = new ArrayList<String>();
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static{
|
||||
queries.add( peopleForGrant );
|
||||
queries.add( grantsForPerson );
|
||||
queries.add( grantsForOrganization );
|
||||
queries.add( organizationsForGrant );
|
||||
queries.add( grantsForProject );
|
||||
queries.add( peopleForProject );
|
||||
queries.add( projectsForGrant );
|
||||
queries.add( projectsForPerson );
|
||||
}
|
||||
}
|
||||
|
|
@ -0,0 +1,60 @@
|
|||
package edu.cornell.mannlib.vitro.webapp.search.solr;
|
||||
|
||||
import java.util.ArrayList;
|
||||
import java.util.List;
|
||||
|
||||
import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceFactory;
|
||||
import edu.cornell.mannlib.vitro.webapp.search.solr.documentBuilding.ContextNodeFields;
|
||||
|
||||
/**
|
||||
* This class will:
|
||||
* add people's names to organization's Solr Documents.
|
||||
* add organization names to people's Solr Documents.
|
||||
*
|
||||
* @author bdc34
|
||||
*
|
||||
*/
|
||||
public class VivoISFMemberFields extends ContextNodeFields {
|
||||
private static String VIVONS = "http://vivoweb.org/ontology/core#";
|
||||
|
||||
protected static final String prefix =
|
||||
" prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> \n"
|
||||
+ " prefix core: <" + VIVONS + "> \n"
|
||||
+ " prefix foaf: <http://xmlns.com/foaf/0.1/> \n"
|
||||
+ " prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> \n"
|
||||
+ " prefix obo: <http://purl.obolibrary.org/obo/> \n" ;
|
||||
|
||||
public VivoISFMemberFields(RDFServiceFactory rdfServiceFactory){
|
||||
super(queries,rdfServiceFactory);
|
||||
}
|
||||
|
||||
/**
|
||||
* Add people's names to organization's Solr Documents.
|
||||
*/
|
||||
private static String peopleForOrganization =
|
||||
prefix +
|
||||
"SELECT (str(?result) as ?result) WHERE {\n" +
|
||||
" ?uri rdf:type foaf:Organization . \n" +
|
||||
" ?role vivo:roleContrigutesTo ?uri . \n" +
|
||||
" ?person obo:RO_0000053 ?role . \n" +
|
||||
" ?person rdfs:label ?result .\n" +
|
||||
"}";
|
||||
|
||||
/**
|
||||
* add organization names to people's Solr Documents.
|
||||
*/
|
||||
private static String organizationForPeople =
|
||||
prefix +
|
||||
"SELECT (str(?result) as ?result) WHERE {\n" +
|
||||
" ?uri rdf:type foaf:Person . \n" +
|
||||
" ?uri obo:RO_0000053 / vivo:roleContrigutesTo / rdfs:label ?result . \n" +
|
||||
"}";
|
||||
|
||||
|
||||
static List<String> queries = new ArrayList<String>();
|
||||
|
||||
static{
|
||||
queries.add( peopleForOrganization );
|
||||
queries.add( organizationForPeople );
|
||||
}
|
||||
}
|
||||
File diff suppressed because it is too large
Load diff
|
|
@ -0,0 +1,82 @@
|
|||
/* $This file is distributed under the terms of the license in /doc/license.txt$ */
|
||||
package edu.cornell.mannlib.vitro.webapp.search.solr;
|
||||
|
||||
import static org.junit.Assert.*;
|
||||
|
||||
import java.io.InputStream;
|
||||
|
||||
import org.apache.commons.lang.StringUtils;
|
||||
import org.apache.solr.common.SolrInputDocument;
|
||||
import org.junit.BeforeClass;
|
||||
import org.junit.Test;
|
||||
|
||||
import com.hp.hpl.jena.rdf.model.Model;
|
||||
import com.hp.hpl.jena.rdf.model.ModelFactory;
|
||||
import com.hp.hpl.jena.rdf.model.Property;
|
||||
import com.hp.hpl.jena.rdf.model.RDFNode;
|
||||
import com.hp.hpl.jena.rdf.model.ResourceFactory;
|
||||
|
||||
import edu.cornell.mannlib.vitro.testing.AbstractTestClass;
|
||||
import edu.cornell.mannlib.vitro.webapp.beans.Individual;
|
||||
import edu.cornell.mannlib.vitro.webapp.beans.IndividualImpl;
|
||||
import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFService;
|
||||
import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceFactory;
|
||||
import edu.cornell.mannlib.vitro.webapp.rdfservice.impl.RDFServiceFactorySingle;
|
||||
import edu.cornell.mannlib.vitro.webapp.rdfservice.impl.jena.model.RDFServiceModel;
|
||||
|
||||
/**
|
||||
* Second test for VivoAgentContextNodeFields. This is duplicated
|
||||
* due to using a different data set in the test.
|
||||
*
|
||||
*/
|
||||
public class VivoAgentContextNodeFieldsTest2 extends AbstractTestClass{
|
||||
|
||||
static String HISTORY_DEPT = "http://vivo.colorado.edu/deptid_10238" ;
|
||||
|
||||
static RDFServiceFactory rdfServiceFactory;
|
||||
|
||||
@BeforeClass
|
||||
public static void setup(){
|
||||
Model m = ModelFactory.createDefaultModel();
|
||||
InputStream stream = VivoAgentContextNodeFieldsTest2
|
||||
.class.getResourceAsStream("./VIVO146_DataSet1.n3");
|
||||
assertTrue("Expected to find RDF data file " , stream != null );
|
||||
|
||||
long preloadSize = m.size();
|
||||
|
||||
m.read(stream, null, "N3");
|
||||
assertTrue("expected to load statements from file", m.size() > preloadSize );
|
||||
|
||||
System.out.println("size of m : " + m.size());
|
||||
|
||||
assertTrue("expect statements about HISTORY_DEPT",
|
||||
m.contains(ResourceFactory.createResource(HISTORY_DEPT),(Property) null,(RDFNode) null));
|
||||
|
||||
RDFService rdfService = new RDFServiceModel(m);
|
||||
rdfServiceFactory = new RDFServiceFactorySingle(rdfService);
|
||||
}
|
||||
|
||||
/**
|
||||
* Test how many times history is returned for context nodes
|
||||
* of the History department.
|
||||
*/
|
||||
@Test
|
||||
public void testHistory(){
|
||||
Individual ind = new IndividualImpl();
|
||||
ind.setURI(HISTORY_DEPT);
|
||||
|
||||
VivoAgentContextNodeFields vacnf = new VivoAgentContextNodeFields(rdfServiceFactory);
|
||||
StringBuffer sb = vacnf.getValues( ind );
|
||||
|
||||
assertNotNull( sb );
|
||||
String value = sb.toString();
|
||||
|
||||
assertTrue("Expected to get some text back from "
|
||||
+ "VivoAgentContextNodeFields but got none" , !value.trim().isEmpty());
|
||||
|
||||
int count = StringUtils.countMatches(value.toLowerCase(),"history");
|
||||
System.out.println("histories: " + count);
|
||||
System.out.println("'" + value + "'");
|
||||
// assertTrue("expected to have jane because SPCA advises jane", hasJane);
|
||||
}
|
||||
}
|
||||
Loading…
Add table
Add a link
Reference in a new issue