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latest ontology and update code

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This commit is contained in:
stellamit 2011-10-27 18:20:59 +00:00
parent bdcffa2c0c
commit b155729002
7 changed files with 2707 additions and 2857 deletions
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12
productMods/WEB-INF/filegraph/tbox/scires-1.4.owl
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@ -13,6 +13,11 @@
xmlns:j.5="http://purl.org/dc/terms/"
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" >
<rdf:Description rdf:nodeID="A0">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#Restriction"/>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/ERO_0000460"/>
<owl:allValuesFrom rdf:resource="http://purl.org/ontology/bibo/Document"/>
</rdf:Description>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#Ontology"/>
</rdf:Description>
@ -64,11 +69,6 @@
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#Class"/>
<vitro:descriptionAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">In Phase 2 trials, an experimental study drug or treatment is given to a larger group of people (100-300) to see if it is effective and to further evaluate its safety.</vitro:descriptionAnnot>
</rdf:Description>
<rdf:Description rdf:nodeID="A0">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#Restriction"/>
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/ERO_0000460"/>
<owl:allValuesFrom rdf:resource="http://purl.org/ontology/bibo/Document"/>
</rdf:Description>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/ERO_0000392">
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#Class"/>
<vitro:descriptionAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A service in which a service consumer provides some material or data as input which a service provider stores and returns as output.</vitro:descriptionAnnot>
@ -136,10 +136,10 @@ NOTE that we are not addressing for now the issue of whether a foaf:Person is a
</vitro:descriptionAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/ERO_0000004">
<rdfs:subClassOf rdf:nodeID="A0"/>
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#Class"/>
<vitro:descriptionAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An implement used to facilitate work, especially precision work.</vitro:descriptionAnnot>
<vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An implement used to facilitate work, especially precision work.</vitro:shortDef>
<rdfs:subClassOf rdf:nodeID="A0"/>
<rdfs:subClassOf rdf:resource="http://vivoweb.org/ontology/core#Equipment"/>
</rdf:Description>
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/ERO_0000029">

2726
productMods/WEB-INF/filegraph/tbox/vivo-core-1.4.owl
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2731
productMods/WEB-INF/ontologies/public/vivo-core-public-1.4.owl
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6
productMods/WEB-INF/ontologies/update/diff.tab.txt
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@ -5,8 +5,8 @@ http://vivoweb.org/ontology/core#subjectAreaFor No Delete Delete
http://vivoweb.org/ontology/core#researchAreaOf No Delete Delete
http://vivoweb.org/ontology/core#roleIn No Delete Delete
http://vivoweb.org/ontology/core#relatedRole No Delete Delete
http://vivoweb.org/ontology/core#VocabularySourceReference http://vivoweb.org/ontology/core#URLLink Yes Map Directly-changed
http://vivoweb.org/ontology/core#sourceVocabularyReference http://vivoweb.org/ontology/core#webpage Yes Map Directly-changed
http://vivoweb.org/ontology/core#vocabularyReferenceFor http://vivoweb.org/ontology/core#webpageOf Yes Map Directly-changed
http://vivoweb.org/ontology/core#URLLink No Delete Delete
http://vivoweb.org/ontology/core#sourceVocabularyReference No Delete Delete
http://vivoweb.org/ontology/core#vocabularyReferenceFor No Delete Delete
http://vivoweb.org/ontology/core#addressStreet http://vivoweb.org/ontology/core#address1 Yes Map Directly-changed
http://vivoweb.org/ontology/core#addressDepartment http://vivoweb.org/ontology/core#address2 Yes Map Directly-changed

27
productMods/WEB-INF/ontologies/update/sparqlConstructs/additions/ExternalConcept.sparql Normal file
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@ -0,0 +1,27 @@
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX swrl: <http://www.w3.org/2003/11/swrl#>
PREFIX swrlb: <http://www.w3.org/2003/11/swrlb#>
PREFIX vitro: <http://vitro.mannlib.cornell.edu/ns/vitro/0.7#>
PREFIX vivo: <http://vivo.library.cornell.edu/ns/0.1#>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX event: <http://purl.org/NET/c4dm/event.owl#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX vivo: <http://vivoweb.org/ontology/core#>
Construct {
?something vivo:hasAssociatedConcept ?uri .
?uri vivo:conceptAssociatedWith ?something
} where {
{?something vivo:hasSubjectArea ?concept}
union
{?something vivo:hasResearchArea ?concept}
?concept rdf:type vivo:SubjectArea .
?concept vivo:vocabularySourceReference ?urllink .
?urllink vivo:linkURI ?uri
}

17
productMods/WEB-INF/ontologies/update/sparqlConstructs/additions/SubjectAreaAsConcept.sparql → productMods/WEB-INF/ontologies/update/sparqlConstructs/additions/InternalConcept.sparql
View file

@ -14,17 +14,20 @@ PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX vivo: <http://vivoweb.org/ontology/core#>
Construct {
?something vivo:terminologyAnnotation _:terminologyAnnotation .
_:terminologyAnnotation rdf:type vivo:TerminologyAnnotation .
_:terminologyAnnotation vivo:referencedTerm _:concept .
?something vivo:hasAssociatedConcept _:concept .
_:concept vivo:conceptAssociatedWith ?something .
_:concept rdf:type skos:Concept .
_:concept rdfs:label ?label
} where {
{?something vivo:hasSubjectArea ?area}
{?something vivo:hasSubjectArea ?concept}
union
{?something vivo:hasResearchArea ?area}
{?something vivo:hasResearchArea ?concept}
?something rdf:type vivo:SubjectArea
?concept rdf:type vivo:SubjectArea .
optional {?area rdfs:label ?label}
optional {?concept rdfs:label ?label}
optional {?concept vivo:vocabularySourceReference ?urllink}
filter (!bound(?urllink))
}

45
productMods/WEB-INF/ontologies/user/tbox/vivo-core-1.4-annotations.rdf
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@ -783,6 +783,11 @@
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#nobody"/>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#conceptAssociatedWith">
<rdfs:label xml:lang="en-US">concept for</rdfs:label>
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">5</vitro:displayLimitAnnot>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">20</vitro:displayRankAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://aims.fao.org/aos/geopolitical.owl#nameOfficialIT">
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#nobody"/>
@ -1094,16 +1099,6 @@
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">-1</vitro:displayRankAnnot>
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">-1</vitro:displayLimitAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#terminologyAnnotation">
<rdfs:label xml:lang="en-US">terminology annotation</rdfs:label>
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">5</vitro:displayLimitAnnot>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:selectFromExistingAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</vitro:selectFromExistingAnnot>
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">20</vitro:displayRankAnnot>
<vitro:customEntryFormAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">terminologyAnnotation.jsp</vitro:customEntryFormAnnot>
<vitro:offerCreateNewOptionAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</vitro:offerCreateNewOptionAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#address3">
<rdfs:label xml:lang="en-US">address3</rdfs:label>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">10</vitro:displayRankAnnot>
@ -1588,6 +1583,15 @@
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">-1</vitro:displayLimitAnnot>
<rdfs:label xml:lang="en-US">Museum</rdfs:label>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#hasAssociatedConcept">
<rdfs:label xml:lang="en-US">associated concept</rdfs:label>
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">5</vitro:displayLimitAnnot>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">20</vitro:displayRankAnnot>
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:selectFromExistingAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</vitro:selectFromExistingAnnot>
<vitro:inPropertyGroupAnnot rdf:resource="http://vivoweb.org/ontology#vitroPropertyGroupoverview"/>
</rdf:Description>
<rdf:Description rdf:about="http://purl.org/ontology/bibo/affirmedBy">
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#nobody"/>
<rdfs:label xml:lang="en-US">affirmedBy</rdfs:label>
@ -1787,13 +1791,6 @@
<vitro:offerCreateNewOptionAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</vitro:offerCreateNewOptionAnnot>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#referencedTerm">
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">-1</vitro:displayLimitAnnot>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">4</vitro:displayRankAnnot>
<rdfs:label xml:lang="en-US">referenced term</rdfs:label>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#TransnationalRegion">
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">-1</vitro:displayRankAnnot>
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">-1</vitro:displayLimitAnnot>
@ -1825,8 +1822,8 @@
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:inPropertyGroupAnnot rdf:resource="http://vivoweb.org/ontology#vitroPropertyGroupoverview"/>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">1</vitro:displayRankAnnot>
<rdfs:label xml:lang="en-US">term label</rdfs:label>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">1</vitro:displayRankAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#degreeOutcomeOf">
<rdfs:label xml:lang="en-US">degree outcome of</rdfs:label>
@ -2732,14 +2729,6 @@
<vitro:inPropertyGroupAnnot rdf:resource="http://vivoweb.org/ontology#vitroPropertyGroupoverview"/>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">59</vitro:displayRankAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#TerminologyAnnotation">
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:inClassGroup rdf:resource="http://vivoweb.org/ontology#vitroClassGrouppublications"/>
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">1</vitro:displayLimitAnnot>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">1</vitro:displayRankAnnot>
<rdfs:label xml:lang="en-US">Terminology Annotation</rdfs:label>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#School">
<rdfs:label xml:lang="en-US">School</rdfs:label>
<vitro:inClassGroup rdf:resource="http://vivoweb.org/ontology#vitroClassGrouporganizations"/>
@ -4930,8 +4919,8 @@
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:inPropertyGroupAnnot rdf:resource="http://vivoweb.org/ontology#vitroPropertyGroupoverview"/>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">1</vitro:displayRankAnnot>
<rdfs:label xml:lang="en-US">term type</rdfs:label>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">1</vitro:displayRankAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://vivoweb.org/ontology/core#advisor">
<vitro:selectFromExistingAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</vitro:selectFromExistingAnnot>
@ -5103,8 +5092,8 @@
<vitro:hiddenFromDisplayBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:prohibitedFromUpdateBelowRoleLevelAnnot rdf:resource="http://vitro.mannlib.cornell.edu/ns/vitro/role#public"/>
<vitro:inPropertyGroupAnnot rdf:resource="http://vivoweb.org/ontology#vitroPropertyGroupoverview"/>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">40</vitro:displayRankAnnot>
<rdfs:label xml:lang="en-US">entry term</rdfs:label>
<vitro:displayRankAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">40</vitro:displayRankAnnot>
</rdf:Description>
<rdf:Description rdf:about="http://purl.org/ontology/bibo/status">
<vitro:displayLimitAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#int">5</vitro:displayLimitAnnot>