annotation property changes and VIVO-310 adding missing inverse property axiom

rdf/tbox/filegraph/classes-additional.owl

@@ -803,8 +803,8 @@
                 <owl:allValuesFrom rdf:resource="http://vivoweb.org/ontology/core#DateTimeInterval"/>
             </owl:Restriction>
         </rdfs:subClassOf>
-        <vitro:exampleAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Currently any abstract name is given to individuals of this class. This could change in the future.</vitro:exampleAnnot>
+        <obo:IAO_0000112 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Currently any abstract name is given to individuals of this class. This could change in the future.</obo:IAO_0000112>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Represents educational training that has been received.</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Represents educational training that has been received.</obo:IAO_0000115>
         <vitro:descriptionAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This connects person to their academic degree through this educational training, but can also be used when the training does not result in a degree.</vitro:descriptionAnnot>
     </owl:Class>
     
@@ -913,7 +913,7 @@
                 <owl:allValuesFrom rdf:resource="http://vivoweb.org/ontology/core#DateTimeValue"/>
             </owl:Restriction>
         </rdfs:subClassOf>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The most general classification of an information resource</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The most general classification of an information resource</obo:IAO_0000115>
     </owl:Class>
     
 
@@ -1042,8 +1042,8 @@
                 <owl:allValuesFrom rdf:resource="http://vivoweb.org/ontology/core#DateTimeInterval"/>
             </owl:Restriction>
         </rdfs:subClassOf>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A person&apos;s, group&apos;s or organization&apos;s role in an endeavor</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A person&apos;s, group&apos;s or organization&apos;s role in an endeavor</obo:IAO_0000115>
-        <vitro:exampleAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Only use if no specific subclasses of core:Role describe the role.</vitro:exampleAnnot>
+        <obo:IAO_0000112 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Only use if no specific subclasses of core:Role describe the role.</obo:IAO_0000112>
         <vitro:descriptionAnnot rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Only use this broad role class if no subclasses of role describe the item being classified.</vitro:descriptionAnnot>
     </owl:Class>
     
@@ -1061,7 +1061,7 @@
                 <owl:allValuesFrom rdf:resource="http://www.w3.org/2000/01/rdf-schema#Literal"/>
             </owl:Restriction>
         </rdfs:subClassOf>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Computer program and its related documentation; directs the operation of a computer</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Computer program and its related documentation; directs the operation of a computer</obo:IAO_0000115>
     </owl:Class>
     
 

rdf/tbox/filegraph/object-properties.owl

@@ -1532,6 +1532,7 @@ there is a measurement process p that has specified output m, a measurement datu
     <owl:ObjectProperty rdf:about="http://vivoweb.org/ontology/core#geographicFocusOf">
         <rdfs:label xml:lang="en">geographic focus of</rdfs:label>
         <rdfs:domain rdf:resource="http://vivoweb.org/ontology/core#GeographicRegion"/>
+        <owl:inverseOf rdf:resource="http://vivoweb.org/ontology/core#geographicFocus"/>
     </owl:ObjectProperty>
     
 

rdf/tbox/filegraph/object-properties3.owl

@@ -33,7 +33,6 @@
     <owl:AnnotationProperty rdf:about="http://vitro.mannlib.cornell.edu/ns/vitro/0.7#exampleAnnot"/>
     <owl:AnnotationProperty rdf:about="http://www.w3.org/2003/06/sw-vocab-status/ns#term_status"/>
     <owl:AnnotationProperty rdf:about="http://www.w3.org/2008/05/skos#scopeNote"/>
-    <owl:AnnotationProperty rdf:about="http://vitro.mannlib.cornell.edu/ns/vitro/0.7#shortDef"/>
     <owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#label"/>
     <owl:AnnotationProperty rdf:about="http://vitro.mannlib.cornell.edu/ns/vitro/0.7#descriptionAnnot"/>
     <owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#comment"/>

rdf/tbox/filegraph/personTypes.n3

@@ -52,46 +52,46 @@ core:FacultyMember
       rdfs:subClassOf foaf:Person , <http://isf/deprecated_class> ;
       vitro:descriptionAnnot
               "Definition from here: http://research.carleton.ca/htr/defs.php."^^xsd:string ;
-      vitro:shortDef "A person with at least one academic appointment to a specific faculty of a university or institution of higher learning."^^xsd:string .
+      obo:IAO_0000115 "A person with at least one academic appointment to a specific faculty of a university or institution of higher learning."^^xsd:string .
 
 core:Postdoc
       a       owl:Class ;
       rdfs:label "Postdoc"@en-us ;
       rdfs:subClassOf <http://isf/deprecated_class> , core:NonFacultyAcademic ;
-      vitro:shortDef "A Person holding an academic employment appointment focused on research rather than teaching; temporary (or for some defined term)"^^xsd:string .
+      obo:IAO_0000115 "A Person holding an academic employment appointment focused on research rather than teaching; temporary (or for some defined term)"^^xsd:string .
 
 core:NonFacultyAcademic
       a       owl:Class ;
       rdfs:label "Non-Faculty Academic"@en-us ;
       rdfs:subClassOf foaf:Person , <http://isf/deprecated_class> ;
-      vitro:shortDef "A person not considered a faculty member but holding an academic appointment."^^xsd:string .
+      obo:IAO_0000115 "A person not considered a faculty member but holding an academic appointment."^^xsd:string .
 
 core:EmeritusLibrarian
       a       owl:Class ;
       rdfs:label "Librarian Emeritus"@en-us ;
       rdfs:subClassOf foaf:Person , <http://isf/deprecated_class> ;
-      vitro:shortDef "A retired librarian who has retained their rank, title and privileges."^^xsd:string .
+      obo:IAO_0000115 "A retired librarian who has retained their rank, title and privileges."^^xsd:string .
 
 core:EmeritusFaculty
       a       owl:Class ;
       rdfs:label "Faculty Member Emeritus"@en-us ;
       rdfs:subClassOf foaf:Person , <http://isf/deprecated_class> ;
-      vitro:shortDef "A retired faculty member who has retained their rank, title and privileges."^^xsd:string .
+      obo:IAO_0000115 "A retired faculty member who has retained their rank, title and privileges."^^xsd:string .
 
 core:Librarian
       a       owl:Class ;
       rdfs:label "Librarian"@en-us ;
       rdfs:subClassOf foaf:Person , <http://isf/deprecated_class> ;
-      vitro:shortDef "A person working in a position of librarian or information professional, or academic or technical expert in support of providing information services or materials."^^xsd:string .
+      obo:IAO_0000115 "A person working in a position of librarian or information professional, or academic or technical expert in support of providing information services or materials."^^xsd:string .
 
 core:EmeritusProfessor
       a       owl:Class ;
       rdfs:label "Professor Emeritus"@en-us ;
       rdfs:subClassOf core:EmeritusFaculty , foaf:Person , <http://isf/deprecated_class> ;
-      vitro:shortDef "A retired professor who has retained their rank, title and privileges."^^xsd:string .
+      obo:IAO_0000115 "A retired professor who has retained their rank, title and privileges."^^xsd:string .
 
 core:NonAcademic
       a       owl:Class ;
       rdfs:label "Non-Academic"@en-us ;
       rdfs:subClassOf foaf:Person , <http://isf/deprecated_class> ;
-      vitro:shortDef "A person holding a position that is not considered to be an academic appointment."^^xsd:string .
+      obo:IAO_0000115 "A person holding a position that is not considered to be an academic appointment."^^xsd:string .

rdf/tbox/filegraph/publication.owl

@@ -27,7 +27,6 @@
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000114"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000119"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000117"/>
-    <owl:AnnotationProperty rdf:about="http://vitro.mannlib.cornell.edu/ns/vitro/0.7#shortDef"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000111"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000112"/>
     
@@ -864,7 +863,7 @@
     <owl:Class rdf:about="http://purl.org/spar/fabio/ClinicalGuideline">
         <rdfs:label xml:lang="en">clinical guideline</rdfs:label>
         <rdfs:subClassOf rdf:resource="http://purl.org/ontology/bibo/Document"/>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A recommendation on the appropriate treatment and care of people with a specific disease or condition, based on the best available evidence, designed to help healthcare professionals in their work.</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A recommendation on the appropriate treatment and care of people with a specific disease or condition, based on the best available evidence, designed to help healthcare professionals in their work.</obo:IAO_0000115>
         <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A recommendation on the appropriate treatment and care of people with a specific disease or condition, based on the best available evidence, designed to help healthcare professionals in their work.</obo:IAO_0000115>
     </owl:Class>
     
@@ -875,7 +874,7 @@
     <owl:Class rdf:about="http://purl.org/spar/fabio/Comment">
         <rdfs:label xml:lang="en">comment</rdfs:label>
         <rdfs:subClassOf rdf:resource="http://purl.org/ontology/bibo/Document"/>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A verbal or written remark concerning some entity. In written form, a comment is often appended to that entity and termed an annotation. Within computer programs or ontologies, comments are added to enhance human understanding, and are usually prefaced by</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A verbal or written remark concerning some entity. In written form, a comment is often appended to that entity and termed an annotation. Within computer programs or ontologies, comments are added to enhance human understanding, and are usually prefaced by</obo:IAO_0000115>
         <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A verbal or written remark concerning some entity. In written form, a comment is often appended to that entity and termed an annotation. Within computer programs or ontologies, comments are added to enhance human understanding, and are usually prefaced by a special syntactic symbol that ensures they are ignored during execution of the program.
 
 has super-classes</obo:IAO_0000115>
@@ -888,7 +887,7 @@ has super-classes</obo:IAO_0000115>
     <owl:Class rdf:about="http://purl.org/spar/fabio/Erratum">
         <rdfs:label xml:lang="en">erratum</rdfs:label>
         <rdfs:subClassOf rdf:resource="http://purl.org/ontology/bibo/Document"/>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A formal correction to an error introduced by the publisher into a previously published document.</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A formal correction to an error introduced by the publisher into a previously published document.</obo:IAO_0000115>
         <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A formal correction to an error introduced by the publisher into a previously published document.</obo:IAO_0000115>
     </owl:Class>
     

rdf/tbox/filegraph/research.owl

@@ -25,7 +25,6 @@
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000119"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000117"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000118"/>
-    <owl:AnnotationProperty rdf:about="http://vitro.mannlib.cornell.edu/ns/vitro/0.7#shortDef"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000111"/>
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000112"/>
     
@@ -93,7 +92,7 @@
     <owl:Class rdf:about="http://vivoweb.org/ontology/scientific-research#Phase0ClinicalTrial">
         <rdfs:label xml:lang="en">phase 0 clinical trial</rdfs:label>
         <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/ERO_0000016"/>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 0 Clinical Trial</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 0 Clinical Trial</obo:IAO_0000115>
         <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 0 is a recent designation for exploratory, first-in-human trials  conducted in accordance with the United States Food and Drug Administration&apos;s (FDA) 2006 Guidance on Exploratory Investigational New Drug (IND) Studies.  Phase 0 trials are also known as human microdosing  studies and are designed to speed up the development of promising drugs or imaging agents by establishing very early on whether the drug or agent behaves in human subjects as was expected from preclinical studies.</obo:IAO_0000115>
     </owl:Class>
     
@@ -105,7 +104,7 @@
         <rdfs:label xml:lang="en">phase 1 clinical trial</rdfs:label>
         <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/ERO_0000016"/>
         <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">In Phase I trials, researchers test an experimental drug or treatment in a small group of people (20-80) for the first time to evaluate its safety, determine a safe dosage range, and identify side effects</obo:IAO_0000115>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 1 Clinical Trial</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 1 Clinical Trial</obo:IAO_0000115>
     </owl:Class>
     
 
@@ -116,7 +115,7 @@
         <rdfs:label xml:lang="en">phase 2 clinical trial</rdfs:label>
         <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/ERO_0000016"/>
         <obo:IAO_0000115 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.</obo:IAO_0000115>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 2 Clinical Trial</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 2 Clinical Trial</obo:IAO_0000115>
     </owl:Class>
     
 
@@ -128,7 +127,7 @@
         <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/ERO_0000016"/>
         <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">In Phase 3 trials, an experimental study drug or treatment is given to large groups of people (1,000-3,000) to confirm its effectiveness, monitor side effects, compare it to commonly used treatments, and collect information that will allow the experimental drug or treatment to be used safely.
 </obo:IAO_0000115>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 3 Clinical Trial</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 3 Clinical Trial</obo:IAO_0000115>
     </owl:Class>
     
 
@@ -139,7 +138,7 @@
         <rdfs:label xml:lang="en">phase 4 clinical trial</rdfs:label>
         <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/ERO_0000016"/>
         <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">In Phase 4 trials, post marketing studies delineate additional information including the drug&apos;s or treatment&apos;s risks, benefits, and optimal use.</obo:IAO_0000115>
-        <vitro:shortDef rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 4 Clinical Trial</vitro:shortDef>
+        <obo:IAO_0000115 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Phase 4 Clinical Trial</obo:IAO_0000115>
     </owl:Class>
 </rdf:RDF>