Merge pull request #1413 from obi-ontology/rc-2021-08-18

Release Candidate 2021-08-18

Makefile

@@ -207,6 +207,7 @@ views/obi_core.owl: obi.owl src/ontology/views/core.txt | build/robot.jar
 	--term obo:OBI_0600036 \
 	--term obo:OBI_0600037 \
 	--term obo:OBI_0000838 \
+	--term obo:OBI_0003071 \
 	--term APOLLO_SV:00000796 \
 	--select "self descendants" \
 	--preserve-structure false \

views/NIAID-GSC-BRC.owl

@@ -7,12 +7,11 @@
      xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
      xmlns:xml="http://www.w3.org/XML/1998/namespace"
      xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
-     xmlns:foaf="http://xmlns.com/foaf/0.1/"
      xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
      xmlns:terms="http://purl.org/dc/terms/"
      xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/obi/NIAID-GSC-BRC.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/obi/2021-04-06/NIAID-GSC-BRC.owl"/>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/obi/2021-08-18/NIAID-GSC-BRC.owl"/>
         <protege:defaultLanguage rdf:datatype="http://www.w3.org/2001/XMLSchema#string">en</protege:defaultLanguage>
         <dc:contributor xml:lang="en">Advisors for this project come from the IFOMIS group, Saarbruecken and from the Co-ODE group in Manchester</dc:contributor>
         <dc:creator xml:lang="en">Alan Ruttenberg</dc:creator>
@@ -58,8 +57,8 @@
         <dc:creator xml:lang="en">Mervi Heiskanen</dc:creator>
         <dc:creator xml:lang="en">Monnie McGee</dc:creator>
         <dc:creator xml:lang="en">Norman Morrison</dc:creator>
-        <dc:creator xml:lang="en">Philip Lord</dc:creator>
         <dc:creator xml:lang="en">Philippe Rocca-Serra</dc:creator>
+        <dc:creator xml:lang="en">Phillip Lord</dc:creator>
         <dc:creator xml:lang="en">Pierre Grenon</dc:creator>
         <dc:creator xml:lang="en">Richard Bruskiewich</dc:creator>
         <dc:creator xml:lang="en">Richard Scheuermann</dc:creator>
@@ -78,7 +77,7 @@
         <terms:license>http://creativecommons.org/licenses/by/4.0/</terms:license>
         <terms:title>Ontology for Biomedical Investigations</terms:title>
         <rdfs:comment rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Please cite the OBI consortium http://purl.obolibrary.org/obo/obi where traditional citation is called for. However it is adequate that individual terms be attributed simply by use of the identifying PURL for the term, in projects that refer to them.</rdfs:comment>
-        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2021-04-06</owl:versionInfo>
+        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2021-08-18</owl:versionInfo>
     </owl:Ontology>
 
 
@@ -338,7 +337,7 @@ We also have the outstanding issue of how to aim different definitions to differ
     <owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/RO_0001900">
         <obo:IAO_0000115>An assertion that holds between an OWL Object Property and a temporal interpretation that elucidates how OWL Class Axioms that use this property are to be interpreted in a temporal context.</obo:IAO_0000115>
         <rdfs:label xml:lang="en">temporal interpretation</rdfs:label>
-        <foaf:page rdf:datatype="http://www.w3.org/2001/XMLSchema#anyURI">https://github.com/oborel/obo-relations/wiki/ROAndTime</foaf:page>
+        <rdfs:seeAlso rdf:datatype="http://www.w3.org/2001/XMLSchema#anyURI">https://oborel.github.io/obo-relations/temporal-semantics/</rdfs:seeAlso>
     </owl:AnnotationProperty>
 
 
@@ -349,12 +348,6 @@ We also have the outstanding issue of how to aim different definitions to differ
 
 
 
-    <!-- http://xmlns.com/foaf/0.1/page -->
-
-    <owl:AnnotationProperty rdf:about="http://xmlns.com/foaf/0.1/page"/>
-
-
-
     <!-- 
     ///////////////////////////////////////////////////////////////////////////////////////
     //
@@ -1534,6 +1527,7 @@ https://sourceforge.net/tracker/index.php?func=detail&amp;aid=3512902&amp;group_
         <owl:disjointWith rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
         <obo:BFO_0000179>material</obo:BFO_0000179>
         <obo:BFO_0000180>MaterialEntity</obo:BFO_0000180>
+        <obo:IAO_0000111 xml:lang="en">material entity</obo:IAO_0000111>
         <obo:IAO_0000112 xml:lang="en">a flame</obo:IAO_0000112>
         <obo:IAO_0000112 xml:lang="en">a forest fire</obo:IAO_0000112>
         <obo:IAO_0000112 xml:lang="en">a human being</obo:IAO_0000112>
@@ -1550,6 +1544,7 @@ https://sourceforge.net/tracker/index.php?func=detail&amp;aid=3512902&amp;group_
         <obo:IAO_0000116 xml:lang="en">BFO 2 Reference: Material entities (continuants) can preserve their identity even while gaining and losing material parts. Continuants are contrasted with occurrents, which unfold themselves in successive temporal parts or phases [60</obo:IAO_0000116>
         <obo:IAO_0000116 xml:lang="en">BFO 2 Reference: Object, Fiat Object Part and Object Aggregate are not intended to be exhaustive of Material Entity. Users are invited to propose new subcategories of Material Entity.</obo:IAO_0000116>
         <obo:IAO_0000116 xml:lang="en">BFO 2 Reference: ‘Matter’ is intended to encompass both mass and energy (we will address the ontological treatment of portions of energy in a later version of BFO). A portion of matter is anything that includes elementary particles among its proper or improper parts: quarks and leptons, including electrons, as the smallest particles thus far discovered; baryons (including protons and neutrons) at a higher level of granularity; atoms and molecules at still higher levels, forming the cells, organs, organisms and other material entities studied by biologists, the portions of rock studied by geologists, the fossils studied by paleontologists, and so on.Material entities are three-dimensional entities (entities extended in three spatial dimensions), as contrasted with the processes in which they participate, which are four-dimensional entities (entities extended also along the dimension of time).According to the FMA, material entities may have immaterial entities as parts – including the entities identified below as sites; for example the interior (or ‘lumen’) of your small intestine is a part of your body. BFO 2.0 embodies a decision to follow the FMA here.</obo:IAO_0000116>
+        <obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/ido.owl"/>
         <rdfs:isDefinedBy rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
         <rdfs:label xml:lang="en">material entity</rdfs:label>
     </owl:Class>