Minor improvements (#152)

* Update README-editors.md
* relabel deprecated classes to be OBO QC conform
* fix CI badge link
* refresh import modules
* #144 forgot to subsume 'event organizer role'  under CRO:'contributor role'
* delete subclassOf axiom for the clustering of deprecated classes to avoid warings in ROBOT report
* delete wrong file
* fix wrong IRIs (due to wrong Protégé settings)
* check in Protege's alphabetical ordering
* update IRI pf example individuls
* add Munin2022 and change range of event number to xsd:integer
* refactor term IRIs to proper AEON identifiers
* add example instances
* add 'http://' to example instance IRIs
* new Protege order and fix of typo in Munin2022 IRI
* add call for submissions and its missing subclasses
* add example data
* fix wrong subclassOf axiom on organizer and sponsor role
* add members of Munin2022 general committee
* use ro:member of instead of obi:member of organization in example data
* add example data
* closes #28, add Twitter handle as data property with example
* add annotations
* improve readability of definitions & add annotations
* relabel AEON_0000134 (general organizing event committee)
* delete the 'academic' in front of event in definitions
* add 'event series maintainer role' (AEON:0000184), related to  #144
* closes #135
* link to #138
* update annotations wrt term status
* link to #133 wrt iao:'denoted by' subproperties
* adding ISO 3166-1 alpha-2 code as interim identifier class #153

src/ontology/README-editors.md

@@ -1,4 +1,4 @@
-These notes are for the EDITORS of aeon
+These notes are for the EDITORS of AEON
 
 This project was created using the [ontology development kit](https://github.com/INCATools/ontology-development-kit). See the site for details.
 
@@ -58,20 +58,14 @@ For now, consult the [GO Tutorial on configuring Protege](http://go-protege-tuto
 
 All import modules are in the [imports/](imports/) folder.
 
-There are two ways to include new classes in an import module
-
- 1. Reference an external ontology class in the edit ontology. In Protege: "add new entity", then paste in the PURL
- 2. Add to the imports/ont_terms.txt file, for example imports/go_terms.txt
+To include new classes in an import module, add to the imports/ont_terms.txt file, for example imports/go_terms.txt.
 
 After doing this, you can run
 
-`./run.sh make all_imports`
+`./run.sh make all_imports` or `./run.sh make refresh-[ont]` 
 
 to regenerate imports.
 
-Note: the ont_terms.txt file may include 'starter' classes seeded from
-the ontology starter kit. It is safe to remove these.
-
 ## Release Manager notes
 
 You should only attempt to make a release AFTER the edit version is
@@ -114,8 +108,8 @@ Finally type:
 
 IMMEDIATELY AFTERWARDS (do *not* make further modifications) go here:
 
- * https://github.com/StroemPhi/aeon/releases
- * https://github.com/StroemPhi/aeon/releases/new
+ * https://github.com/tibonto/aeon/releases
+ * https://github.com/tibonto/aeon/releases/new
 
 __IMPORTANT__: The value of the "Tag version" field MUST be
 
@@ -144,15 +138,3 @@ correct ontologies. Try it!
  * http://purl.obolibrary.org/obo/aeon/releases/YYYY-MM-DD.owl <-- change to the release you just made
 
 For questions on this contact Chris Mungall or email obo-admin AT obofoundry.org
-
-# Travis Continuous Integration System
-
-Check the build status here: [![Build Status](https://travis-ci.org/StroemPhi/aeon.svg?branch=master)](https://travis-ci.org/StroemPhi/aeon)
-
-Note: if you have only just created this project you will need to authorize travis for this repo.
-
- 1. Go to [https://travis-ci.org/profile/StroemPhi](https://travis-ci.org/profile/StroemPhi)
- 2. click the "Sync account" button
- 3. Click the tick symbol next to aeon
-
-Travis builds should now be activated

src/ontology/imports/bfo_import.owl

@@ -12,8 +12,8 @@
      xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
      xmlns:terms="http://purl.org/dc/terms/">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/aeon/imports/bfo_import.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/aeon/releases/2022-08-15/imports/bfo_import.owl"/>
-        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2022-08-15</owl:versionInfo>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/aeon/releases/2022-08-22/imports/bfo_import.owl"/>
+        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2022-08-22</owl:versionInfo>
         <prov:wasDerivedFrom rdf:resource="http://purl.obolibrary.org/obo/bfo/2019-08-26/bfo.owl"/>
     </owl:Ontology>
 

src/ontology/imports/cro_import.owl

@@ -11,8 +11,8 @@
      xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/aeon/imports/cro_import.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/aeon/releases/2022-08-15/imports/cro_import.owl"/>
-        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2022-08-15</owl:versionInfo>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/aeon/releases/2022-08-22/imports/cro_import.owl"/>
+        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2022-08-22</owl:versionInfo>
         <prov:wasDerivedFrom rdf:resource="http://purl.obolibrary.org/obo/cro/releases/2019-12-11/cro.owl"/>
     </owl:Ontology>
 

src/ontology/imports/envo_import.owl

@@ -11,8 +11,8 @@
      xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
      xmlns:oboInOwl="http://www.geneontology.org/formats/oboInOwl#">
     <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/aeon/imports/envo_import.owl">
-        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/aeon/releases/2022-08-15/imports/envo_import.owl"/>
-        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2022-08-15</owl:versionInfo>
+        <owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/aeon/releases/2022-08-22/imports/envo_import.owl"/>
+        <owl:versionInfo rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2022-08-22</owl:versionInfo>
         <prov:wasDerivedFrom rdf:resource="http://purl.obolibrary.org/obo/envo/releases/2021-05-14/envo.owl"/>
     </owl:Ontology>
 
@@ -369,7 +369,7 @@
         <owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/ENVO_00000009"/>
         <owl:annotatedProperty rdf:resource="http://purl.obolibrary.org/obo/IAO_0000115"/>
         <owl:annotatedTarget>A political association with effective dominion over a geographic area.</owl:annotatedTarget>
-        <oboInOwl:hasDbXref rdf:datatype="http://www.w3.org/2001/XMLSchema#string">https://en.wikipedia.org/wiki/State</oboInOwl:hasDbXref>
+        <oboInOwl:hasDbXref>https://en.wikipedia.org/wiki/State</oboInOwl:hasDbXref>
     </owl:Axiom>
     <owl:Axiom>
         <owl:annotatedSource rdf:resource="http://purl.obolibrary.org/obo/ENVO_00000009"/>