[information-artifact-ontology] r728 committed - import 'geographic location' manually rather than using OntoFox ...

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Jun 3, 2015, 4:08:07 PM6/3/15
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Revision: 728
Author: zheng...@gmail.com
Date: Wed Jun 3 20:07:42 2015 UTC
Log: import 'geographic location' manually rather than using OntoFox
'geographic location' is defined as an instance in GAZ but imported as
Class in IAO
Import using OntoFox will make 'geographic location' as both class and
instance
https://code.google.com/p/information-artifact-ontology/source/detail?r=728

Modified:
/trunk/src/ontology/externalByHand.owl
/trunk/src/ontology/import-OBO.owl
/trunk/src/ontology/ontoFox/OntoFox-input.txt

=======================================
--- /trunk/src/ontology/externalByHand.owl Mon Feb 16 15:30:55 2015 UTC
+++ /trunk/src/ontology/externalByHand.owl Wed Jun 3 20:07:42 2015 UTC
@@ -86,6 +86,18 @@



+ <!-- http://purl.obolibrary.org/obo/GAZ_00000448 -->
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/GAZ_00000448">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">geographic
location</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000029"/>
+ <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A reference to a
place on the Earth, by its name or by its geographical
location.</obo:IAO_0000115>
+ <obo:IAO_0000111
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">geographic
location</obo:IAO_0000111>
+ <obo:IAO_0000412
rdf:resource="http://purl.obolibrary.org/obo/gaz.owl"/>
+ </owl:Class>
+
+
+
</rdf:RDF>


=======================================
--- /trunk/src/ontology/import-OBO.owl Mon Feb 16 15:30:55 2015 UTC
+++ /trunk/src/ontology/import-OBO.owl Wed Jun 3 20:07:42 2015 UTC
@@ -32,6 +32,7 @@
<obo:IAO_0000111>definition</obo:IAO_0000111>
<obo:IAO_0000111 xml:lang="en">definition</obo:IAO_0000111>
<obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000116">
<rdfs:label xml:lang="en">editor note</rdfs:label>
@@ -40,9 +41,7 @@
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel
Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">editor note</obo:IAO_0000111>
<obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
- </owl:AnnotationProperty>
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000412">
- <rdfs:label xml:lang="en">imported from</rdfs:label>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000114">
<rdfs:label xml:lang="en">has curation status</rdfs:label>
@@ -52,6 +51,16 @@
<obo:IAO_0000117 xml:lang="en">PERSON:Melanie
Courtot</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">has curation
status</obo:IAO_0000111>
</owl:AnnotationProperty>
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000412">
+ <rdfs:label xml:lang="en">imported from</rdfs:label>
+ <obo:IAO_0000115 xml:lang="en">For external terms/classes, the
ontology from which the term was imported</obo:IAO_0000115>
+ <obo:IAO_0000119
xml:lang="en">GROUP:OBI:&lt;http://purl.obolibrary.org/obo/obi&gt;</obo:IAO_0000119>
+ <obo:IAO_0000117 xml:lang="en">PERSON:Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000117 xml:lang="en">PERSON:Melanie
Courtot</obo:IAO_0000117>
+ <obo:IAO_0000111 xml:lang="en">imported from</obo:IAO_0000111>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
+ </owl:AnnotationProperty>
<owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000119">
<rdfs:label xml:lang="en">definition source</rdfs:label>
<obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Discussion on
obo-discuss mailing-list, see http://bit.ly/hgm99w</obo:IAO_0000119>
@@ -60,6 +69,7 @@
<obo:IAO_0000111 xml:lang="en">definition source</obo:IAO_0000111>
<obo:IAO_0000115 xml:lang="en">formal citation, e.g. identifier in
external database to indicate / attribute source(s) for the definition.
Free text indicate / attribute source(s) for the definition. EXAMPLE:
Author Name, URI, MeSH Term C04, PUBMED ID, Wiki uri on
31.01.2007</obo:IAO_0000115>
<obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000117">
<rdfs:label xml:lang="en">term editor</rdfs:label>
@@ -69,6 +79,7 @@
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel
Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">term editor</obo:IAO_0000111>
<obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000111">
<rdfs:label xml:lang="en">editor preferred label</rdfs:label>
@@ -81,6 +92,7 @@
<obo:IAO_0000111 xml:lang="en">editor preferred
label</obo:IAO_0000111>
<obo:IAO_0000111 xml:lang="en">editor preferred
term</obo:IAO_0000111>
<obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>
<owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000112">
<rdfs:label xml:lang="en">example of usage</rdfs:label>
@@ -89,6 +101,7 @@
<obo:IAO_0000117 xml:lang="en">PERSON:Daniel
Schober</obo:IAO_0000117>
<obo:IAO_0000111 xml:lang="en">example of usage</obo:IAO_0000111>
<obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/iao.owl"/>
</owl:AnnotationProperty>


@@ -202,23 +215,6 @@



- <!-- http://purl.obolibrary.org/obo/BFO_0000029 -->
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000029"/>
-
-
-
- <!-- http://purl.obolibrary.org/obo/GAZ_00000448 -->
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/GAZ_00000448">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">geographic
location</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000029"/>
- <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A reference to a
place on the Earth, by its name or by its geographical
location.</obo:IAO_0000115>
- <obo:IAO_0000111
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">geographic
location</obo:IAO_0000111>
- </owl:Class>
-
-
-
<!-- http://purl.obolibrary.org/obo/IAO_0000003 -->

<owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000003"/>
@@ -350,21 +346,31 @@



- <!-- http://purl.obolibrary.org/obo/GAZ_00000448 -->
+ <!-- http://purl.obolibrary.org/obo/IAO_0000122 -->

- <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/GAZ_00000448">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">geographic
location</rdfs:label>
- <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">A reference to a
place on the Earth, by its name or by its geographical
location.</obo:IAO_0000115>
- <obo:IAO_0000111
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">geographic
location</obo:IAO_0000111>
+ <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/IAO_0000122">
+ <rdfs:label xml:lang="en">ready for release</rdfs:label>
</owl:NamedIndividual>



- <!-- http://purl.obolibrary.org/obo/IAO_0000122 -->
+ <!-- http://purl.obolibrary.org/obo/IAO_0000125 -->

- <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/IAO_0000122">
- <rdfs:label xml:lang="en">ready for release</rdfs:label>
+ <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/IAO_0000125">
+ <rdfs:label xml:lang="en">pending final vetting</rdfs:label>
</owl:NamedIndividual>
+
+
+
+ <!-- http://purl.obolibrary.org/obo/iao.owl -->
+
+ <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/iao.owl"/>
+
+
+
+ <!-- http://purl.obolibrary.org/obo/obi.owl -->
+
+ <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/obi.owl"/>
</rdf:RDF>


=======================================
--- /trunk/src/ontology/ontoFox/OntoFox-input.txt Mon Feb 16 15:30:55 2015
UTC
+++ /trunk/src/ontology/ontoFox/OntoFox-input.txt Wed Jun 3 20:07:42 2015
UTC
@@ -115,24 +115,24 @@


###################################################
-
-[Source ontology]
+#
+#[Source ontology]
#comment here
#List of ontologies: OBI, NCBITaxon, MP, PATO, GO, DOID, IDO, CHEBI, SO,
PRO, CL, ENVO, FMA, CARO
-GAZ
+#GAZ

-[Low level source term URIs]
-http://purl.obolibrary.org/obo/GAZ_00000448 #geographical location
+#[Low level source term URIs]
+#http://purl.obolibrary.org/obo/GAZ_00000448 #geographic location

-[Top level source term URIs and target direct superclass URIs]
-http://purl.obolibrary.org/obo/GAZ_00000448 #geographical location
-subClassOf http://purl.obolibrary.org/obo/BFO_0000029 #site
+#[Top level source term URIs and target direct superclass URIs]
+#http://purl.obolibrary.org/obo/GAZ_00000448 #geographical location
+#subClassOf http://purl.obolibrary.org/obo/BFO_0000029 #site

-[Source term retrieval setting]
-includeNoIntermediates
+#[Source term retrieval setting]
+#includeNoIntermediates

-[Source annotation URIs]
-http://www.w3.org/2000/01/rdf-schema#label
-copyTo http://purl.obolibrary.org/obo/IAO_0000111
-http://purl.obolibrary.org/obo/IAO_0000115
+#[Source annotation URIs]
+#http://www.w3.org/2000/01/rdf-schema#label
+#copyTo http://purl.obolibrary.org/obo/IAO_0000111
+#http://purl.obolibrary.org/obo/IAO_0000115

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