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Merge branch 'master' into albumin-free-serum-493
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jamesaoverton committed Mar 18, 2024
2 parents 358cf1f + b8a6271 commit 30af876
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21 changes: 21 additions & 0 deletions src/ontology/OntoFox_inputs/GAZ_input.txt
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[URI of the OWL(RDF/XML) output file]
http://purl.obolibrary.org/obo/obi/dev/import/GAZ_imports.owl

[Source ontology]
# Gazetteer
GAZ

[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 # geographic location
subClassOf http://purl.obolibrary.org/obo/BFO_0000029 # site

[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
77 changes: 77 additions & 0 deletions src/ontology/OntoFox_inputs/IAO_input.txt
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[URI of the OWL(RDF/XML) output file]
http://purl.obolibrary.org/obo/obi/dev/import/IAO_imports.owl

[Source ontology]
# Information Artifact Ontology
IAO

[Low level source term URIs]
http://purl.obolibrary.org/obo/IAO_0000001 # conditional specification
http://purl.obolibrary.org/obo/IAO_0000003 # measurement unit label
http://purl.obolibrary.org/obo/IAO_0000004 # has measurement value
http://purl.obolibrary.org/obo/IAO_0000005 # objective specification
http://purl.obolibrary.org/obo/IAO_0000006 # narrative object
http://purl.obolibrary.org/obo/IAO_0000009 # datum label
http://purl.obolibrary.org/obo/IAO_0000010 # software
http://purl.obolibrary.org/obo/IAO_0000027 # data item
http://purl.obolibrary.org/obo/IAO_0000028 # symbol
http://purl.obolibrary.org/obo/IAO_0000030 # information content entity
http://purl.obolibrary.org/obo/IAO_0000032 # scalar measurement datum
http://purl.obolibrary.org/obo/IAO_0000033 # directive information entity
http://purl.obolibrary.org/obo/IAO_0000037 # dot plot
http://purl.obolibrary.org/obo/IAO_0000038 # graph
http://purl.obolibrary.org/obo/IAO_0000039 # has measurement unit label
http://purl.obolibrary.org/obo/IAO_0000055 # rule
http://purl.obolibrary.org/obo/IAO_0000064 # algorithm
http://purl.obolibrary.org/obo/IAO_0000078 # curation status specification
http://purl.obolibrary.org/obo/IAO_0000079 # density plot
http://purl.obolibrary.org/obo/IAO_0000088 # report
http://purl.obolibrary.org/obo/IAO_0000098 # data format specification
http://purl.obolibrary.org/obo/IAO_0000100 # data set
http://purl.obolibrary.org/obo/IAO_0000101 # image
http://purl.obolibrary.org/obo/IAO_0000104 # plan specification
http://purl.obolibrary.org/obo/IAO_0000109 # measurement datum
http://purl.obolibrary.org/obo/IAO_0000136 # is about
http://purl.obolibrary.org/obo/IAO_0000144 # conclusion textual entity
http://purl.obolibrary.org/obo/IAO_0000178 # material information bearer
http://purl.obolibrary.org/obo/IAO_0000179 # histogram
http://purl.obolibrary.org/obo/IAO_0000180 # heatmap
http://purl.obolibrary.org/obo/IAO_0000183 # dendrogram
http://purl.obolibrary.org/obo/IAO_0000184 # scatter plot
http://purl.obolibrary.org/obo/IAO_0000219 # denotes
http://purl.obolibrary.org/obo/IAO_0000221 # is quality measurement of
http://purl.obolibrary.org/obo/IAO_0000300 # textual entity
http://purl.obolibrary.org/obo/IAO_0000306 # table
http://purl.obolibrary.org/obo/IAO_0000310 # document
http://purl.obolibrary.org/obo/IAO_0000312 # publication about an investigation
http://purl.obolibrary.org/obo/IAO_0000401 # one dimensional cartesian spatial coordinate datum
http://purl.obolibrary.org/obo/IAO_0000407 # has coordinate unit label
http://purl.obolibrary.org/obo/IAO_0000408 # length measurement datum
http://purl.obolibrary.org/obo/IAO_0000413 # is duration of
http://purl.obolibrary.org/obo/IAO_0000414 # mass measurement datum
http://purl.obolibrary.org/obo/IAO_0000416 # time measurement datum
http://purl.obolibrary.org/obo/IAO_0000422 # postal address
http://purl.obolibrary.org/obo/IAO_0000429 # email address
http://purl.obolibrary.org/obo/IAO_0000572 # documenting
http://purl.obolibrary.org/obo/IAO_0000573 # line graph
http://purl.obolibrary.org/obo/IAO_0000574 # assigning a centrally registered identifier
http://purl.obolibrary.org/obo/IAO_0000577 # centrally registered identifier symbol
http://purl.obolibrary.org/obo/IAO_0000594 # software application

[Top level source term URIs and target direct superclass URIs]
http://purl.obolibrary.org/obo/IAO_0000030 # information content entity
subClassOf http://purl.obolibrary.org/obo/BFO_0000031 # generically dependent continuant
http://purl.obolibrary.org/obo/IAO_0000178 # material information bearer
subClassOf http://purl.obolibrary.org/obo/BFO_0000040 # material entity
http://purl.obolibrary.org/obo/IAO_0000574 # assigning a centrally registered identifier
subClassOf http://purl.obolibrary.org/obo/OBI_0000011 # planned process
http://purl.obolibrary.org/obo/IAO_0000572 # documenting
subClassOf http://purl.obolibrary.org/obo/OBI_0000011 # planned process

[Source term retrieval setting]
includeAllIntermediates

[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
2 changes: 2 additions & 0 deletions src/ontology/OntoFox_inputs/PATO_input.txt
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http://purl.obolibrary.org/obo/PATO_0000011
http://purl.obolibrary.org/obo/PATO_0000018
http://purl.obolibrary.org/obo/PATO_0000047
http://purl.obolibrary.org/obo/PATO_0000122 # length
http://purl.obolibrary.org/obo/PATO_0000125 # mass
http://purl.obolibrary.org/obo/PATO_0000146
http://purl.obolibrary.org/obo/PATO_0000186
http://purl.obolibrary.org/obo/PATO_0000383
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118 changes: 118 additions & 0 deletions src/ontology/OntoFox_outputs/GAZ_imports.owl
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<?xml version="1.0"?>
<rdf:RDF xmlns="http://purl.obolibrary.org/obo/obi/dev/import/GAZ_imports.owl#"
xml:base="http://purl.obolibrary.org/obo/obi/dev/import/GAZ_imports.owl"
xmlns:obo="http://purl.obolibrary.org/obo/"
xmlns:owl="http://www.w3.org/2002/07/owl#"
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:rdfs="http://www.w3.org/2000/01/rdf-schema#">
<owl:Ontology rdf:about="http://purl.obolibrary.org/obo/obi/dev/import/GAZ_imports.owl"/>



<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotation properties
//
///////////////////////////////////////////////////////////////////////////////////////
-->




<!-- http://purl.obolibrary.org/obo/IAO_0000111 -->

<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000111">
<obo:IAO_0000111>editor preferred term~editor preferred label</obo:IAO_0000111>
<rdfs:label>editor preferred term~editor preferred label</rdfs:label>
</owl:AnnotationProperty>



<!-- http://purl.obolibrary.org/obo/IAO_0000115 -->

<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000115">
<obo:IAO_0000111>definition</obo:IAO_0000111>
<rdfs:label>definition</rdfs:label>
</owl:AnnotationProperty>



<!-- http://purl.obolibrary.org/obo/IAO_0000412 -->

<owl:AnnotationProperty rdf:about="http://purl.obolibrary.org/obo/IAO_0000412">
<rdfs:label xml:lang="en">imported from</rdfs:label>
</owl:AnnotationProperty>



<!-- http://www.w3.org/2000/01/rdf-schema#label -->

<owl:AnnotationProperty rdf:about="http://www.w3.org/2000/01/rdf-schema#label"/>



<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Classes
//
///////////////////////////////////////////////////////////////////////////////////////
-->




<!-- 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:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000029"/>
</owl:Class>



<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Individuals
//
///////////////////////////////////////////////////////////////////////////////////////
-->




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

<owl:NamedIndividual rdf:about="http://purl.obolibrary.org/obo/GAZ_00000448"/>



<!--
///////////////////////////////////////////////////////////////////////////////////////
//
// Annotations
//
///////////////////////////////////////////////////////////////////////////////////////
-->

<rdf:Description rdf:about="http://purl.obolibrary.org/obo/GAZ_00000448">
<obo:IAO_0000111>geographic location</obo:IAO_0000111>
<obo:IAO_0000115>A reference to a place on the Earth, by its name or by its geographical location.</obo:IAO_0000115>
<obo:IAO_0000412 rdf:resource="http://purl.obolibrary.org/obo/gaz.owl"/>
<rdfs:label>geographic location</rdfs:label>
</rdf:Description>
</rdf:RDF>



<!-- Generated by the OWL API (version 4.5.25) https://github.com/owlcs/owlapi -->

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