Skip to content

Commit 25792ae

Browse files
github-actions[bot]github-actions[bot]
committed
updated ontology
1 parent 2923774 commit 25792ae

6 files changed

Lines changed: 142 additions & 0 deletions

File tree

‎src/ontology/cryo-full.owl‎

Lines changed: 30 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -1435,6 +1435,17 @@ RO's 'quality of' is functional i.e., a->b, a->c => b=c.
14351435

14361436

14371437

1438+
<!-- http://purl.obolibrary.org/obo/BFO_0000029 -->
1439+
1440+
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000029">
1441+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
1442+
<rdfs:label xml:lang="en">site</rdfs:label>
1443+
<skos:definition xml:lang="en">(Elucidation) A site is a three-dimensional immaterial entity whose boundaries either (partially or wholly) coincide with the boundaries of one or more material entities or have locations determined in relation to some material entity</skos:definition>
1444+
<skos:example xml:lang="en">A hole in a portion of cheese; a rabbit hole; the Grand Canyon; the Piazza San Marco; the kangaroo-joey-containing hole of a kangaroo pouch; your left nostril (a fiat part - the opening - of your left nasal cavity); the lumen of your gut; the hold of a ship; the interior of the trunk of your car; hole in an engineered floor joist</skos:example>
1445+
</owl:Class>
1446+
1447+
1448+
14381449
<!-- http://purl.obolibrary.org/obo/BFO_0000030 -->
14391450

14401451
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000030">
@@ -1528,6 +1539,17 @@ RO&apos;s &apos;quality of&apos; is functional i.e., a-&gt;b, a-&gt;c =&gt; b=c.
15281539

15291540

15301541

1542+
<!-- http://purl.obolibrary.org/obo/BFO_0000140 -->
1543+
1544+
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000140">
1545+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
1546+
<rdfs:label xml:lang="en">continuant fiat boundary</rdfs:label>
1547+
<skos:definition xml:lang="en">(Elucidation) A continuant fiat boundary b is an immaterial entity that is of zero, one or two dimensions &amp; such that there is no time t when b has a spatial region as continuant part &amp; whose location is determined in relation to some material entity</skos:definition>
1548+
<skos:example xml:lang="en">As for fiat point, fiat line, fiat surface</skos:example>
1549+
</owl:Class>
1550+
1551+
1552+
15311553
<!-- http://purl.obolibrary.org/obo/BFO_0000141 -->
15321554

15331555
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000141">
@@ -5937,6 +5959,14 @@ The molar ratio of carbon dioxide to average atmosphere air is 420 ppm as of 202
59375959
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000031"/>
59385960
</owl:members>
59395961
</rdf:Description>
5962+
<rdf:Description>
5963+
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#AllDisjointClasses"/>
5964+
<owl:members rdf:parseType="Collection">
5965+
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000006"/>
5966+
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000029"/>
5967+
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000140"/>
5968+
</owl:members>
5969+
</rdf:Description>
59405970
<rdf:Description>
59415971
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#AllDisjointClasses"/>
59425972
<owl:members rdf:parseType="Collection">

‎src/ontology/cryo-full.ttl‎

Lines changed: 24 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -1059,6 +1059,14 @@ obo:BFO_0000028 rdf:type owl:Class ;
10591059
skos:example "A cube-shaped region of space; a sphere-shaped region of space; the region of space occupied by all and only the planets in the solar system at some point in time"@en .
10601060

10611061

1062+
### http://purl.obolibrary.org/obo/BFO_0000029
1063+
obo:BFO_0000029 rdf:type owl:Class ;
1064+
rdfs:subClassOf obo:BFO_0000141 ;
1065+
rdfs:label "site"@en ;
1066+
skos:definition "(Elucidation) A site is a three-dimensional immaterial entity whose boundaries either (partially or wholly) coincide with the boundaries of one or more material entities or have locations determined in relation to some material entity"@en ;
1067+
skos:example "A hole in a portion of cheese; a rabbit hole; the Grand Canyon; the Piazza San Marco; the kangaroo-joey-containing hole of a kangaroo pouch; your left nostril (a fiat part - the opening - of your left nasal cavity); the lumen of your gut; the hold of a ship; the interior of the trunk of your car; hole in an engineered floor joist"@en .
1068+
1069+
10621070
### http://purl.obolibrary.org/obo/BFO_0000030
10631071
obo:BFO_0000030 rdf:type owl:Class ;
10641072
rdfs:subClassOf obo:BFO_0000040 ;
@@ -1125,6 +1133,14 @@ obo:BFO_0000040 rdf:type owl:Class ;
11251133
skos:example "A human being; the undetached arm of a human being; an aggregate of human beings"@en .
11261134

11271135

1136+
### http://purl.obolibrary.org/obo/BFO_0000140
1137+
obo:BFO_0000140 rdf:type owl:Class ;
1138+
rdfs:subClassOf obo:BFO_0000141 ;
1139+
rdfs:label "continuant fiat boundary"@en ;
1140+
skos:definition "(Elucidation) A continuant fiat boundary b is an immaterial entity that is of zero, one or two dimensions & such that there is no time t when b has a spatial region as continuant part & whose location is determined in relation to some material entity"@en ;
1141+
skos:example "As for fiat point, fiat line, fiat surface"@en .
1142+
1143+
11281144
### http://purl.obolibrary.org/obo/BFO_0000141
11291145
obo:BFO_0000141 rdf:type owl:Class ;
11301146
rdfs:subClassOf obo:BFO_0000004 ;
@@ -4297,6 +4313,14 @@ obo:UO_0000164 oboInOwl:hasExactSynonym "(w/v)" ,
42974313
] .
42984314

42994315

4316+
[ rdf:type owl:AllDisjointClasses ;
4317+
owl:members ( obo:BFO_0000006
4318+
obo:BFO_0000029
4319+
obo:BFO_0000140
4320+
)
4321+
] .
4322+
4323+
43004324
[ rdf:type owl:AllDisjointClasses ;
43014325
owl:members ( obo:BFO_0000008
43024326
obo:BFO_0000011

‎src/ontology/cryo.owl‎

Lines changed: 30 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -1435,6 +1435,17 @@ RO&apos;s &apos;quality of&apos; is functional i.e., a-&gt;b, a-&gt;c =&gt; b=c.
14351435

14361436

14371437

1438+
<!-- http://purl.obolibrary.org/obo/BFO_0000029 -->
1439+
1440+
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000029">
1441+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
1442+
<rdfs:label xml:lang="en">site</rdfs:label>
1443+
<skos:definition xml:lang="en">(Elucidation) A site is a three-dimensional immaterial entity whose boundaries either (partially or wholly) coincide with the boundaries of one or more material entities or have locations determined in relation to some material entity</skos:definition>
1444+
<skos:example xml:lang="en">A hole in a portion of cheese; a rabbit hole; the Grand Canyon; the Piazza San Marco; the kangaroo-joey-containing hole of a kangaroo pouch; your left nostril (a fiat part - the opening - of your left nasal cavity); the lumen of your gut; the hold of a ship; the interior of the trunk of your car; hole in an engineered floor joist</skos:example>
1445+
</owl:Class>
1446+
1447+
1448+
14381449
<!-- http://purl.obolibrary.org/obo/BFO_0000030 -->
14391450

14401451
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000030">
@@ -1528,6 +1539,17 @@ RO&apos;s &apos;quality of&apos; is functional i.e., a-&gt;b, a-&gt;c =&gt; b=c.
15281539

15291540

15301541

1542+
<!-- http://purl.obolibrary.org/obo/BFO_0000140 -->
1543+
1544+
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000140">
1545+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000141"/>
1546+
<rdfs:label xml:lang="en">continuant fiat boundary</rdfs:label>
1547+
<skos:definition xml:lang="en">(Elucidation) A continuant fiat boundary b is an immaterial entity that is of zero, one or two dimensions &amp; such that there is no time t when b has a spatial region as continuant part &amp; whose location is determined in relation to some material entity</skos:definition>
1548+
<skos:example xml:lang="en">As for fiat point, fiat line, fiat surface</skos:example>
1549+
</owl:Class>
1550+
1551+
1552+
15311553
<!-- http://purl.obolibrary.org/obo/BFO_0000141 -->
15321554

15331555
<owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000141">
@@ -5937,6 +5959,14 @@ The molar ratio of carbon dioxide to average atmosphere air is 420 ppm as of 202
59375959
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000031"/>
59385960
</owl:members>
59395961
</rdf:Description>
5962+
<rdf:Description>
5963+
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#AllDisjointClasses"/>
5964+
<owl:members rdf:parseType="Collection">
5965+
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000006"/>
5966+
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000029"/>
5967+
<rdf:Description rdf:about="http://purl.obolibrary.org/obo/BFO_0000140"/>
5968+
</owl:members>
5969+
</rdf:Description>
59405970
<rdf:Description>
59415971
<rdf:type rdf:resource="http://www.w3.org/2002/07/owl#AllDisjointClasses"/>
59425972
<owl:members rdf:parseType="Collection">

‎src/ontology/cryo.ttl‎

Lines changed: 24 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -1059,6 +1059,14 @@ obo:BFO_0000028 rdf:type owl:Class ;
10591059
skos:example "A cube-shaped region of space; a sphere-shaped region of space; the region of space occupied by all and only the planets in the solar system at some point in time"@en .
10601060

10611061

1062+
### http://purl.obolibrary.org/obo/BFO_0000029
1063+
obo:BFO_0000029 rdf:type owl:Class ;
1064+
rdfs:subClassOf obo:BFO_0000141 ;
1065+
rdfs:label "site"@en ;
1066+
skos:definition "(Elucidation) A site is a three-dimensional immaterial entity whose boundaries either (partially or wholly) coincide with the boundaries of one or more material entities or have locations determined in relation to some material entity"@en ;
1067+
skos:example "A hole in a portion of cheese; a rabbit hole; the Grand Canyon; the Piazza San Marco; the kangaroo-joey-containing hole of a kangaroo pouch; your left nostril (a fiat part - the opening - of your left nasal cavity); the lumen of your gut; the hold of a ship; the interior of the trunk of your car; hole in an engineered floor joist"@en .
1068+
1069+
10621070
### http://purl.obolibrary.org/obo/BFO_0000030
10631071
obo:BFO_0000030 rdf:type owl:Class ;
10641072
rdfs:subClassOf obo:BFO_0000040 ;
@@ -1125,6 +1133,14 @@ obo:BFO_0000040 rdf:type owl:Class ;
11251133
skos:example "A human being; the undetached arm of a human being; an aggregate of human beings"@en .
11261134

11271135

1136+
### http://purl.obolibrary.org/obo/BFO_0000140
1137+
obo:BFO_0000140 rdf:type owl:Class ;
1138+
rdfs:subClassOf obo:BFO_0000141 ;
1139+
rdfs:label "continuant fiat boundary"@en ;
1140+
skos:definition "(Elucidation) A continuant fiat boundary b is an immaterial entity that is of zero, one or two dimensions & such that there is no time t when b has a spatial region as continuant part & whose location is determined in relation to some material entity"@en ;
1141+
skos:example "As for fiat point, fiat line, fiat surface"@en .
1142+
1143+
11281144
### http://purl.obolibrary.org/obo/BFO_0000141
11291145
obo:BFO_0000141 rdf:type owl:Class ;
11301146
rdfs:subClassOf obo:BFO_0000004 ;
@@ -4297,6 +4313,14 @@ obo:UO_0000164 oboInOwl:hasExactSynonym "(w/v)" ,
42974313
] .
42984314

42994315

4316+
[ rdf:type owl:AllDisjointClasses ;
4317+
owl:members ( obo:BFO_0000006
4318+
obo:BFO_0000029
4319+
obo:BFO_0000140
4320+
)
4321+
] .
4322+
4323+
43004324
[ rdf:type owl:AllDisjointClasses ;
43014325
owl:members ( obo:BFO_0000008
43024326
obo:BFO_0000011

‎src/ontology/imports/pmdco_import.owl‎

Lines changed: 17 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -30,12 +30,14 @@ Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000024>))
3030
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000026>))
3131
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000027>))
3232
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000028>))
33+
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000029>))
3334
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000030>))
3435
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000031>))
3536
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000034>))
3637
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000035>))
3738
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000038>))
3839
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000040>))
40+
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000140>))
3941
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000141>))
4042
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000145>))
4143
Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000148>))
@@ -1186,6 +1188,13 @@ AnnotationAssertion(<http://www.w3.org/2004/02/skos/core#definition> <http://pur
11861188
AnnotationAssertion(<http://www.w3.org/2004/02/skos/core#example> <http://purl.obolibrary.org/obo/BFO_0000028> "A cube-shaped region of space; a sphere-shaped region of space; the region of space occupied by all and only the planets in the solar system at some point in time"@en)
11871189
SubClassOf(<http://purl.obolibrary.org/obo/BFO_0000028> <http://purl.obolibrary.org/obo/BFO_0000006>)
11881190

1191+
# Class: <http://purl.obolibrary.org/obo/BFO_0000029> (site)
1192+
1193+
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/BFO_0000029> "site"@en)
1194+
AnnotationAssertion(<http://www.w3.org/2004/02/skos/core#definition> <http://purl.obolibrary.org/obo/BFO_0000029> "(Elucidation) A site is a three-dimensional immaterial entity whose boundaries either (partially or wholly) coincide with the boundaries of one or more material entities or have locations determined in relation to some material entity"@en)
1195+
AnnotationAssertion(<http://www.w3.org/2004/02/skos/core#example> <http://purl.obolibrary.org/obo/BFO_0000029> "A hole in a portion of cheese; a rabbit hole; the Grand Canyon; the Piazza San Marco; the kangaroo-joey-containing hole of a kangaroo pouch; your left nostril (a fiat part - the opening - of your left nasal cavity); the lumen of your gut; the hold of a ship; the interior of the trunk of your car; hole in an engineered floor joist"@en)
1196+
SubClassOf(<http://purl.obolibrary.org/obo/BFO_0000029> <http://purl.obolibrary.org/obo/BFO_0000141>)
1197+
11891198
# Class: <http://purl.obolibrary.org/obo/BFO_0000030> (object)
11901199

11911200
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/BFO_0000030> "object"@en)
@@ -1233,6 +1242,13 @@ AnnotationAssertion(<http://www.w3.org/2004/02/skos/core#example> <http://purl.o
12331242
SubClassOf(<http://purl.obolibrary.org/obo/BFO_0000040> <http://purl.obolibrary.org/obo/BFO_0000004>)
12341243
DisjointClasses(<http://purl.obolibrary.org/obo/BFO_0000040> <http://purl.obolibrary.org/obo/BFO_0000141>)
12351244

1245+
# Class: <http://purl.obolibrary.org/obo/BFO_0000140> (continuant fiat boundary)
1246+
1247+
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/BFO_0000140> "continuant fiat boundary"@en)
1248+
AnnotationAssertion(<http://www.w3.org/2004/02/skos/core#definition> <http://purl.obolibrary.org/obo/BFO_0000140> "(Elucidation) A continuant fiat boundary b is an immaterial entity that is of zero, one or two dimensions & such that there is no time t when b has a spatial region as continuant part & whose location is determined in relation to some material entity"@en)
1249+
AnnotationAssertion(<http://www.w3.org/2004/02/skos/core#example> <http://purl.obolibrary.org/obo/BFO_0000140> "As for fiat point, fiat line, fiat surface"@en)
1250+
SubClassOf(<http://purl.obolibrary.org/obo/BFO_0000140> <http://purl.obolibrary.org/obo/BFO_0000141>)
1251+
12361252
# Class: <http://purl.obolibrary.org/obo/BFO_0000141> (immaterial entity)
12371253

12381254
AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/BFO_0000141> "immaterial entity"@en)
@@ -3307,6 +3323,7 @@ AnnotationAssertion(<https://w3id.org/pmd/co/PMD_0000060> <https://w3id.org/pmd/
33073323

33083324

33093325
DisjointClasses(<http://purl.obolibrary.org/obo/BFO_0000004> <http://purl.obolibrary.org/obo/BFO_0000020> <http://purl.obolibrary.org/obo/BFO_0000031>)
3326+
DisjointClasses(<http://purl.obolibrary.org/obo/BFO_0000006> <http://purl.obolibrary.org/obo/BFO_0000029> <http://purl.obolibrary.org/obo/BFO_0000140>)
33103327
DisjointClasses(<http://purl.obolibrary.org/obo/BFO_0000008> <http://purl.obolibrary.org/obo/BFO_0000011> <http://purl.obolibrary.org/obo/BFO_0000015> <http://purl.obolibrary.org/obo/BFO_0000035>)
33113328
DisjointClasses(<http://purl.obolibrary.org/obo/BFO_0000009> <http://purl.obolibrary.org/obo/BFO_0000018> <http://purl.obolibrary.org/obo/BFO_0000026> <http://purl.obolibrary.org/obo/BFO_0000028>)
33123329
DisjointClasses(<https://w3id.org/pmd/co/PMD_0000503> <https://w3id.org/pmd/co/PMD_0000512> <https://w3id.org/pmd/co/PMD_0000591> <https://w3id.org/pmd/co/PMD_0000595> <https://w3id.org/pmd/co/PMD_0000597> <https://w3id.org/pmd/co/PMD_0000853> <https://w3id.org/pmd/co/PMD_0000896> <https://w3id.org/pmd/co/PMD_0000942> <https://w3id.org/pmd/co/PMD_0000967> <https://w3id.org/pmd/co/PMD_0020005> <https://w3id.org/pmd/co/PMD_0020112> <https://w3id.org/pmd/co/PMD_0025001> <https://w3id.org/pmd/co/PMD_0025003>)

0 commit comments

Comments
 (0)