Skip to content

Commit d6fd4cb

Browse files
github-actions[bot]github-actions[bot]
committed
updated ontology
1 parent 04cd9e2 commit d6fd4cb

15 files changed

Lines changed: 881 additions & 8 deletions

‎cryo-base.owl‎

Lines changed: 74 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -4055,6 +4055,26 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
40554055

40564056

40574057

4058+
<!-- https://w3id.org/pmd/co/PMD_0020198 -->
4059+
4060+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020198">
4061+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000029"/>
4062+
<rdfs:label xml:lang="en">interstitial site</rdfs:label>
4063+
<skos:definition xml:lang="en">An interstitial site is a site that is located between regular lattice points in a crystal structure.</skos:definition>
4064+
</owl:Class>
4065+
4066+
4067+
4068+
<!-- https://w3id.org/pmd/co/PMD_0020199 -->
4069+
4070+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020199">
4071+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000146"/>
4072+
<rdfs:label xml:lang="en">slip plane</rdfs:label>
4073+
<skos:definition xml:lang="en">A slip plane is a fiat surface that corresponds to a crystallographic plane of a 3D crystal along which dislocations can glide</skos:definition>
4074+
</owl:Class>
4075+
4076+
4077+
40584078
<!-- https://w3id.org/pmd/co/PMD_0020201 -->
40594079

40604080
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020201">
@@ -4065,6 +4085,16 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
40654085

40664086

40674087

4088+
<!-- https://w3id.org/pmd/co/PMD_0020208 -->
4089+
4090+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020208">
4091+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000142"/>
4092+
<rdfs:label xml:lang="en">slip direction</rdfs:label>
4093+
<skos:definition xml:lang="en">A slip direction is a fiat line that corresponds to the crystallographic direction along which dislocations glide os a slip plane.</skos:definition>
4094+
</owl:Class>
4095+
4096+
4097+
40684098
<!-- https://w3id.org/pmd/co/PMD_0020210 -->
40694099

40704100
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020210">
@@ -4131,6 +4161,23 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
41314161

41324162

41334163

4164+
<!-- https://w3id.org/pmd/co/PMD_0020224 -->
4165+
4166+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020224">
4167+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000029"/>
4168+
<rdfs:subClassOf>
4169+
<owl:Restriction>
4170+
<owl:onProperty rdf:resource="http://www.w3.org/2002/07/owl#topObjectProperty"/>
4171+
<owl:someValuesFrom rdf:resource="https://w3id.org/pmd/co/PMD_0020197"/>
4172+
</owl:Restriction>
4173+
</rdfs:subClassOf>
4174+
<obo:IAO_0000116 xml:lang="en">TODO: replace topObjectProperty with occupies spatial region</obo:IAO_0000116>
4175+
<rdfs:label xml:lang="en">vacancy (crystal)</rdfs:label>
4176+
<skos:definition xml:lang="en">site at lattice point at which the crystal forming entity is missing</skos:definition>
4177+
</owl:Class>
4178+
4179+
4180+
41344181
<!-- https://w3id.org/pmd/co/PMD_0020243 -->
41354182

41364183
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020243">
@@ -4537,6 +4584,33 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
45374584

45384585

45394586

4587+
<!-- https://w3id.org/pmd/cryo/CRYO_0000017 -->
4588+
4589+
<owl:Class rdf:about="https://w3id.org/pmd/cryo/CRYO_0000017">
4590+
<rdfs:subClassOf rdf:resource="https://w3id.org/pmd/cryo/CRYO_0000000"/>
4591+
<rdfs:subClassOf>
4592+
<owl:Restriction>
4593+
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
4594+
<owl:qualifiedCardinality rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">1</owl:qualifiedCardinality>
4595+
<owl:onClass rdf:resource="https://w3id.org/pmd/co/PMD_0020197"/>
4596+
</owl:Restriction>
4597+
</rdfs:subClassOf>
4598+
<rdfs:label xml:lang="en">primitive unit cell</rdfs:label>
4599+
<skos:definition xml:lang="en">primitive unit cell is a unit cell that contains only single lattice point and has the smallest possible unit cell volume.</skos:definition>
4600+
</owl:Class>
4601+
4602+
4603+
4604+
<!-- https://w3id.org/pmd/cryo/CRYO_0000018 -->
4605+
4606+
<owl:Class rdf:about="https://w3id.org/pmd/cryo/CRYO_0000018">
4607+
<rdfs:subClassOf rdf:resource="https://w3id.org/pmd/cryo/CRYO_0000000"/>
4608+
<rdfs:label xml:lang="en">conventional unit cell</rdfs:label>
4609+
<skos:definition xml:lang="en">conventional unit cell is a unit cell with the full symmetry of the crystal lattice, i.e., it may contain more that one lattice point.</skos:definition>
4610+
</owl:Class>
4611+
4612+
4613+
45404614
<!-- https://w3id.org/pmd/cryo/CRYO_0000020 -->
45414615

45424616
<owl:Class rdf:about="https://w3id.org/pmd/cryo/CRYO_0000020">

‎cryo-base.ttl‎

Lines changed: 52 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -2903,13 +2903,34 @@ co:PMD_0020197 rdf:type owl:Class ;
29032903
skos:definition "A lattice point is a fiat point that represents a position in a crystal lattice at which structural entities are regularly arranged."@en .
29042904

29052905

2906+
### https://w3id.org/pmd/co/PMD_0020198
2907+
co:PMD_0020198 rdf:type owl:Class ;
2908+
rdfs:subClassOf obo:BFO_0000029 ;
2909+
rdfs:label "interstitial site"@en ;
2910+
skos:definition "An interstitial site is a site that is located between regular lattice points in a crystal structure."@en .
2911+
2912+
2913+
### https://w3id.org/pmd/co/PMD_0020199
2914+
co:PMD_0020199 rdf:type owl:Class ;
2915+
rdfs:subClassOf obo:BFO_0000146 ;
2916+
rdfs:label "slip plane"@en ;
2917+
skos:definition "A slip plane is a fiat surface that corresponds to a crystallographic plane of a 3D crystal along which dislocations can glide"@en .
2918+
2919+
29062920
### https://w3id.org/pmd/co/PMD_0020201
29072921
co:PMD_0020201 rdf:type owl:Class ;
29082922
rdfs:subClassOf obo:BFO_0000146 ;
29092923
rdfs:label "section"@en ;
29102924
skos:definition "Section is a planar fiat surface cutting across the object"@en .
29112925

29122926

2927+
### https://w3id.org/pmd/co/PMD_0020208
2928+
co:PMD_0020208 rdf:type owl:Class ;
2929+
rdfs:subClassOf obo:BFO_0000142 ;
2930+
rdfs:label "slip direction"@en ;
2931+
skos:definition "A slip direction is a fiat line that corresponds to the crystallographic direction along which dislocations glide os a slip plane."@en .
2932+
2933+
29132934
### https://w3id.org/pmd/co/PMD_0020210
29142935
co:PMD_0020210 rdf:type owl:Class ;
29152936
owl:equivalentClass [ rdf:type owl:Restriction ;
@@ -2956,6 +2977,18 @@ co:PMD_0020220 rdf:type owl:Class ;
29562977
skos:definition "characteristic length over which structural correlations persist in a material"@en .
29572978

29582979

2980+
### https://w3id.org/pmd/co/PMD_0020224
2981+
co:PMD_0020224 rdf:type owl:Class ;
2982+
rdfs:subClassOf obo:BFO_0000029 ,
2983+
[ rdf:type owl:Restriction ;
2984+
owl:onProperty owl:topObjectProperty ;
2985+
owl:someValuesFrom co:PMD_0020197
2986+
] ;
2987+
obo:IAO_0000116 "TODO: replace topObjectProperty with occupies spatial region"@en ;
2988+
rdfs:label "vacancy (crystal)"@en ;
2989+
skos:definition "site at lattice point at which the crystal forming entity is missing"@en .
2990+
2991+
29592992
### https://w3id.org/pmd/co/PMD_0020243
29602993
co:PMD_0020243 rdf:type owl:Class ;
29612994
rdfs:subClassOf co:PMD_0020131 ,
@@ -3249,6 +3282,25 @@ cryo:CRYO_0000015 rdf:type owl:Class ;
32493282
skos:definition "Lattice angle is a quality of a unit cell which describes the angle between three axes in a unit cell."@en .
32503283

32513284

3285+
### https://w3id.org/pmd/cryo/CRYO_0000017
3286+
cryo:CRYO_0000017 rdf:type owl:Class ;
3287+
rdfs:subClassOf cryo:CRYO_0000000 ,
3288+
[ rdf:type owl:Restriction ;
3289+
owl:onProperty obo:BFO_0000051 ;
3290+
owl:qualifiedCardinality "1"^^xsd:nonNegativeInteger ;
3291+
owl:onClass co:PMD_0020197
3292+
] ;
3293+
rdfs:label "primitive unit cell"@en ;
3294+
skos:definition "primitive unit cell is a unit cell that contains only single lattice point and has the smallest possible unit cell volume."@en .
3295+
3296+
3297+
### https://w3id.org/pmd/cryo/CRYO_0000018
3298+
cryo:CRYO_0000018 rdf:type owl:Class ;
3299+
rdfs:subClassOf cryo:CRYO_0000000 ;
3300+
rdfs:label "conventional unit cell"@en ;
3301+
skos:definition "conventional unit cell is a unit cell with the full symmetry of the crystal lattice, i.e., it may contain more that one lattice point."@en .
3302+
3303+
32523304
### https://w3id.org/pmd/cryo/CRYO_0000020
32533305
cryo:CRYO_0000020 rdf:type owl:Class ;
32543306
rdfs:subClassOf cryo:CRYO_0000014 ,

‎cryo-full.owl‎

Lines changed: 80 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -5993,6 +5993,26 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
59935993

59945994

59955995

5996+
<!-- https://w3id.org/pmd/co/PMD_0020198 -->
5997+
5998+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020198">
5999+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000029"/>
6000+
<rdfs:label xml:lang="en">interstitial site</rdfs:label>
6001+
<skos:definition xml:lang="en">An interstitial site is a site that is located between regular lattice points in a crystal structure.</skos:definition>
6002+
</owl:Class>
6003+
6004+
6005+
6006+
<!-- https://w3id.org/pmd/co/PMD_0020199 -->
6007+
6008+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020199">
6009+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000146"/>
6010+
<rdfs:label xml:lang="en">slip plane</rdfs:label>
6011+
<skos:definition xml:lang="en">A slip plane is a fiat surface that corresponds to a crystallographic plane of a 3D crystal along which dislocations can glide</skos:definition>
6012+
</owl:Class>
6013+
6014+
6015+
59966016
<!-- https://w3id.org/pmd/co/PMD_0020201 -->
59976017

59986018
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020201">
@@ -6003,6 +6023,16 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
60036023

60046024

60056025

6026+
<!-- https://w3id.org/pmd/co/PMD_0020208 -->
6027+
6028+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020208">
6029+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000142"/>
6030+
<rdfs:label xml:lang="en">slip direction</rdfs:label>
6031+
<skos:definition xml:lang="en">A slip direction is a fiat line that corresponds to the crystallographic direction along which dislocations glide os a slip plane.</skos:definition>
6032+
</owl:Class>
6033+
6034+
6035+
60066036
<!-- https://w3id.org/pmd/co/PMD_0020210 -->
60076037

60086038
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020210">
@@ -6069,6 +6099,23 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
60696099

60706100

60716101

6102+
<!-- https://w3id.org/pmd/co/PMD_0020224 -->
6103+
6104+
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020224">
6105+
<rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/BFO_0000029"/>
6106+
<rdfs:subClassOf>
6107+
<owl:Restriction>
6108+
<owl:onProperty rdf:resource="http://www.w3.org/2002/07/owl#topObjectProperty"/>
6109+
<owl:someValuesFrom rdf:resource="https://w3id.org/pmd/co/PMD_0020197"/>
6110+
</owl:Restriction>
6111+
</rdfs:subClassOf>
6112+
<obo:IAO_0000116 xml:lang="en">TODO: replace topObjectProperty with occupies spatial region</obo:IAO_0000116>
6113+
<rdfs:label xml:lang="en">vacancy (crystal)</rdfs:label>
6114+
<skos:definition xml:lang="en">site at lattice point at which the crystal forming entity is missing</skos:definition>
6115+
</owl:Class>
6116+
6117+
6118+
60726119
<!-- https://w3id.org/pmd/co/PMD_0020243 -->
60736120

60746121
<owl:Class rdf:about="https://w3id.org/pmd/co/PMD_0020243">
@@ -6475,6 +6522,39 @@ Activity (a_X) is a relational property between a chemical species X and a non-i
64756522

64766523

64776524

6525+
<!-- https://w3id.org/pmd/cryo/CRYO_0000017 -->
6526+
6527+
<owl:Class rdf:about="https://w3id.org/pmd/cryo/CRYO_0000017">
6528+
<rdfs:subClassOf rdf:resource="https://w3id.org/pmd/cryo/CRYO_0000000"/>
6529+
<rdfs:subClassOf>
6530+
<owl:Restriction>
6531+
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
6532+
<owl:someValuesFrom rdf:resource="https://w3id.org/pmd/co/PMD_0020197"/>
6533+
</owl:Restriction>
6534+
</rdfs:subClassOf>
6535+
<rdfs:subClassOf>
6536+
<owl:Restriction>
6537+
<owl:onProperty rdf:resource="http://purl.obolibrary.org/obo/BFO_0000051"/>
6538+
<owl:qualifiedCardinality rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">1</owl:qualifiedCardinality>
6539+
<owl:onClass rdf:resource="https://w3id.org/pmd/co/PMD_0020197"/>
6540+
</owl:Restriction>
6541+
</rdfs:subClassOf>
6542+
<rdfs:label xml:lang="en">primitive unit cell</rdfs:label>
6543+
<skos:definition xml:lang="en">primitive unit cell is a unit cell that contains only single lattice point and has the smallest possible unit cell volume.</skos:definition>
6544+
</owl:Class>
6545+
6546+
6547+
6548+
<!-- https://w3id.org/pmd/cryo/CRYO_0000018 -->
6549+
6550+
<owl:Class rdf:about="https://w3id.org/pmd/cryo/CRYO_0000018">
6551+
<rdfs:subClassOf rdf:resource="https://w3id.org/pmd/cryo/CRYO_0000000"/>
6552+
<rdfs:label xml:lang="en">conventional unit cell</rdfs:label>
6553+
<skos:definition xml:lang="en">conventional unit cell is a unit cell with the full symmetry of the crystal lattice, i.e., it may contain more that one lattice point.</skos:definition>
6554+
</owl:Class>
6555+
6556+
6557+
64786558
<!-- https://w3id.org/pmd/cryo/CRYO_0000020 -->
64796559

64806560
<owl:Class rdf:about="https://w3id.org/pmd/cryo/CRYO_0000020">

‎cryo-full.ttl‎

Lines changed: 56 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -4363,13 +4363,34 @@ co:PMD_0020197 rdf:type owl:Class ;
43634363
skos:definition "A lattice point is a fiat point that represents a position in a crystal lattice at which structural entities are regularly arranged."@en .
43644364

43654365

4366+
### https://w3id.org/pmd/co/PMD_0020198
4367+
co:PMD_0020198 rdf:type owl:Class ;
4368+
rdfs:subClassOf obo:BFO_0000029 ;
4369+
rdfs:label "interstitial site"@en ;
4370+
skos:definition "An interstitial site is a site that is located between regular lattice points in a crystal structure."@en .
4371+
4372+
4373+
### https://w3id.org/pmd/co/PMD_0020199
4374+
co:PMD_0020199 rdf:type owl:Class ;
4375+
rdfs:subClassOf obo:BFO_0000146 ;
4376+
rdfs:label "slip plane"@en ;
4377+
skos:definition "A slip plane is a fiat surface that corresponds to a crystallographic plane of a 3D crystal along which dislocations can glide"@en .
4378+
4379+
43664380
### https://w3id.org/pmd/co/PMD_0020201
43674381
co:PMD_0020201 rdf:type owl:Class ;
43684382
rdfs:subClassOf obo:BFO_0000146 ;
43694383
rdfs:label "section"@en ;
43704384
skos:definition "Section is a planar fiat surface cutting across the object"@en .
43714385

43724386

4387+
### https://w3id.org/pmd/co/PMD_0020208
4388+
co:PMD_0020208 rdf:type owl:Class ;
4389+
rdfs:subClassOf obo:BFO_0000142 ;
4390+
rdfs:label "slip direction"@en ;
4391+
skos:definition "A slip direction is a fiat line that corresponds to the crystallographic direction along which dislocations glide os a slip plane."@en .
4392+
4393+
43734394
### https://w3id.org/pmd/co/PMD_0020210
43744395
co:PMD_0020210 rdf:type owl:Class ;
43754396
owl:equivalentClass [ rdf:type owl:Restriction ;
@@ -4416,6 +4437,18 @@ co:PMD_0020220 rdf:type owl:Class ;
44164437
skos:definition "characteristic length over which structural correlations persist in a material"@en .
44174438

44184439

4440+
### https://w3id.org/pmd/co/PMD_0020224
4441+
co:PMD_0020224 rdf:type owl:Class ;
4442+
rdfs:subClassOf obo:BFO_0000029 ,
4443+
[ rdf:type owl:Restriction ;
4444+
owl:onProperty owl:topObjectProperty ;
4445+
owl:someValuesFrom co:PMD_0020197
4446+
] ;
4447+
obo:IAO_0000116 "TODO: replace topObjectProperty with occupies spatial region"@en ;
4448+
rdfs:label "vacancy (crystal)"@en ;
4449+
skos:definition "site at lattice point at which the crystal forming entity is missing"@en .
4450+
4451+
44194452
### https://w3id.org/pmd/co/PMD_0020243
44204453
co:PMD_0020243 rdf:type owl:Class ;
44214454
rdfs:subClassOf co:PMD_0020131 ,
@@ -4709,6 +4742,29 @@ cryo:CRYO_0000015 rdf:type owl:Class ;
47094742
skos:definition "Lattice angle is a quality of a unit cell which describes the angle between three axes in a unit cell."@en .
47104743

47114744

4745+
### https://w3id.org/pmd/cryo/CRYO_0000017
4746+
cryo:CRYO_0000017 rdf:type owl:Class ;
4747+
rdfs:subClassOf cryo:CRYO_0000000 ,
4748+
[ rdf:type owl:Restriction ;
4749+
owl:onProperty obo:BFO_0000051 ;
4750+
owl:someValuesFrom co:PMD_0020197
4751+
] ,
4752+
[ rdf:type owl:Restriction ;
4753+
owl:onProperty obo:BFO_0000051 ;
4754+
owl:qualifiedCardinality "1"^^xsd:nonNegativeInteger ;
4755+
owl:onClass co:PMD_0020197
4756+
] ;
4757+
rdfs:label "primitive unit cell"@en ;
4758+
skos:definition "primitive unit cell is a unit cell that contains only single lattice point and has the smallest possible unit cell volume."@en .
4759+
4760+
4761+
### https://w3id.org/pmd/cryo/CRYO_0000018
4762+
cryo:CRYO_0000018 rdf:type owl:Class ;
4763+
rdfs:subClassOf cryo:CRYO_0000000 ;
4764+
rdfs:label "conventional unit cell"@en ;
4765+
skos:definition "conventional unit cell is a unit cell with the full symmetry of the crystal lattice, i.e., it may contain more that one lattice point."@en .
4766+
4767+
47124768
### https://w3id.org/pmd/cryo/CRYO_0000020
47134769
cryo:CRYO_0000020 rdf:type owl:Class ;
47144770
rdfs:subClassOf cryo:CRYO_0000014 ,

0 commit comments

Comments
 (0)