new release: Polar express

EnvironmentOntology · Apr 15, 2017 · f1d6c0c · f1d6c0c
1 parent cb7178e
commit f1d6c0c
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Showing 44 changed files with 131,427 additions and 38,841 deletions.
diff --git a/envo.json b/envo.json
diff --git a/envo.obo b/envo.obo
diff --git a/envo.owl b/envo.owl
diff --git a/imports/chebi_import.obo b/imports/chebi_import.obo
@@ -1,6 +1,6 @@
 format-version: 1.2
 ontology: envo/imports/chebi_import
-property_value: http://purl.org/dc/elements/1.1/source http://purl.obolibrary.org/obo/chebi/149/chebi.owl
+property_value: http://purl.org/dc/elements/1.1/source http://purl.obolibrary.org/obo/chebi/150/chebi.owl
 
 [Term]
 id: CHEBI:131621
@@ -1164,6 +1164,7 @@ id: CHEBI:27856
 name: acetamide
 is_a: CHEBI:22160 ! acetamides
 is_a: CHEBI:29347 ! monocarboxylic acid amide
+is_a: CHEBI:83628 ! N-acylammonia
 
 [Term]
 id: CHEBI:27889
@@ -2905,6 +2906,11 @@ name: straight-chain saturated fatty acid
 is_a: CHEBI:26607 ! saturated fatty acid
 is_a: CHEBI:59202 ! straight-chain fatty acid
 
+[Term]
+id: CHEBI:3992
+name: cyclic ketone
+is_a: CHEBI:17087 ! ketone
+
 [Term]
 id: CHEBI:41609
 name: carbonate
@@ -2970,6 +2976,7 @@ is_a: CHEBI:46923 ! dioxane
 id: CHEBI:47788
 name: 3-oxo steroid
 is_a: CHEBI:35789 ! oxo steroid
+is_a: CHEBI:3992 ! cyclic ketone
 
 [Term]
 id: CHEBI:47867
@@ -3713,6 +3720,11 @@ name: chlorophyllide a(2-)
 is_a: CHEBI:35757 ! monocarboxylic acid anion
 is_a: CHEBI:58941 ! cyclic tetrapyrrole anion
 
+[Term]
+id: CHEBI:83628
+name: N-acylammonia
+is_a: CHEBI:37622 ! carboxamide
+
 [Term]
 id: CHEBI:83811
 name: proteinogenic amino acid derivative

diff --git a/imports/chebi_import.owl b/imports/chebi_import.owl
@@ -7,7 +7,7 @@
  xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
  xmlns:dc="http://purl.org/dc/elements/1.1/">
  <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/envo/imports/chebi_import.owl">
- <dc:source rdf:resource="http://purl.obolibrary.org/obo/chebi/149/chebi.owl"/>
+ <dc:source rdf:resource="http://purl.obolibrary.org/obo/chebi/150/chebi.owl"/>
  </owl:Ontology>
 
 
@@ -2018,6 +2018,7 @@
  <rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">acetamide</rdfs:label>
  <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_22160"/>
  <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_29347"/>
+ <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_83628"/>
  </owl:Class>
 
 
@@ -5018,6 +5019,15 @@
 
 
 
+ <!-- http://purl.obolibrary.org/obo/CHEBI_3992 -->
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_3992">
+ <rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">cyclic ketone</rdfs:label>
+ <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_17087"/>
+ </owl:Class>
+
+
+
  <!-- http://purl.obolibrary.org/obo/CHEBI_41609 -->
 
  <owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_41609">
@@ -5128,6 +5138,7 @@
  <owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_47788">
  <rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">3-oxo steroid</rdfs:label>
  <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_35789"/>
+ <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_3992"/>
  </owl:Class>
 
 
@@ -6442,6 +6453,15 @@
 
 
 
+ <!-- http://purl.obolibrary.org/obo/CHEBI_83628 -->
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_83628">
+ <rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">N-acylammonia</rdfs:label>
+ <rdfs:subClassOf rdf:resource="http://purl.obolibrary.org/obo/CHEBI_37622"/>
+ </owl:Class>
+
+
+
  <!-- http://purl.obolibrary.org/obo/CHEBI_83811 -->
 
  <owl:Class rdf:about="http://purl.obolibrary.org/obo/CHEBI_83811">

diff --git a/imports/chebi_seed.owl b/imports/chebi_seed.owl
@@ -13,6 +13,7 @@ Declaration(Class(CHEBI:30052)) ## copper(0)
 Declaration(Class(CHEBI:35170)) ## vanadium(0)
 Declaration(Class(CHEBI:27889)) ## lead(0)
 Declaration(Class(CHEBI:49976)) ## zinc dichloride
+Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_63248>)) # oxidant
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_3311>)) # calcium carbonate
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_80043>)) # Nodularin
 Declaration(Class(<http://purl.obolibrary.org/obo/CHEBI_2706>)) # Anatoxin a

diff --git a/imports/pato_import.obo b/imports/pato_import.obo
@@ -11,6 +11,11 @@ id: PATO:0000011
 name: age
 is_a: PATO:0000165 ! time
 
+[Term]
+id: PATO:0000014
+name: color
+is_a: PATO:0001300 ! optical quality
+
 [Term]
 id: PATO:0000019
 name: color pattern
@@ -141,6 +146,11 @@ id: PATO:0000309
 name: young
 is_a: PATO:0000011 ! age
 
+[Term]
+id: PATO:0000318
+name: blue
+is_a: PATO:0000014 ! color
+
 [Term]
 id: PATO:0000330
 name: irregular spatial pattern
@@ -184,6 +194,11 @@ id: PATO:0000407
 name: flat
 is_a: PATO:0002254 ! flattened
 
+[Term]
+id: PATO:0000411
+name: circular
+is_a: PATO:0000947 ! elliptic
+
 [Term]
 id: PATO:0000428
 name: sporadic
@@ -213,6 +228,18 @@ name: decreased size
 is_a: PATO:0000117 ! size
 is_a: PATO:0002303 ! decreased object quality
 
+[Term]
+id: PATO:0000591
+name: increased thickness
+is_a: PATO:0000586 ! increased size
+is_a: PATO:0000915 ! thickness
+
+[Term]
+id: PATO:0000592
+name: decreased thickness
+is_a: PATO:0000587 ! decreased size
+is_a: PATO:0000915 ! thickness
+
 [Term]
 id: PATO:0000595
 name: increased volume
@@ -251,6 +278,11 @@ id: PATO:0000622
 name: erect
 is_a: PATO:0000140 ! position
 
+[Term]
+id: PATO:0000689
+name: continuous
+is_a: PATO:0000057 ! occurrence
+
 [Term]
 id: PATO:0000911
 name: decreased rate
@@ -263,6 +295,11 @@ name: increased rate
 is_a: PATO:0000161 ! rate
 is_a: PATO:0002304 ! increased process quality
 
+[Term]
+id: PATO:0000915
+name: thickness
+is_a: PATO:0001708 ! 1-D extent
+
 [Term]
 id: PATO:0000918
 name: volume
@@ -273,6 +310,26 @@ id: PATO:0000946
 name: oblong
 is_a: PATO:0002006 ! 2-D shape
 
+[Term]
+id: PATO:0000947
+name: elliptic
+is_a: PATO:0002318 ! superelliptic
+
+[Term]
+id: PATO:0000957
+name: opacity
+is_a: PATO:0001300 ! optical quality
+
+[Term]
+id: PATO:0000963
+name: opaque
+is_a: PATO:0000957 ! opacity
+
+[Term]
+id: PATO:0000964
+name: transparent
+is_a: PATO:0000957 ! opacity
+
 [Term]
 id: PATO:0000967
 name: undulate
@@ -335,6 +392,11 @@ id: PATO:0001029
 name: efficiency
 is_a: PATO:0001018 ! physical quality
 
+[Term]
+id: PATO:0001031
+name: elasticity
+is_a: PATO:0001018 ! physical quality
+
 [Term]
 id: PATO:0001154
 name: elongated
@@ -351,6 +413,17 @@ name: decreased concentration
 is_a: PATO:0001159 ! concentrated
 is_a: PATO:0002303 ! decreased object quality
 
+[Term]
+id: PATO:0001171
+name: elastic
+is_a: PATO:0001031 ! elasticity
+disjoint_from: PATO:0001172 ! inelastic
+
+[Term]
+id: PATO:0001172
+name: inelastic
+is_a: PATO:0001031 ! elasticity
+
 [Term]
 id: PATO:0001199
 name: linear
@@ -381,6 +454,16 @@ id: PATO:0001241
 name: physical object quality
 is_a: PATO:0000001 ! quality
 
+[Term]
+id: PATO:0001291
+name: electromagnetic (EM) radiation quality
+is_a: PATO:0001739 ! radiation quality
+
+[Term]
+id: PATO:0001300
+name: optical quality
+is_a: PATO:0001291 ! electromagnetic (EM) radiation quality
+
 [Term]
 id: PATO:0001305
 name: increased temperature
@@ -397,6 +480,11 @@ id: PATO:0001332
 name: amorphous
 is_a: PATO:0000051 ! morphology
 
+[Term]
+id: PATO:0001354
+name: translucent
+is_a: PATO:0000957 ! opacity
+
 [Term]
 id: PATO:0001411
 name: structured
@@ -683,6 +771,18 @@ id: PATO:0001687
 name: elevation
 is_a: PATO:0000140 ! position
 
+[Term]
+id: PATO:0001688
+name: increased elevation
+is_a: PATO:0001475 ! increased position
+is_a: PATO:0001687 ! elevation
+
+[Term]
+id: PATO:0001689
+name: decreased elevation
+is_a: PATO:0001476 ! decreased position
+is_a: PATO:0001687 ! elevation
+
 [Term]
 id: PATO:0001708
 name: 1-D extent
@@ -756,6 +856,11 @@ name: decreased strength
 is_a: PATO:0001230 ! strength
 is_a: PATO:0002303 ! decreased object quality
 
+[Term]
+id: PATO:0001781
+name: irregular thickness
+is_a: PATO:0000915 ! thickness
+
 [Term]
 id: PATO:0001789
 name: domed
@@ -1105,6 +1210,11 @@ name: increased object quality
 is_a: PATO:0001241 ! physical object quality
 is_a: PATO:0002300 ! increased quality
 
+[Term]
+id: PATO:0002318
+name: superelliptic
+is_a: PATO:0002006 ! 2-D shape
+
 [Term]
 id: PATO:0002323
 name: temporal distribution quality
@@ -1130,6 +1240,11 @@ id: PATO:0002453
 name: eroding
 is_a: PATO:0000141 ! structure
 
+[Term]
+id: PATO:0005011
+name: continuous with
+is_a: PATO:0000140 ! position
+
 [Term]
 id: PATO:0015021
 name: combustibility