biointerchange 0.2.2 → 1.0.0

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Files changed (55) hide show
  1. data/Gemfile +1 -0
  2. data/README.md +269 -19
  3. data/VERSION +1 -1
  4. data/examples/bininda_emonds_mammals.new +1 -0
  5. data/examples/rdfization.rb +17 -0
  6. data/examples/tree1.new +1 -0
  7. data/examples/tree2.new +1 -0
  8. data/examples/vocabulary.rb +26 -5
  9. data/generators/javaify.rb +12 -18
  10. data/generators/make_supplement_releases.rb +2 -0
  11. data/generators/pythonify.rb +21 -8
  12. data/generators/rdfxml.rb +15 -1
  13. data/lib/biointerchange/cdao.rb +2014 -0
  14. data/lib/biointerchange/core.rb +70 -77
  15. data/lib/biointerchange/genomics/gff3_rdf_ntriples.rb +16 -0
  16. data/lib/biointerchange/genomics/gff3_reader.rb +18 -4
  17. data/lib/biointerchange/genomics/gvf_reader.rb +14 -0
  18. data/lib/biointerchange/phylogenetics/cdao_rdf_ntriples.rb +108 -0
  19. data/lib/biointerchange/phylogenetics/newick_reader.rb +81 -0
  20. data/lib/biointerchange/phylogenetics/tree_set.rb +50 -0
  21. data/lib/biointerchange/registry.rb +50 -8
  22. data/lib/biointerchange/so.rb +150 -0
  23. data/lib/biointerchange/textmining/pdfx_xml_reader.rb +21 -2
  24. data/lib/biointerchange/textmining/pubannos_json_reader.rb +24 -1
  25. data/lib/biointerchange/textmining/text_mining_rdf_ntriples.rb +9 -0
  26. data/lib/biointerchange/textmining/text_mining_reader.rb +5 -5
  27. data/spec/phylogenetics_spec.rb +79 -0
  28. data/supplemental/java/biointerchange/pom.xml +1 -1
  29. data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/CDAO.java +2602 -0
  30. data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/FALDO.java +30 -28
  31. data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/GFF3O.java +136 -104
  32. data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/GVF1O.java +367 -278
  33. data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/SIO.java +4388 -3127
  34. data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/SO.java +5970 -4351
  35. data/supplemental/java/biointerchange/src/main/java/org/biointerchange/vocabulary/SOFA.java +733 -544
  36. data/supplemental/java/biointerchange/src/test/java/org/biointerchange/AppTest.java +3 -1
  37. data/supplemental/python/biointerchange/cdao.py +2021 -0
  38. data/supplemental/python/biointerchange/faldo.py +37 -38
  39. data/supplemental/python/biointerchange/gff3o.py +156 -157
  40. data/supplemental/python/biointerchange/goxref.py +172 -172
  41. data/supplemental/python/biointerchange/gvf1o.py +428 -429
  42. data/supplemental/python/biointerchange/sio.py +3133 -3134
  43. data/supplemental/python/biointerchange/so.py +6626 -6527
  44. data/supplemental/python/biointerchange/sofa.py +790 -791
  45. data/supplemental/python/example.py +23 -5
  46. data/supplemental/python/setup.py +2 -2
  47. data/web/about.html +1 -0
  48. data/web/api.html +223 -15
  49. data/web/biointerchange.js +27 -6
  50. data/web/cli.html +8 -3
  51. data/web/index.html +6 -2
  52. data/web/ontologies.html +3 -0
  53. data/web/service/rdfizer.fcgi +7 -15
  54. data/web/webservices.html +6 -2
  55. metadata +30 -3
@@ -0,0 +1,2021 @@
1
+ import rdflib
2
+
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+ from rdflib import Namespace
4
+
5
+
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+ class CDAO:
7
+
8
+ @classmethod
9
+ def has_Character(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000142)
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+ """
13
+ return cls._namespace_CDAO('CDAO_0000142')
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+
15
+ @classmethod
16
+ def belongs_to_Edge_as_Child(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000143)
19
+ """
20
+ return cls._namespace_CDAO('CDAO_0000143')
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+
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+ @classmethod
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+ def has_Ancestor(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000144)
26
+ """
27
+ return cls._namespace_CDAO('CDAO_0000144')
28
+
29
+ @classmethod
30
+ def has_Nucleotide_State(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000145)
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+ """
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+ return cls._namespace_CDAO('CDAO_0000145')
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+
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+ @classmethod
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+ def belongs_to_Edge(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000146)
40
+ """
41
+ return cls._namespace_CDAO('CDAO_0000146')
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+
43
+ @classmethod
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+ def belongs_to_Character_State_Data_Matrix(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000147)
47
+ """
48
+ return cls._namespace_CDAO('CDAO_0000147')
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+
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+ @classmethod
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+ def has_Root(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000148)
54
+ """
55
+ return cls._namespace_CDAO('CDAO_0000148')
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+
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+ @classmethod
58
+ def has_Child(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000149)
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+ """
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+ return cls._namespace_CDAO('CDAO_0000149')
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+
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+ @classmethod
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+ def has_First_Coordinate_Item(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000150)
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+ """
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+ return cls._namespace_CDAO('CDAO_0000150')
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+
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+ @classmethod
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+ def has_Coordinate(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000151)
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+ """
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+ return cls._namespace_CDAO('CDAO_0000151')
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+
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+ @classmethod
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+ def belongs_to_Continuous_Character(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000152)
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+ """
83
+ return cls._namespace_CDAO('CDAO_0000152')
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+
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+ @classmethod
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+ def has_Datum(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000153)
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+ """
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+ return cls._namespace_CDAO('CDAO_0000153')
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+
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+ @classmethod
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+ def has_Standard_Datum(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000154)
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+ """
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+ return cls._namespace_CDAO('CDAO_0000154')
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+
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+ @classmethod
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+ def subtree_of(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000155)
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+ """
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+ return cls._namespace_CDAO('CDAO_0000155')
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+
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+ @classmethod
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+ def has_Amino_Acid_State(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000156)
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+ """
111
+ return cls._namespace_CDAO('CDAO_0000156')
112
+
113
+ @classmethod
114
+ def is_annotation_of(cls):
115
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000157)
117
+ """
118
+ return cls._namespace_CDAO('CDAO_0000157')
119
+
120
+ @classmethod
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+ def has_RNA_Datum(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000158)
124
+ """
125
+ return cls._namespace_CDAO('CDAO_0000158')
126
+
127
+ @classmethod
128
+ def has_Left_State(cls):
129
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000159)
131
+ """
132
+ return cls._namespace_CDAO('CDAO_0000159')
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+
134
+ @classmethod
135
+ def precedes(cls):
136
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000160)
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+ """
139
+ return cls._namespace_CDAO('CDAO_0000160')
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+
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+ @classmethod
142
+ def exclude(cls):
143
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000161)
145
+ """
146
+ return cls._namespace_CDAO('CDAO_0000161')
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+
148
+ @classmethod
149
+ def has_Node(cls):
150
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000162)
152
+ """
153
+ return cls._namespace_CDAO('CDAO_0000162')
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+
155
+ @classmethod
156
+ def nca_node_of(cls):
157
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000163)
159
+ """
160
+ return cls._namespace_CDAO('CDAO_0000163')
161
+
162
+ @classmethod
163
+ def has_External_Reference(cls):
164
+ """Associates a TU to some external taxonomy reference.
165
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000164)
166
+ """
167
+ return cls._namespace_CDAO('CDAO_0000164')
168
+
169
+ @classmethod
170
+ def has_Coordinate_System(cls):
171
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000165)
173
+ """
174
+ return cls._namespace_CDAO('CDAO_0000165')
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+
176
+ @classmethod
177
+ def belongs_to_Nucleotide_Character(cls):
178
+ """-- No comment or description provided. --
179
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000166)
180
+ """
181
+ return cls._namespace_CDAO('CDAO_0000166')
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+
183
+ @classmethod
184
+ def connects_to(cls):
185
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000167)
187
+ """
188
+ return cls._namespace_CDAO('CDAO_0000167')
189
+
190
+ @classmethod
191
+ def has_Amino_Acid_Datum(cls):
192
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000168)
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+ """
195
+ return cls._namespace_CDAO('CDAO_0000168')
196
+
197
+ @classmethod
198
+ def hereditary_change_of(cls):
199
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000169)
201
+ """
202
+ return cls._namespace_CDAO('CDAO_0000169')
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+
204
+ @classmethod
205
+ def has_Compound_Datum(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000170)
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+ """
209
+ return cls._namespace_CDAO('CDAO_0000170')
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+
211
+ @classmethod
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+ def has_Descendants(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000171)
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+ """
216
+ return cls._namespace_CDAO('CDAO_0000171')
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+
218
+ @classmethod
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+ def reconciliation_of(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000172)
222
+ """
223
+ return cls._namespace_CDAO('CDAO_0000172')
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+
225
+ @classmethod
226
+ def belongs_to_Amino_Acid_Character(cls):
227
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000173)
229
+ """
230
+ return cls._namespace_CDAO('CDAO_0000173')
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+
232
+ @classmethod
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+ def has_Descendant(cls):
234
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000174)
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+ """
237
+ return cls._namespace_CDAO('CDAO_0000174')
238
+
239
+ @classmethod
240
+ def has_Continuous_State(cls):
241
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000175)
243
+ """
244
+ return cls._namespace_CDAO('CDAO_0000175')
245
+
246
+ @classmethod
247
+ def has_Type(cls):
248
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000176)
250
+ """
251
+ return cls._namespace_CDAO('CDAO_0000176')
252
+
253
+ @classmethod
254
+ def belongs_to_Edge_as_Parent(cls):
255
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000177)
257
+ """
258
+ return cls._namespace_CDAO('CDAO_0000177')
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+
260
+ @classmethod
261
+ def has(cls):
262
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000178)
264
+ """
265
+ return cls._namespace_CDAO('CDAO_0000178')
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+
267
+ @classmethod
268
+ def has_Parent(cls):
269
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000179)
271
+ """
272
+ return cls._namespace_CDAO('CDAO_0000179')
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+
274
+ @classmethod
275
+ def belongs_to_Compound_Character(cls):
276
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000180)
278
+ """
279
+ return cls._namespace_CDAO('CDAO_0000180')
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+
281
+ @classmethod
282
+ def homologous_to(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000181)
285
+ """
286
+ return cls._namespace_CDAO('CDAO_0000181')
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+
288
+ @classmethod
289
+ def has_Change_Component(cls):
290
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000182)
292
+ """
293
+ return cls._namespace_CDAO('CDAO_0000182')
294
+
295
+ @classmethod
296
+ def has_Categorical_Datum(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000183)
299
+ """
300
+ return cls._namespace_CDAO('CDAO_0000183')
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+
302
+ @classmethod
303
+ def has_State(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000184)
306
+ """
307
+ return cls._namespace_CDAO('CDAO_0000184')
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+
309
+ @classmethod
310
+ def has_Left_Node(cls):
311
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000185)
313
+ """
314
+ return cls._namespace_CDAO('CDAO_0000185')
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+
316
+ @classmethod
317
+ def has_Right_State(cls):
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+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000186)
320
+ """
321
+ return cls._namespace_CDAO('CDAO_0000186')
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+
323
+ @classmethod
324
+ def represents_TU(cls):
325
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000187)
327
+ """
328
+ return cls._namespace_CDAO('CDAO_0000187')
329
+
330
+ @classmethod
331
+ def exclude_Node(cls):
332
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000188)
334
+ """
335
+ return cls._namespace_CDAO('CDAO_0000188')
336
+
337
+ @classmethod
338
+ def has_Compound_State(cls):
339
+ """-- No comment or description provided. --
340
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000189)
341
+ """
342
+ return cls._namespace_CDAO('CDAO_0000189')
343
+
344
+ @classmethod
345
+ def belongs_to(cls):
346
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000190)
348
+ """
349
+ return cls._namespace_CDAO('CDAO_0000190')
350
+
351
+ @classmethod
352
+ def belongs_to_TU(cls):
353
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000191)
355
+ """
356
+ return cls._namespace_CDAO('CDAO_0000191')
357
+
358
+ @classmethod
359
+ def belongs_to_Network(cls):
360
+ """-- No comment or description provided. --
361
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000192)
362
+ """
363
+ return cls._namespace_CDAO('CDAO_0000192')
364
+
365
+ @classmethod
366
+ def has_Annotation(cls):
367
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000193)
369
+ """
370
+ return cls._namespace_CDAO('CDAO_0000193')
371
+
372
+ @classmethod
373
+ def part_of(cls):
374
+ """-- No comment or description provided. --
375
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000194)
376
+ """
377
+ return cls._namespace_CDAO('CDAO_0000194')
378
+
379
+ @classmethod
380
+ def has_Nucleotide_Datum(cls):
381
+ """-- No comment or description provided. --
382
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000195)
383
+ """
384
+ return cls._namespace_CDAO('CDAO_0000195')
385
+
386
+ @classmethod
387
+ def represented_by_Node(cls):
388
+ """-- No comment or description provided. --
389
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000196)
390
+ """
391
+ return cls._namespace_CDAO('CDAO_0000196')
392
+
393
+ @classmethod
394
+ def has_Remaining_Coordinate_List(cls):
395
+ """-- No comment or description provided. --
396
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000197)
397
+ """
398
+ return cls._namespace_CDAO('CDAO_0000197')
399
+
400
+ @classmethod
401
+ def has_Element(cls):
402
+ """-- No comment or description provided. --
403
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000198)
404
+ """
405
+ return cls._namespace_CDAO('CDAO_0000198')
406
+
407
+ @classmethod
408
+ def exclude_Subtree(cls):
409
+ """-- No comment or description provided. --
410
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000199)
411
+ """
412
+ return cls._namespace_CDAO('CDAO_0000199')
413
+
414
+ @classmethod
415
+ def belongs_to_Tree(cls):
416
+ """-- No comment or description provided. --
417
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000200)
418
+ """
419
+ return cls._namespace_CDAO('CDAO_0000200')
420
+
421
+ @classmethod
422
+ def has_Parent_Node(cls):
423
+ """-- No comment or description provided. --
424
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000201)
425
+ """
426
+ return cls._namespace_CDAO('CDAO_0000201')
427
+
428
+ @classmethod
429
+ def has_Lineage_node(cls):
430
+ """-- No comment or description provided. --
431
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000202)
432
+ """
433
+ return cls._namespace_CDAO('CDAO_0000202')
434
+
435
+ @classmethod
436
+ def belongs_to_Tree_as_Root(cls):
437
+ """-- No comment or description provided. --
438
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000203)
439
+ """
440
+ return cls._namespace_CDAO('CDAO_0000203')
441
+
442
+ @classmethod
443
+ def has_Hereditary_Change(cls):
444
+ """-- No comment or description provided. --
445
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000204)
446
+ """
447
+ return cls._namespace_CDAO('CDAO_0000204')
448
+
449
+ @classmethod
450
+ def belongs_to_Character(cls):
451
+ """-- No comment or description provided. --
452
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000205)
453
+ """
454
+ return cls._namespace_CDAO('CDAO_0000205')
455
+
456
+ @classmethod
457
+ def has_Molecular_Datum(cls):
458
+ """-- No comment or description provided. --
459
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000206)
460
+ """
461
+ return cls._namespace_CDAO('CDAO_0000206')
462
+
463
+ @classmethod
464
+ def has_Continuous_Datum(cls):
465
+ """-- No comment or description provided. --
466
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000207)
467
+ """
468
+ return cls._namespace_CDAO('CDAO_0000207')
469
+
470
+ @classmethod
471
+ def has_TU(cls):
472
+ """-- No comment or description provided. --
473
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000208)
474
+ """
475
+ return cls._namespace_CDAO('CDAO_0000208')
476
+
477
+ @classmethod
478
+ def has_Child_Node(cls):
479
+ """-- No comment or description provided. --
480
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000209)
481
+ """
482
+ return cls._namespace_CDAO('CDAO_0000209')
483
+
484
+ @classmethod
485
+ def has_Right_Node(cls):
486
+ """-- No comment or description provided. --
487
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000210)
488
+ """
489
+ return cls._namespace_CDAO('CDAO_0000210')
490
+
491
+ @classmethod
492
+ def has_Precision(cls):
493
+ """-- No comment or description provided. --
494
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000211)
495
+ """
496
+ return cls._namespace_CDAO('CDAO_0000211')
497
+
498
+ @classmethod
499
+ def has_Point_Coordinate_Value(cls):
500
+ """-- No comment or description provided. --
501
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000212)
502
+ """
503
+ return cls._namespace_CDAO('CDAO_0000212')
504
+
505
+ @classmethod
506
+ def has_Int_Value(cls):
507
+ """-- No comment or description provided. --
508
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000213)
509
+ """
510
+ return cls._namespace_CDAO('CDAO_0000213')
511
+
512
+ @classmethod
513
+ def has_Support_Value(cls):
514
+ """-- No comment or description provided. --
515
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000214)
516
+ """
517
+ return cls._namespace_CDAO('CDAO_0000214')
518
+
519
+ @classmethod
520
+ def has_Value(cls):
521
+ """-- No comment or description provided. --
522
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000215)
523
+ """
524
+ return cls._namespace_CDAO('CDAO_0000215')
525
+
526
+ @classmethod
527
+ def has_Uncertainty_Factor(cls):
528
+ """-- No comment or description provided. --
529
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000216)
530
+ """
531
+ return cls._namespace_CDAO('CDAO_0000216')
532
+
533
+ @classmethod
534
+ def has_Range_End_Value(cls):
535
+ """-- No comment or description provided. --
536
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000217)
537
+ """
538
+ return cls._namespace_CDAO('CDAO_0000217')
539
+
540
+ @classmethod
541
+ def has_Float_Value(cls):
542
+ """-- No comment or description provided. --
543
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000218)
544
+ """
545
+ return cls._namespace_CDAO('CDAO_0000218')
546
+
547
+ @classmethod
548
+ def has_Range_Start_Value(cls):
549
+ """-- No comment or description provided. --
550
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000219)
551
+ """
552
+ return cls._namespace_CDAO('CDAO_0000219')
553
+
554
+ @classmethod
555
+ def DesoxiRibonucleotideResidueStateDatum(cls):
556
+ """-- No comment or description provided. --
557
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000002)
558
+ """
559
+ return cls._namespace_CDAO('CDAO_0000002')
560
+
561
+ @classmethod
562
+ def CoordinatePoint(cls):
563
+ """-- No comment or description provided. --
564
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000003)
565
+ """
566
+ return cls._namespace_CDAO('CDAO_0000003')
567
+
568
+ @classmethod
569
+ def Lineage(cls):
570
+ """-- No comment or description provided. --
571
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000004)
572
+ """
573
+ return cls._namespace_CDAO('CDAO_0000004')
574
+
575
+ @classmethod
576
+ def Phylo4Tree(cls):
577
+ """-- No comment or description provided. --
578
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000005)
579
+ """
580
+ return cls._namespace_CDAO('CDAO_0000005')
581
+
582
+ @classmethod
583
+ def Network(cls):
584
+ """-- No comment or description provided. --
585
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000006)
586
+ """
587
+ return cls._namespace_CDAO('CDAO_0000006')
588
+
589
+ @classmethod
590
+ def ModelDescription(cls):
591
+ """This is a non-computible description of a model, not the fully specified mathematical model, which typically relates the probability of a transformation to various parameters.
592
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000007)
593
+ """
594
+ return cls._namespace_CDAO('CDAO_0000007')
595
+
596
+ @classmethod
597
+ def StandardStateDatum(cls):
598
+ """-- No comment or description provided. --
599
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000008)
600
+ """
601
+ return cls._namespace_CDAO('CDAO_0000008')
602
+
603
+ @classmethod
604
+ def ContinuousCharacterLengthType(cls):
605
+ """-- No comment or description provided. --
606
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000009)
607
+ """
608
+ return cls._namespace_CDAO('CDAO_0000009')
609
+
610
+ @classmethod
611
+ def ContinuousCharBayesianLengthType(cls):
612
+ """-- No comment or description provided. --
613
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000010)
614
+ """
615
+ return cls._namespace_CDAO('CDAO_0000010')
616
+
617
+ @classmethod
618
+ def NEXUSTreeBlock(cls):
619
+ """-- No comment or description provided. --
620
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000011)
621
+ """
622
+ return cls._namespace_CDAO('CDAO_0000011')
623
+
624
+ @classmethod
625
+ def RootedTree(cls):
626
+ """-- No comment or description provided. --
627
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000012)
628
+ """
629
+ return cls._namespace_CDAO('CDAO_0000012')
630
+
631
+ @classmethod
632
+ def Kimura2Parameters(cls):
633
+ """-- No comment or description provided. --
634
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000013)
635
+ """
636
+ return cls._namespace_CDAO('CDAO_0000013')
637
+
638
+ @classmethod
639
+ def TreeProcedure(cls):
640
+ """-- No comment or description provided. --
641
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000014)
642
+ """
643
+ return cls._namespace_CDAO('CDAO_0000014')
644
+
645
+ @classmethod
646
+ def Generic_State(cls):
647
+ """This class should be renamed. These are not generic states but non-concrete states including gap, unknown and missing.
648
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000015)
649
+ """
650
+ return cls._namespace_CDAO('CDAO_0000015')
651
+
652
+ @classmethod
653
+ def UnrootedSubtree(cls):
654
+ """-- No comment or description provided. --
655
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000016)
656
+ """
657
+ return cls._namespace_CDAO('CDAO_0000016')
658
+
659
+ @classmethod
660
+ def UnresolvedTree(cls):
661
+ """-- No comment or description provided. --
662
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000017)
663
+ """
664
+ return cls._namespace_CDAO('CDAO_0000017')
665
+
666
+ @classmethod
667
+ def BifurcatingTree(cls):
668
+ """-- No comment or description provided. --
669
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000018)
670
+ """
671
+ return cls._namespace_CDAO('CDAO_0000018')
672
+
673
+ @classmethod
674
+ def ContinuousStateDatum(cls):
675
+ """-- No comment or description provided. --
676
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000019)
677
+ """
678
+ return cls._namespace_CDAO('CDAO_0000019')
679
+
680
+ @classmethod
681
+ def SubstitutionModel(cls):
682
+ """-- No comment or description provided. --
683
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000020)
684
+ """
685
+ return cls._namespace_CDAO('CDAO_0000020')
686
+
687
+ @classmethod
688
+ def JukesKantor(cls):
689
+ """-- No comment or description provided. --
690
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000021)
691
+ """
692
+ return cls._namespace_CDAO('CDAO_0000021')
693
+
694
+ @classmethod
695
+ def DatumCoordinate(cls):
696
+ """drawing from seqloc categories from NCBI at http://www.ncbi.nlm.nih.gov/IEB/ToolBox/SDKDOCS/SEQLOC.HTML#_Seq-loc:_Locations_on
697
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000022)
698
+ """
699
+ return cls._namespace_CDAO('CDAO_0000022')
700
+
701
+ @classmethod
702
+ def UnresolvedRootedTree(cls):
703
+ """-- No comment or description provided. --
704
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000023)
705
+ """
706
+ return cls._namespace_CDAO('CDAO_0000023')
707
+
708
+ @classmethod
709
+ def Branch(cls):
710
+ """-- No comment or description provided. --
711
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000024)
712
+ """
713
+ return cls._namespace_CDAO('CDAO_0000024')
714
+
715
+ @classmethod
716
+ def CharacterStateDataMatrixAnnotation(cls):
717
+ """-- No comment or description provided. --
718
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000025)
719
+ """
720
+ return cls._namespace_CDAO('CDAO_0000025')
721
+
722
+ @classmethod
723
+ def AncestralNode(cls):
724
+ """-- No comment or description provided. --
725
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000026)
726
+ """
727
+ return cls._namespace_CDAO('CDAO_0000026')
728
+
729
+ @classmethod
730
+ def UnresolvedUnrootedTree(cls):
731
+ """-- No comment or description provided. --
732
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000027)
733
+ """
734
+ return cls._namespace_CDAO('CDAO_0000027')
735
+
736
+ @classmethod
737
+ def UncertainStateDomain(cls):
738
+ """-- No comment or description provided. --
739
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000029)
740
+ """
741
+ return cls._namespace_CDAO('CDAO_0000029')
742
+
743
+ @classmethod
744
+ def ReconcileTree(cls):
745
+ """-- No comment or description provided. --
746
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000030)
747
+ """
748
+ return cls._namespace_CDAO('CDAO_0000030')
749
+
750
+ @classmethod
751
+ def Continuous(cls):
752
+ """-- No comment or description provided. --
753
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000031)
754
+ """
755
+ return cls._namespace_CDAO('CDAO_0000031')
756
+
757
+ @classmethod
758
+ def AlignmentProcedure(cls):
759
+ """-- No comment or description provided. --
760
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000032)
761
+ """
762
+ return cls._namespace_CDAO('CDAO_0000032')
763
+
764
+ @classmethod
765
+ def Dichotomy(cls):
766
+ """-- No comment or description provided. --
767
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000033)
768
+ """
769
+ return cls._namespace_CDAO('CDAO_0000033')
770
+
771
+ @classmethod
772
+ def Molecular(cls):
773
+ """-- No comment or description provided. --
774
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000034)
775
+ """
776
+ return cls._namespace_CDAO('CDAO_0000034')
777
+
778
+ @classmethod
779
+ def ContinuousCharParsimonyLengthType(cls):
780
+ """-- No comment or description provided. --
781
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000035)
782
+ """
783
+ return cls._namespace_CDAO('CDAO_0000035')
784
+
785
+ @classmethod
786
+ def Categorical(cls):
787
+ """-- No comment or description provided. --
788
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000039)
789
+ """
790
+ return cls._namespace_CDAO('CDAO_0000039')
791
+
792
+ @classmethod
793
+ def CDAOAnnotation(cls):
794
+ """Its possible that this base class should be discarded and that annotations should inherit from an imported base class if one exists.
795
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000040)
796
+ """
797
+ return cls._namespace_CDAO('CDAO_0000040')
798
+
799
+ @classmethod
800
+ def originationEvent(cls):
801
+ """-- No comment or description provided. --
802
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000041)
803
+ """
804
+ return cls._namespace_CDAO('CDAO_0000041')
805
+
806
+ @classmethod
807
+ def Polytomy(cls):
808
+ """-- No comment or description provided. --
809
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000042)
810
+ """
811
+ return cls._namespace_CDAO('CDAO_0000042')
812
+
813
+ @classmethod
814
+ def PolymorphicStateDomain(cls):
815
+ """-- No comment or description provided. --
816
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000043)
817
+ """
818
+ return cls._namespace_CDAO('CDAO_0000043')
819
+
820
+ @classmethod
821
+ def TreeAnnotation(cls):
822
+ """-- No comment or description provided. --
823
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000044)
824
+ """
825
+ return cls._namespace_CDAO('CDAO_0000044')
826
+
827
+ @classmethod
828
+ def Standard(cls):
829
+ """-- No comment or description provided. --
830
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000045)
831
+ """
832
+ return cls._namespace_CDAO('CDAO_0000045')
833
+
834
+ @classmethod
835
+ def EdgeLength(cls):
836
+ """Its possible that this should not be classed as an 'annotation' since it contains data rather than meta-data.
837
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000046)
838
+ """
839
+ return cls._namespace_CDAO('CDAO_0000046')
840
+
841
+ @classmethod
842
+ def RibonucleotideResidue(cls):
843
+ """-- No comment or description provided. --
844
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000047)
845
+ """
846
+ return cls._namespace_CDAO('CDAO_0000047')
847
+
848
+ @classmethod
849
+ def Clade(cls):
850
+ """-- No comment or description provided. --
851
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000048)
852
+ """
853
+ return cls._namespace_CDAO('CDAO_0000048')
854
+
855
+ @classmethod
856
+ def DiscreteCharParsimonyLengthType(cls):
857
+ """-- No comment or description provided. --
858
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000049)
859
+ """
860
+ return cls._namespace_CDAO('CDAO_0000049')
861
+
862
+ @classmethod
863
+ def MolecularStateDatum(cls):
864
+ """-- No comment or description provided. --
865
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000050)
866
+ """
867
+ return cls._namespace_CDAO('CDAO_0000050')
868
+
869
+ @classmethod
870
+ def PolyphyleticGroup(cls):
871
+ """-- No comment or description provided. --
872
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000051)
873
+ """
874
+ return cls._namespace_CDAO('CDAO_0000051')
875
+
876
+ @classmethod
877
+ def NexusDataBlock(cls):
878
+ """-- No comment or description provided. --
879
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000052)
880
+ """
881
+ return cls._namespace_CDAO('CDAO_0000052')
882
+
883
+ @classmethod
884
+ def BranchingNode(cls):
885
+ """-- No comment or description provided. --
886
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000053)
887
+ """
888
+ return cls._namespace_CDAO('CDAO_0000053')
889
+
890
+ @classmethod
891
+ def Compound(cls):
892
+ """-- No comment or description provided. --
893
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000055)
894
+ """
895
+ return cls._namespace_CDAO('CDAO_0000055')
896
+
897
+ @classmethod
898
+ def CharacterStateDataMatrix(cls):
899
+ """-- No comment or description provided. --
900
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000056)
901
+ """
902
+ return cls._namespace_CDAO('CDAO_0000056')
903
+
904
+ @classmethod
905
+ def RibonucleotideResidueStateDatum(cls):
906
+ """-- No comment or description provided. --
907
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000057)
908
+ """
909
+ return cls._namespace_CDAO('CDAO_0000057')
910
+
911
+ @classmethod
912
+ def TimeCalibratedLengthType(cls):
913
+ """-- No comment or description provided. --
914
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000058)
915
+ """
916
+ return cls._namespace_CDAO('CDAO_0000058')
917
+
918
+ @classmethod
919
+ def SetOfNodes(cls):
920
+ """-- No comment or description provided. --
921
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000059)
922
+ """
923
+ return cls._namespace_CDAO('CDAO_0000059')
924
+
925
+ @classmethod
926
+ def MRCANode(cls):
927
+ """-- No comment or description provided. --
928
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000060)
929
+ """
930
+ return cls._namespace_CDAO('CDAO_0000060')
931
+
932
+ @classmethod
933
+ def FASTADataMatrix(cls):
934
+ """-- No comment or description provided. --
935
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000061)
936
+ """
937
+ return cls._namespace_CDAO('CDAO_0000061')
938
+
939
+ @classmethod
940
+ def evolutionaryTransition(cls):
941
+ """-- No comment or description provided. --
942
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000062)
943
+ """
944
+ return cls._namespace_CDAO('CDAO_0000062')
945
+
946
+ @classmethod
947
+ def EdgeLengthType(cls):
948
+ """-- No comment or description provided. --
949
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000063)
950
+ """
951
+ return cls._namespace_CDAO('CDAO_0000063')
952
+
953
+ @classmethod
954
+ def cladogeneticChange(cls):
955
+ """-- No comment or description provided. --
956
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000064)
957
+ """
958
+ return cls._namespace_CDAO('CDAO_0000064')
959
+
960
+ @classmethod
961
+ def anageneticChange(cls):
962
+ """-- No comment or description provided. --
963
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000065)
964
+ """
965
+ return cls._namespace_CDAO('CDAO_0000065')
966
+
967
+ @classmethod
968
+ def TUAnnotation(cls):
969
+ """-- No comment or description provided. --
970
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000066)
971
+ """
972
+ return cls._namespace_CDAO('CDAO_0000066')
973
+
974
+ @classmethod
975
+ def PhyloTree(cls):
976
+ """-- No comment or description provided. --
977
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000067)
978
+ """
979
+ return cls._namespace_CDAO('CDAO_0000067')
980
+
981
+ @classmethod
982
+ def ContinuousCharacter(cls):
983
+ """-- No comment or description provided. --
984
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000068)
985
+ """
986
+ return cls._namespace_CDAO('CDAO_0000068')
987
+
988
+ @classmethod
989
+ def PHYLIPTree(cls):
990
+ """-- No comment or description provided. --
991
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000069)
992
+ """
993
+ return cls._namespace_CDAO('CDAO_0000069')
994
+
995
+ @classmethod
996
+ def Subtree(cls):
997
+ """-- No comment or description provided. --
998
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000070)
999
+ """
1000
+ return cls._namespace_CDAO('CDAO_0000070')
1001
+
1002
+ @classmethod
1003
+ def Character(cls):
1004
+ """Traits shown to be relevant for phylogenetic classification
1005
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000071)
1006
+ """
1007
+ return cls._namespace_CDAO('CDAO_0000071')
1008
+
1009
+ @classmethod
1010
+ def GalledTree(cls):
1011
+ """-- No comment or description provided. --
1012
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000072)
1013
+ """
1014
+ return cls._namespace_CDAO('CDAO_0000072')
1015
+
1016
+ @classmethod
1017
+ def SpeciesTree(cls):
1018
+ """-- No comment or description provided. --
1019
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000073)
1020
+ """
1021
+ return cls._namespace_CDAO('CDAO_0000073')
1022
+
1023
+ @classmethod
1024
+ def TreeFormat(cls):
1025
+ """-- No comment or description provided. --
1026
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000074)
1027
+ """
1028
+ return cls._namespace_CDAO('CDAO_0000074')
1029
+
1030
+ @classmethod
1031
+ def StandardCharacter(cls):
1032
+ """-- No comment or description provided. --
1033
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000075)
1034
+ """
1035
+ return cls._namespace_CDAO('CDAO_0000075')
1036
+
1037
+ @classmethod
1038
+ def AminoAcidResidue(cls):
1039
+ """-- No comment or description provided. --
1040
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000076)
1041
+ """
1042
+ return cls._namespace_CDAO('CDAO_0000076')
1043
+
1044
+ @classmethod
1045
+ def geneDuplication(cls):
1046
+ """-- No comment or description provided. --
1047
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000077)
1048
+ """
1049
+ return cls._namespace_CDAO('CDAO_0000077')
1050
+
1051
+ @classmethod
1052
+ def CompoundCharacter(cls):
1053
+ """-- No comment or description provided. --
1054
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000078)
1055
+ """
1056
+ return cls._namespace_CDAO('CDAO_0000078')
1057
+
1058
+ @classmethod
1059
+ def SIMMAPTree(cls):
1060
+ """-- No comment or description provided. --
1061
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000079)
1062
+ """
1063
+ return cls._namespace_CDAO('CDAO_0000079')
1064
+
1065
+ @classmethod
1066
+ def CommonAncestralNode(cls):
1067
+ """-- No comment or description provided. --
1068
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000080)
1069
+ """
1070
+ return cls._namespace_CDAO('CDAO_0000080')
1071
+
1072
+ @classmethod
1073
+ def NewickTree(cls):
1074
+ """-- No comment or description provided. --
1075
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000081)
1076
+ """
1077
+ return cls._namespace_CDAO('CDAO_0000081')
1078
+
1079
+ @classmethod
1080
+ def TimeProportionalLengthType(cls):
1081
+ """-- No comment or description provided. --
1082
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000082)
1083
+ """
1084
+ return cls._namespace_CDAO('CDAO_0000082')
1085
+
1086
+ @classmethod
1087
+ def DiscreteCharDistanceLengthType(cls):
1088
+ """-- No comment or description provided. --
1089
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000083)
1090
+ """
1091
+ return cls._namespace_CDAO('CDAO_0000083')
1092
+
1093
+ @classmethod
1094
+ def StarTree(cls):
1095
+ """-- No comment or description provided. --
1096
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000084)
1097
+ """
1098
+ return cls._namespace_CDAO('CDAO_0000084')
1099
+
1100
+ @classmethod
1101
+ def FullyResolvedUnrootedTree(cls):
1102
+ """-- No comment or description provided. --
1103
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000085)
1104
+ """
1105
+ return cls._namespace_CDAO('CDAO_0000085')
1106
+
1107
+ @classmethod
1108
+ def ParaphyleticGroup(cls):
1109
+ """-- No comment or description provided. --
1110
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000086)
1111
+ """
1112
+ return cls._namespace_CDAO('CDAO_0000086')
1113
+
1114
+ @classmethod
1115
+ def geneticEvent(cls):
1116
+ """-- No comment or description provided. --
1117
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000087)
1118
+ """
1119
+ return cls._namespace_CDAO('CDAO_0000087')
1120
+
1121
+ @classmethod
1122
+ def UnrootedTree(cls):
1123
+ """-- No comment or description provided. --
1124
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000088)
1125
+ """
1126
+ return cls._namespace_CDAO('CDAO_0000088')
1127
+
1128
+ @classmethod
1129
+ def CategoricalStateDatum(cls):
1130
+ """-- No comment or description provided. --
1131
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000089)
1132
+ """
1133
+ return cls._namespace_CDAO('CDAO_0000089')
1134
+
1135
+ @classmethod
1136
+ def DiscreteCharLikelihoodLengthType(cls):
1137
+ """-- No comment or description provided. --
1138
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000090)
1139
+ """
1140
+ return cls._namespace_CDAO('CDAO_0000090')
1141
+
1142
+ @classmethod
1143
+ def CharacterStateDomain(cls):
1144
+ """-- No comment or description provided. --
1145
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000091)
1146
+ """
1147
+ return cls._namespace_CDAO('CDAO_0000091')
1148
+
1149
+ @classmethod
1150
+ def CoordinateList(cls):
1151
+ """-- No comment or description provided. --
1152
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000092)
1153
+ """
1154
+ return cls._namespace_CDAO('CDAO_0000092')
1155
+
1156
+ @classmethod
1157
+ def GammaDistribution(cls):
1158
+ """-- No comment or description provided. --
1159
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000093)
1160
+ """
1161
+ return cls._namespace_CDAO('CDAO_0000093')
1162
+
1163
+ @classmethod
1164
+ def DesoxiRibonucleotideResidueCharacter(cls):
1165
+ """-- No comment or description provided. --
1166
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000094)
1167
+ """
1168
+ return cls._namespace_CDAO('CDAO_0000094')
1169
+
1170
+ @classmethod
1171
+ def CoordinateRange(cls):
1172
+ """-- No comment or description provided. --
1173
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000095)
1174
+ """
1175
+ return cls._namespace_CDAO('CDAO_0000095')
1176
+
1177
+ @classmethod
1178
+ def ReticulateEvolution(cls):
1179
+ """-- No comment or description provided. --
1180
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000096)
1181
+ """
1182
+ return cls._namespace_CDAO('CDAO_0000096')
1183
+
1184
+ @classmethod
1185
+ def hereditaryChange(cls):
1186
+ """-- No comment or description provided. --
1187
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000097)
1188
+ """
1189
+ return cls._namespace_CDAO('CDAO_0000097')
1190
+
1191
+ @classmethod
1192
+ def CharacterStateDatum(cls):
1193
+ """-- No comment or description provided. --
1194
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000098)
1195
+ """
1196
+ return cls._namespace_CDAO('CDAO_0000098')
1197
+
1198
+ @classmethod
1199
+ def Edge(cls):
1200
+ """-- No comment or description provided. --
1201
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000099)
1202
+ """
1203
+ return cls._namespace_CDAO('CDAO_0000099')
1204
+
1205
+ @classmethod
1206
+ def DiscreteCharacterLengthType(cls):
1207
+ """-- No comment or description provided. --
1208
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000100)
1209
+ """
1210
+ return cls._namespace_CDAO('CDAO_0000100')
1211
+
1212
+ @classmethod
1213
+ def EdgeAnnotation(cls):
1214
+ """-- No comment or description provided. --
1215
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000101)
1216
+ """
1217
+ return cls._namespace_CDAO('CDAO_0000101')
1218
+
1219
+ @classmethod
1220
+ def FullyResolvedRootedTree(cls):
1221
+ """-- No comment or description provided. --
1222
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000102)
1223
+ """
1224
+ return cls._namespace_CDAO('CDAO_0000102')
1225
+
1226
+ @classmethod
1227
+ def GrafenLengthType(cls):
1228
+ """-- No comment or description provided. --
1229
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000103)
1230
+ """
1231
+ return cls._namespace_CDAO('CDAO_0000103')
1232
+
1233
+ @classmethod
1234
+ def CoordinateSystem(cls):
1235
+ """-- No comment or description provided. --
1236
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000104)
1237
+ """
1238
+ return cls._namespace_CDAO('CDAO_0000104')
1239
+
1240
+ @classmethod
1241
+ def GenBankDataMatrix(cls):
1242
+ """-- No comment or description provided. --
1243
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000105)
1244
+ """
1245
+ return cls._namespace_CDAO('CDAO_0000105')
1246
+
1247
+ @classmethod
1248
+ def DataMatrixFormat(cls):
1249
+ """-- No comment or description provided. --
1250
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000107)
1251
+ """
1252
+ return cls._namespace_CDAO('CDAO_0000107')
1253
+
1254
+ @classmethod
1255
+ def TerminalNode(cls):
1256
+ """-- No comment or description provided. --
1257
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000108)
1258
+ """
1259
+ return cls._namespace_CDAO('CDAO_0000108')
1260
+
1261
+ @classmethod
1262
+ def RibonucleotideResidueCharacter(cls):
1263
+ """-- No comment or description provided. --
1264
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000109)
1265
+ """
1266
+ return cls._namespace_CDAO('CDAO_0000109')
1267
+
1268
+ @classmethod
1269
+ def Tree(cls):
1270
+ """-- No comment or description provided. --
1271
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000110)
1272
+ """
1273
+ return cls._namespace_CDAO('CDAO_0000110')
1274
+
1275
+ @classmethod
1276
+ def CategoricalCharacter(cls):
1277
+ """-- No comment or description provided. --
1278
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000111)
1279
+ """
1280
+ return cls._namespace_CDAO('CDAO_0000111')
1281
+
1282
+ @classmethod
1283
+ def AminoAcidResidueStateDatum(cls):
1284
+ """-- No comment or description provided. --
1285
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000112)
1286
+ """
1287
+ return cls._namespace_CDAO('CDAO_0000112')
1288
+
1289
+ @classmethod
1290
+ def PHYLIPDataMatrix(cls):
1291
+ """-- No comment or description provided. --
1292
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000113)
1293
+ """
1294
+ return cls._namespace_CDAO('CDAO_0000113')
1295
+
1296
+ @classmethod
1297
+ def ContinuousCharLikelihoodLengthType(cls):
1298
+ """-- No comment or description provided. --
1299
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000114)
1300
+ """
1301
+ return cls._namespace_CDAO('CDAO_0000114')
1302
+
1303
+ @classmethod
1304
+ def MolecularCharacter(cls):
1305
+ """-- No comment or description provided. --
1306
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000115)
1307
+ """
1308
+ return cls._namespace_CDAO('CDAO_0000115')
1309
+
1310
+ @classmethod
1311
+ def hereditaryPersistance(cls):
1312
+ """-- No comment or description provided. --
1313
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000116)
1314
+ """
1315
+ return cls._namespace_CDAO('CDAO_0000116')
1316
+
1317
+ @classmethod
1318
+ def SetOfCharacters(cls):
1319
+ """-- No comment or description provided. --
1320
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000117)
1321
+ """
1322
+ return cls._namespace_CDAO('CDAO_0000117')
1323
+
1324
+ @classmethod
1325
+ def SetOfThings(cls):
1326
+ """-- No comment or description provided. --
1327
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000118)
1328
+ """
1329
+ return cls._namespace_CDAO('CDAO_0000118')
1330
+
1331
+ @classmethod
1332
+ def Sequence(cls):
1333
+ """-- No comment or description provided. --
1334
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000120)
1335
+ """
1336
+ return cls._namespace_CDAO('CDAO_0000120')
1337
+
1338
+ @classmethod
1339
+ def speciation(cls):
1340
+ """-- No comment or description provided. --
1341
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000121)
1342
+ """
1343
+ return cls._namespace_CDAO('CDAO_0000121')
1344
+
1345
+ @classmethod
1346
+ def cladogenesis(cls):
1347
+ """-- No comment or description provided. --
1348
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000122)
1349
+ """
1350
+ return cls._namespace_CDAO('CDAO_0000122')
1351
+
1352
+ @classmethod
1353
+ def Bifurcation(cls):
1354
+ """-- No comment or description provided. --
1355
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000124)
1356
+ """
1357
+ return cls._namespace_CDAO('CDAO_0000124')
1358
+
1359
+ @classmethod
1360
+ def DiscreteCharBayesianLengthType(cls):
1361
+ """-- No comment or description provided. --
1362
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000125)
1363
+ """
1364
+ return cls._namespace_CDAO('CDAO_0000125')
1365
+
1366
+ @classmethod
1367
+ def TaxonomicLink(cls):
1368
+ """-- No comment or description provided. --
1369
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000126)
1370
+ """
1371
+ return cls._namespace_CDAO('CDAO_0000126')
1372
+
1373
+ @classmethod
1374
+ def MonophyleticGroup(cls):
1375
+ """-- No comment or description provided. --
1376
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000127)
1377
+ """
1378
+ return cls._namespace_CDAO('CDAO_0000127')
1379
+
1380
+ @classmethod
1381
+ def molecularRecombination(cls):
1382
+ """-- No comment or description provided. --
1383
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000128)
1384
+ """
1385
+ return cls._namespace_CDAO('CDAO_0000128')
1386
+
1387
+ @classmethod
1388
+ def HolophyleticGroup(cls):
1389
+ """-- No comment or description provided. --
1390
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000129)
1391
+ """
1392
+ return cls._namespace_CDAO('CDAO_0000129')
1393
+
1394
+ @classmethod
1395
+ def FullyResolvedTree(cls):
1396
+ """-- No comment or description provided. --
1397
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000130)
1398
+ """
1399
+ return cls._namespace_CDAO('CDAO_0000130')
1400
+
1401
+ @classmethod
1402
+ def AminoAcidResidueCharacter(cls):
1403
+ """-- No comment or description provided. --
1404
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000131)
1405
+ """
1406
+ return cls._namespace_CDAO('CDAO_0000131')
1407
+
1408
+ @classmethod
1409
+ def recombination(cls):
1410
+ """-- No comment or description provided. --
1411
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000132)
1412
+ """
1413
+ return cls._namespace_CDAO('CDAO_0000132')
1414
+
1415
+ @classmethod
1416
+ def DesoxiRibonucleotideResidue(cls):
1417
+ """-- No comment or description provided. --
1418
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000133)
1419
+ """
1420
+ return cls._namespace_CDAO('CDAO_0000133')
1421
+
1422
+ @classmethod
1423
+ def RootedSubtree(cls):
1424
+ """-- No comment or description provided. --
1425
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000134)
1426
+ """
1427
+ return cls._namespace_CDAO('CDAO_0000134')
1428
+
1429
+ @classmethod
1430
+ def CompoundStateDatum(cls):
1431
+ """-- No comment or description provided. --
1432
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000136)
1433
+ """
1434
+ return cls._namespace_CDAO('CDAO_0000136')
1435
+
1436
+ @classmethod
1437
+ def GapCost(cls):
1438
+ """-- No comment or description provided. --
1439
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000137)
1440
+ """
1441
+ return cls._namespace_CDAO('CDAO_0000137')
1442
+
1443
+ @classmethod
1444
+ def TU(cls):
1445
+ """-- No comment or description provided. --
1446
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000138)
1447
+ """
1448
+ return cls._namespace_CDAO('CDAO_0000138')
1449
+
1450
+ @classmethod
1451
+ def DirectedEdge(cls):
1452
+ """-- No comment or description provided. --
1453
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000139)
1454
+ """
1455
+ return cls._namespace_CDAO('CDAO_0000139')
1456
+
1457
+ @classmethod
1458
+ def Node(cls):
1459
+ """-- No comment or description provided. --
1460
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000140)
1461
+ """
1462
+ return cls._namespace_CDAO('CDAO_0000140')
1463
+
1464
+ @classmethod
1465
+ def ContinuousCharDistanceLengthType(cls):
1466
+ """-- No comment or description provided. --
1467
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000141)
1468
+ """
1469
+ return cls._namespace_CDAO('CDAO_0000141')
1470
+
1471
+ @classmethod
1472
+ def dA(cls):
1473
+ """-- No comment or description provided. --
1474
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000220)
1475
+ """
1476
+ return cls._namespace_CDAO('CDAO_0000220')
1477
+
1478
+ @classmethod
1479
+ def absent(cls):
1480
+ """-- No comment or description provided. --
1481
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000221)
1482
+ """
1483
+ return cls._namespace_CDAO('CDAO_0000221')
1484
+
1485
+ @classmethod
1486
+ def unknown(cls):
1487
+ """-- No comment or description provided. --
1488
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000222)
1489
+ """
1490
+ return cls._namespace_CDAO('CDAO_0000222')
1491
+
1492
+ @classmethod
1493
+ def gap(cls):
1494
+ """-- No comment or description provided. --
1495
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000223)
1496
+ """
1497
+ return cls._namespace_CDAO('CDAO_0000223')
1498
+
1499
+ @classmethod
1500
+ def dG(cls):
1501
+ """-- No comment or description provided. --
1502
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000224)
1503
+ """
1504
+ return cls._namespace_CDAO('CDAO_0000224')
1505
+
1506
+ @classmethod
1507
+ def rU(cls):
1508
+ """-- No comment or description provided. --
1509
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000225)
1510
+ """
1511
+ return cls._namespace_CDAO('CDAO_0000225')
1512
+
1513
+ @classmethod
1514
+ def dC(cls):
1515
+ """-- No comment or description provided. --
1516
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000226)
1517
+ """
1518
+ return cls._namespace_CDAO('CDAO_0000226')
1519
+
1520
+ @classmethod
1521
+ def dT(cls):
1522
+ """-- No comment or description provided. --
1523
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000227)
1524
+ """
1525
+ return cls._namespace_CDAO('CDAO_0000227')
1526
+
1527
+ @classmethod
1528
+ def is_object_property(cls, uri):
1529
+ """Determines whether the given URI is an object property.
1530
+
1531
+ uri -- URI that is tested for being an object property
1532
+ """
1533
+ if uri == cls._namespace_CDAO('CDAO_0000142'):
1534
+ return True
1535
+ if uri == cls._namespace_CDAO('CDAO_0000143'):
1536
+ return True
1537
+ if uri == cls._namespace_CDAO('CDAO_0000144'):
1538
+ return True
1539
+ if uri == cls._namespace_CDAO('CDAO_0000145'):
1540
+ return True
1541
+ if uri == cls._namespace_CDAO('CDAO_0000146'):
1542
+ return True
1543
+ if uri == cls._namespace_CDAO('CDAO_0000147'):
1544
+ return True
1545
+ if uri == cls._namespace_CDAO('CDAO_0000148'):
1546
+ return True
1547
+ if uri == cls._namespace_CDAO('CDAO_0000149'):
1548
+ return True
1549
+ if uri == cls._namespace_CDAO('CDAO_0000150'):
1550
+ return True
1551
+ if uri == cls._namespace_CDAO('CDAO_0000151'):
1552
+ return True
1553
+ if uri == cls._namespace_CDAO('CDAO_0000152'):
1554
+ return True
1555
+ if uri == cls._namespace_CDAO('CDAO_0000153'):
1556
+ return True
1557
+ if uri == cls._namespace_CDAO('CDAO_0000154'):
1558
+ return True
1559
+ if uri == cls._namespace_CDAO('CDAO_0000155'):
1560
+ return True
1561
+ if uri == cls._namespace_CDAO('CDAO_0000156'):
1562
+ return True
1563
+ if uri == cls._namespace_CDAO('CDAO_0000157'):
1564
+ return True
1565
+ if uri == cls._namespace_CDAO('CDAO_0000158'):
1566
+ return True
1567
+ if uri == cls._namespace_CDAO('CDAO_0000159'):
1568
+ return True
1569
+ if uri == cls._namespace_CDAO('CDAO_0000160'):
1570
+ return True
1571
+ if uri == cls._namespace_CDAO('CDAO_0000161'):
1572
+ return True
1573
+ if uri == cls._namespace_CDAO('CDAO_0000162'):
1574
+ return True
1575
+ if uri == cls._namespace_CDAO('CDAO_0000163'):
1576
+ return True
1577
+ if uri == cls._namespace_CDAO('CDAO_0000164'):
1578
+ return True
1579
+ if uri == cls._namespace_CDAO('CDAO_0000165'):
1580
+ return True
1581
+ if uri == cls._namespace_CDAO('CDAO_0000166'):
1582
+ return True
1583
+ if uri == cls._namespace_CDAO('CDAO_0000167'):
1584
+ return True
1585
+ if uri == cls._namespace_CDAO('CDAO_0000168'):
1586
+ return True
1587
+ if uri == cls._namespace_CDAO('CDAO_0000169'):
1588
+ return True
1589
+ if uri == cls._namespace_CDAO('CDAO_0000170'):
1590
+ return True
1591
+ if uri == cls._namespace_CDAO('CDAO_0000171'):
1592
+ return True
1593
+ if uri == cls._namespace_CDAO('CDAO_0000172'):
1594
+ return True
1595
+ if uri == cls._namespace_CDAO('CDAO_0000173'):
1596
+ return True
1597
+ if uri == cls._namespace_CDAO('CDAO_0000174'):
1598
+ return True
1599
+ if uri == cls._namespace_CDAO('CDAO_0000175'):
1600
+ return True
1601
+ if uri == cls._namespace_CDAO('CDAO_0000176'):
1602
+ return True
1603
+ if uri == cls._namespace_CDAO('CDAO_0000177'):
1604
+ return True
1605
+ if uri == cls._namespace_CDAO('CDAO_0000178'):
1606
+ return True
1607
+ if uri == cls._namespace_CDAO('CDAO_0000179'):
1608
+ return True
1609
+ if uri == cls._namespace_CDAO('CDAO_0000180'):
1610
+ return True
1611
+ if uri == cls._namespace_CDAO('CDAO_0000181'):
1612
+ return True
1613
+ if uri == cls._namespace_CDAO('CDAO_0000182'):
1614
+ return True
1615
+ if uri == cls._namespace_CDAO('CDAO_0000183'):
1616
+ return True
1617
+ if uri == cls._namespace_CDAO('CDAO_0000184'):
1618
+ return True
1619
+ if uri == cls._namespace_CDAO('CDAO_0000185'):
1620
+ return True
1621
+ if uri == cls._namespace_CDAO('CDAO_0000186'):
1622
+ return True
1623
+ if uri == cls._namespace_CDAO('CDAO_0000187'):
1624
+ return True
1625
+ if uri == cls._namespace_CDAO('CDAO_0000188'):
1626
+ return True
1627
+ if uri == cls._namespace_CDAO('CDAO_0000189'):
1628
+ return True
1629
+ if uri == cls._namespace_CDAO('CDAO_0000190'):
1630
+ return True
1631
+ if uri == cls._namespace_CDAO('CDAO_0000191'):
1632
+ return True
1633
+ if uri == cls._namespace_CDAO('CDAO_0000192'):
1634
+ return True
1635
+ if uri == cls._namespace_CDAO('CDAO_0000193'):
1636
+ return True
1637
+ if uri == cls._namespace_CDAO('CDAO_0000194'):
1638
+ return True
1639
+ if uri == cls._namespace_CDAO('CDAO_0000195'):
1640
+ return True
1641
+ if uri == cls._namespace_CDAO('CDAO_0000196'):
1642
+ return True
1643
+ if uri == cls._namespace_CDAO('CDAO_0000197'):
1644
+ return True
1645
+ if uri == cls._namespace_CDAO('CDAO_0000198'):
1646
+ return True
1647
+ if uri == cls._namespace_CDAO('CDAO_0000199'):
1648
+ return True
1649
+ if uri == cls._namespace_CDAO('CDAO_0000200'):
1650
+ return True
1651
+ if uri == cls._namespace_CDAO('CDAO_0000201'):
1652
+ return True
1653
+ if uri == cls._namespace_CDAO('CDAO_0000202'):
1654
+ return True
1655
+ if uri == cls._namespace_CDAO('CDAO_0000203'):
1656
+ return True
1657
+ if uri == cls._namespace_CDAO('CDAO_0000204'):
1658
+ return True
1659
+ if uri == cls._namespace_CDAO('CDAO_0000205'):
1660
+ return True
1661
+ if uri == cls._namespace_CDAO('CDAO_0000206'):
1662
+ return True
1663
+ if uri == cls._namespace_CDAO('CDAO_0000207'):
1664
+ return True
1665
+ if uri == cls._namespace_CDAO('CDAO_0000208'):
1666
+ return True
1667
+ if uri == cls._namespace_CDAO('CDAO_0000209'):
1668
+ return True
1669
+ if uri == cls._namespace_CDAO('CDAO_0000210'):
1670
+ return True
1671
+ return False
1672
+
1673
+ @classmethod
1674
+ def is_datatype_property(cls, uri):
1675
+ """Determines whether the given URI is a datatype property.
1676
+
1677
+ uri -- URI that is tested for being a datatype property
1678
+ """
1679
+ if uri == cls._namespace_CDAO('CDAO_0000211'):
1680
+ return True
1681
+ if uri == cls._namespace_CDAO('CDAO_0000212'):
1682
+ return True
1683
+ if uri == cls._namespace_CDAO('CDAO_0000213'):
1684
+ return True
1685
+ if uri == cls._namespace_CDAO('CDAO_0000214'):
1686
+ return True
1687
+ if uri == cls._namespace_CDAO('CDAO_0000215'):
1688
+ return True
1689
+ if uri == cls._namespace_CDAO('CDAO_0000216'):
1690
+ return True
1691
+ if uri == cls._namespace_CDAO('CDAO_0000217'):
1692
+ return True
1693
+ if uri == cls._namespace_CDAO('CDAO_0000218'):
1694
+ return True
1695
+ if uri == cls._namespace_CDAO('CDAO_0000219'):
1696
+ return True
1697
+ return False
1698
+
1699
+ @classmethod
1700
+ def is_class(cls, uri):
1701
+ """Determines whether the given URI is a class.
1702
+
1703
+ uri -- URI that is tested for being a class
1704
+ """
1705
+ if uri == cls._namespace_CDAO('CDAO_0000002'):
1706
+ return True
1707
+ if uri == cls._namespace_CDAO('CDAO_0000003'):
1708
+ return True
1709
+ if uri == cls._namespace_CDAO('CDAO_0000004'):
1710
+ return True
1711
+ if uri == cls._namespace_CDAO('CDAO_0000005'):
1712
+ return True
1713
+ if uri == cls._namespace_CDAO('CDAO_0000006'):
1714
+ return True
1715
+ if uri == cls._namespace_CDAO('CDAO_0000007'):
1716
+ return True
1717
+ if uri == cls._namespace_CDAO('CDAO_0000008'):
1718
+ return True
1719
+ if uri == cls._namespace_CDAO('CDAO_0000009'):
1720
+ return True
1721
+ if uri == cls._namespace_CDAO('CDAO_0000010'):
1722
+ return True
1723
+ if uri == cls._namespace_CDAO('CDAO_0000011'):
1724
+ return True
1725
+ if uri == cls._namespace_CDAO('CDAO_0000012'):
1726
+ return True
1727
+ if uri == cls._namespace_CDAO('CDAO_0000013'):
1728
+ return True
1729
+ if uri == cls._namespace_CDAO('CDAO_0000014'):
1730
+ return True
1731
+ if uri == cls._namespace_CDAO('CDAO_0000015'):
1732
+ return True
1733
+ if uri == cls._namespace_CDAO('CDAO_0000016'):
1734
+ return True
1735
+ if uri == cls._namespace_CDAO('CDAO_0000017'):
1736
+ return True
1737
+ if uri == cls._namespace_CDAO('CDAO_0000018'):
1738
+ return True
1739
+ if uri == cls._namespace_CDAO('CDAO_0000019'):
1740
+ return True
1741
+ if uri == cls._namespace_CDAO('CDAO_0000020'):
1742
+ return True
1743
+ if uri == cls._namespace_CDAO('CDAO_0000021'):
1744
+ return True
1745
+ if uri == cls._namespace_CDAO('CDAO_0000022'):
1746
+ return True
1747
+ if uri == cls._namespace_CDAO('CDAO_0000023'):
1748
+ return True
1749
+ if uri == cls._namespace_CDAO('CDAO_0000024'):
1750
+ return True
1751
+ if uri == cls._namespace_CDAO('CDAO_0000025'):
1752
+ return True
1753
+ if uri == cls._namespace_CDAO('CDAO_0000026'):
1754
+ return True
1755
+ if uri == cls._namespace_CDAO('CDAO_0000027'):
1756
+ return True
1757
+ if uri == cls._namespace_CDAO('CDAO_0000029'):
1758
+ return True
1759
+ if uri == cls._namespace_CDAO('CDAO_0000030'):
1760
+ return True
1761
+ if uri == cls._namespace_CDAO('CDAO_0000031'):
1762
+ return True
1763
+ if uri == cls._namespace_CDAO('CDAO_0000032'):
1764
+ return True
1765
+ if uri == cls._namespace_CDAO('CDAO_0000033'):
1766
+ return True
1767
+ if uri == cls._namespace_CDAO('CDAO_0000034'):
1768
+ return True
1769
+ if uri == cls._namespace_CDAO('CDAO_0000035'):
1770
+ return True
1771
+ if uri == cls._namespace_CDAO('CDAO_0000039'):
1772
+ return True
1773
+ if uri == cls._namespace_CDAO('CDAO_0000040'):
1774
+ return True
1775
+ if uri == cls._namespace_CDAO('CDAO_0000041'):
1776
+ return True
1777
+ if uri == cls._namespace_CDAO('CDAO_0000042'):
1778
+ return True
1779
+ if uri == cls._namespace_CDAO('CDAO_0000043'):
1780
+ return True
1781
+ if uri == cls._namespace_CDAO('CDAO_0000044'):
1782
+ return True
1783
+ if uri == cls._namespace_CDAO('CDAO_0000045'):
1784
+ return True
1785
+ if uri == cls._namespace_CDAO('CDAO_0000046'):
1786
+ return True
1787
+ if uri == cls._namespace_CDAO('CDAO_0000047'):
1788
+ return True
1789
+ if uri == cls._namespace_CDAO('CDAO_0000048'):
1790
+ return True
1791
+ if uri == cls._namespace_CDAO('CDAO_0000049'):
1792
+ return True
1793
+ if uri == cls._namespace_CDAO('CDAO_0000050'):
1794
+ return True
1795
+ if uri == cls._namespace_CDAO('CDAO_0000051'):
1796
+ return True
1797
+ if uri == cls._namespace_CDAO('CDAO_0000052'):
1798
+ return True
1799
+ if uri == cls._namespace_CDAO('CDAO_0000053'):
1800
+ return True
1801
+ if uri == cls._namespace_CDAO('CDAO_0000055'):
1802
+ return True
1803
+ if uri == cls._namespace_CDAO('CDAO_0000056'):
1804
+ return True
1805
+ if uri == cls._namespace_CDAO('CDAO_0000057'):
1806
+ return True
1807
+ if uri == cls._namespace_CDAO('CDAO_0000058'):
1808
+ return True
1809
+ if uri == cls._namespace_CDAO('CDAO_0000059'):
1810
+ return True
1811
+ if uri == cls._namespace_CDAO('CDAO_0000060'):
1812
+ return True
1813
+ if uri == cls._namespace_CDAO('CDAO_0000061'):
1814
+ return True
1815
+ if uri == cls._namespace_CDAO('CDAO_0000062'):
1816
+ return True
1817
+ if uri == cls._namespace_CDAO('CDAO_0000063'):
1818
+ return True
1819
+ if uri == cls._namespace_CDAO('CDAO_0000064'):
1820
+ return True
1821
+ if uri == cls._namespace_CDAO('CDAO_0000065'):
1822
+ return True
1823
+ if uri == cls._namespace_CDAO('CDAO_0000066'):
1824
+ return True
1825
+ if uri == cls._namespace_CDAO('CDAO_0000067'):
1826
+ return True
1827
+ if uri == cls._namespace_CDAO('CDAO_0000068'):
1828
+ return True
1829
+ if uri == cls._namespace_CDAO('CDAO_0000069'):
1830
+ return True
1831
+ if uri == cls._namespace_CDAO('CDAO_0000070'):
1832
+ return True
1833
+ if uri == cls._namespace_CDAO('CDAO_0000071'):
1834
+ return True
1835
+ if uri == cls._namespace_CDAO('CDAO_0000072'):
1836
+ return True
1837
+ if uri == cls._namespace_CDAO('CDAO_0000073'):
1838
+ return True
1839
+ if uri == cls._namespace_CDAO('CDAO_0000074'):
1840
+ return True
1841
+ if uri == cls._namespace_CDAO('CDAO_0000075'):
1842
+ return True
1843
+ if uri == cls._namespace_CDAO('CDAO_0000076'):
1844
+ return True
1845
+ if uri == cls._namespace_CDAO('CDAO_0000077'):
1846
+ return True
1847
+ if uri == cls._namespace_CDAO('CDAO_0000078'):
1848
+ return True
1849
+ if uri == cls._namespace_CDAO('CDAO_0000079'):
1850
+ return True
1851
+ if uri == cls._namespace_CDAO('CDAO_0000080'):
1852
+ return True
1853
+ if uri == cls._namespace_CDAO('CDAO_0000081'):
1854
+ return True
1855
+ if uri == cls._namespace_CDAO('CDAO_0000082'):
1856
+ return True
1857
+ if uri == cls._namespace_CDAO('CDAO_0000083'):
1858
+ return True
1859
+ if uri == cls._namespace_CDAO('CDAO_0000084'):
1860
+ return True
1861
+ if uri == cls._namespace_CDAO('CDAO_0000085'):
1862
+ return True
1863
+ if uri == cls._namespace_CDAO('CDAO_0000086'):
1864
+ return True
1865
+ if uri == cls._namespace_CDAO('CDAO_0000087'):
1866
+ return True
1867
+ if uri == cls._namespace_CDAO('CDAO_0000088'):
1868
+ return True
1869
+ if uri == cls._namespace_CDAO('CDAO_0000089'):
1870
+ return True
1871
+ if uri == cls._namespace_CDAO('CDAO_0000090'):
1872
+ return True
1873
+ if uri == cls._namespace_CDAO('CDAO_0000091'):
1874
+ return True
1875
+ if uri == cls._namespace_CDAO('CDAO_0000092'):
1876
+ return True
1877
+ if uri == cls._namespace_CDAO('CDAO_0000093'):
1878
+ return True
1879
+ if uri == cls._namespace_CDAO('CDAO_0000094'):
1880
+ return True
1881
+ if uri == cls._namespace_CDAO('CDAO_0000095'):
1882
+ return True
1883
+ if uri == cls._namespace_CDAO('CDAO_0000096'):
1884
+ return True
1885
+ if uri == cls._namespace_CDAO('CDAO_0000097'):
1886
+ return True
1887
+ if uri == cls._namespace_CDAO('CDAO_0000098'):
1888
+ return True
1889
+ if uri == cls._namespace_CDAO('CDAO_0000099'):
1890
+ return True
1891
+ if uri == cls._namespace_CDAO('CDAO_0000100'):
1892
+ return True
1893
+ if uri == cls._namespace_CDAO('CDAO_0000101'):
1894
+ return True
1895
+ if uri == cls._namespace_CDAO('CDAO_0000102'):
1896
+ return True
1897
+ if uri == cls._namespace_CDAO('CDAO_0000103'):
1898
+ return True
1899
+ if uri == cls._namespace_CDAO('CDAO_0000104'):
1900
+ return True
1901
+ if uri == cls._namespace_CDAO('CDAO_0000105'):
1902
+ return True
1903
+ if uri == cls._namespace_CDAO('CDAO_0000107'):
1904
+ return True
1905
+ if uri == cls._namespace_CDAO('CDAO_0000108'):
1906
+ return True
1907
+ if uri == cls._namespace_CDAO('CDAO_0000109'):
1908
+ return True
1909
+ if uri == cls._namespace_CDAO('CDAO_0000110'):
1910
+ return True
1911
+ if uri == cls._namespace_CDAO('CDAO_0000111'):
1912
+ return True
1913
+ if uri == cls._namespace_CDAO('CDAO_0000112'):
1914
+ return True
1915
+ if uri == cls._namespace_CDAO('CDAO_0000113'):
1916
+ return True
1917
+ if uri == cls._namespace_CDAO('CDAO_0000114'):
1918
+ return True
1919
+ if uri == cls._namespace_CDAO('CDAO_0000115'):
1920
+ return True
1921
+ if uri == cls._namespace_CDAO('CDAO_0000116'):
1922
+ return True
1923
+ if uri == cls._namespace_CDAO('CDAO_0000117'):
1924
+ return True
1925
+ if uri == cls._namespace_CDAO('CDAO_0000118'):
1926
+ return True
1927
+ if uri == cls._namespace_CDAO('CDAO_0000120'):
1928
+ return True
1929
+ if uri == cls._namespace_CDAO('CDAO_0000121'):
1930
+ return True
1931
+ if uri == cls._namespace_CDAO('CDAO_0000122'):
1932
+ return True
1933
+ if uri == cls._namespace_CDAO('CDAO_0000124'):
1934
+ return True
1935
+ if uri == cls._namespace_CDAO('CDAO_0000125'):
1936
+ return True
1937
+ if uri == cls._namespace_CDAO('CDAO_0000126'):
1938
+ return True
1939
+ if uri == cls._namespace_CDAO('CDAO_0000127'):
1940
+ return True
1941
+ if uri == cls._namespace_CDAO('CDAO_0000128'):
1942
+ return True
1943
+ if uri == cls._namespace_CDAO('CDAO_0000129'):
1944
+ return True
1945
+ if uri == cls._namespace_CDAO('CDAO_0000130'):
1946
+ return True
1947
+ if uri == cls._namespace_CDAO('CDAO_0000131'):
1948
+ return True
1949
+ if uri == cls._namespace_CDAO('CDAO_0000132'):
1950
+ return True
1951
+ if uri == cls._namespace_CDAO('CDAO_0000133'):
1952
+ return True
1953
+ if uri == cls._namespace_CDAO('CDAO_0000134'):
1954
+ return True
1955
+ if uri == cls._namespace_CDAO('CDAO_0000136'):
1956
+ return True
1957
+ if uri == cls._namespace_CDAO('CDAO_0000137'):
1958
+ return True
1959
+ if uri == cls._namespace_CDAO('CDAO_0000138'):
1960
+ return True
1961
+ if uri == cls._namespace_CDAO('CDAO_0000139'):
1962
+ return True
1963
+ if uri == cls._namespace_CDAO('CDAO_0000140'):
1964
+ return True
1965
+ if uri == cls._namespace_CDAO('CDAO_0000141'):
1966
+ return True
1967
+ return False
1968
+
1969
+ @classmethod
1970
+ def is_named_individual(cls, uri):
1971
+ """Determines whether the given URI is a named individual.
1972
+
1973
+ uri -- URI that is tested for being a named individual
1974
+ """
1975
+ if uri == cls._namespace_CDAO('CDAO_0000220'):
1976
+ return True
1977
+ if uri == cls._namespace_CDAO('CDAO_0000221'):
1978
+ return True
1979
+ if uri == cls._namespace_CDAO('CDAO_0000222'):
1980
+ return True
1981
+ if uri == cls._namespace_CDAO('CDAO_0000223'):
1982
+ return True
1983
+ if uri == cls._namespace_CDAO('CDAO_0000224'):
1984
+ return True
1985
+ if uri == cls._namespace_CDAO('CDAO_0000225'):
1986
+ return True
1987
+ if uri == cls._namespace_CDAO('CDAO_0000226'):
1988
+ return True
1989
+ if uri == cls._namespace_CDAO('CDAO_0000227'):
1990
+ return True
1991
+ return False
1992
+
1993
+ @classmethod
1994
+ def with_parent(cls, uris, parent):
1995
+ """Returns only those URIs that fall under a designated parent URI.
1996
+
1997
+ uris -- Set of URIs that are tested whether they have the given parent URI.
1998
+ parent -- Parent URI.
1999
+ """
2000
+ return filter(lambda uri: cls.has_parent(uri, parent), uris)
2001
+
2002
+ @classmethod
2003
+ def has_parent(cls, uri, parent):
2004
+ """Recursively tries to determine the parent for a given URI.
2005
+
2006
+ uri -- URI that is tested for whether it has the given parent URI.
2007
+ parent -- Parent URI.
2008
+ """
2009
+ if cls.__parent_properties.has_key(uri):
2010
+ if cls.__parent_properties[uri] == parent:
2011
+ return True
2012
+ return cls.has_parent(cls.__parent_properties[uri], parent)
2013
+ return False
2014
+
2015
+ @classmethod
2016
+ def _namespace_CDAO(cls, accession):
2017
+ return Namespace('http://purl.obolibrary.org/obo/')[accession]
2018
+
2019
+ __parent_properties = { Namespace('http://purl.obolibrary.org/obo/CDAO_0000142') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000178') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000143') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000146') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000144') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000178') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000145') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000184') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000146') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000190') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000147') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000190') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000148') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000178') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000149') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000174') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000150') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000178') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000151') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000178') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000152') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000205') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000153') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000178') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000154') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000183') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000156') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000184') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000158') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000206') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000159') : Namespace('http://purl.obolibrary.org/obo/CDAO_0000182') , Namespace('http://purl.obolibrary.org/obo/CDAO_0000162') 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2020
+
2021
+