biointerchange 0.2.2 → 1.0.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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
+
3
+ from rdflib import Namespace
4
+
5
+
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+ class CDAO:
7
+
8
+ @classmethod
9
+ def has_Character(cls):
10
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000142)
12
+ """
13
+ return cls._namespace_CDAO('CDAO_0000142')
14
+
15
+ @classmethod
16
+ def belongs_to_Edge_as_Child(cls):
17
+ """-- No comment or description provided. --
18
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000143)
19
+ """
20
+ return cls._namespace_CDAO('CDAO_0000143')
21
+
22
+ @classmethod
23
+ def has_Ancestor(cls):
24
+ """-- 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):
31
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000145)
33
+ """
34
+ return cls._namespace_CDAO('CDAO_0000145')
35
+
36
+ @classmethod
37
+ def belongs_to_Edge(cls):
38
+ """-- 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')
42
+
43
+ @classmethod
44
+ def belongs_to_Character_State_Data_Matrix(cls):
45
+ """-- 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')
49
+
50
+ @classmethod
51
+ def has_Root(cls):
52
+ """-- 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')
56
+
57
+ @classmethod
58
+ def has_Child(cls):
59
+ """-- No comment or description provided. --
60
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000149)
61
+ """
62
+ return cls._namespace_CDAO('CDAO_0000149')
63
+
64
+ @classmethod
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+ def has_First_Coordinate_Item(cls):
66
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000150)
68
+ """
69
+ return cls._namespace_CDAO('CDAO_0000150')
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+
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+ @classmethod
72
+ 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)
75
+ """
76
+ return cls._namespace_CDAO('CDAO_0000151')
77
+
78
+ @classmethod
79
+ def belongs_to_Continuous_Character(cls):
80
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000152)
82
+ """
83
+ return cls._namespace_CDAO('CDAO_0000152')
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+
85
+ @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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+
92
+ @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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+ """
97
+ return cls._namespace_CDAO('CDAO_0000154')
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+
99
+ @classmethod
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+ def subtree_of(cls):
101
+ """-- No comment or description provided. --
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+ (cls, http://purl.obolibrary.org/obo/CDAO_0000155)
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+ """
104
+ return cls._namespace_CDAO('CDAO_0000155')
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+
106
+ @classmethod
107
+ 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)
110
+ """
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):
122
+ """-- 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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+
141
+ @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')
154
+
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. --
172
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000165)
173
+ """
174
+ return cls._namespace_CDAO('CDAO_0000165')
175
+
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')
182
+
183
+ @classmethod
184
+ def connects_to(cls):
185
+ """-- No comment or description provided. --
186
+ (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. --
193
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000168)
194
+ """
195
+ return cls._namespace_CDAO('CDAO_0000168')
196
+
197
+ @classmethod
198
+ def hereditary_change_of(cls):
199
+ """-- No comment or description provided. --
200
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000169)
201
+ """
202
+ return cls._namespace_CDAO('CDAO_0000169')
203
+
204
+ @classmethod
205
+ def has_Compound_Datum(cls):
206
+ """-- No comment or description provided. --
207
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000170)
208
+ """
209
+ return cls._namespace_CDAO('CDAO_0000170')
210
+
211
+ @classmethod
212
+ def has_Descendants(cls):
213
+ """-- No comment or description provided. --
214
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000171)
215
+ """
216
+ return cls._namespace_CDAO('CDAO_0000171')
217
+
218
+ @classmethod
219
+ def reconciliation_of(cls):
220
+ """-- No comment or description provided. --
221
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000172)
222
+ """
223
+ return cls._namespace_CDAO('CDAO_0000172')
224
+
225
+ @classmethod
226
+ def belongs_to_Amino_Acid_Character(cls):
227
+ """-- No comment or description provided. --
228
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000173)
229
+ """
230
+ return cls._namespace_CDAO('CDAO_0000173')
231
+
232
+ @classmethod
233
+ def has_Descendant(cls):
234
+ """-- No comment or description provided. --
235
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000174)
236
+ """
237
+ return cls._namespace_CDAO('CDAO_0000174')
238
+
239
+ @classmethod
240
+ def has_Continuous_State(cls):
241
+ """-- No comment or description provided. --
242
+ (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. --
249
+ (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. --
256
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000177)
257
+ """
258
+ return cls._namespace_CDAO('CDAO_0000177')
259
+
260
+ @classmethod
261
+ def has(cls):
262
+ """-- No comment or description provided. --
263
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000178)
264
+ """
265
+ return cls._namespace_CDAO('CDAO_0000178')
266
+
267
+ @classmethod
268
+ def has_Parent(cls):
269
+ """-- No comment or description provided. --
270
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000179)
271
+ """
272
+ return cls._namespace_CDAO('CDAO_0000179')
273
+
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')
280
+
281
+ @classmethod
282
+ def homologous_to(cls):
283
+ """-- No comment or description provided. --
284
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000181)
285
+ """
286
+ return cls._namespace_CDAO('CDAO_0000181')
287
+
288
+ @classmethod
289
+ def has_Change_Component(cls):
290
+ """-- No comment or description provided. --
291
+ (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):
297
+ """-- No comment or description provided. --
298
+ (cls, http://purl.obolibrary.org/obo/CDAO_0000183)
299
+ """
300
+ return cls._namespace_CDAO('CDAO_0000183')
301
+
302
+ @classmethod
303
+ def has_State(cls):
304
+ """-- 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')
308
+
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')
315
+
316
+ @classmethod
317
+ def has_Right_State(cls):
318
+ """-- 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')
322
+
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. --
333
+ (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. --
347
+ (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. --
354
+ (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. --
368
+ (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
+