-
Notifications
You must be signed in to change notification settings - Fork 12
/
NAMESPACE
445 lines (444 loc) · 15.8 KB
/
NAMESPACE
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
# Generated by roxygen2: do not edit by hand
S3method("%in%",character)
S3method("%in%",character.default)
S3method("%in%",character.taxa_classification)
S3method("%in%",character.taxa_taxon)
S3method("%in%",character.taxa_taxon_authority)
S3method("%in%",character.taxa_taxon_db)
S3method("%in%",character.taxa_taxon_id)
S3method("%in%",character.taxa_taxon_rank)
S3method("%in%",character.taxa_taxonomy)
S3method("%in%",default)
S3method("%in%",factor)
S3method("%in%",factor.default)
S3method("%in%",factor.taxa_classification)
S3method("%in%",factor.taxa_taxon)
S3method("%in%",factor.taxa_taxon_authority)
S3method("%in%",factor.taxa_taxon_db)
S3method("%in%",factor.taxa_taxon_id)
S3method("%in%",factor.taxa_taxon_rank)
S3method("%in%",factor.taxa_taxonomy)
S3method("%in%",numeric)
S3method("%in%",numeric.default)
S3method("%in%",taxa_classification)
S3method("%in%",taxa_classification.default)
S3method("%in%",taxa_taxon)
S3method("%in%",taxa_taxon.default)
S3method("%in%",taxa_taxon_authority)
S3method("%in%",taxa_taxon_authority.default)
S3method("%in%",taxa_taxon_db)
S3method("%in%",taxa_taxon_db.default)
S3method("%in%",taxa_taxon_id)
S3method("%in%",taxa_taxon_id.default)
S3method("%in%",taxa_taxon_rank)
S3method("%in%",taxa_taxon_rank.default)
S3method("%in%",taxa_taxonomy)
S3method("%in%",taxa_taxonomy.default)
S3method("[",taxa_classification)
S3method("[",taxa_taxonomy)
S3method("[<-",taxa_classification)
S3method("[<-",taxa_taxon)
S3method("[<-",taxa_taxon_authority)
S3method("[<-",taxa_taxon_id)
S3method("[<-",taxa_taxon_rank)
S3method("[<-",taxa_taxon_rank_level)
S3method("[<-",taxa_taxonomy)
S3method("[[",taxa_classification)
S3method("[[",taxa_taxon)
S3method("[[",taxa_taxon_authority)
S3method("[[",taxa_taxon_id)
S3method("[[",taxa_taxonomy)
S3method("[[<-",taxa_taxon)
S3method("[[<-",taxa_taxon_authority)
S3method("[[<-",taxa_taxon_id)
S3method("[[<-",taxa_taxon_rank)
S3method("[[<-",taxa_taxon_rank_level)
S3method("levels<-",taxa_taxon_rank)
S3method("names<-",taxa_taxon)
S3method("names<-",taxa_taxon_authority)
S3method("names<-",taxa_taxon_id)
S3method("names<-",taxa_taxonomy)
S3method("tax_auth<-",taxa_classification)
S3method("tax_auth<-",taxa_taxon)
S3method("tax_auth<-",taxa_taxonomy)
S3method("tax_author<-",taxa_classification)
S3method("tax_author<-",taxa_taxon)
S3method("tax_author<-",taxa_taxon_authority)
S3method("tax_author<-",taxa_taxonomy)
S3method("tax_cite<-",taxa_classification)
S3method("tax_cite<-",taxa_taxon)
S3method("tax_cite<-",taxa_taxon_authority)
S3method("tax_cite<-",taxa_taxonomy)
S3method("tax_date<-",taxa_classification)
S3method("tax_date<-",taxa_taxon)
S3method("tax_date<-",taxa_taxon_authority)
S3method("tax_date<-",taxa_taxonomy)
S3method("tax_db<-",taxa_classification)
S3method("tax_db<-",taxa_taxon)
S3method("tax_db<-",taxa_taxon_id)
S3method("tax_db<-",taxa_taxonomy)
S3method("tax_id<-",taxa_classification)
S3method("tax_id<-",taxa_taxon)
S3method("tax_id<-",taxa_taxonomy)
S3method("tax_name<-",taxa_classification)
S3method("tax_name<-",taxa_taxon)
S3method("tax_name<-",taxa_taxonomy)
S3method("tax_rank<-",taxa_classification)
S3method("tax_rank<-",taxa_taxon)
S3method("tax_rank<-",taxa_taxonomy)
S3method(Ops,taxa_taxon_rank)
S3method(as.character,taxa_taxon_id)
S3method(as_data_frame,default)
S3method(as_data_frame,taxa_classification)
S3method(as_data_frame,taxa_taxon)
S3method(as_data_frame,taxa_taxon_authority)
S3method(as_data_frame,taxa_taxon_db)
S3method(as_data_frame,taxa_taxon_id)
S3method(as_data_frame,taxa_taxon_rank)
S3method(as_data_frame,taxa_taxonomy)
S3method(as_taxon,default)
S3method(as_taxon,taxa_taxon)
S3method(as_taxon,taxa_taxonomy)
S3method(as_tibble,taxa_classification)
S3method(as_tibble,taxa_taxon)
S3method(as_tibble,taxa_taxon_authority)
S3method(as_tibble,taxa_taxon_db)
S3method(as_tibble,taxa_taxon_id)
S3method(as_tibble,taxa_taxon_rank)
S3method(as_tibble,taxa_taxonomy)
S3method(c,taxa_classification)
S3method(c,taxa_taxon)
S3method(c,taxa_taxon_rank)
S3method(c,taxa_taxonomy)
S3method(format,taxa_classification)
S3method(format,taxa_taxon)
S3method(format,taxa_taxon_authority)
S3method(format,taxa_taxon_db)
S3method(format,taxa_taxon_id)
S3method(format,taxa_taxon_rank)
S3method(format,taxa_taxon_rank_level)
S3method(format,taxa_taxonomy)
S3method(internodes,taxa_classification)
S3method(internodes,taxa_taxonomy)
S3method(is.na,taxa_taxon)
S3method(is.na,taxa_taxon_authority)
S3method(is.na,taxa_taxon_db)
S3method(is.na,taxa_taxon_id)
S3method(is.na,taxa_taxon_rank)
S3method(is_internode,taxa_classification)
S3method(is_internode,taxa_taxonomy)
S3method(is_leaf,taxa_classification)
S3method(is_leaf,taxa_taxonomy)
S3method(is_root,taxa_classification)
S3method(is_root,taxa_taxonomy)
S3method(is_stem,taxa_classification)
S3method(is_stem,taxa_taxonomy)
S3method(leaves,taxa_classification)
S3method(leaves,taxa_taxonomy)
S3method(levels,taxa_taxon_rank)
S3method(n_leaves,taxa_classification)
S3method(n_leaves,taxa_taxonomy)
S3method(n_subtaxa,taxa_classification)
S3method(n_subtaxa,taxa_taxonomy)
S3method(n_supertaxa,taxa_classification)
S3method(n_supertaxa,taxa_taxonomy)
S3method(names,taxa_taxon)
S3method(names,taxa_taxon_authority)
S3method(names,taxa_taxon_id)
S3method(names,taxa_taxonomy)
S3method(obj_print_data,taxa_classification)
S3method(obj_print_data,taxa_taxon)
S3method(obj_print_data,taxa_taxon_authority)
S3method(obj_print_data,taxa_taxon_db_def)
S3method(obj_print_data,taxa_taxon_id)
S3method(obj_print_data,taxa_taxon_rank)
S3method(obj_print_data,taxa_taxon_rank_level)
S3method(obj_print_data,taxa_taxonomy)
S3method(obj_print_footer,taxa_classification)
S3method(obj_print_footer,taxa_taxon)
S3method(obj_print_footer,taxa_taxon_rank)
S3method(obj_print_footer,taxa_taxonomy)
S3method(pillar_shaft,taxa_classification)
S3method(pillar_shaft,taxa_taxon)
S3method(pillar_shaft,taxa_taxon_authority)
S3method(pillar_shaft,taxa_taxon_id)
S3method(pillar_shaft,taxa_taxon_rank)
S3method(pillar_shaft,taxa_taxonomy)
S3method(roots,taxa_classification)
S3method(roots,taxa_taxonomy)
S3method(stems,taxa_classification)
S3method(stems,taxa_taxonomy)
S3method(subtaxa,taxa_classification)
S3method(subtaxa,taxa_taxonomy)
S3method(supertaxa,taxa_classification)
S3method(supertaxa,taxa_taxonomy)
S3method(tax_auth,taxa_classification)
S3method(tax_auth,taxa_taxon)
S3method(tax_auth,taxa_taxonomy)
S3method(tax_author,taxa_classification)
S3method(tax_author,taxa_taxon)
S3method(tax_author,taxa_taxon_authority)
S3method(tax_author,taxa_taxonomy)
S3method(tax_cite,taxa_classification)
S3method(tax_cite,taxa_taxon)
S3method(tax_cite,taxa_taxon_authority)
S3method(tax_cite,taxa_taxonomy)
S3method(tax_date,taxa_classification)
S3method(tax_date,taxa_taxon)
S3method(tax_date,taxa_taxon_authority)
S3method(tax_date,taxa_taxonomy)
S3method(tax_db,taxa_classification)
S3method(tax_db,taxa_taxon)
S3method(tax_db,taxa_taxon_id)
S3method(tax_db,taxa_taxonomy)
S3method(tax_id,taxa_classification)
S3method(tax_id,taxa_taxon)
S3method(tax_id,taxa_taxonomy)
S3method(tax_name,taxa_classification)
S3method(tax_name,taxa_taxon)
S3method(tax_name,taxa_taxonomy)
S3method(tax_rank,taxa_classification)
S3method(tax_rank,taxa_taxon)
S3method(tax_rank,taxa_taxonomy)
S3method(toString,taxa_taxon_rank_level)
S3method(unique,taxa_taxonomy)
S3method(vec_cast,taxa_classification)
S3method(vec_cast,taxa_taxon)
S3method(vec_cast,taxa_taxon_authority)
S3method(vec_cast,taxa_taxon_db)
S3method(vec_cast,taxa_taxon_db_def)
S3method(vec_cast,taxa_taxon_id)
S3method(vec_cast,taxa_taxon_rank)
S3method(vec_cast,taxa_taxon_rank_level)
S3method(vec_cast,taxa_taxonomy)
S3method(vec_cast.character,taxa_classification)
S3method(vec_cast.character,taxa_taxon)
S3method(vec_cast.character,taxa_taxon_authority)
S3method(vec_cast.character,taxa_taxon_db)
S3method(vec_cast.character,taxa_taxon_id)
S3method(vec_cast.character,taxa_taxon_rank)
S3method(vec_cast.character,taxa_taxon_rank_level)
S3method(vec_cast.character,taxa_taxonomy)
S3method(vec_cast.data.frame,taxa_taxon_authority)
S3method(vec_cast.data.frame,taxa_taxon_id)
S3method(vec_cast.data.frame,taxa_taxon_rank)
S3method(vec_cast.double,taxa_taxon_id)
S3method(vec_cast.double,taxa_taxon_rank)
S3method(vec_cast.factor,taxa_classification)
S3method(vec_cast.factor,taxa_taxon)
S3method(vec_cast.factor,taxa_taxon_authority)
S3method(vec_cast.factor,taxa_taxon_db)
S3method(vec_cast.factor,taxa_taxon_id)
S3method(vec_cast.factor,taxa_taxon_rank)
S3method(vec_cast.factor,taxa_taxonomy)
S3method(vec_cast.integer,taxa_classification)
S3method(vec_cast.integer,taxa_taxon_id)
S3method(vec_cast.taxa_classification,default)
S3method(vec_cast.taxa_classification,taxa_classification)
S3method(vec_cast.taxa_taxon,character)
S3method(vec_cast.taxa_taxon,default)
S3method(vec_cast.taxa_taxon,factor)
S3method(vec_cast.taxa_taxon,taxa_taxon)
S3method(vec_cast.taxa_taxon,taxa_taxonomy)
S3method(vec_cast.taxa_taxon_authority,character)
S3method(vec_cast.taxa_taxon_authority,default)
S3method(vec_cast.taxa_taxon_authority,factor)
S3method(vec_cast.taxa_taxon_authority,integer)
S3method(vec_cast.taxa_taxon_authority,taxa_taxon_authority)
S3method(vec_cast.taxa_taxon_db,character)
S3method(vec_cast.taxa_taxon_db,default)
S3method(vec_cast.taxa_taxon_db,factor)
S3method(vec_cast.taxa_taxon_db,taxa_taxon_db)
S3method(vec_cast.taxa_taxon_db_def,default)
S3method(vec_cast.taxa_taxon_db_def,taxa_taxon_db_def)
S3method(vec_cast.taxa_taxon_id,character)
S3method(vec_cast.taxa_taxon_id,default)
S3method(vec_cast.taxa_taxon_id,double)
S3method(vec_cast.taxa_taxon_id,factor)
S3method(vec_cast.taxa_taxon_id,integer)
S3method(vec_cast.taxa_taxon_id,taxa_taxon_id)
S3method(vec_cast.taxa_taxon_rank,character)
S3method(vec_cast.taxa_taxon_rank,default)
S3method(vec_cast.taxa_taxon_rank,double)
S3method(vec_cast.taxa_taxon_rank,factor)
S3method(vec_cast.taxa_taxon_rank,taxa_taxon_rank)
S3method(vec_cast.taxa_taxon_rank_level,character)
S3method(vec_cast.taxa_taxon_rank_level,default)
S3method(vec_cast.taxa_taxon_rank_level,taxa_taxon_rank_level)
S3method(vec_cast.taxa_taxonomy,character)
S3method(vec_cast.taxa_taxonomy,default)
S3method(vec_cast.taxa_taxonomy,factor)
S3method(vec_cast.taxa_taxonomy,taxa_taxon)
S3method(vec_cast.taxa_taxonomy,taxa_taxonomy)
S3method(vec_proxy_compare,taxa_taxon_rank)
S3method(vec_proxy_equal,taxa_taxon)
S3method(vec_proxy_equal,taxa_taxon_authority)
S3method(vec_proxy_equal,taxa_taxon_id)
S3method(vec_proxy_equal,taxa_taxon_rank)
S3method(vec_proxy_equal,taxa_taxonomy)
S3method(vec_ptype2,taxa_classification)
S3method(vec_ptype2,taxa_taxon)
S3method(vec_ptype2,taxa_taxon_authority)
S3method(vec_ptype2,taxa_taxon_db)
S3method(vec_ptype2,taxa_taxon_id)
S3method(vec_ptype2,taxa_taxon_rank)
S3method(vec_ptype2,taxa_taxon_rank_level)
S3method(vec_ptype2,taxa_taxonomy)
S3method(vec_ptype2.character,taxa_classification)
S3method(vec_ptype2.character,taxa_taxon)
S3method(vec_ptype2.character,taxa_taxon_authority)
S3method(vec_ptype2.character,taxa_taxon_db)
S3method(vec_ptype2.character,taxa_taxon_id)
S3method(vec_ptype2.character,taxa_taxon_rank)
S3method(vec_ptype2.character,taxa_taxon_rank_level)
S3method(vec_ptype2.character,taxa_taxonomy)
S3method(vec_ptype2.factor,taxa_classification)
S3method(vec_ptype2.factor,taxa_taxon)
S3method(vec_ptype2.factor,taxa_taxon_authority)
S3method(vec_ptype2.factor,taxa_taxon_db)
S3method(vec_ptype2.factor,taxa_taxon_id)
S3method(vec_ptype2.factor,taxa_taxon_rank)
S3method(vec_ptype2.factor,taxa_taxonomy)
S3method(vec_ptype2.taxa_classification,character)
S3method(vec_ptype2.taxa_classification,default)
S3method(vec_ptype2.taxa_classification,factor)
S3method(vec_ptype2.taxa_classification,taxa_classification)
S3method(vec_ptype2.taxa_classification,vctrs_unspecified)
S3method(vec_ptype2.taxa_taxon,character)
S3method(vec_ptype2.taxa_taxon,default)
S3method(vec_ptype2.taxa_taxon,factor)
S3method(vec_ptype2.taxa_taxon,taxa_taxon)
S3method(vec_ptype2.taxa_taxon,vctrs_unspecified)
S3method(vec_ptype2.taxa_taxon_authority,character)
S3method(vec_ptype2.taxa_taxon_authority,default)
S3method(vec_ptype2.taxa_taxon_authority,factor)
S3method(vec_ptype2.taxa_taxon_authority,taxa_taxon_authority)
S3method(vec_ptype2.taxa_taxon_authority,vctrs_unspecified)
S3method(vec_ptype2.taxa_taxon_db,character)
S3method(vec_ptype2.taxa_taxon_db,default)
S3method(vec_ptype2.taxa_taxon_db,factor)
S3method(vec_ptype2.taxa_taxon_db,taxa_taxon_db)
S3method(vec_ptype2.taxa_taxon_db,vctrs_unspecified)
S3method(vec_ptype2.taxa_taxon_id,character)
S3method(vec_ptype2.taxa_taxon_id,default)
S3method(vec_ptype2.taxa_taxon_id,factor)
S3method(vec_ptype2.taxa_taxon_id,taxa_taxon_id)
S3method(vec_ptype2.taxa_taxon_id,vctrs_unspecified)
S3method(vec_ptype2.taxa_taxon_rank,character)
S3method(vec_ptype2.taxa_taxon_rank,default)
S3method(vec_ptype2.taxa_taxon_rank,factor)
S3method(vec_ptype2.taxa_taxon_rank,taxa_taxon_rank)
S3method(vec_ptype2.taxa_taxon_rank,vctrs_unspecified)
S3method(vec_ptype2.taxa_taxon_rank_level,character)
S3method(vec_ptype2.taxa_taxon_rank_level,default)
S3method(vec_ptype2.taxa_taxon_rank_level,taxa_taxon_rank_level)
S3method(vec_ptype2.taxa_taxon_rank_level,vctrs_unspecified)
S3method(vec_ptype2.taxa_taxonomy,character)
S3method(vec_ptype2.taxa_taxonomy,default)
S3method(vec_ptype2.taxa_taxonomy,factor)
S3method(vec_ptype2.taxa_taxonomy,taxa_taxonomy)
S3method(vec_ptype2.taxa_taxonomy,vctrs_unspecified)
S3method(vec_ptype_abbr,taxa_classification)
S3method(vec_ptype_abbr,taxa_taxon)
S3method(vec_ptype_abbr,taxa_taxon_authority)
S3method(vec_ptype_abbr,taxa_taxon_db)
S3method(vec_ptype_abbr,taxa_taxon_id)
S3method(vec_ptype_abbr,taxa_taxon_rank)
S3method(vec_ptype_abbr,taxa_taxon_rank_level)
S3method(vec_ptype_abbr,taxa_taxonomy)
S3method(vec_ptype_full,taxa_classification)
S3method(vec_ptype_full,taxa_taxon)
S3method(vec_ptype_full,taxa_taxon_authority)
S3method(vec_ptype_full,taxa_taxon_db)
S3method(vec_ptype_full,taxa_taxon_db_def)
S3method(vec_ptype_full,taxa_taxon_id)
S3method(vec_ptype_full,taxa_taxon_rank)
S3method(vec_ptype_full,taxa_taxon_rank_level)
S3method(vec_ptype_full,taxa_taxonomy)
export("%>%")
export("%in%")
export("tax_auth<-")
export("tax_author<-")
export("tax_cite<-")
export("tax_date<-")
export("tax_db<-")
export("tax_id<-")
export("tax_name<-")
export("tax_rank<-")
export(as_data_frame)
export(as_taxon)
export(classification)
export(contains)
export(db_ref)
export(ends_with)
export(everything)
export(internodes)
export(is_classification)
export(is_internode)
export(is_leaf)
export(is_root)
export(is_stem)
export(is_taxon)
export(is_taxon_authority)
export(is_taxon_db)
export(is_taxon_id)
export(is_taxon_rank)
export(is_taxonomy)
export(leaves)
export(matches)
export(n_leaves)
export(n_subtaxa)
export(n_supertaxa)
export(num_range)
export(one_of)
export(roots)
export(starts_with)
export(stems)
export(subtaxa)
export(supertaxa)
export(tax_auth)
export(tax_author)
export(tax_cite)
export(tax_date)
export(tax_db)
export(tax_id)
export(tax_name)
export(tax_rank)
export(taxon)
export(taxon_authority)
export(taxon_db)
export(taxon_id)
export(taxon_rank)
export(taxonomy)
exportClasses(taxa_taxon)
exportClasses(taxa_taxon_authority)
exportClasses(taxa_taxon_db)
exportClasses(taxa_taxon_id)
exportClasses(taxa_taxon_rank)
exportClasses(taxa_taxonomy)
importFrom(dplyr,contains)
importFrom(dplyr,ends_with)
importFrom(dplyr,everything)
importFrom(dplyr,matches)
importFrom(dplyr,num_range)
importFrom(dplyr,one_of)
importFrom(dplyr,starts_with)
importFrom(magrittr,"%>%")
importFrom(methods,setOldClass)
importFrom(pillar,pillar_shaft)
importFrom(tibble,as_tibble)
importFrom(vctrs,obj_print_data)
importFrom(vctrs,obj_print_footer)
importFrom(vctrs,vec_cast)
importFrom(vctrs,vec_cast.character)
importFrom(vctrs,vec_cast.data.frame)
importFrom(vctrs,vec_cast.double)
importFrom(vctrs,vec_cast.factor)
importFrom(vctrs,vec_cast.integer)
importFrom(vctrs,vec_proxy_compare)
importFrom(vctrs,vec_proxy_equal)
importFrom(vctrs,vec_ptype2)
importFrom(vctrs,vec_ptype2.character)
importFrom(vctrs,vec_ptype2.factor)
importFrom(vctrs,vec_ptype_abbr)
importFrom(vctrs,vec_ptype_full)