strain-code 0.3.5 → 0.3.7

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 (4) hide show
  1. checksums.yaml +4 -4
  2. data/data/catalogues.yaml +89 -48
  3. data/lib/strain-code/version.rb +1 -1
  4. metadata +2 -2
checksums.yaml CHANGED
@@ -1,7 +1,7 @@
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  SHA256:
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- data.tar.gz: e597e503d26c9b42b64e4cd3278dd643ca2acc6c1b9e7a36cc512dc2065f71de
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+ metadata.gz: 2f73b26120182bb1a1c6ce4dd498fdf902c2098a8b9aa2c860c65373bb2a9661
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+ data.tar.gz: c3b8e4b010fc7e9fd004e3fa871d74a7ca756161f283280bb72f87fe1c192cd2
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  SHA512:
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- metadata.gz: e53c116651a40f0ae483599d2cd202282a6e4aedd238f7b9a57cbbb8a8864a77b5496ea0467255cd683e17e0ddb57dd43aba7d4c36d612a13633bfcb7d11a8e6
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- data.tar.gz: 0ff543504f74cda25286feb94fdbc60fd697747bb3d062fc655c49ca04b4169c141623c2611ccc12d91582677e55f6a52ad4e3f16065cf78a8f5a25524558160
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+ metadata.gz: c0911235e78e618d6fe20c72a1e72d5d752261448c1b1f2a2e6ea68b7f8914d61aa170a5ff540bb0c860ed44ff6899a85418adba6242de42e9dbd74a10e47191
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+ data.tar.gz: 5553eb7678b54c929678e715ffa38136ead2b8117eb7a3a6313d9cc1344bcbf77f4ca2ec4735189ec099383e304abb6bd11711d7b4bca99d7ca9bb3d362e4b3e
data/data/catalogues.yaml CHANGED
@@ -62,42 +62,71 @@ catalogues:
62
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  - codes: [ ATCC ]
63
63
  country_code: US
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  name: American Type Culture Collection
65
- url: 'https://www.atcc.org'
66
- url_pattern: 'https://www.atcc.org/products/%s'
65
+ url: "https://www.atcc.org"
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+ url_pattern: "https://www.atcc.org/products/%s"
67
+ - codes: [ ATHUM ]
68
+ country_code: GR
69
+ name: Athens Collection of Fungi
70
+ organization: University of Athens
67
71
 
68
72
  #--- B
73
+ - codes: [ BCC ]
74
+ country_code: TH
75
+ name: BIOTEC Culture Collection
76
+ organization: National Center for Genetic Engineering and Biotechnology
69
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  - codes: [ BCRC ]
70
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  country_code: TW
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  name: Bioresource Collection and Research Center
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  organization: Food Industry Research and Development Insitute
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- url: 'https://catalog.bcrc.firdi.org.tw/'
74
- url_pattern: 'https://catalog.bcrc.firdi.org.tw/BcrcContent?bid=%s'
81
+ url: "https://catalog.bcrc.firdi.org.tw/"
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+ url_pattern: "https://catalog.bcrc.firdi.org.tw/BcrcContent?bid=%s"
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+ - codes: [ BRL ]
84
+ country_code: UK
85
+ name: Butterwick Research Laboratories
86
+ - codes: [ BTCC ]
87
+ country_code: ID
88
+ name: >-
89
+ Biotechnology Culture Collection,
90
+ Research and Development Center for Biotechnology
91
+ organization: "LIPI: Indonesian Institute of Sciences"
92
+ - codes: [ BUSCOB ]
93
+ country_code: IT
94
+ name: Bologna University Scardovi Collection of Bifidobacteria
95
+ organization: Bologna University
75
96
 
76
97
  #--- C
77
98
  - codes: [ CAIM ]
78
99
  country_code: MX
79
100
  name: Collection of Aquatic Important Microorganisms
80
- organization: 'CIAD: Centro de Investigación en Alimentación y Desarrollo'
101
+ organization: "CIAD: Centro de Investigación en Alimentación y Desarrollo"
81
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  url: "https://www.ciad.mx/caim"
82
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  url_pattern:
83
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  "https://www.ciad.mx/caim/busqueda.php?searchtype=caim&criterio=%s"
105
+ - codes: [ CBAS ]
106
+ country_code: BR
107
+ name: Coleção de Bactérias do Ambiente e Saúde
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+ name_en: Bacteria Collection of Environment and Health
109
+ organization: Oswaldo Cruz Institute, FIOCRUZ
110
+ url: "https://cbas.fiocruz.br/index?catalogue"
111
+ _examples: [ CBAS 716 ]
84
112
  - codes: [ CCALA ]
85
113
  name: Culture Collection of Autotrophic Organisms
86
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  organization: Czech Academy of Sciences
87
115
  country_code: CZ
88
- url_pattern: 'https://ccala.butbn.cas.cz/strain/%s'
116
+ url_pattern: "https://ccala.butbn.cas.cz/strain/%s"
89
117
  - codes: [ CCM ]
90
118
  name: Czech Collection of Microorganisms
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119
  organization: Masaryk University
92
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  country_code: CZ
93
- url_pattern: 'https://www.sci.muni.cz/ccm/bakterie/camb/%s'
94
- - codes: [ CCMP ]
121
+ url_pattern: "https://www.sci.muni.cz/ccm/bakterie/camb/%s"
122
+ - codes: [ CCMP, NCMA ]
95
123
  name: >-
96
124
  NCMA: National Center for Marine Algae and Microbiota,
97
125
  formerly Culture Collection for Marine Phytoplankton
98
126
  organization: Bigelow Laboratory for Ocean Sciences
99
127
  country_code: US
100
- url_pattern: 'https://ncma.bigelow.org/CCMP%s'
128
+ url_pattern: "https://ncma.bigelow.org/CCMP%s"
129
+ _notes: url_pattern does not work consistently with NCMA numbers
101
130
  - codes: [ CCTCC ]
102
131
  country_code: CN
103
132
  name: China Center for Type Culture Collection
@@ -116,13 +145,18 @@ catalogues:
116
145
  "https://www.uv.es/uvweb/coleccion-espanola-cultivos-tipo/es/\
117
146
  coleccion-espanola-cultivos-tipo-1285872233521.html"
118
147
  url_pattern: 'https://www.cect.org/vstrn2.php?cect=%s'
148
+ - codes: [ CFCC ]
149
+ country_code: CN
150
+ name: China Forestry Culture Collection Center
151
+ organization:
152
+ Research Institute of Forest Ecology, Environment and Protection
119
153
  - codes: [ CGMCC, AS ]
120
154
  name: China General Microbiological Culture Collection Center
121
155
  organization: National Science and Technology Infrastructure
122
156
  country_code: CN
123
- url_pattern: 'https://cgmcc.net/english/search?stn=%s'
157
+ url_pattern: "https://cgmcc.net/english/search?stn=%s"
124
158
  # From NCBI Taxonomy (not working):
125
- # 'http://www.cgmcc.net/english/cata.php?stn=CGMCC%%20%s'
159
+ # "http://www.cgmcc.net/english/cata.php?stn=CGMCC%%20%s"
126
160
  _examples: [ CGMCC 1.19149 ]
127
161
  _tested: 2025-03-18
128
162
  - codes: [ CICC ]
@@ -130,14 +164,14 @@ catalogues:
130
164
  organization:
131
165
  China National Research Institute of Food & Fermentation Industries
132
166
  country_code: CN
133
- url_pattern: 'http://www.china-cicc.org/search/?classtype=1&keyword=%s'
167
+ url_pattern: "http://www.china-cicc.org/search/?classtype=1&keyword=%s"
134
168
  - codes: [ CIP ]
135
169
  name: Collection de l'Institut Pasteur
136
170
  name_en: Collection of the Institut Pasteur
137
171
  organization: Institut Pasteur
138
172
  country_code: FR
139
173
  url_pattern:
140
- 'https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%%20%s'
174
+ "https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%%20%s"
141
175
 
142
176
  #--- D
143
177
  - codes: [ DSM ]
@@ -147,9 +181,9 @@ catalogues:
147
181
  organization: >-
148
182
  Leibniz Institute DSMZ - German Collection of Microorganisms and
149
183
  Cell Cultures GmbH
150
- url: 'https://www.dsmz.de/collection/catalogue'
184
+ url: "https://www.dsmz.de/collection/catalogue"
151
185
  url_pattern:
152
- 'https://www.dsmz.de/collection/catalogue/details/culture/DSM-%s'
186
+ "https://www.dsmz.de/collection/catalogue/details/culture/DSM-%s"
153
187
 
154
188
  #--- E
155
189
 
@@ -165,8 +199,8 @@ catalogues:
165
199
  country_code: CN
166
200
  name: Guangdong Microbial Culture Collection Center
167
201
  organization: Guangdong Academy of Sciences
168
- url:
169
- 'http://english.gdim.cn/research/researchdivisions/guangdongmicrobialculturecollectioncentergdmcc/'
202
+ url: "http://english.gdim.cn/research/researchdivisions/\
203
+ guangdongmicrobialculturecollectioncentergdmcc/"
170
204
  - codes: [ GIFU, GTC ]
171
205
  country_code: JP
172
206
  name: Gifu Type Culture Collection
@@ -207,47 +241,47 @@ catalogues:
207
241
  _tested: 2025-03-20
208
242
  - codes: [ IFO, NBRC ]
209
243
  country_code: JP
210
- name: 'NITE Biological Resource Center'
211
- organization: 'NITE: National Institute of Technology and Evaluation'
212
- url: 'https://www.nite.go.jp/nbrc/catalogue/'
213
- url_pattern:
214
- 'https://www.nite.go.jp/nbrc/catalogue/NBRCCatalogueDetailServlet?ID=IFO&CAT=%s'
244
+ name: "NITE Biological Resource Center"
245
+ organization: "NITE: National Institute of Technology and Evaluation"
246
+ url: "https://www.nite.go.jp/nbrc/catalogue/"
247
+ url_pattern: "https://www.nite.go.jp/nbrc/catalogue/\
248
+ NBRCCatalogueDetailServlet?ID=IFO&CAT=%s"
215
249
  - codes: [ ITM ]
216
250
  name: >-
217
251
  Belgian Coordinated Collections of Microorganisms (BCCM),
218
252
  Institute of Tropical Medicine Antwerp Mycobacteria Collection
219
- organization: 'BELSPO: Belgian Science Policy'
253
+ organization: "BELSPO: Belgian Science Policy"
220
254
  country_code: BE
221
255
  url_pattern:
222
- 'https://bccm.belspo.be/catalogues/bm-details?accession_number=ITM%%20%s'
256
+ "https://bccm.belspo.be/catalogues/bm-details?accession_number=ITM%%20%s"
223
257
 
224
258
  #--- J
225
259
  - codes: [ JCM ]
226
260
  country_code: JP
227
261
  name: Japan Collection of Microorganisms
228
262
  organization: RIKEN
229
- url: 'https://jcm.brc.riken.jp/en/'
230
- url_pattern: 'https://www.jcm.riken.jp/cgi-bin/jcm/jcm_number?JCM=%s'
263
+ url: "https://jcm.brc.riken.jp/en/"
264
+ url_pattern: "https://www.jcm.riken.jp/cgi-bin/jcm/jcm_number?JCM=%s"
231
265
  - codes: [ JMRC ]
232
266
  name: Jena Microbial Resource Collection
233
267
  organization: Friedrich Schiller University Jena
234
268
  country_name: DE
235
- url_pattern: 'http://www.jmrc.uni-jena.de/data.php?fsu=%s'
269
+ url_pattern: "http://www.jmrc.uni-jena.de/data.php?fsu=%s"
236
270
 
237
271
  #--- K
238
272
  - codes: [ KACC ]
239
273
  name: Korean Agricultural Culture Collection
240
274
  organization: National Academy of Agricultural Science
241
275
  country_code: KR
242
- url_pattern:
243
- 'https://genebank.rda.go.kr/eng/mic/cat/MicrobeSearch.do?sSearchWith=no&sTxt1=%s'
276
+ url_pattern: "https://genebank.rda.go.kr/eng/mic/cat/\
277
+ MicrobeSearch.do?sSearchWith=no&sTxt1=%s"
244
278
  - codes: [ KCTC ]
245
279
  country_code: KR
246
280
  name: Korean Collection for Type Cultures
247
281
  organization:
248
- 'KRIBB: Korea Research Institute of Bioscience and Biotechnology'
249
- url: 'https://kctc.kribb.re.kr/en/collection/'
250
- url_pattern: 'https://kctc.kribb.re.kr/collection/view?sn=%s'
282
+ "KRIBB: Korea Research Institute of Bioscience and Biotechnology"
283
+ url: "https://kctc.kribb.re.kr/en/collection/"
284
+ url_pattern: "https://kctc.kribb.re.kr/collection/view?sn=%s"
251
285
  _examples: [ KCTC 92132 ]
252
286
  _tested: 2025-03-18
253
287
 
@@ -274,6 +308,12 @@ catalogues:
274
308
  databases-micro_search_detail_en.php?maff=%s"
275
309
  _examples: [ MAFF 210265 ]
276
310
  _tested: 2020-03-20
311
+ - codes: [ MCC ]
312
+ country_code: IN
313
+ name: Microbial Culture Collection
314
+ organization: National Centre for Cell Science, Maharashtra
315
+ url: "http://ncmr.nccs.res.in/catalogue"
316
+ _examples: [ MCC 3400 ]
277
317
  - codes: [ MCCC ]
278
318
  name: Marine Culture Collection of China
279
319
  organization: Third Institute of Oceanography
@@ -285,9 +325,10 @@ catalogues:
285
325
  country_code: UK
286
326
  name: National Collection of Type Cultures
287
327
  organization: Health Security Agency
288
- url: 'https://www.culturecollections.org.uk/products/bacteria-and-mycoplasmas/'
289
- url_pattern:
290
- 'https://www.culturecollections.org.uk/products/bacteria/detail.jsp?collection=nctc&refId=NCTC+%s'
328
+ url: "https://www.culturecollections.org.uk/products/\
329
+ bacteria-and-mycoplasmas/"
330
+ url_pattern: "https://www.culturecollections.org.uk/products/bacteria/\
331
+ detail.jsp?collection=nctc&refId=NCTC+%s"
291
332
  - codes: [ NCIB ]
292
333
  country_code: UK
293
334
  name: National Collection of Industrial Bacteria
@@ -301,12 +342,12 @@ catalogues:
301
342
  name: North East Pacific Culture Collection
302
343
  organization: The University of British Columbia
303
344
  country_code: CA
304
- url_pattern: 'https://db.botany.ubc.ca/cccm/mfa/%s'
345
+ url_pattern: "https://db.botany.ubc.ca/cccm/mfa/%s"
305
346
  - codes: [ NIES ]
306
347
  name: National Institute for Environmental Studies Collection
307
348
  organization: National Institute for Environmental Studies
308
349
  country_code: JP
309
- url_pattern: 'https://mcc.nies.go.jp/numberSearch.do?strainNumber=%s'
350
+ url_pattern: "https://mcc.nies.go.jp/numberSearch.do?strainNumber=%s"
310
351
  - codes: [ NRC, NRCC ]
311
352
  country_code: CA
312
353
  name: Division of Biological Sciences, National Research Council of Canada
@@ -317,8 +358,8 @@ catalogues:
317
358
  Agricultural Research Service Culture Collection,
318
359
  formerly Northern Regional Research Laboratory
319
360
  organization: National Center for Agricultural Utilization Research
320
- url_pattern:
321
- 'https://nrrl.ncaur.usda.gov/cgi-bin/usda/prokaryote/report.html?nrrlcodes=%s'
361
+ url_pattern: "https://nrrl.ncaur.usda.gov/cgi-bin/usda/prokaryote/\
362
+ report.html?nrrlcodes=%s"
322
363
 
323
364
  #--- O
324
365
  - codes: [ OCM ]
@@ -332,7 +373,7 @@ catalogues:
332
373
  organization: Institut Pasteur
333
374
  country_code: FR
334
375
  url_pattern:
335
- 'https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=PCC%%20%s'
376
+ "https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=PCC%%20%s"
336
377
 
337
378
  #--- Q
338
379
 
@@ -345,32 +386,32 @@ catalogues:
345
386
  organization: University of Göttingen
346
387
  country_code: DE
347
388
  url_pattern:
348
- 'https://sagdb.uni-goettingen.de/detailedList.php?str_number=%s'
389
+ "https://sagdb.uni-goettingen.de/detailedList.php?str_number=%s"
349
390
 
350
391
  #--- T
351
392
  - codes: [ TBRC ]
352
393
  name: Thailand Bioresource Research Center
353
394
  organization: Thailand Bioresource Research Center
354
395
  country_code: TH
355
- url_pattern: 'https://tbrcnetwork.org/microb_detail.php?code=TBRC_%s'
396
+ url_pattern: "https://tbrcnetwork.org/microb_detail.php?code=TBRC_%s"
356
397
 
357
398
  #--- U
358
399
  - codes: [ UAMH ]
359
400
  country_code: CA
360
401
  name: University of Alberta Mold Herbarium and Culture Collection
361
402
  organization: University of Alberta
362
- url: 'https://www.uamh.ca/index.html'
363
- url_pattern: 'https://www.uamh.ca/details.php?id=%s'
403
+ url: "https://www.uamh.ca/index.html"
404
+ url_pattern: "https://www.uamh.ca/details.php?id=%s"
364
405
  _examples: [ UAMH 2956 ]
365
406
  _tested: 2025-03-20
366
407
  - codes: [ ULC ]
367
408
  name: >-
368
409
  Belgian Coordinated Collections of Microorganisms (BCCM),
369
410
  University of Liège Cyanobacteria Collection
370
- organization: 'BELSPO: Belgian Science Policy'
411
+ organization: "BELSPO: Belgian Science Policy"
371
412
  country_code: BE
372
413
  url_pattern:
373
- 'https://bccm.belspo.be/catalogues/bm-details?accession_number=ULC%%20%s'
414
+ "https://bccm.belspo.be/catalogues/bm-details?accession_number=ULC%%20%s"
374
415
 
375
416
  #--- V
376
417
  - codes: [ VKM ]
@@ -380,7 +421,7 @@ catalogues:
380
421
  Pushchino Scientific Center for Biological Research of the
381
422
  Russian Academy of Sciences
382
423
  country_code: RU
383
- url_pattern: 'http://www.vkm.ru/strains.php?vkm=%s'
424
+ url_pattern: "http://www.vkm.ru/strains.php?vkm=%s"
384
425
 
385
426
  #--- W
386
427
 
@@ -391,4 +432,4 @@ catalogues:
391
432
  #--- Z
392
433
 
393
434
  manifest:
394
- update: 2025-03-18
435
+ update: 2025-03-25
data/lib/strain-code/version.rb CHANGED
@@ -1,5 +1,5 @@
1
1
  class StrainCode
2
- VERSION = '0.3.5'
2
+ VERSION = '0.3.7'
3
3
  VERSION_ARRAY = VERSION.split(/\./).map { |x| x.to_i } # :nodoc:
4
4
  VERSION_MAJOR = VERSION_ARRAY[0] # :nodoc:
5
5
  VERSION_MINOR = VERSION_ARRAY[1] # :nodoc:
metadata CHANGED
@@ -1,14 +1,14 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: strain-code
3
3
  version: !ruby/object:Gem::Version
4
- version: 0.3.5
4
+ version: 0.3.7
5
5
  platform: ruby
6
6
  authors:
7
7
  - Luis M. Rodriguez-R
8
8
  autorequire:
9
9
  bindir: bin
10
10
  cert_chain: []
11
- date: 2025-03-20 00:00:00.000000000 Z
11
+ date: 2025-09-04 00:00:00.000000000 Z
12
12
  dependencies:
13
13
  - !ruby/object:Gem::Dependency
14
14
  name: rake