bel 0.3.1-x64-mingw32 → 0.3.2-x64-mingw32

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 (22) hide show
  1. checksums.yaml +5 -13
  2. data/README.md +13 -1
  3. data/bel.gemspec +4 -1
  4. data/bin/bel +1 -0
  5. data/bin/bel2rdf.rb +2 -2
  6. data/bin/bel_compare.rb +2 -2
  7. data/bin/bel_parse.rb +1 -1
  8. data/bin/bel_summarize.rb +1 -1
  9. data/bin/bel_upgrade.rb +2 -2
  10. data/lib/bel/2.0/libbel.so +0 -0
  11. data/lib/bel/2.1/libbel.so +0 -0
  12. data/lib/bel/2.2/libbel.so +0 -0
  13. data/lib/bel/evidence_model/bel_parameter.rb +1 -1
  14. data/lib/bel/evidence_model/bel_term.rb +48 -1
  15. data/lib/bel/extensions/jgf.rb +5 -3
  16. data/lib/bel/extensions/rdf/bel_rdf.rb +93 -77
  17. data/lib/bel/extensions/rdf/rdf.rb +247 -11
  18. data/lib/bel/namespace.rb +16 -4
  19. data/lib/bel/nonblocking_io_wrapper.rb +52 -0
  20. data/lib/bel/script.rb +138159 -138382
  21. data/lib/bel/version.rb +1 -1
  22. metadata +112 -69
data/lib/bel/version.rb CHANGED
@@ -1,3 +1,3 @@
1
1
  module BEL
2
- VERSION = '0.3.1'
2
+ VERSION = '0.3.2'
3
3
  end
metadata CHANGED
@@ -1,7 +1,7 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: bel
3
3
  version: !ruby/object:Gem::Version
4
- version: 0.3.1
4
+ version: 0.3.2
5
5
  platform: x64-mingw32
6
6
  authors:
7
7
  - Anthony Bargnesi
@@ -11,7 +11,7 @@ authors:
11
11
  autorequire:
12
12
  bindir: bin
13
13
  cert_chain: []
14
- date: 2015-06-19 00:00:00.000000000 Z
14
+ date: 2015-07-31 00:00:00.000000000 Z
15
15
  dependencies:
16
16
  - !ruby/object:Gem::Dependency
17
17
  name: ffi
@@ -28,7 +28,7 @@ dependencies:
28
28
  - !ruby/object:Gem::Version
29
29
  version: 1.9.8
30
30
  - !ruby/object:Gem::Dependency
31
- name: uuid
31
+ name: addressable
32
32
  requirement: !ruby/object:Gem::Requirement
33
33
  requirements:
34
34
  - - ~>
@@ -42,21 +42,21 @@ dependencies:
42
42
  - !ruby/object:Gem::Version
43
43
  version: '2.3'
44
44
  - !ruby/object:Gem::Dependency
45
- name: addressable
45
+ name: rdf
46
46
  requirement: !ruby/object:Gem::Requirement
47
47
  requirements:
48
48
  - - ~>
49
49
  - !ruby/object:Gem::Version
50
- version: '2.3'
50
+ version: '1.1'
51
51
  type: :development
52
52
  prerelease: false
53
53
  version_requirements: !ruby/object:Gem::Requirement
54
54
  requirements:
55
55
  - - ~>
56
56
  - !ruby/object:Gem::Version
57
- version: '2.3'
57
+ version: '1.1'
58
58
  - !ruby/object:Gem::Dependency
59
- name: rdf
59
+ name: rdf-turtle
60
60
  requirement: !ruby/object:Gem::Requirement
61
61
  requirements:
62
62
  - - ~>
@@ -70,19 +70,61 @@ dependencies:
70
70
  - !ruby/object:Gem::Version
71
71
  version: '1.1'
72
72
  - !ruby/object:Gem::Dependency
73
- name: rdf-turtle
73
+ name: uuid
74
74
  requirement: !ruby/object:Gem::Requirement
75
75
  requirements:
76
76
  - - ~>
77
77
  - !ruby/object:Gem::Version
78
- version: '1.1'
78
+ version: '2.3'
79
79
  type: :development
80
80
  prerelease: false
81
81
  version_requirements: !ruby/object:Gem::Requirement
82
82
  requirements:
83
83
  - - ~>
84
84
  - !ruby/object:Gem::Version
85
- version: '1.1'
85
+ version: '2.3'
86
+ - !ruby/object:Gem::Dependency
87
+ name: byebug
88
+ requirement: !ruby/object:Gem::Requirement
89
+ requirements:
90
+ - - ~>
91
+ - !ruby/object:Gem::Version
92
+ version: '5.0'
93
+ type: :development
94
+ prerelease: false
95
+ version_requirements: !ruby/object:Gem::Requirement
96
+ requirements:
97
+ - - ~>
98
+ - !ruby/object:Gem::Version
99
+ version: '5.0'
100
+ - !ruby/object:Gem::Dependency
101
+ name: minitest
102
+ requirement: !ruby/object:Gem::Requirement
103
+ requirements:
104
+ - - ~>
105
+ - !ruby/object:Gem::Version
106
+ version: '5.7'
107
+ type: :development
108
+ prerelease: false
109
+ version_requirements: !ruby/object:Gem::Requirement
110
+ requirements:
111
+ - - ~>
112
+ - !ruby/object:Gem::Version
113
+ version: '5.7'
114
+ - !ruby/object:Gem::Dependency
115
+ name: pry-byebug
116
+ requirement: !ruby/object:Gem::Requirement
117
+ requirements:
118
+ - - ~>
119
+ - !ruby/object:Gem::Version
120
+ version: '3.2'
121
+ type: :development
122
+ prerelease: false
123
+ version_requirements: !ruby/object:Gem::Requirement
124
+ requirements:
125
+ - - ~>
126
+ - !ruby/object:Gem::Version
127
+ version: '3.2'
86
128
  - !ruby/object:Gem::Dependency
87
129
  name: rake
88
130
  requirement: !ruby/object:Gem::Requirement
@@ -153,7 +195,7 @@ dependencies:
153
195
  - - ~>
154
196
  - !ruby/object:Gem::Version
155
197
  version: '0.8'
156
- description: ! ' The BEL gem allows the reading, writing, and processing of BEL (Biological
198
+ description: ' The BEL gem allows the reading, writing, and processing of BEL (Biological
157
199
  Expression Language) with a natural DSL. '
158
200
  email:
159
201
  - abargnesi@selventa.com
@@ -171,77 +213,78 @@ executables:
171
213
  extensions: []
172
214
  extra_rdoc_files: []
173
215
  files:
174
- - INSTALL.md
175
- - INSTALL_RUBY.md
176
- - LICENSE
177
- - README.md
178
- - bel.gemspec
179
- - bin/bel
180
- - bin/bel2rdf.rb
181
- - bin/bel_compare.rb
182
- - bin/bel_parse.rb
183
- - bin/bel_rdfschema.rb
184
- - bin/bel_summarize.rb
185
- - bin/bel_upgrade.rb
186
- - ext/mri/bel-ast.c
187
- - ext/mri/bel-ast.h
188
- - ext/mri/bel-node-stack.c
189
- - ext/mri/bel-node-stack.h
190
- - ext/mri/bel-parse-statement.c
191
- - ext/mri/bel-parse-term.c
192
- - ext/mri/bel-parser.c
193
- - ext/mri/bel-parser.h
194
- - ext/mri/bel-token.c
195
- - ext/mri/bel-token.h
196
- - ext/mri/bel-tokenize-term.c
197
- - ext/mri/extconf.rb
198
- - ext/mri/libbel.c
199
- - ext/mri/libbel.def
200
216
  - lib/bel.rb
201
- - lib/bel/2.0/libbel.so
202
- - lib/bel/2.1/libbel.so
203
- - lib/bel/2.2/libbel.so
204
- - lib/bel/completion.rb
205
- - lib/bel/completion_rule.rb
206
- - lib/bel/evidence_model.rb
207
- - lib/bel/evidence_model/bel_parameter.rb
217
+ - lib/bel/util.rb
208
218
  - lib/bel/evidence_model/bel_statement.rb
209
- - lib/bel/evidence_model/bel_term.rb
210
219
  - lib/bel/evidence_model/citation.rb
211
- - lib/bel/evidence_model/evidence.rb
212
- - lib/bel/evidence_model/experiment_context.rb
220
+ - lib/bel/evidence_model/bel_parameter.rb
213
221
  - lib/bel/evidence_model/metadata.rb
214
- - lib/bel/evidence_model/references.rb
222
+ - lib/bel/evidence_model/bel_term.rb
215
223
  - lib/bel/evidence_model/summary_text.rb
216
- - lib/bel/extension.rb
224
+ - lib/bel/evidence_model/evidence.rb
225
+ - lib/bel/evidence_model/references.rb
226
+ - lib/bel/evidence_model/experiment_context.rb
227
+ - lib/bel/evidence_model.rb
228
+ - lib/bel/nonblocking_io_wrapper.rb
217
229
  - lib/bel/extension_format.rb
230
+ - lib/bel/script.rb
231
+ - lib/bel/extensions/rdf/bel_rdf.rb
232
+ - lib/bel/extensions/rdf/rdf.rb
218
233
  - lib/bel/extensions/bel.rb
219
234
  - lib/bel/extensions/jgf.rb
220
- - lib/bel/extensions/json/jrjackson.rb
221
235
  - lib/bel/extensions/json/json.rb
222
236
  - lib/bel/extensions/json/multi_json.rb
223
- - lib/bel/extensions/json/oj.rb
224
237
  - lib/bel/extensions/json/ruby_json.rb
225
- - lib/bel/extensions/rdf/bel_rdf.rb
226
- - lib/bel/extensions/rdf/rdf.rb
238
+ - lib/bel/extensions/json/jrjackson.rb
239
+ - lib/bel/extensions/json/oj.rb
227
240
  - lib/bel/extensions/xbel.rb
228
- - lib/bel/format.rb
229
- - lib/bel/language.rb
230
- - lib/bel/libbel.rb
231
- - lib/bel/libbel/bel_ast_structs.rb
232
- - lib/bel/libbel/bel_token.rb
233
- - lib/bel/libbel/bel_token_iterator.rb
241
+ - lib/bel/extension.rb
242
+ - lib/bel/libbel/node_traversal.rb
243
+ - lib/bel/libbel/node_transformation.rb
234
244
  - lib/bel/libbel/bel_token_list.rb
245
+ - lib/bel/libbel/bel_token.rb
235
246
  - lib/bel/libbel/node_test.rb
236
- - lib/bel/libbel/node_transformation.rb
237
- - lib/bel/libbel/node_traversal.rb
238
- - lib/bel/namespace.rb
247
+ - lib/bel/libbel/bel_ast_structs.rb
248
+ - lib/bel/libbel/bel_token_iterator.rb
249
+ - lib/bel/completion_rule.rb
239
250
  - lib/bel/parser.rb
240
- - lib/bel/quoting.rb
241
- - lib/bel/script.rb
242
- - lib/bel/util.rb
243
- - lib/bel/vendor/trollop.rb
244
251
  - lib/bel/version.rb
252
+ - lib/bel/format.rb
253
+ - lib/bel/namespace.rb
254
+ - lib/bel/vendor/trollop.rb
255
+ - lib/bel/libbel.rb
256
+ - lib/bel/language.rb
257
+ - lib/bel/quoting.rb
258
+ - lib/bel/completion.rb
259
+ - ext/mri/bel-token.c
260
+ - ext/mri/libbel.c
261
+ - ext/mri/bel-parse-term.c
262
+ - ext/mri/bel-node-stack.c
263
+ - ext/mri/bel-parser.c
264
+ - ext/mri/bel-parse-statement.c
265
+ - ext/mri/bel-tokenize-term.c
266
+ - ext/mri/bel-ast.c
267
+ - ext/mri/bel-parser.h
268
+ - ext/mri/bel-node-stack.h
269
+ - ext/mri/bel-token.h
270
+ - ext/mri/bel-ast.h
271
+ - ext/mri/libbel.def
272
+ - bel.gemspec
273
+ - LICENSE
274
+ - INSTALL.md
275
+ - INSTALL_RUBY.md
276
+ - README.md
277
+ - bin/bel_summarize.rb
278
+ - bin/bel_upgrade.rb
279
+ - bin/bel_parse.rb
280
+ - bin/bel
281
+ - bin/bel2rdf.rb
282
+ - bin/bel_compare.rb
283
+ - bin/bel_rdfschema.rb
284
+ - ext/mri/extconf.rb
285
+ - lib/bel/2.0/libbel.so
286
+ - lib/bel/2.1/libbel.so
287
+ - lib/bel/2.2/libbel.so
245
288
  homepage: https://github.com/OpenBEL/bel.rb
246
289
  licenses:
247
290
  - Apache-2.0
@@ -271,17 +314,17 @@ require_paths:
271
314
  - lib
272
315
  required_ruby_version: !ruby/object:Gem::Requirement
273
316
  requirements:
274
- - - ! '>='
317
+ - - '>='
275
318
  - !ruby/object:Gem::Version
276
319
  version: 2.0.0
277
320
  required_rubygems_version: !ruby/object:Gem::Requirement
278
321
  requirements:
279
- - - ! '>='
322
+ - - '>='
280
323
  - !ruby/object:Gem::Version
281
324
  version: '0'
282
325
  requirements: []
283
326
  rubyforge_project:
284
- rubygems_version: 2.4.3
327
+ rubygems_version: 2.0.14
285
328
  signing_key:
286
329
  specification_version: 4
287
330
  summary: Process BEL with ruby.