opentox-ruby-api-wrapper 1.4.0 → 1.5.0

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Files changed (20) hide show
  1. data/Rakefile +2 -2
  2. data/VERSION +1 -1
  3. data/bin/opentox-install-ubuntu.sh +2 -2
  4. data/bin/yaml2owl.rb +1 -1
  5. data/lib/algorithm.rb +4 -1
  6. data/lib/compound.rb +4 -4
  7. data/lib/config/config_ru.rb +8 -0
  8. data/lib/dataset.rb +162 -158
  9. data/lib/environment.rb +77 -6
  10. data/lib/features.rb +15 -0
  11. data/lib/model.rb +88 -103
  12. data/lib/opentox-ruby-api-wrapper.rb +1 -1
  13. data/lib/owl.rb +386 -149
  14. data/lib/rest_client_wrapper.rb +170 -0
  15. data/lib/spork.rb +2 -0
  16. data/lib/task.rb +148 -75
  17. data/lib/templates/config.yaml +53 -5
  18. data/lib/utils.rb +34 -2
  19. data/lib/validation.rb +10 -2
  20. metadata +97 -62
metadata CHANGED
@@ -1,7 +1,12 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: opentox-ruby-api-wrapper
3
3
  version: !ruby/object:Gem::Version
4
- version: 1.4.0
4
+ prerelease: false
5
+ segments:
6
+ - 1
7
+ - 5
8
+ - 0
9
+ version: 1.5.0
5
10
  platform: ruby
6
11
  authors:
7
12
  - Christoph Helma
@@ -9,145 +14,171 @@ autorequire:
9
14
  bindir: bin
10
15
  cert_chain: []
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16
 
12
- date: 2010-03-18 00:00:00 +01:00
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+ date: 2010-05-12 00:00:00 +02:00
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  default_executable:
14
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  dependencies:
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  - !ruby/object:Gem::Dependency
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  name: sinatra
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- type: :runtime
18
- version_requirement:
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- version_requirements: !ruby/object:Gem::Requirement
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+ prerelease: false
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+ requirement: &id001 !ruby/object:Gem::Requirement
20
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  requirements:
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  - - ">="
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  - !ruby/object:Gem::Version
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+ segments:
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+ - 0
23
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  version: "0"
24
- version:
30
+ type: :runtime
31
+ version_requirements: *id001
25
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  - !ruby/object:Gem::Dependency
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33
  name: rest-client
27
- type: :runtime
28
- version_requirement:
29
- version_requirements: !ruby/object:Gem::Requirement
34
+ prerelease: false
35
+ requirement: &id002 !ruby/object:Gem::Requirement
30
36
  requirements:
31
37
  - - ">="
32
38
  - !ruby/object:Gem::Version
39
+ segments:
40
+ - 0
33
41
  version: "0"
34
- version:
42
+ type: :runtime
43
+ version_requirements: *id002
35
44
  - !ruby/object:Gem::Dependency
36
45
  name: rack
37
- type: :runtime
38
- version_requirement:
39
- version_requirements: !ruby/object:Gem::Requirement
46
+ prerelease: false
47
+ requirement: &id003 !ruby/object:Gem::Requirement
40
48
  requirements:
41
49
  - - ">="
42
50
  - !ruby/object:Gem::Version
51
+ segments:
52
+ - 0
43
53
  version: "0"
44
- version:
54
+ type: :runtime
55
+ version_requirements: *id003
45
56
  - !ruby/object:Gem::Dependency
46
57
  name: rack-contrib
47
- type: :runtime
48
- version_requirement:
49
- version_requirements: !ruby/object:Gem::Requirement
58
+ prerelease: false
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+ requirement: &id004 !ruby/object:Gem::Requirement
50
60
  requirements:
51
61
  - - ">="
52
62
  - !ruby/object:Gem::Version
63
+ segments:
64
+ - 0
53
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  version: "0"
54
- version:
66
+ type: :runtime
67
+ version_requirements: *id004
55
68
  - !ruby/object:Gem::Dependency
56
69
  name: rack-flash
57
- type: :runtime
58
- version_requirement:
59
- version_requirements: !ruby/object:Gem::Requirement
70
+ prerelease: false
71
+ requirement: &id005 !ruby/object:Gem::Requirement
60
72
  requirements:
61
73
  - - ">="
62
74
  - !ruby/object:Gem::Version
75
+ segments:
76
+ - 0
63
77
  version: "0"
64
- version:
78
+ type: :runtime
79
+ version_requirements: *id005
65
80
  - !ruby/object:Gem::Dependency
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81
  name: emk-sinatra-url-for
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- type: :runtime
68
- version_requirement:
69
- version_requirements: !ruby/object:Gem::Requirement
82
+ prerelease: false
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+ requirement: &id006 !ruby/object:Gem::Requirement
70
84
  requirements:
71
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  - - ">="
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  - !ruby/object:Gem::Version
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+ segments:
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+ - 0
73
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  version: "0"
74
- version:
75
- - !ruby/object:Gem::Dependency
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- name: cehoffman-sinatra-respond_to
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90
  type: :runtime
78
- version_requirement:
79
- version_requirements: !ruby/object:Gem::Requirement
91
+ version_requirements: *id006
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+ - !ruby/object:Gem::Dependency
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+ name: sinatra-respond_to
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+ prerelease: false
95
+ requirement: &id007 !ruby/object:Gem::Requirement
80
96
  requirements:
81
97
  - - ">="
82
98
  - !ruby/object:Gem::Version
99
+ segments:
100
+ - 0
83
101
  version: "0"
84
- version:
102
+ type: :runtime
103
+ version_requirements: *id007
85
104
  - !ruby/object:Gem::Dependency
86
105
  name: dm-more
87
- type: :runtime
88
- version_requirement:
89
- version_requirements: !ruby/object:Gem::Requirement
106
+ prerelease: false
107
+ requirement: &id008 !ruby/object:Gem::Requirement
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108
  requirements:
91
109
  - - ">="
92
110
  - !ruby/object:Gem::Version
111
+ segments:
112
+ - 0
93
113
  version: "0"
94
- version:
114
+ type: :runtime
115
+ version_requirements: *id008
95
116
  - !ruby/object:Gem::Dependency
96
117
  name: dm-core
97
- type: :runtime
98
- version_requirement:
99
- version_requirements: !ruby/object:Gem::Requirement
118
+ prerelease: false
119
+ requirement: &id009 !ruby/object:Gem::Requirement
100
120
  requirements:
101
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  - - ">="
102
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  - !ruby/object:Gem::Version
123
+ segments:
124
+ - 0
103
125
  version: "0"
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- version:
126
+ type: :runtime
127
+ version_requirements: *id009
105
128
  - !ruby/object:Gem::Dependency
106
129
  name: sinatra-static-assets
107
- type: :runtime
108
- version_requirement:
109
- version_requirements: !ruby/object:Gem::Requirement
130
+ prerelease: false
131
+ requirement: &id010 !ruby/object:Gem::Requirement
110
132
  requirements:
111
133
  - - ">="
112
134
  - !ruby/object:Gem::Version
135
+ segments:
136
+ - 0
113
137
  version: "0"
114
- version:
138
+ type: :runtime
139
+ version_requirements: *id010
115
140
  - !ruby/object:Gem::Dependency
116
- name: cucumber
117
- type: :development
118
- version_requirement:
119
- version_requirements: !ruby/object:Gem::Requirement
141
+ name: tmail
142
+ prerelease: false
143
+ requirement: &id011 !ruby/object:Gem::Requirement
120
144
  requirements:
121
145
  - - ">="
122
146
  - !ruby/object:Gem::Version
147
+ segments:
148
+ - 0
123
149
  version: "0"
124
- version:
150
+ type: :runtime
151
+ version_requirements: *id011
125
152
  - !ruby/object:Gem::Dependency
126
- name: jeweler
127
- type: :development
128
- version_requirement:
129
- version_requirements: !ruby/object:Gem::Requirement
153
+ name: cucumber
154
+ prerelease: false
155
+ requirement: &id012 !ruby/object:Gem::Requirement
130
156
  requirements:
131
157
  - - ">="
132
158
  - !ruby/object:Gem::Version
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+ segments:
160
+ - 0
133
161
  version: "0"
134
- version:
135
- - !ruby/object:Gem::Dependency
136
- name: thin
137
162
  type: :development
138
- version_requirement:
139
- version_requirements: !ruby/object:Gem::Requirement
163
+ version_requirements: *id012
164
+ - !ruby/object:Gem::Dependency
165
+ name: jeweler
166
+ prerelease: false
167
+ requirement: &id013 !ruby/object:Gem::Requirement
140
168
  requirements:
141
169
  - - ">="
142
170
  - !ruby/object:Gem::Version
171
+ segments:
172
+ - 0
143
173
  version: "0"
144
- version:
174
+ type: :development
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+ version_requirements: *id013
145
176
  description: Ruby wrapper for the OpenTox REST API (http://www.opentox.org)
146
177
  email: helma@in-silico.ch
147
178
  executables:
148
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  - opentox-install-ubuntu.sh
149
- - opentox-install-debian.sh
150
180
  - yaml2owl.rb
181
+ - opentox-install-debian.sh
151
182
  extensions: []
152
183
 
153
184
  extra_rdoc_files:
@@ -167,11 +198,13 @@ files:
167
198
  - lib/config/config_ru.rb
168
199
  - lib/dataset.rb
169
200
  - lib/environment.rb
201
+ - lib/features.rb
170
202
  - lib/helper.rb
171
203
  - lib/model.rb
172
204
  - lib/opentox-ruby-api-wrapper.rb
173
205
  - lib/opentox.owl
174
206
  - lib/owl.rb
207
+ - lib/rest_client_wrapper.rb
175
208
  - lib/spork.rb
176
209
  - lib/task.rb
177
210
  - lib/tasks/opentox.rb
@@ -192,18 +225,20 @@ required_ruby_version: !ruby/object:Gem::Requirement
192
225
  requirements:
193
226
  - - ">="
194
227
  - !ruby/object:Gem::Version
228
+ segments:
229
+ - 0
195
230
  version: "0"
196
- version:
197
231
  required_rubygems_version: !ruby/object:Gem::Requirement
198
232
  requirements:
199
233
  - - ">="
200
234
  - !ruby/object:Gem::Version
235
+ segments:
236
+ - 0
201
237
  version: "0"
202
- version:
203
238
  requirements: []
204
239
 
205
240
  rubyforge_project:
206
- rubygems_version: 1.3.5
241
+ rubygems_version: 1.3.6
207
242
  signing_key:
208
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  specification_version: 3
209
244
  summary: Ruby wrapper for the OpenTox REST API