quorum 0.2.1 → 0.3.0

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 (38) hide show
  1. data/Gemfile.lock +35 -28
  2. data/HISTORY.md +4 -0
  3. data/app/assets/javascripts/quorum/application.js +1 -0
  4. data/app/assets/javascripts/quorum/jobs.js +5 -345
  5. data/app/assets/javascripts/quorum/quorum.js +275 -0
  6. data/app/assets/javascripts/quorum/template_settings.js +8 -0
  7. data/app/assets/javascripts/quorum/utilities.js +12 -0
  8. data/app/assets/stylesheets/quorum/application.css +0 -4
  9. data/app/assets/stylesheets/quorum/autohint.css +4 -0
  10. data/app/controllers/quorum/jobs_controller.rb +9 -9
  11. data/app/views/quorum/jobs/form/_blastn_form.html.erb +62 -62
  12. data/app/views/quorum/jobs/form/_blastp_form.html.erb +62 -62
  13. data/app/views/quorum/jobs/form/_blastx_form.html.erb +62 -62
  14. data/app/views/quorum/jobs/form/_tblastn_form.html.erb +62 -62
  15. data/app/views/quorum/jobs/show.html.erb +1 -1
  16. data/app/views/quorum/jobs/templates/_blast_detailed_report_template.html.erb +22 -22
  17. data/app/views/quorum/jobs/templates/_blast_template.html.erb +29 -29
  18. data/app/views/shared/_error_messages.html.erb +8 -8
  19. data/lib/quorum/version.rb +1 -1
  20. data/lib/tasks/jasmine.rake +8 -0
  21. data/quorum.gemspec +1 -0
  22. data/spec/data/seqs_not_fa.txt +16 -16
  23. data/spec/javascripts/fixtures/formatted_sequence.html +6 -0
  24. data/spec/javascripts/fixtures/quorum_search_form.html +461 -0
  25. data/spec/javascripts/fixtures/quorum_tabs.html +10 -0
  26. data/spec/javascripts/helpers/jasmine-jquery.js +288 -0
  27. data/spec/javascripts/jobs_spec.js +99 -0
  28. data/spec/javascripts/jquery/jquery-ui.min.js +791 -0
  29. data/spec/javascripts/jquery/jquery.min.js +4 -0
  30. data/spec/javascripts/jquery/jquery_ujs.js +373 -0
  31. data/spec/javascripts/quorum_spec.js +106 -0
  32. data/spec/javascripts/string_spec.js +18 -0
  33. data/spec/javascripts/support/jasmine.yml +84 -0
  34. data/spec/javascripts/support/jasmine_config.rb +23 -0
  35. data/spec/javascripts/support/jasmine_runner.rb +33 -0
  36. data/spec/requests/jobs_spec.rb +34 -33
  37. data/vendor/assets/javascripts/jquery.autohint.js +87 -0
  38. metadata +62 -26
metadata CHANGED
@@ -1,7 +1,7 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: quorum
3
3
  version: !ruby/object:Gem::Version
4
- version: 0.2.1
4
+ version: 0.3.0
5
5
  prerelease:
6
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  platform: ruby
7
7
  authors:
@@ -9,11 +9,11 @@ authors:
9
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  autorequire:
10
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  bindir: bin
11
11
  cert_chain: []
12
- date: 2012-01-24 00:00:00.000000000Z
12
+ date: 2012-01-31 00:00:00.000000000Z
13
13
  dependencies:
14
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  - !ruby/object:Gem::Dependency
15
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  name: rails
16
- requirement: &173460320 !ruby/object:Gem::Requirement
16
+ requirement: &16508360 !ruby/object:Gem::Requirement
17
17
  none: false
18
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  requirements:
19
19
  - - ~>
@@ -21,10 +21,10 @@ dependencies:
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  version: '3.1'
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  type: :runtime
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  prerelease: false
24
- version_requirements: *173460320
24
+ version_requirements: *16508360
25
25
  - !ruby/object:Gem::Dependency
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26
  name: jquery-rails
27
- requirement: &173459900 !ruby/object:Gem::Requirement
27
+ requirement: &16507560 !ruby/object:Gem::Requirement
28
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  none: false
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  requirements:
30
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  - - ! '>='
@@ -32,10 +32,10 @@ dependencies:
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  version: '0'
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  type: :runtime
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  prerelease: false
35
- version_requirements: *173459900
35
+ version_requirements: *16507560
36
36
  - !ruby/object:Gem::Dependency
37
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  name: net-ssh
38
- requirement: &173424000 !ruby/object:Gem::Requirement
38
+ requirement: &16506660 !ruby/object:Gem::Requirement
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  none: false
40
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  requirements:
41
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  - - ~>
@@ -43,10 +43,10 @@ dependencies:
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  version: 2.3.0
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  type: :runtime
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  prerelease: false
46
- version_requirements: *173424000
46
+ version_requirements: *16506660
47
47
  - !ruby/object:Gem::Dependency
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  name: resque
49
- requirement: &173423420 !ruby/object:Gem::Requirement
49
+ requirement: &16506000 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
52
52
  - - ~>
@@ -54,10 +54,10 @@ dependencies:
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  version: 1.19.0
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  type: :runtime
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  prerelease: false
57
- version_requirements: *173423420
57
+ version_requirements: *16506000
58
58
  - !ruby/object:Gem::Dependency
59
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  name: resque-result
60
- requirement: &173422880 !ruby/object:Gem::Requirement
60
+ requirement: &16505320 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
63
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  - - ~>
@@ -65,10 +65,10 @@ dependencies:
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  version: 1.0.1
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  type: :runtime
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  prerelease: false
68
- version_requirements: *173422880
68
+ version_requirements: *16505320
69
69
  - !ruby/object:Gem::Dependency
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  name: bio-blastxmlparser
71
- requirement: &173422400 !ruby/object:Gem::Requirement
71
+ requirement: &16504660 !ruby/object:Gem::Requirement
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  none: false
73
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  requirements:
74
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  - - ~>
@@ -76,10 +76,10 @@ dependencies:
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  version: 1.0.1
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  type: :runtime
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  prerelease: false
79
- version_requirements: *173422400
79
+ version_requirements: *16504660
80
80
  - !ruby/object:Gem::Dependency
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  name: mysql2
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- requirement: &173421860 !ruby/object:Gem::Requirement
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+ requirement: &16500480 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
85
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  - - ~>
@@ -87,10 +87,10 @@ dependencies:
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  version: 0.3.11
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  type: :development
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  prerelease: false
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- version_requirements: *173421860
90
+ version_requirements: *16500480
91
91
  - !ruby/object:Gem::Dependency
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  name: rspec-rails
93
- requirement: &173421000 !ruby/object:Gem::Requirement
93
+ requirement: &16499900 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
96
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  - - ~>
@@ -98,10 +98,10 @@ dependencies:
98
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  version: '2.6'
99
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  type: :development
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  prerelease: false
101
- version_requirements: *173421000
101
+ version_requirements: *16499900
102
102
  - !ruby/object:Gem::Dependency
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  name: resque_spec
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- requirement: &173420520 !ruby/object:Gem::Requirement
104
+ requirement: &16499360 !ruby/object:Gem::Requirement
105
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  none: false
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  requirements:
107
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  - - ~>
@@ -109,10 +109,10 @@ dependencies:
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  version: '0.8'
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  type: :development
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  prerelease: false
112
- version_requirements: *173420520
112
+ version_requirements: *16499360
113
113
  - !ruby/object:Gem::Dependency
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  name: capybara
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- requirement: &173419940 !ruby/object:Gem::Requirement
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+ requirement: &16498840 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
118
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  - - ~>
@@ -120,10 +120,10 @@ dependencies:
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  version: '1.1'
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  type: :development
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  prerelease: false
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- version_requirements: *173419940
123
+ version_requirements: *16498840
124
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  - !ruby/object:Gem::Dependency
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  name: database_cleaner
126
- requirement: &173419420 !ruby/object:Gem::Requirement
126
+ requirement: &16498280 !ruby/object:Gem::Requirement
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  none: false
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  requirements:
129
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  - - ~>
@@ -131,10 +131,10 @@ dependencies:
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  version: '0.6'
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  type: :development
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  prerelease: false
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- version_requirements: *173419420
134
+ version_requirements: *16498280
135
135
  - !ruby/object:Gem::Dependency
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  name: factory_girl_rails
137
- requirement: &173418900 !ruby/object:Gem::Requirement
137
+ requirement: &16497740 !ruby/object:Gem::Requirement
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  none: false
139
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  requirements:
140
140
  - - ~>
@@ -142,7 +142,18 @@ dependencies:
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  version: '1.2'
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  type: :development
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  prerelease: false
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- version_requirements: *173418900
145
+ version_requirements: *16497740
146
+ - !ruby/object:Gem::Dependency
147
+ name: jasmine
148
+ requirement: &16497200 !ruby/object:Gem::Requirement
149
+ none: false
150
+ requirements:
151
+ - - ~>
152
+ - !ruby/object:Gem::Version
153
+ version: '1.1'
154
+ type: :development
155
+ prerelease: false
156
+ version_requirements: *16497200
146
157
  description: Flexible bioinformatics search tool.
147
158
  email:
148
159
  - kas@ncgr.org
@@ -176,7 +187,11 @@ files:
176
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  - app/assets/images/quorum/ui-icons_cd0a0a_256x240.png
177
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  - app/assets/javascripts/quorum/application.js
178
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  - app/assets/javascripts/quorum/jobs.js
190
+ - app/assets/javascripts/quorum/quorum.js
191
+ - app/assets/javascripts/quorum/template_settings.js
192
+ - app/assets/javascripts/quorum/utilities.js
179
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  - app/assets/stylesheets/quorum/application.css
194
+ - app/assets/stylesheets/quorum/autohint.css
180
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  - app/assets/stylesheets/quorum/jobs.css
181
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  - app/assets/stylesheets/quorum/jquery-ui-1.8.16.custom.css
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  - app/assets/stylesheets/quorum/tipsy.css
@@ -234,6 +249,7 @@ files:
234
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  - lib/quorum/version.rb
235
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  - lib/tasks/blastdb/README
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  - lib/tasks/blastdb/build_blast_db.rb
252
+ - lib/tasks/jasmine.rake
237
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  - lib/tasks/quorum_resque.rake
238
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  - lib/tasks/quorum_tasks.rake
239
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  - lib/workers/quorum.rb
@@ -305,6 +321,19 @@ files:
305
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  - spec/dummy/quorum/lib/search_tools/blast.rb
306
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  - spec/dummy/quorum/lib/trollop.rb
307
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  - spec/dummy/script/rails
324
+ - spec/javascripts/fixtures/formatted_sequence.html
325
+ - spec/javascripts/fixtures/quorum_search_form.html
326
+ - spec/javascripts/fixtures/quorum_tabs.html
327
+ - spec/javascripts/helpers/jasmine-jquery.js
328
+ - spec/javascripts/jobs_spec.js
329
+ - spec/javascripts/jquery/jquery-ui.min.js
330
+ - spec/javascripts/jquery/jquery.min.js
331
+ - spec/javascripts/jquery/jquery_ujs.js
332
+ - spec/javascripts/quorum_spec.js
333
+ - spec/javascripts/string_spec.js
334
+ - spec/javascripts/support/jasmine.yml
335
+ - spec/javascripts/support/jasmine_config.rb
336
+ - spec/javascripts/support/jasmine_runner.rb
308
337
  - spec/models/blastn_job_report_spec.rb
309
338
  - spec/models/blastn_job_spec.rb
310
339
  - spec/models/blastp_job_report_spec.rb
@@ -323,6 +352,7 @@ files:
323
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  - spec/templates/blast_db_spec.rb
324
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  - spec/templates/blast_spec.rb
325
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  - spec/templates/logger_spec.rb
355
+ - vendor/assets/javascripts/jquery.autohint.js
326
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  - vendor/assets/javascripts/jquery.tipsy.js
327
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  - vendor/assets/javascripts/underscore-min.js
328
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  homepage: https://github.com/ncgr/quorum
@@ -337,12 +367,18 @@ required_ruby_version: !ruby/object:Gem::Requirement
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  - - ! '>='
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  - !ruby/object:Gem::Version
339
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  version: '0'
370
+ segments:
371
+ - 0
372
+ hash: 2758324715515745186
340
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  required_rubygems_version: !ruby/object:Gem::Requirement
341
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  none: false
342
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  requirements:
343
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  - - ! '>='
344
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  - !ruby/object:Gem::Version
345
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  version: '0'
379
+ segments:
380
+ - 0
381
+ hash: 2758324715515745186
346
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  requirements: []
347
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  rubyforge_project:
348
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  rubygems_version: 1.8.15