coupler 0.0.1-java

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Files changed (258) hide show
  1. data/.document +5 -0
  2. data/.gitmodules +3 -0
  3. data/.rvmrc +1 -0
  4. data/.vimrc +40 -0
  5. data/Gemfile +27 -0
  6. data/Gemfile.lock +71 -0
  7. data/LICENSE +20 -0
  8. data/NOTES +6 -0
  9. data/README.rdoc +18 -0
  10. data/Rakefile +42 -0
  11. data/TODO +11 -0
  12. data/VERSION +1 -0
  13. data/bin/coupler +7 -0
  14. data/db/.gitignore +6 -0
  15. data/db/migrate/001_initial_schema.rb +166 -0
  16. data/db/migrate/002_stub.rb +4 -0
  17. data/db/migrate/003_stub.rb +4 -0
  18. data/db/migrate/004_create_comparisons.rb +28 -0
  19. data/db/migrate/005_move_database_name.rb +19 -0
  20. data/db/migrate/006_upgrade_comparisons.rb +34 -0
  21. data/db/migrate/007_add_which_to_comparisons.rb +23 -0
  22. data/db/migrate/008_add_result_field_to_transformations.rb +33 -0
  23. data/db/migrate/009_add_generated_flag_to_fields.rb +13 -0
  24. data/db/migrate/010_create_imports.rb +24 -0
  25. data/db/migrate/011_add_primary_key_type.rb +13 -0
  26. data/db/migrate/012_add_transformed_with_to_resources.rb +13 -0
  27. data/db/migrate/013_add_run_count_to_scenarios.rb +13 -0
  28. data/db/migrate/014_add_last_accessed_at_to_some_tables.rb +13 -0
  29. data/db/migrate/015_add_run_number_to_results.rb +15 -0
  30. data/db/migrate/016_fix_scenario_run_count.rb +27 -0
  31. data/db/migrate/017_rename_comparison_columns.rb +14 -0
  32. data/db/migrate/018_fix_scenario_linkage_type.rb +8 -0
  33. data/db/migrate/019_add_columns_to_imports.rb +24 -0
  34. data/db/migrate/020_rename_import_columns.rb +12 -0
  35. data/db/migrate/021_add_fields_to_connections.rb +15 -0
  36. data/db/migrate/022_remove_database_name_from_resources.rb +11 -0
  37. data/features/connections.feature +28 -0
  38. data/features/matchers.feature +35 -0
  39. data/features/projects.feature +11 -0
  40. data/features/resources.feature +62 -0
  41. data/features/scenarios.feature +45 -0
  42. data/features/step_definitions/coupler_steps.rb +145 -0
  43. data/features/step_definitions/matchers_steps.rb +26 -0
  44. data/features/step_definitions/resources_steps.rb +12 -0
  45. data/features/step_definitions/scenarios_steps.rb +7 -0
  46. data/features/step_definitions/transformations_steps.rb +3 -0
  47. data/features/support/env.rb +128 -0
  48. data/features/transformations.feature +22 -0
  49. data/features/wizard.feature +10 -0
  50. data/gfx/coupler-header.svg +213 -0
  51. data/gfx/coupler-sidebar.svg +656 -0
  52. data/gfx/coupler.svg +184 -0
  53. data/gfx/icon.svg +75 -0
  54. data/lib/coupler/base.rb +63 -0
  55. data/lib/coupler/config.rb +128 -0
  56. data/lib/coupler/data_uploader.rb +20 -0
  57. data/lib/coupler/database.rb +31 -0
  58. data/lib/coupler/extensions/connections.rb +57 -0
  59. data/lib/coupler/extensions/exceptions.rb +58 -0
  60. data/lib/coupler/extensions/imports.rb +43 -0
  61. data/lib/coupler/extensions/jobs.rb +21 -0
  62. data/lib/coupler/extensions/matchers.rb +64 -0
  63. data/lib/coupler/extensions/projects.rb +62 -0
  64. data/lib/coupler/extensions/resources.rb +89 -0
  65. data/lib/coupler/extensions/results.rb +100 -0
  66. data/lib/coupler/extensions/scenarios.rb +50 -0
  67. data/lib/coupler/extensions/transformations.rb +70 -0
  68. data/lib/coupler/extensions/transformers.rb +58 -0
  69. data/lib/coupler/extensions.rb +16 -0
  70. data/lib/coupler/helpers.rb +121 -0
  71. data/lib/coupler/import_buffer.rb +48 -0
  72. data/lib/coupler/logger.rb +16 -0
  73. data/lib/coupler/models/common_model.rb +104 -0
  74. data/lib/coupler/models/comparison.rb +166 -0
  75. data/lib/coupler/models/connection.rb +59 -0
  76. data/lib/coupler/models/field.rb +55 -0
  77. data/lib/coupler/models/import.rb +238 -0
  78. data/lib/coupler/models/job.rb +42 -0
  79. data/lib/coupler/models/jobify.rb +17 -0
  80. data/lib/coupler/models/matcher.rb +36 -0
  81. data/lib/coupler/models/project.rb +40 -0
  82. data/lib/coupler/models/resource.rb +287 -0
  83. data/lib/coupler/models/result.rb +92 -0
  84. data/lib/coupler/models/scenario/runner.rb +357 -0
  85. data/lib/coupler/models/scenario.rb +115 -0
  86. data/lib/coupler/models/transformation.rb +117 -0
  87. data/lib/coupler/models/transformer/runner.rb +28 -0
  88. data/lib/coupler/models/transformer.rb +110 -0
  89. data/lib/coupler/models.rb +30 -0
  90. data/lib/coupler/runner.rb +76 -0
  91. data/lib/coupler/scheduler.rb +56 -0
  92. data/lib/coupler.rb +34 -0
  93. data/log/.gitignore +1 -0
  94. data/misc/README +5 -0
  95. data/misc/jruby-json.license +57 -0
  96. data/misc/rack-flash.license +22 -0
  97. data/script/dbconsole.rb +5 -0
  98. data/src/edu/vanderbilt/coupler/Main.java +116 -0
  99. data/src/edu/vanderbilt/coupler/jruby.properties +1 -0
  100. data/tasks/annotations.rake +84 -0
  101. data/tasks/db.rake +120 -0
  102. data/tasks/environment.rake +12 -0
  103. data/tasks/jeweler.rake +43 -0
  104. data/tasks/package.rake +58 -0
  105. data/tasks/rdoc.rake +13 -0
  106. data/tasks/test.rake +63 -0
  107. data/tasks/vendor.rake +43 -0
  108. data/test/README.txt +6 -0
  109. data/test/config.yml +9 -0
  110. data/test/coupler/models/test_import.rb +221 -0
  111. data/test/factories.rb +91 -0
  112. data/test/fixtures/duplicate-keys.csv +5 -0
  113. data/test/fixtures/no-headers.csv +50 -0
  114. data/test/fixtures/people.csv +51 -0
  115. data/test/fixtures/varying-row-size.csv +4 -0
  116. data/test/helper.rb +156 -0
  117. data/test/integration/extensions/test_connections.rb +80 -0
  118. data/test/integration/extensions/test_imports.rb +94 -0
  119. data/test/integration/extensions/test_jobs.rb +52 -0
  120. data/test/integration/extensions/test_matchers.rb +134 -0
  121. data/test/integration/extensions/test_projects.rb +82 -0
  122. data/test/integration/extensions/test_resources.rb +150 -0
  123. data/test/integration/extensions/test_results.rb +89 -0
  124. data/test/integration/extensions/test_scenarios.rb +88 -0
  125. data/test/integration/extensions/test_transformations.rb +113 -0
  126. data/test/integration/extensions/test_transformers.rb +80 -0
  127. data/test/integration/test_field.rb +45 -0
  128. data/test/integration/test_import.rb +78 -0
  129. data/test/integration/test_running_scenarios.rb +379 -0
  130. data/test/integration/test_transformation.rb +56 -0
  131. data/test/integration/test_transforming.rb +154 -0
  132. data/test/table_sets.rb +76 -0
  133. data/test/unit/models/test_common_model.rb +130 -0
  134. data/test/unit/models/test_comparison.rb +619 -0
  135. data/test/unit/models/test_connection.rb +115 -0
  136. data/test/unit/models/test_field.rb +99 -0
  137. data/test/unit/models/test_import.rb +130 -0
  138. data/test/unit/models/test_job.rb +115 -0
  139. data/test/unit/models/test_matcher.rb +82 -0
  140. data/test/unit/models/test_project.rb +102 -0
  141. data/test/unit/models/test_resource.rb +564 -0
  142. data/test/unit/models/test_result.rb +90 -0
  143. data/test/unit/models/test_scenario.rb +199 -0
  144. data/test/unit/models/test_transformation.rb +193 -0
  145. data/test/unit/models/test_transformer.rb +188 -0
  146. data/test/unit/test_base.rb +60 -0
  147. data/test/unit/test_data_uploader.rb +27 -0
  148. data/test/unit/test_database.rb +23 -0
  149. data/test/unit/test_helpers.rb +58 -0
  150. data/test/unit/test_logger.rb +10 -0
  151. data/test/unit/test_models.rb +12 -0
  152. data/test/unit/test_runner.rb +76 -0
  153. data/test/unit/test_scheduler.rb +66 -0
  154. data/uploads/.gitignore +2 -0
  155. data/vendor/java/.gitignore +5 -0
  156. data/webroot/public/css/960.css +1 -0
  157. data/webroot/public/css/dataTables.css +1057 -0
  158. data/webroot/public/css/jquery-ui.css +572 -0
  159. data/webroot/public/css/jquery.treeview.css +68 -0
  160. data/webroot/public/css/reset.css +1 -0
  161. data/webroot/public/css/style.css +504 -0
  162. data/webroot/public/css/text.css +1 -0
  163. data/webroot/public/favicon.ico +0 -0
  164. data/webroot/public/images/12_col.gif +0 -0
  165. data/webroot/public/images/16_col.gif +0 -0
  166. data/webroot/public/images/add.png +0 -0
  167. data/webroot/public/images/ajax-loader.gif +0 -0
  168. data/webroot/public/images/cog.png +0 -0
  169. data/webroot/public/images/coupler.png +0 -0
  170. data/webroot/public/images/foo.png +0 -0
  171. data/webroot/public/images/hammer.png +0 -0
  172. data/webroot/public/images/header.png +0 -0
  173. data/webroot/public/images/home.gif +0 -0
  174. data/webroot/public/images/jobs.gif +0 -0
  175. data/webroot/public/images/sidebar-bottom.png +0 -0
  176. data/webroot/public/images/sidebar.png +0 -0
  177. data/webroot/public/images/treeview-default-line.gif +0 -0
  178. data/webroot/public/images/treeview-default.gif +0 -0
  179. data/webroot/public/images/ui-anim_basic_16x16.gif +0 -0
  180. data/webroot/public/images/ui-bg_flat_0_aaaaaa_40x100.png +0 -0
  181. data/webroot/public/images/ui-bg_flat_75_ffffff_40x100.png +0 -0
  182. data/webroot/public/images/ui-bg_glass_55_fbf9ee_1x400.png +0 -0
  183. data/webroot/public/images/ui-bg_glass_65_ffffff_1x400.png +0 -0
  184. data/webroot/public/images/ui-bg_glass_75_dadada_1x400.png +0 -0
  185. data/webroot/public/images/ui-bg_glass_75_e6e6e6_1x400.png +0 -0
  186. data/webroot/public/images/ui-bg_glass_95_fef1ec_1x400.png +0 -0
  187. data/webroot/public/images/ui-bg_highlight-hard_30_565356_1x100.png +0 -0
  188. data/webroot/public/images/ui-bg_highlight-hard_75_888588_1x100.png +0 -0
  189. data/webroot/public/images/ui-bg_highlight-soft_30_6e3b3a_1x100.png +0 -0
  190. data/webroot/public/images/ui-bg_highlight-soft_35_8e8b8e_1x100.png +0 -0
  191. data/webroot/public/images/ui-bg_highlight-soft_75_cccccc_1x100.png +0 -0
  192. data/webroot/public/images/ui-icons_222222_256x240.png +0 -0
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  195. data/webroot/public/images/ui-icons_888888_256x240.png +0 -0
  196. data/webroot/public/images/ui-icons_cd0a0a_256x240.png +0 -0
  197. data/webroot/public/images/ui-icons_ffffff_256x240.png +0 -0
  198. data/webroot/public/js/ajaxupload.js +673 -0
  199. data/webroot/public/js/application.js +40 -0
  200. data/webroot/public/js/jquery-ui.combobox.js +98 -0
  201. data/webroot/public/js/jquery-ui.js +9867 -0
  202. data/webroot/public/js/jquery-ui.min.js +559 -0
  203. data/webroot/public/js/jquery.dataTables.min.js +587 -0
  204. data/webroot/public/js/jquery.min.js +154 -0
  205. data/webroot/public/js/jquery.timeago.js +140 -0
  206. data/webroot/public/js/jquery.tooltip.min.js +19 -0
  207. data/webroot/public/js/jquery.treeview.min.js +15 -0
  208. data/webroot/public/js/resource.js +11 -0
  209. data/webroot/public/js/results.js +56 -0
  210. data/webroot/public/js/transformations.js +95 -0
  211. data/webroot/views/connections/index.erb +5 -0
  212. data/webroot/views/connections/list.erb +34 -0
  213. data/webroot/views/connections/new.erb +55 -0
  214. data/webroot/views/connections/show.erb +36 -0
  215. data/webroot/views/imports/edit.erb +60 -0
  216. data/webroot/views/imports/form.erb +81 -0
  217. data/webroot/views/imports/new.erb +89 -0
  218. data/webroot/views/index.erb +12 -0
  219. data/webroot/views/jobs/index.erb +7 -0
  220. data/webroot/views/jobs/list.erb +24 -0
  221. data/webroot/views/layout.erb +38 -0
  222. data/webroot/views/matchers/form.erb +250 -0
  223. data/webroot/views/matchers/list.erb +32 -0
  224. data/webroot/views/projects/form.erb +14 -0
  225. data/webroot/views/projects/index.erb +96 -0
  226. data/webroot/views/projects/show.erb +24 -0
  227. data/webroot/views/resources/edit.erb +88 -0
  228. data/webroot/views/resources/index.erb +5 -0
  229. data/webroot/views/resources/list.erb +27 -0
  230. data/webroot/views/resources/new.erb +121 -0
  231. data/webroot/views/resources/show.erb +86 -0
  232. data/webroot/views/resources/transform.erb +2 -0
  233. data/webroot/views/results/csv.erb +12 -0
  234. data/webroot/views/results/details.erb +15 -0
  235. data/webroot/views/results/index.erb +2 -0
  236. data/webroot/views/results/list.erb +22 -0
  237. data/webroot/views/results/record.erb +24 -0
  238. data/webroot/views/results/show.erb +68 -0
  239. data/webroot/views/scenarios/index.erb +5 -0
  240. data/webroot/views/scenarios/list.erb +20 -0
  241. data/webroot/views/scenarios/new.erb +99 -0
  242. data/webroot/views/scenarios/run.erb +2 -0
  243. data/webroot/views/scenarios/show.erb +50 -0
  244. data/webroot/views/sidebar.erb +106 -0
  245. data/webroot/views/transformations/create.erb +115 -0
  246. data/webroot/views/transformations/for.erb +16 -0
  247. data/webroot/views/transformations/index.erb +2 -0
  248. data/webroot/views/transformations/list.erb +29 -0
  249. data/webroot/views/transformations/new.erb +126 -0
  250. data/webroot/views/transformations/preview.erb +46 -0
  251. data/webroot/views/transformers/edit.erb +6 -0
  252. data/webroot/views/transformers/form.erb +58 -0
  253. data/webroot/views/transformers/index.erb +2 -0
  254. data/webroot/views/transformers/list.erb +25 -0
  255. data/webroot/views/transformers/new.erb +5 -0
  256. data/webroot/views/transformers/preview.erb +23 -0
  257. data/webroot/views/transformers/show.erb +0 -0
  258. metadata +558 -0
@@ -0,0 +1,58 @@
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+ require 'helper'
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+
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+ module Coupler
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+ class TestHelpers < Coupler::Test::UnitTest
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+ include ::Coupler::Helpers
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+
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+ def test_error_messages_for
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+ valid_object = mock("valid object", :errors => [])
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+ assert_equal "", error_messages_for(valid_object)
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+
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+ invalid_object = mock("invalid object")
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+ invalid_object.expects(:errors).twice.returns([[:base, ['foo']], [:pants, ['are dirty', 'are smelly']]])
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+ result = error_messages_for(invalid_object)
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+
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+ doc = Nokogiri::HTML(result)
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+ assert (div = doc.at("div.errors"))
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+ assert (ul = div.at('ul'))
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+
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+ assert_equal 3, (li = ul.css('li')).length
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+ assert_equal "foo", li[0].inner_html
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+ assert_equal "Pants are dirty", li[1].inner_html
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+ assert_equal "Pants are smelly", li[2].inner_html
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+ end
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+
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+ def test_delete_link
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+ expected = %^<a href="/foo/bar" onclick="if (confirm('Are you sure?')) { var f = document.createElement('form'); f.style.display = 'none'; this.parentNode.appendChild(f); f.method = 'POST'; f.action = this.href; var m = document.createElement('input'); m.setAttribute('type', 'hidden'); m.setAttribute('name', '_method'); m.setAttribute('value', 'delete'); f.appendChild(m); f.submit(); }; return false;">Foo bar</a>^
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+ assert_equal expected, delete_link("Foo bar", "/foo/bar")
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+ end
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+
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+ def test_timeago
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+ now = Time.now
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+ dt = now.send(:to_datetime)
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+ expected = %{<div class="timeago" title="#{dt.to_s}">#{now.to_s}</div>}
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+ assert_equal expected, timeago(now)
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+ end
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+
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+ def test_timeago_with_nil_time
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+ assert_equal "Never", timeago(nil)
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+ end
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+
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+ def test_timeago_with_additional_classes
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+ now = Time.now
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+ dt = now.send(:to_datetime)
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+ expected = %{<div class="timeago leet" title="#{dt.to_s}">#{now.to_s}</div>}
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+ assert_equal expected, timeago(now, "leet")
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+ end
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+
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+ def test_form_tag_for
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+ obj = Models::Project.new
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+ result = form_tag_for(obj, :base_url => "/projects")
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+ assert_equal %{<form action="/projects" method="post">}, result
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+
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+ obj = Factory(:project)
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+ result = form_tag_for(obj, :base_url => "/projects")
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+ assert_equal %{<form action="/projects/#{obj.id}" method="post"><div style="display: none;"><input type="hidden" name="_method" value="put" /></div>}, result
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+ end
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+ end
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+ end
@@ -0,0 +1,10 @@
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+ require 'helper'
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+
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+ module Coupler
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+ class TestLogger < Coupler::Test::UnitTest
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+ def test_delegation
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+ logger = Coupler::Logger.instance
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+ assert_kind_of ::Logger, logger.__getobj__
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+ end
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+ end
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+ end
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+ require 'helper'
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+
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+ module Coupler
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+ class TestModels < Coupler::Test::UnitTest
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+ def test_lazy_loading_accepts_strings
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+ assert_nothing_raised do
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+ # This happens because Forgery calls const_missing directly with a string
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+ Models.const_missing("Resource")
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+ end
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+ end
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+ end
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+ end
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+ require 'helper'
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+
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+ module Coupler
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+ class TestRunner < Coupler::Test::UnitTest
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+ def setup
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+ super
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+ @scheduler = stub("scheduler", :is_started? => true, :start => nil)
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+ Scheduler.stubs(:instance).returns(@scheduler)
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+ @database = stub("database", :migrate! => nil)
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+ Database.stubs(:instance).returns(@database)
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+ @app = stub('rack app')
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+ @handler = stub('rack handler', :new => @app)
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+ Rack::Handler.stubs(:get).returns(@handler)
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+ @thread = stub('mongrel thread', :join => nil)
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+ @mongrel = stub('mongrel', :register => nil, :run => @thread)
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+ Mongrel::HttpServer.stubs(:new).returns(@mongrel)
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+ @settings = stub('settings', :bind => '0.0.0.0', :port => 123)
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+ Base.stubs(:set => nil, :settings => @settings)
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+ end
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+
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+ def capture_stdout
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+ begin
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+ out = StringIO.new
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+ $stdout = out
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+ yield
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+ return out
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+ ensure
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+ $stdout = STDOUT
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+ end
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+ end
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+
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+ test "starts scheduler" do
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+ @scheduler.expects(:start)
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+ capture_stdout { Runner.new([]) }
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+ end
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+
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+ test "starts web server" do
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+ Mongrel::HttpServer.expects(:new).with('0.0.0.0', 123, 950, 0, 60).returns(@mongrel)
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+ @handler.expects(:new).with(Coupler::Base).returns(@app)
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+ @mongrel.expects(:register).with('/', @app)
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+ @mongrel.expects(:run).returns(@thread)
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+ Coupler::Base.expects(:set).with(:running, true)
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+ @thread.expects(:join)
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+ capture_stdout { Runner.new([]) }
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+ end
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+
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+ test "shutting down" do
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+ @scheduler.expects(:shutdown)
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+ @mongrel.expects(:stop)
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+ capture_stdout { r = Runner.new([]); r.shutdown }
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+ end
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+
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+ test "migrates the database" do
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+ @database.expects(:migrate!)
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+ capture_stdout { Runner.new([]) }
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+ end
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+
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+ test "sets web port" do
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+ argv = %w{--port=37222}
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+ Base.expects(:set).with(:port, 37222)
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+ capture_stdout { Runner.new(argv) }
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+ end
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+
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+ test "sets data path" do
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+ argv = %w{--dir=/tmp/coupler}
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+ Base.expects(:set).with(:data_path, '/tmp/coupler')
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+ capture_stdout { Runner.new(argv) }
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+ end
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+
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+ test "sets environment" do
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+ argv = %w{--environment=development}
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+ Base.expects(:set).with(:environment, :development)
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+ capture_stdout { Runner.new(argv) }
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+ end
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+ end
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+ end
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+ require 'helper'
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+
3
+ module Coupler
4
+ class TestScheduler < Coupler::Test::UnitTest
5
+ test "schedule transform job" do
6
+ resource = mock('resource')
7
+ Models::Job.expects(:create).with({
8
+ :name => "transform",
9
+ :resource => resource,
10
+ :status => "scheduled"
11
+ })
12
+
13
+ Scheduler.instance.schedule_transform_job(resource)
14
+ end
15
+
16
+ test "schedule run scenario job" do
17
+ scenario = mock('scenario')
18
+ Models::Job.expects(:create).with({
19
+ :name => "run_scenario",
20
+ :scenario => scenario,
21
+ :status => "scheduled"
22
+ })
23
+
24
+ Scheduler.instance.schedule_run_scenario_job(scenario)
25
+ end
26
+
27
+ test "run_jobs executes first scheduled job" do
28
+ running_dataset = mock('dataset')
29
+ scheduled_dataset = mock('dataset')
30
+ job = mock('job')
31
+
32
+ seq = sequence('query')
33
+ Models::Job.expects(:filter).with(:status => 'running').returns(running_dataset).in_sequence(seq)
34
+ running_dataset.expects(:count).returns(0).in_sequence(seq)
35
+ Models::Job.expects(:filter).with(:status => 'scheduled').returns(scheduled_dataset).in_sequence(seq)
36
+ scheduled_dataset.expects(:order).with(:created_at).returns(scheduled_dataset).in_sequence(seq)
37
+ scheduled_dataset.expects(:first).returns(job).in_sequence(seq)
38
+ Thread.expects(:new).with(job).yields(job).in_sequence(seq)
39
+ job.expects(:execute).in_sequence(seq)
40
+ Scheduler.instance.run_jobs
41
+ end
42
+
43
+ test "run_jobs does not execute job if one already running" do
44
+ running_dataset = mock('dataset')
45
+
46
+ Models::Job.expects(:filter).with(:status => 'running').returns(running_dataset)
47
+ running_dataset.expects(:count).returns(1)
48
+ Models::Job.expects(:filter).with(:status => 'scheduled').never
49
+ Scheduler.instance.run_jobs
50
+ end
51
+
52
+ test "start and shutdown" do
53
+ scheduler = Scheduler.instance
54
+ thread = stub('thread')
55
+ Thread.expects(:new).once.returns(thread)
56
+ scheduler.start
57
+ assert scheduler.is_started?
58
+
59
+ scheduler.start # don't start again
60
+
61
+ thread.expects(:exit).once
62
+ scheduler.shutdown
63
+ assert !scheduler.is_started?
64
+ end
65
+ end
66
+ end
@@ -0,0 +1,2 @@
1
+ *
2
+ !.gitignore
@@ -0,0 +1,5 @@
1
+ mysql-connector-mxj*
2
+ mysql-connector-java*
3
+ one-jar*
4
+ quartz*
5
+ jruby-complete*
@@ -0,0 +1 @@
1
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