gfdnavi 1.3.0.0

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 (446) hide show
  1. data/ChangeLog +10949 -0
  2. data/LICENCE.txt +57 -0
  3. data/Makefile +18 -0
  4. data/TODO +132 -0
  5. data/app/controllers/analysis_controller.rb +700 -0
  6. data/app/controllers/application.rb +41 -0
  7. data/app/controllers/draw_method_controller.rb +172 -0
  8. data/app/controllers/explorer_controller.rb +197 -0
  9. data/app/controllers/finder_controller.rb +331 -0
  10. data/app/controllers/function_controller.rb +204 -0
  11. data/app/controllers/group_controller.rb +115 -0
  12. data/app/controllers/keyword_attributes_controller.rb +52 -0
  13. data/app/controllers/knowledge_controller.rb +928 -0
  14. data/app/controllers/nodes_controller.rb +515 -0
  15. data/app/controllers/search_controller.rb +341 -0
  16. data/app/controllers/user_controller.rb +337 -0
  17. data/app/helpers/analysis_helper.rb +2 -0
  18. data/app/helpers/application_helper.rb +105 -0
  19. data/app/helpers/description_helper.rb +2 -0
  20. data/app/helpers/function_helper.rb +2 -0
  21. data/app/helpers/group_helper.rb +2 -0
  22. data/app/helpers/search_helper.rb +3 -0
  23. data/app/helpers/user_helper.rb +2 -0
  24. data/app/helpers/work_flow_helper.rb +92 -0
  25. data/app/models/actual_file.rb +3 -0
  26. data/app/models/analysis.rb +715 -0
  27. data/app/models/analysis_history.rb +42 -0
  28. data/app/models/cross_array.rb +22 -0
  29. data/app/models/cross_result.rb +254 -0
  30. data/app/models/derived_spatial_attribute.rb +3 -0
  31. data/app/models/diagram_cache.rb +16 -0
  32. data/app/models/diagram_cache_datum.rb +4 -0
  33. data/app/models/diagram_cache_session.rb +8 -0
  34. data/app/models/directory.rb +21 -0
  35. data/app/models/draw_method.rb +48 -0
  36. data/app/models/draw_method_attribute.rb +8 -0
  37. data/app/models/draw_parameter.rb +12 -0
  38. data/app/models/explorer_query.rb +354 -0
  39. data/app/models/explorer_result.rb +312 -0
  40. data/app/models/function.rb +75 -0
  41. data/app/models/function_argument.rb +6 -0
  42. data/app/models/function_output.rb +4 -0
  43. data/app/models/group.rb +153 -0
  44. data/app/models/image.rb +20 -0
  45. data/app/models/keyword_attribute.rb +179 -0
  46. data/app/models/knowledge.rb +94 -0
  47. data/app/models/knowledge_backup.rb +32 -0
  48. data/app/models/knowledge_figure.rb +16 -0
  49. data/app/models/knowledge_figure_backup.rb +16 -0
  50. data/app/models/knowledge_parser.rb +392 -0
  51. data/app/models/node.rb +605 -0
  52. data/app/models/node_entity_abstract.rb +112 -0
  53. data/app/models/node_lineage.rb +6 -0
  54. data/app/models/node_relation.rb +4 -0
  55. data/app/models/path_node.rb +60 -0
  56. data/app/models/query.rb +193 -0
  57. data/app/models/query_history.rb +12 -0
  58. data/app/models/results.rb +48 -0
  59. data/app/models/sign_up_user.rb +25 -0
  60. data/app/models/spatial_and_time_attribute.rb +11 -0
  61. data/app/models/user.rb +115 -0
  62. data/app/models/user_mailer.rb +48 -0
  63. data/app/models/value_type.rb +3 -0
  64. data/app/models/variable.rb +70 -0
  65. data/app/models/virtual_node.rb +457 -0
  66. data/app/views/analysis/__help_analysis_tab.en.html +57 -0
  67. data/app/views/analysis/__help_draw_share.en.html +12 -0
  68. data/app/views/analysis/__help_draw_tab.en.html +6 -0
  69. data/app/views/analysis/_analysis_function_settings.rhtml +61 -0
  70. data/app/views/analysis/_analysis_settings.rhtml +28 -0
  71. data/app/views/analysis/_diagram.rhtml +70 -0
  72. data/app/views/analysis/_dimension_option.rhtml +59 -0
  73. data/app/views/analysis/_draw_general_settings.rhtml +217 -0
  74. data/app/views/analysis/_draw_settings.rhtml +73 -0
  75. data/app/views/analysis/_history.rhtml +19 -0
  76. data/app/views/analysis/_popular_diagrams.rhtml +42 -0
  77. data/app/views/analysis/_save_form.rhtml +44 -0
  78. data/app/views/analysis/_variables.rhtml +66 -0
  79. data/app/views/analysis/_variables_order.rhtml +56 -0
  80. data/app/views/analysis/index.rhtml +195 -0
  81. data/app/views/analysis/preview.rhtml +3 -0
  82. data/app/views/analysis/save.rhtml +73 -0
  83. data/app/views/analysis/show_diagram.rhtml +42 -0
  84. data/app/views/cross/_display_map.rhtml +201 -0
  85. data/app/views/cross/_result.rhtml +205 -0
  86. data/app/views/cross/_show_result_tree.rhtml +40 -0
  87. data/app/views/cross/_show_results.rhtml +80 -0
  88. data/app/views/cross/_style.rhtml +21 -0
  89. data/app/views/cross/index.rhtml +271 -0
  90. data/app/views/draw_method/_edit_form.rhtml +110 -0
  91. data/app/views/draw_method/create.rhtml +8 -0
  92. data/app/views/draw_method/details.rhtml +113 -0
  93. data/app/views/draw_method/edit.rhtml +8 -0
  94. data/app/views/draw_method/list.rhtml +80 -0
  95. data/app/views/explorer/_display_map.rhtml +199 -0
  96. data/app/views/explorer/_show_result_tree.rhtml +40 -0
  97. data/app/views/explorer/_show_results.rhtml +101 -0
  98. data/app/views/explorer/_style.rhtml +21 -0
  99. data/app/views/explorer/index.rhtml +214 -0
  100. data/app/views/finder/_children.html.erb +84 -0
  101. data/app/views/finder/_children_details.html.erb +74 -0
  102. data/app/views/finder/_children_details_tr.html.erb +196 -0
  103. data/app/views/finder/create_tree.html.erb +15 -0
  104. data/app/views/finder/flex.html.erb +52 -0
  105. data/app/views/finder/index.html.erb +47 -0
  106. data/app/views/finder/show_details.html.erb +3 -0
  107. data/app/views/finder/show_images.html.erb +3 -0
  108. data/app/views/function/_edit_form.rhtml +106 -0
  109. data/app/views/function/create.rhtml +8 -0
  110. data/app/views/function/details.rhtml +96 -0
  111. data/app/views/function/edit.rhtml +8 -0
  112. data/app/views/function/list.rhtml +80 -0
  113. data/app/views/group/add_member.rhtml +13 -0
  114. data/app/views/group/change_owner.rhtml +15 -0
  115. data/app/views/group/create.rhtml +11 -0
  116. data/app/views/group/delete_member.rhtml +14 -0
  117. data/app/views/group/list.rhtml +63 -0
  118. data/app/views/knowledge/_backup.rhtml +135 -0
  119. data/app/views/knowledge/_category.rhtml +58 -0
  120. data/app/views/knowledge/_category_list.rhtml +34 -0
  121. data/app/views/knowledge/_category_table.rhtml +23 -0
  122. data/app/views/knowledge/_comment.rhtml +64 -0
  123. data/app/views/knowledge/_comment_input_form.rhtml +19 -0
  124. data/app/views/knowledge/_comments.rhtml +84 -0
  125. data/app/views/knowledge/_form.rhtml +139 -0
  126. data/app/views/knowledge/_group_figure_form.rhtml +187 -0
  127. data/app/views/knowledge/_layout_figure.rhtml +61 -0
  128. data/app/views/knowledge/_layout_figures_in_a_row_above_text.rhtml +42 -0
  129. data/app/views/knowledge/_layout_figures_under_text.rhtml +45 -0
  130. data/app/views/knowledge/_layout_one_figure_above_text.rhtml +28 -0
  131. data/app/views/knowledge/_summary.rhtml +21 -0
  132. data/app/views/knowledge/edit.rhtml +37 -0
  133. data/app/views/knowledge/list.rhtml +287 -0
  134. data/app/views/knowledge/new.rhtml +23 -0
  135. data/app/views/knowledge/new_from_analysis.rhtml +21 -0
  136. data/app/views/knowledge/show.rhtml +196 -0
  137. data/app/views/layouts/gfdnavi.rhtml +105 -0
  138. data/app/views/nodes/_ancestors.html.erb +89 -0
  139. data/app/views/nodes/_description_methods_table.html.erb +75 -0
  140. data/app/views/nodes/_mode.html.erb +16 -0
  141. data/app/views/nodes/description.html.erb +181 -0
  142. data/app/views/nodes/description_methods.html.erb +1 -0
  143. data/app/views/nodes/edit.html.erb +73 -0
  144. data/app/views/nodes/index.html.erb +25 -0
  145. data/app/views/nodes/show.html.erb +20 -0
  146. data/app/views/search/_children_details_mapsearch.rhtml +68 -0
  147. data/app/views/search/_children_details_tr.rhtml +205 -0
  148. data/app/views/search/_show_grouplist.rhtml +74 -0
  149. data/app/views/search/_show_results.rhtml +43 -0
  150. data/app/views/search/_show_results_global.rhtml +36 -0
  151. data/app/views/search/_show_results_partial.rhtml +39 -0
  152. data/app/views/search/_show_results_partial_groupbyfile.rhtml +50 -0
  153. data/app/views/search/_show_variablelist.rhtml +28 -0
  154. data/app/views/search/mapsearch.rhtml +176 -0
  155. data/app/views/search/remapsearch.rjs +18 -0
  156. data/app/views/search/show_details.rhtml +3 -0
  157. data/app/views/user/add_user.rhtml +30 -0
  158. data/app/views/user/change_password.rhtml +25 -0
  159. data/app/views/user/edit.html.erb +50 -0
  160. data/app/views/user/index.rhtml +162 -0
  161. data/app/views/user/login.rhtml +41 -0
  162. data/app/views/user/logout.rhtml +4 -0
  163. data/app/views/user/signup.rhtml +36 -0
  164. data/app/views/user/signup_succeeded.rhtml +36 -0
  165. data/app/views/user_mailer/authorization_inform.rhtml +15 -0
  166. data/app/views/user_mailer/signup_accepted.rhtml +12 -0
  167. data/app/views/user_mailer/signup_confirm.rhtml +14 -0
  168. data/app/views/user_mailer/signup_inform.rhtml +13 -0
  169. data/app/views/user_mailer/signup_rejected.rhtml +11 -0
  170. data/app/views/work_flow/_push_wsdls.rhtml +55 -0
  171. data/app/views/work_flow/index.rhtml +46 -0
  172. data/config/database.yml.example +35 -0
  173. data/config/environment.rb +68 -0
  174. data/config/gfdnavi.yml.example +95 -0
  175. data/config/load_config.rb +151 -0
  176. data/config/routes.rb +35 -0
  177. data/consistency_checker.rb +129 -0
  178. data/data/gfdnavi_docs/how_to_draw_multiple_images.knlge +68 -0
  179. data/data/gfdnavi_docs/how_to_knowledge.knlge +138 -0
  180. data/data/gfdnavi_docs/how_to_write_document_about_Gfdnavi.knlge +30 -0
  181. data/data/samples/jmadata.SIGEN +8 -0
  182. data/data/samples/jmadata.yml +6 -0
  183. data/data/samples/jmadata/MSM-P/2006.nc.yml +2 -0
  184. data/data/samples/jmadata/MSM-P/2006.yml +17 -0
  185. data/data/samples/jmadata/MSM-P/2006/0101.nc +0 -0
  186. data/data/samples/jmadata/MSM-P/2006/0101.nc.yml +13 -0
  187. data/data/samples/jmadata/MSM-P/2006/0102.nc +0 -0
  188. data/data/samples/jmadata/MSM-P/2006/0103.nc +0 -0
  189. data/data/samples/jmadata/MSM-P/2006/0104.nc +0 -0
  190. data/data/samples/jmadata/MSM-P/2006/0105.nc +0 -0
  191. data/data/samples/jmadata/MSM-P/2006/010[1-3].nc.yml +2 -0
  192. data/data/samples/jmadata/MSM-P/2006/skip_data.rb +96 -0
  193. data/data/samples/jmadata/MSM-P/2006/skip_data.sh +6 -0
  194. data/data/samples/reanalysis.SIGEN +8 -0
  195. data/data/samples/reanalysis/era40.SIGEN +8 -0
  196. data/data/samples/reanalysis/era40.yml +2 -0
  197. data/data/samples/reanalysis/era40/t.jan.nc +0 -0
  198. data/data/samples/reanalysis/era40/t.jan.nc.yml +1 -0
  199. data/data/samples/reanalysis/ncep.SIGEN +9 -0
  200. data/data/samples/reanalysis/ncep/T.jan.100hPa.png +0 -0
  201. data/data/samples/reanalysis/ncep/T.jan.100hPa.png.yml +43 -0
  202. data/data/samples/reanalysis/ncep/T.jan.nc +0 -0
  203. data/data/samples/reanalysis/ncep/T.jan.zonal_mean.nc +0 -0
  204. data/data/samples/reanalysis/ncep/T.jan.zonal_mean.nc.yml +8 -0
  205. data/data/samples/reanalysis/ncep/T.jan_only_root.nc +0 -0
  206. data/data/samples/reanalysis/ncep/T.jan_only_root.nc.yml +4 -0
  207. data/data/samples/reanalysis/ncep/UV.jan.nc +0 -0
  208. data/data/samples/reanalysis/ncep/UV.jan.nc.yml +10 -0
  209. data/data/samples/reanalysis/ncep/UV.jan.nc.yml.ja +11 -0
  210. data/data/samples/sonde_operational.yml +5 -0
  211. data/data/samples/sonde_operational/std_plev.yml +12 -0
  212. data/data/samples/sonde_operational/std_plev/41256.spl.nc +0 -0
  213. data/data/samples/sonde_operational/std_plev/42410.spl.nc +0 -0
  214. data/data/samples/sonde_operational/std_plev/43333.spl.nc +0 -0
  215. data/data/samples/sonde_operational/std_plev/43346.spl.nc +0 -0
  216. data/data/samples/sonde_operational/std_plev/48698.spl.nc +0 -0
  217. data/data/samples/sonde_operational/std_plev/61641.spl.nc +0 -0
  218. data/data/samples/sonde_operational/std_plev/63741.spl.nc +0 -0
  219. data/data/samples/sonde_operational/std_plev/67083.spl.nc +0 -0
  220. data/data/samples/sonde_operational/std_plev/72261.spl.nc +0 -0
  221. data/data/samples/sonde_operational/std_plev/76805.spl.nc +0 -0
  222. data/data/samples/sonde_operational/std_plev/82193.spl.nc +0 -0
  223. data/data/samples/sonde_operational/std_plev/91165.spl.nc +0 -0
  224. data/data/samples/sonde_operational/std_plev/91610.spl.nc +0 -0
  225. data/data/samples/sonde_operational/std_plev/91948.spl.nc +0 -0
  226. data/data/samples/sonde_operational/std_plev/94294.spl.nc +0 -0
  227. data/db/NetCDFparser.rb +406 -0
  228. data/db/create_derived_spatial_attributes.sql +12 -0
  229. data/db/draw_methods/line.yml +6 -0
  230. data/db/draw_methods/scatter.yml +38 -0
  231. data/db/draw_methods/tone.yml +64 -0
  232. data/db/draw_methods/vector.yml +19 -0
  233. data/db/dump_db.rb +43 -0
  234. data/db/functions/additions.yml +10 -0
  235. data/db/functions/cut.yml +10 -0
  236. data/db/functions/division.yml +10 -0
  237. data/db/functions/mean.yml +28 -0
  238. data/db/functions/multiplication.yml +10 -0
  239. data/db/functions/stddev.yml +28 -0
  240. data/db/functions/subtraction.yml +10 -0
  241. data/db/migrate/001_initial_scheme.rb +289 -0
  242. data/db/migrate/002_add_open_id_authentication_tables.rb +20 -0
  243. data/db/register_directory_tree.rb +760 -0
  244. data/db/restore_db.rb +60 -0
  245. data/gfdnavi-install +828 -0
  246. data/install.rb +828 -0
  247. data/lib/activerecord_gfdnavi.rb +31 -0
  248. data/lib/basic_authorization.rb +50 -0
  249. data/lib/create_activeresources.rb +108 -0
  250. data/lib/execute_analysis.rb +472 -0
  251. data/lib/file_gfdnavi.rb +38 -0
  252. data/lib/gphys_gfdnavi.rb +81 -0
  253. data/lib/localdir.rb +110 -0
  254. data/lib/login_system.rb +110 -0
  255. data/lib/multibytes.rb +20 -0
  256. data/lib/narray_yaml.rb +58 -0
  257. data/lib/no_rdb_base.rb +40 -0
  258. data/lib/opendapdir.rb +171 -0
  259. data/lib/tar.rb +127 -0
  260. data/lib/tasks/clean.rake +65 -0
  261. data/lib/tasks/setup.rake +316 -0
  262. data/lib/tasks/update.rake +62 -0
  263. data/lib/vizshot_gfdnavi.rb +224 -0
  264. data/public/crossdomain.xml +4 -0
  265. data/public/flex/NodeTreeDescriptor.as +55 -0
  266. data/public/flex/TreeNode.as +253 -0
  267. data/public/flex/finder.mxml +304 -0
  268. data/public/flex/finder.swf +0 -0
  269. data/public/flex/gfdnavi.mxml +52 -0
  270. data/public/flex/gfdnavi.swf +0 -0
  271. data/public/images/Help_S-shots/dir_tree_with_add.jpg +0 -0
  272. data/public/images/analyze.gif +0 -0
  273. data/public/images/circle.gif +0 -0
  274. data/public/images/create_from_analysis_button.png +0 -0
  275. data/public/images/delete.png +0 -0
  276. data/public/images/down.png +0 -0
  277. data/public/images/drawbutton.gif +0 -0
  278. data/public/images/gfdnavi_home_logo.png +0 -0
  279. data/public/images/gfdnavi_logo_big.png +0 -0
  280. data/public/images/gfdnavi_logo_med.png +0 -0
  281. data/public/images/gfdnavi_logo_mini.png +0 -0
  282. data/public/images/gfdnavi_logo_nobg_big.png +0 -0
  283. data/public/images/gfdnavi_logo_nobg_med.png +0 -0
  284. data/public/images/gfdnavi_logo_nobg_small.png +0 -0
  285. data/public/images/gfdnavi_logo_small.png +0 -0
  286. data/public/images/gfdnavi_logo_xsmall.png +0 -0
  287. data/public/images/hbar.png +0 -0
  288. data/public/images/helpmark16.png +0 -0
  289. data/public/images/helpmark18.png +0 -0
  290. data/public/images/kikyu_g.gif +0 -0
  291. data/public/images/kikyu_r.gif +0 -0
  292. data/public/images/map_icon_g.gif +0 -0
  293. data/public/images/map_icon_r.gif +0 -0
  294. data/public/images/new_knowledge.png +0 -0
  295. data/public/images/openid.png +0 -0
  296. data/public/images/read_in_the_form.png +0 -0
  297. data/public/images/slider_f.gif +0 -0
  298. data/public/images/slider_f_red.gif +0 -0
  299. data/public/images/star1.gif +0 -0
  300. data/public/images/star2.gif +0 -0
  301. data/public/images/startanim.gif +0 -0
  302. data/public/images/stopanim.gif +0 -0
  303. data/public/images/tree/DL.png +0 -0
  304. data/public/images/tree/anal_viz.png +0 -0
  305. data/public/images/tree/analyze_visualize_checked_items.png +0 -0
  306. data/public/images/tree/binary.png +0 -0
  307. data/public/images/tree/details.png +0 -0
  308. data/public/images/tree/download_checked_items.png +0 -0
  309. data/public/images/tree/folder.png +0 -0
  310. data/public/images/tree/folder_close.gif +0 -0
  311. data/public/images/tree/image2.png +0 -0
  312. data/public/images/tree/knowledge.png +0 -0
  313. data/public/images/tree/knowledges.png +0 -0
  314. data/public/images/tree/last.gif +0 -0
  315. data/public/images/tree/last.png +0 -0
  316. data/public/images/tree/minus.gif +0 -0
  317. data/public/images/tree/minus_simple.gif +0 -0
  318. data/public/images/tree/none.gif +0 -0
  319. data/public/images/tree/none.png +0 -0
  320. data/public/images/tree/plus.gif +0 -0
  321. data/public/images/tree/plus_simple.gif +0 -0
  322. data/public/images/tree/show.png +0 -0
  323. data/public/images/tree/show_checked_items.png +0 -0
  324. data/public/images/tree/t.gif +0 -0
  325. data/public/images/tree/t.png +0 -0
  326. data/public/images/tree/tate.gif +0 -0
  327. data/public/images/tree/tate.png +0 -0
  328. data/public/images/up.png +0 -0
  329. data/public/images/vbar.png +0 -0
  330. data/public/images/white.bmp +0 -0
  331. data/public/images/x.gif +0 -0
  332. data/public/index.html +100 -0
  333. data/public/javascripts/AC_OETags.js +269 -0
  334. data/public/javascripts/analysis.js +751 -0
  335. data/public/javascripts/application.js +29 -0
  336. data/public/javascripts/directory_tree.js +102 -0
  337. data/public/javascripts/draw_method.js +83 -0
  338. data/public/javascripts/excanvas.js +704 -0
  339. data/public/javascripts/function.js +107 -0
  340. data/public/javascripts/gfdnavi.js +175 -0
  341. data/public/javascripts/knowledge.js +384 -0
  342. data/public/javascripts/mapsearch.js +313 -0
  343. data/public/javascripts/progress.js +42 -0
  344. data/public/javascripts/resizable_box.js +164 -0
  345. data/public/javascripts/slider.js +260 -0
  346. data/public/javascripts/tab.js +17 -0
  347. data/public/javascripts/work_flow.js +452 -0
  348. data/public/stylesheets/analysis.css +111 -0
  349. data/public/stylesheets/description.css +71 -0
  350. data/public/stylesheets/gfdnavi.css +141 -0
  351. data/public/stylesheets/knowledge.css +218 -0
  352. data/public/stylesheets/search.css +184 -0
  353. data/public/stylesheets/tree.css +45 -0
  354. data/public/stylesheets/tree_for_ie.css +3 -0
  355. data/public/stylesheets/work_flow.css +78 -0
  356. data/script/cleaner +11 -0
  357. data/script/server_ssl +131 -0
  358. data/test/fixtures/diagram_cache_data.yml +5 -0
  359. data/test/fixtures/diagram_cache_sessions.yml +6 -0
  360. data/test/fixtures/diagram_caches.yml +6 -0
  361. data/test/fixtures/directories.yml +57 -0
  362. data/test/fixtures/draw_parameters.yml +6 -0
  363. data/test/fixtures/function_arguments.yml +15 -0
  364. data/test/fixtures/function_outputs.yml +15 -0
  365. data/test/fixtures/functions.yml +29 -0
  366. data/test/fixtures/group_members.yml +33 -0
  367. data/test/fixtures/groups.yml +25 -0
  368. data/test/fixtures/images.yml +12 -0
  369. data/test/fixtures/keyword_attributes.yml +73 -0
  370. data/test/fixtures/knowledges.yml +10 -0
  371. data/test/fixtures/node_relations.yml +11 -0
  372. data/test/fixtures/nodes.yml +298 -0
  373. data/test/fixtures/sign_up_users.yml +8 -0
  374. data/test/fixtures/spatial_and_time_attributes.yml +29 -0
  375. data/test/fixtures/user_mailer/authorization_inform +11 -0
  376. data/test/fixtures/user_mailer/signup_accepted +10 -0
  377. data/test/fixtures/user_mailer/signup_confirm +17 -0
  378. data/test/fixtures/user_mailer/signup_inform +10 -0
  379. data/test/fixtures/user_mailer/signup_rejected +9 -0
  380. data/test/fixtures/users.yml +31 -0
  381. data/test/fixtures/value_types.yml +10 -0
  382. data/test/fixtures/variables.yml +17 -0
  383. data/test/functional/analysis_controller_test.rb +169 -0
  384. data/test/functional/description_controller_test.rb +18 -0
  385. data/test/functional/function_controller_test.rb +18 -0
  386. data/test/functional/group_controller_test.rb +18 -0
  387. data/test/functional/search_controller_test.rb +83 -0
  388. data/test/functional/user_controller_test.rb +77 -0
  389. data/test/functional/webservice_analysis_api_test.rb +12 -0
  390. data/test/functional/work_flow_controller_test.rb +18 -0
  391. data/test/test_helper.rb +28 -0
  392. data/test/unit/diagram_cache_datum_test.rb +10 -0
  393. data/test/unit/diagram_cache_session_test.rb +10 -0
  394. data/test/unit/diagram_cache_test.rb +10 -0
  395. data/test/unit/directory_test.rb +49 -0
  396. data/test/unit/draw_parameter_test.rb +10 -0
  397. data/test/unit/function_argument_test.rb +10 -0
  398. data/test/unit/function_output_test.rb +10 -0
  399. data/test/unit/function_test.rb +10 -0
  400. data/test/unit/group_test.rb +48 -0
  401. data/test/unit/image_test.rb +13 -0
  402. data/test/unit/keyword_attribute_test.rb +33 -0
  403. data/test/unit/knowledge_test.rb +13 -0
  404. data/test/unit/node_relation_test.rb +20 -0
  405. data/test/unit/node_test.rb +85 -0
  406. data/test/unit/sign_up_user_test.rb +20 -0
  407. data/test/unit/spatial_and_time_attribute_test.rb +29 -0
  408. data/test/unit/user_mailer_test.rb +101 -0
  409. data/test/unit/user_test.rb +134 -0
  410. data/test/unit/value_type_test.rb +10 -0
  411. data/test/unit/variable_test.rb +35 -0
  412. data/vendor/plugins/acts_as_list/README +23 -0
  413. data/vendor/plugins/acts_as_list/init.rb +3 -0
  414. data/vendor/plugins/acts_as_list/lib/active_record/acts/list.rb +256 -0
  415. data/vendor/plugins/acts_as_list/test/list_test.rb +332 -0
  416. data/vendor/plugins/acts_as_tree/README +26 -0
  417. data/vendor/plugins/acts_as_tree/Rakefile +22 -0
  418. data/vendor/plugins/acts_as_tree/init.rb +1 -0
  419. data/vendor/plugins/acts_as_tree/lib/active_record/acts/tree.rb +96 -0
  420. data/vendor/plugins/acts_as_tree/test/abstract_unit.rb +0 -0
  421. data/vendor/plugins/acts_as_tree/test/acts_as_tree_test.rb +219 -0
  422. data/vendor/plugins/acts_as_tree/test/database.yml +0 -0
  423. data/vendor/plugins/acts_as_tree/test/fixtures/mixin.rb +0 -0
  424. data/vendor/plugins/acts_as_tree/test/fixtures/mixins.yml +0 -0
  425. data/vendor/plugins/acts_as_tree/test/schema.rb +0 -0
  426. data/vendor/plugins/will_paginate/CHANGELOG +92 -0
  427. data/vendor/plugins/will_paginate/LICENSE +18 -0
  428. data/vendor/plugins/will_paginate/README.rdoc +131 -0
  429. data/vendor/plugins/will_paginate/Rakefile +62 -0
  430. data/vendor/plugins/will_paginate/examples/apple-circle.gif +0 -0
  431. data/vendor/plugins/will_paginate/examples/index.haml +69 -0
  432. data/vendor/plugins/will_paginate/examples/index.html +92 -0
  433. data/vendor/plugins/will_paginate/examples/pagination.css +90 -0
  434. data/vendor/plugins/will_paginate/examples/pagination.sass +91 -0
  435. data/vendor/plugins/will_paginate/init.rb +1 -0
  436. data/vendor/plugins/will_paginate/lib/will_paginate.rb +86 -0
  437. data/vendor/plugins/will_paginate/lib/will_paginate/array.rb +16 -0
  438. data/vendor/plugins/will_paginate/lib/will_paginate/collection.rb +145 -0
  439. data/vendor/plugins/will_paginate/lib/will_paginate/core_ext.rb +32 -0
  440. data/vendor/plugins/will_paginate/lib/will_paginate/finder.rb +247 -0
  441. data/vendor/plugins/will_paginate/lib/will_paginate/named_scope.rb +132 -0
  442. data/vendor/plugins/will_paginate/lib/will_paginate/named_scope_patch.rb +39 -0
  443. data/vendor/plugins/will_paginate/lib/will_paginate/version.rb +9 -0
  444. data/vendor/plugins/will_paginate/lib/will_paginate/view_helpers.rb +373 -0
  445. data/vendor/plugins/will_paginate/will_paginate.gemspec +21 -0
  446. metadata +586 -0
@@ -0,0 +1,515 @@
1
+ class NodesController < ApplicationController
2
+ layout "gfdnavi"
3
+ session :off
4
+
5
+ # before_filter :login_required, :only => [:change_mode, :edit]
6
+ before_filter :basic_authorization_required, :only => [:change_mode, :edit]
7
+ before_filter :basic_authorization, :except => [:change_mode, :edit]
8
+
9
+
10
+ def index
11
+ user = get_user
12
+ nodes = Node.top_directory_nodes
13
+ list(nodes,user)
14
+ end
15
+
16
+ def path
17
+ path = File.join("",params[:path])
18
+ user = get_user
19
+ opts = params.dup
20
+ %w(action controller path).each{|name| opts.delete(name) }
21
+ node = parse_path(path,user,opts)
22
+ case node
23
+ when VirtualNode
24
+ if node.draw_method
25
+ draw(node,user)
26
+ else
27
+ description_methods(node,user)
28
+ end
29
+ when Array
30
+ list(node,user)
31
+ when Node
32
+ if params[:format].nil? && download(node,user)
33
+ else
34
+ description(node,user)
35
+ end
36
+ else
37
+ render_error(:not_found)
38
+ end
39
+ end
40
+
41
+ def edit
42
+ flag = false
43
+ if (user = get_user)
44
+ path = File.join("",params[:path])
45
+ node = Node.find(:first, :conditions => ["path=?",path], :user => user)
46
+ if node
47
+ if user.super_user? || node.owner == user
48
+ @node = node
49
+ @groups = user.belonging_groups
50
+ @users = User.find(:all) if user.super_user?
51
+ return
52
+ end
53
+ end
54
+ end
55
+ render_error(:forbidden)
56
+ end
57
+
58
+ def update
59
+ flag = false
60
+ if user = get_user
61
+ path = File.join("",params[:path])
62
+ node = Node.find(:first, :conditions => ["path=?",path], :user => user)
63
+ if node
64
+ if user.super_user? || node.owner == user
65
+ flag = true
66
+ end
67
+ end
68
+ end
69
+ unless flag
70
+ render_error(:forbidden)
71
+ return
72
+ end
73
+
74
+ if user.super_user?
75
+ owner = User.find(:first, :conditions=>["login=?",params[:user]])
76
+ node.owner = owner if owner
77
+ #gowner = User.find(:first, :conditions=>["login=?",params[:guest_owner_id]])
78
+ #node.guest_owner = gowner if gowner
79
+ end
80
+ node.other_mode = params[:othere_mode].to_i == 4 ? 4 : 0
81
+ if Array === (rgs=params[:rgroups])
82
+ if rgs[0] == 'everyone'
83
+ node.other_mode = 4
84
+ rgs.shift
85
+ else
86
+ node.other_mode = 0
87
+ end
88
+ if rgs.length > 0
89
+ node.set_rgroups(rgs)
90
+ else
91
+ node.rgroups = 0
92
+ end
93
+ else
94
+ node.other_mode = 0
95
+ node.rgroups = 0
96
+ end
97
+ if Array === (wgs=params[:wgroups]) && wgs.length > 0
98
+ node.set_wgroups(wgs)
99
+ else
100
+ node.wgroups = 0
101
+ end
102
+ if node.save
103
+ respons.headers[:Location] = data_url(:path => node.path)
104
+ render :text => "update sucessed", :status => :ok
105
+ else
106
+ render :text => "update failed<br/>\n"+node.errors.messages.join("<br/>\n"), :status => :bad_request
107
+ end
108
+ redirect_to
109
+ end
110
+
111
+
112
+
113
+ protected
114
+
115
+
116
+ def parse_path(path,user,opts)
117
+ unless path
118
+ @message ||= Array.new
119
+ @message << "path, #{path}, is invalid"
120
+ return nil
121
+ end
122
+ case path
123
+ when /^(.+)\/\[([\,\d]+)\]$/
124
+ name = $1
125
+ ind = $2
126
+ if ( node = parse_path(name,user,Hash.new) )
127
+ node = VirtualNode.new(node) if Array === node
128
+ res,msg = node[*ind.split(",").collect{|c| c.to_i}]
129
+ if res
130
+ return node
131
+ else
132
+ @message ||= Array.new
133
+ @message << msg
134
+ return nil
135
+ end
136
+ end
137
+ when /^(.+)\/(([\-\+\.\d]+|true|false|\,)+)$/
138
+ name = $1
139
+ val = $2
140
+ if ( node = parse_path(name,user,Hash.new) )
141
+ node = VirtualNode.new(node) if Node === node || Array === node
142
+ ary = val.split(",").collect{|c|
143
+ if /^(true|false)$/ =~ c
144
+ $1 == "true"
145
+ elsif /^(.+)\.\.(.+)$/ =~ c
146
+ ($1.to_f)..($2.to_f)
147
+ else
148
+ c.to_f
149
+ end
150
+ }
151
+ res, msg = node.cut!(*ary)
152
+ if res
153
+ return node
154
+ else
155
+ @message ||= Array.new
156
+ @message << msg
157
+ return nil
158
+ end
159
+ end
160
+ when /^(.+)\/draw\/((?!draw).+)$/
161
+ name = $1
162
+ method = $2
163
+ if ( node = parse_path(name,user,Hash.new) )
164
+ res = parse_method(method,:draw,user,opts)
165
+ if res
166
+ node = VirtualNode.new(node) if Node === node || Array === node
167
+ res,msg = node.draw(*res)
168
+ if res
169
+ return node
170
+ else
171
+ @message ||= Array.new
172
+ @message << msg
173
+ return nil
174
+ end
175
+ end
176
+ end
177
+ when /^(.+)\/analysis\/((?!analysis).+)$/
178
+ name = $1
179
+ method = $2
180
+ if ( node = parse_path(name,user,Hash.new) )
181
+ if /^(.+)\?(.+)$/ =~ method
182
+ method = $1
183
+ opts = ActionController::AbstractRequest.parse_request_parameters(CGI.parse($2))
184
+ end
185
+ res = parse_method(method,:analysis,user,opts)
186
+ if res
187
+ node = VirtualNode.new(node) if Node === node || Array === node
188
+ res,msg = node.function(*res)
189
+ if res
190
+ return node
191
+ else
192
+ @message ||= Array.new
193
+ @message << msg
194
+ return nil
195
+ end
196
+ end
197
+ end
198
+ when /,/
199
+ ary = path.split(",")
200
+ return ary.collect{|pa| parse_path(pa,user,Hash.new) }.flatten
201
+ else
202
+ pa = path
203
+ type = :nothing
204
+ if /^(.*)\/(children|parent)$/ =~ pa
205
+ pa = $1
206
+ type = $2
207
+ pa = "/" if pa == ""
208
+ end
209
+ unless (node=Node.find(:first,:conditions=>["path=?",pa],:user=>user))
210
+ @message ||= Array.new
211
+ @message << "path (#{pa}) cannot be found"
212
+ return nil
213
+ end
214
+ case type
215
+ when :nothing
216
+ return node
217
+ when "children"
218
+ case opts["type"]
219
+ when "directories"
220
+ return node.directory_nodes(:user => user).to_ary
221
+ when "variables"
222
+ return node.variable_nodes(:user => user).to_ary
223
+ when "images"
224
+ return node.image_nodes(:user => user).to_ary
225
+ else
226
+ return node.children(false, :user => user).to_ary
227
+ end
228
+ when "parent"
229
+ return node.parent
230
+ end
231
+ end
232
+ return nil
233
+ end
234
+
235
+ def parse_method(path,type,user,opts)
236
+ unless /^\// =~ path
237
+ path = "/"+path
238
+ end
239
+ case type
240
+ when :draw
241
+ if (dm = DrawMethod.find(:first, :conditions=>["path=?",path], :user => user))
242
+ return [dm,opts]
243
+ else
244
+ @message ||= Array.new
245
+ @message << "cannot be found draw method (#{path})"
246
+ return nil
247
+ end
248
+ when :analysis
249
+ if (func = Function.find(:first, :conditions=>["path=?",path], :user => user))
250
+ argc = func.function_arguments.length
251
+ args = Array.new
252
+ if param_args = opts["argv"]
253
+ argc.times{|i|
254
+ if arg = param_args[i.to_s]
255
+ arg = arg.split(",") if /\,/ =~ arg
256
+ args[i] = arg
257
+ end
258
+ }
259
+ end
260
+ args = nil if args.length == 0
261
+ return [func,args]
262
+ else
263
+ @message ||= Array.new
264
+ @message << "cannot be found function (#{path})"
265
+ return nil
266
+ end
267
+ end
268
+ return hash
269
+ end
270
+
271
+ def download(node,user)
272
+ if node
273
+ if node.directory?
274
+ dir = node.entity
275
+ if dir.plain_file
276
+ if dir.downloadable?
277
+ send_file dir.fname, :file_name => dir.name, :type => "application/x-netcdf"
278
+ return true
279
+ else
280
+ render_error(:forbidden)
281
+ return true
282
+ end
283
+ end
284
+ elsif node.image?
285
+ img = node.entity
286
+ response.headers['Content-Type'] = img.content_type
287
+ File.open(img.fname,"rb"){|file|
288
+ render :text => file.read
289
+ }
290
+ return true
291
+ end
292
+ end
293
+ return false
294
+ end
295
+
296
+
297
+ def list(nodes,user)
298
+ if nodes.length > 0
299
+ @nodes = nodes
300
+ respond_to do |format|
301
+ format.html { render :action => :index }
302
+ format.xml { render :xml => nodes.to_xml(:user=>user, :num_dirs=>params[:num_dirs], :uri_prefix=>uri_prefix) }
303
+ end
304
+ else
305
+ render_error(:not_found)
306
+ end
307
+ end
308
+
309
+ def description(node,user)
310
+ unless node
311
+ render_error(:not_found)
312
+ return
313
+ end
314
+
315
+ respond_to do |format|
316
+ format.xml { render :xml => node.to_xml(:user=>user, :uri_prefix=>uri_prefix) }
317
+ format.html {
318
+ @node = node
319
+ @name = node.name
320
+ @path = node.path
321
+ @type = Node::NODE_TYPES[node.node_type]
322
+ ttl = node.title
323
+ @title = (ttl && ttl!="NULL") ? ttl : ""
324
+ if user && (user.super_user? || node.owner==user)
325
+ mode = {
326
+ :other_mode => node.other_mode,
327
+ :rgroups => Group.find_by_bit_flag(node.rgroups).collect{|g| g.name}.join(", "),
328
+ :wgroups => Group.find_by_bit_flag(node.wgroups).collect{|g| g.name}.join(", ")
329
+ }
330
+ @mode = mode
331
+ end
332
+ @ancestors = get_descriptions(node)
333
+ if node.directory?
334
+ @directories = node.directory_nodes(:user=>user)
335
+ @variables = node.variable_nodes(:user=>user)
336
+ @images = node.image_nodes(:user=>user)
337
+ end
338
+ @references = node.references(:user=>user).collect{|ref| {"path"=>ref.path}}
339
+ ref_by = node.referenced_by(:user=>user)
340
+ @referenced_by = ref_by.collect{|ref| {"path"=>ref.path}}
341
+
342
+ # Knowledge <--> Variable , Knowledge <--> Image �̊֌W��
343
+ # node_relations �e�[�u���ɓ����Ă��Ȃ��̂ŁA�ʓr find ����
344
+ # (Variable <--> Image �͑��v)
345
+ @link_variables = Array.new
346
+ @link_images = Array.new
347
+ @linked_knowledges = Array.new
348
+ case node.node_type
349
+ when 2 # Image -> Knowledge
350
+ image_id = Image.find(node.id, :user => user).id
351
+ KnowledgeFigure.find(:all, :conditions => ["image_id = ?", image_id]).each do |kf|
352
+ knowledge = Knowledge.find_by_id(kf.knowledge_id)
353
+ @linked_knowledges.push({"title"=>knowledge.title, "path"=>knowledge.path})
354
+ end
355
+ @linked_knowledges.uniq!
356
+ when 3 # Knowledge -> Image, Knowledge -> Variable
357
+ Knowledge.find(node.id, :user => user).knowledge_figures.each do |kf|
358
+ image = Image.find_by_id(kf.image_id)
359
+ @link_images.push({"path"=>image.path})
360
+ image.references.each do |v|
361
+ @link_variables.push({"path"=>v.path}) if v
362
+ end
363
+ end
364
+ end
365
+
366
+ =begin
367
+ klg = Array.new
368
+ node.knowledges(:user=>user).each{|kn|
369
+ hash = {"title"=>kn.title, "path"=>kn.path}
370
+ klg.push(hash) unless klg.include?(hash)
371
+ }
372
+ ref_by.each{|rb|
373
+ rb.knowledges(:user=>user).each{|kn|
374
+ hash = {"title"=>kn.title, "path"=>kn.path}
375
+ klg.push(hash) unless klg.include?(hash)
376
+ }
377
+ }
378
+ @knowledges = klg
379
+ =end
380
+
381
+ if node.directory?
382
+ dir = node.entity
383
+ @plain_file = dir.plain_file
384
+ if dir.downloadable?
385
+ if node.opendap?
386
+ @dl_url = dir.path + '.html'
387
+ else
388
+ @dl_url = data_dl_url(:path => dir.path.sub(/^\//,""))
389
+ end
390
+ end
391
+ elsif node.image?
392
+ @dl_url = data_dl_url(:path => node.path.sub(/^\//,""))
393
+ end
394
+ render :action => "description", :layout => !request.xhr?
395
+ }
396
+ end
397
+ end
398
+
399
+ def description_methods(node,user)
400
+ # unless Node === node || VirtualNode === node
401
+ unless VirtualNode === node
402
+ render_error(:bad_request, "no variables were found")
403
+ return
404
+ end
405
+ respond_to{|format|
406
+ format.html {
407
+ @node = node
408
+ render :action => :description_methods
409
+ }
410
+ format.xml {
411
+ render :xml => node.to_xml(:uri_prefix=>uri_prefix)
412
+ }
413
+ }
414
+ end
415
+
416
+ def draw(node,user)
417
+ unless VirtualNode === node
418
+ render_error(:bad_request, "no variables were found")
419
+ return
420
+ end
421
+ path = node.path
422
+ # unless ( files = get_diagram_cache(path) )
423
+ files, msg = node.get(GFDNAVI_DIAGRAM_CACHE_PATH)
424
+ unless files
425
+ render_error(:bad_request, msg.gsub(/\n/,"<br\>\n"))
426
+ return
427
+ end
428
+ # put_diagram_cache(node.path, files)
429
+ # end
430
+ respond_to{|format|
431
+ format.html {
432
+ render :text => "ok, #{path}"
433
+ }
434
+ format.xml {
435
+ render :xml => {"status"=>"ok"}.to_xml
436
+ }
437
+ }
438
+ end
439
+
440
+
441
+ def get_descriptions(node)
442
+ descs = Array.new
443
+ loop do
444
+ h = Hash.new
445
+ h[:type] = Integer=== node.node_type ? Node::NODE_TYPES[node.node_type] : node.node_type
446
+ h[:path] = node.path
447
+ ttl = node.title
448
+ h[:title] = (ttl && ttl!="NULL") ? ttl : node.name
449
+ kwattrs = node.keyword_attributes
450
+ desc = node.description
451
+ h[:description] = (desc && desc!="NULL") ? desc : ''
452
+ h[:name] = node.name
453
+ h[:keyword_attributes] = get_kwattrs(kwattrs, desc)
454
+ info_url = node.stdname("information_url")
455
+ h[:infomation_url] = info_url.value if info_url
456
+ descs.unshift( h )
457
+ node = node.parent
458
+ break unless node
459
+ end
460
+ return descs
461
+ end
462
+
463
+ def get_kwattrs(kwattrs, desc)
464
+ ary = Array.new
465
+ kwattrs.each do |att|
466
+ if att != desc
467
+ v=att.value
468
+ if v.is_a?(NArray)
469
+ if v.length == 1
470
+ v = v[0].to_s
471
+ else
472
+ v = v.to_a.inspect
473
+ end
474
+ end
475
+ ary.push( {:name=>att.name, :value=>v} )
476
+ end
477
+ end
478
+ return ary
479
+ end
480
+
481
+ def get_user
482
+ # (login=session[:user]) && User.find_by_login(login)
483
+ (login=basic_login) && User.find_by_login(login)
484
+ end
485
+
486
+ def render_error(status, message=nil)
487
+ respond_to do |format|
488
+ format.html {
489
+ text = status.to_s
490
+ text += "<br/>\n" + message if message
491
+ text += "<br/>\n" + @message.join("<br/>\n") if @message
492
+ render :text => text, :status => status
493
+ }
494
+ format.xml { head status }
495
+ end
496
+ end
497
+
498
+
499
+ def get_diagram_cache(path)
500
+ return nil
501
+ if dc = DiagramCache.find_by_path(path)
502
+ return YAML.loat(dc.files)
503
+ else
504
+ return nil
505
+ end
506
+ end
507
+
508
+ def put_diagram_cache(path,files)
509
+ dc = DiagramCache.new(:path => path, :files => files)
510
+ dc.save!
511
+ end
512
+
513
+
514
+
515
+ end