rbbt-views 0.1.2 → 1.0.0

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Files changed (156) hide show
  1. data/lib/rbbt/workflow/rest.rb +142 -57
  2. data/lib/rbbt/workflow/rest/auth.rb +3 -2
  3. data/lib/rbbt/workflow/rest/client.rb +4 -1
  4. data/lib/rbbt/workflow/rest/email.rb +23 -0
  5. data/lib/rbbt/workflow/rest/entity.rb +87 -62
  6. data/lib/rbbt/workflow/rest/helpers.rb +38 -0
  7. data/lib/rbbt/workflow/rest/render.rb +532 -153
  8. data/lib/rbbt/workflow/rest/util.rb +81 -104
  9. data/share/views/compass/_base.sass +0 -3
  10. data/share/views/compass/app.sass +0 -103
  11. data/share/views/compass/compass.config +5 -5
  12. data/share/views/compass/layout.sass +133 -0
  13. data/share/views/compass/main.sass +28 -5
  14. data/share/views/entity/GOTerm.haml +15 -0
  15. data/share/views/entity/Gene.haml +7 -0
  16. data/share/views/entity/GenomicMutation.haml +10 -0
  17. data/share/views/entity/KeggPathway.haml +13 -0
  18. data/share/views/entity/MutatedIsoform.haml +43 -0
  19. data/share/views/entity/NCIBioCartaPathways.haml +9 -0
  20. data/share/views/entity/NCINaturePathways.haml +9 -0
  21. data/share/views/entity/NCIReactomePathways.haml +9 -0
  22. data/share/views/entity/PfamDomain.haml +1 -0
  23. data/share/views/entity_list/Default.haml +10 -0
  24. data/share/views/form.haml +2 -54
  25. data/share/views/front.haml +1 -0
  26. data/share/views/job_list.haml +1 -1
  27. data/share/views/js/app.js +122 -68
  28. data/share/views/layout.haml +28 -22
  29. data/share/views/partials/_form.haml +36 -0
  30. data/share/views/partials/_job_control.haml +8 -8
  31. data/share/views/partials/_result_table.haml +12 -40
  32. data/share/views/partials/_result_table_controls.haml +36 -28
  33. data/share/views/partials/_table.haml +39 -0
  34. data/share/views/public/favicon.gif +0 -0
  35. data/share/views/public/plugins/jmol/CHANGES.txt +11124 -0
  36. data/share/views/public/plugins/jmol/COPYRIGHT.txt +73 -0
  37. data/share/views/public/plugins/jmol/ChimeToJmol.jar +0 -0
  38. data/share/views/public/plugins/jmol/Jmol.jar +0 -0
  39. data/share/views/public/plugins/jmol/Jmol.js +1711 -0
  40. data/share/views/public/plugins/jmol/JmolApplet.jar +0 -0
  41. data/share/views/public/plugins/jmol/JmolApplet0.jar +0 -0
  42. data/share/views/public/plugins/jmol/JmolApplet0_Console.jar +0 -0
  43. data/share/views/public/plugins/jmol/JmolApplet0_Minimize.jar +0 -0
  44. data/share/views/public/plugins/jmol/JmolApplet0_Popup.jar +0 -0
  45. data/share/views/public/plugins/jmol/JmolApplet0_ReadersCifPdb.jar +0 -0
  46. data/share/views/public/plugins/jmol/JmolApplet0_ReadersMolXyz.jar +0 -0
  47. data/share/views/public/plugins/jmol/JmolApplet0_ReadersMore.jar +0 -0
  48. data/share/views/public/plugins/jmol/JmolApplet0_ReadersQuantum.jar +0 -0
  49. data/share/views/public/plugins/jmol/JmolApplet0_ReadersSimple.jar +0 -0
  50. data/share/views/public/plugins/jmol/JmolApplet0_ReadersXml.jar +0 -0
  51. data/share/views/public/plugins/jmol/JmolApplet0_ReadersXtal.jar +0 -0
  52. data/share/views/public/plugins/jmol/JmolApplet0_ShapeBio.jar +0 -0
  53. data/share/views/public/plugins/jmol/JmolApplet0_ShapeSpecial.jar +0 -0
  54. data/share/views/public/plugins/jmol/JmolApplet0_ShapeSurface.jar +0 -0
  55. data/share/views/public/plugins/jmol/JmolApplet0_Smiles.jar +0 -0
  56. data/share/views/public/plugins/jmol/JmolApplet0_Symmetry.jar +0 -0
  57. data/share/views/public/plugins/jmol/JmolApplet0_i18n_ar.jar +0 -0
  58. data/share/views/public/plugins/jmol/JmolApplet0_i18n_bs.jar +0 -0
  59. data/share/views/public/plugins/jmol/JmolApplet0_i18n_ca.jar +0 -0
  60. data/share/views/public/plugins/jmol/JmolApplet0_i18n_cs.jar +0 -0
  61. data/share/views/public/plugins/jmol/JmolApplet0_i18n_da.jar +0 -0
  62. data/share/views/public/plugins/jmol/JmolApplet0_i18n_de.jar +0 -0
  63. data/share/views/public/plugins/jmol/JmolApplet0_i18n_el.jar +0 -0
  64. data/share/views/public/plugins/jmol/JmolApplet0_i18n_en_GB.jar +0 -0
  65. data/share/views/public/plugins/jmol/JmolApplet0_i18n_es.jar +0 -0
  66. data/share/views/public/plugins/jmol/JmolApplet0_i18n_et.jar +0 -0
  67. data/share/views/public/plugins/jmol/JmolApplet0_i18n_fi.jar +0 -0
  68. data/share/views/public/plugins/jmol/JmolApplet0_i18n_fr.jar +0 -0
  69. data/share/views/public/plugins/jmol/JmolApplet0_i18n_fy.jar +0 -0
  70. data/share/views/public/plugins/jmol/JmolApplet0_i18n_hu.jar +0 -0
  71. data/share/views/public/plugins/jmol/JmolApplet0_i18n_hy.jar +0 -0
  72. data/share/views/public/plugins/jmol/JmolApplet0_i18n_id.jar +0 -0
  73. data/share/views/public/plugins/jmol/JmolApplet0_i18n_it.jar +0 -0
  74. data/share/views/public/plugins/jmol/JmolApplet0_i18n_jv.jar +0 -0
  75. data/share/views/public/plugins/jmol/JmolApplet0_i18n_ko.jar +0 -0
  76. data/share/views/public/plugins/jmol/JmolApplet0_i18n_ms.jar +0 -0
  77. data/share/views/public/plugins/jmol/JmolApplet0_i18n_nb.jar +0 -0
  78. data/share/views/public/plugins/jmol/JmolApplet0_i18n_nl.jar +0 -0
  79. data/share/views/public/plugins/jmol/JmolApplet0_i18n_oc.jar +0 -0
  80. data/share/views/public/plugins/jmol/JmolApplet0_i18n_pl.jar +0 -0
  81. data/share/views/public/plugins/jmol/JmolApplet0_i18n_pt.jar +0 -0
  82. data/share/views/public/plugins/jmol/JmolApplet0_i18n_pt_BR.jar +0 -0
  83. data/share/views/public/plugins/jmol/JmolApplet0_i18n_ru.jar +0 -0
  84. data/share/views/public/plugins/jmol/JmolApplet0_i18n_sl.jar +0 -0
  85. data/share/views/public/plugins/jmol/JmolApplet0_i18n_sv.jar +0 -0
  86. data/share/views/public/plugins/jmol/JmolApplet0_i18n_ta.jar +0 -0
  87. data/share/views/public/plugins/jmol/JmolApplet0_i18n_te.jar +0 -0
  88. data/share/views/public/plugins/jmol/JmolApplet0_i18n_tr.jar +0 -0
  89. data/share/views/public/plugins/jmol/JmolApplet0_i18n_uk.jar +0 -0
  90. data/share/views/public/plugins/jmol/JmolApplet0_i18n_zh_CN.jar +0 -0
  91. data/share/views/public/plugins/jmol/JmolApplet0_i18n_zh_TW.jar +0 -0
  92. data/share/views/public/plugins/jmol/JmolAppletSigned.jar +0 -0
  93. data/share/views/public/plugins/jmol/JmolAppletSigned0.jar +0 -0
  94. data/share/views/public/plugins/jmol/JmolAppletSigned0_Console.jar +0 -0
  95. data/share/views/public/plugins/jmol/JmolAppletSigned0_Minimize.jar +0 -0
  96. data/share/views/public/plugins/jmol/JmolAppletSigned0_MultiTouch.jar +0 -0
  97. data/share/views/public/plugins/jmol/JmolAppletSigned0_Popup.jar +0 -0
  98. data/share/views/public/plugins/jmol/JmolAppletSigned0_ReadersCifPdb.jar +0 -0
  99. data/share/views/public/plugins/jmol/JmolAppletSigned0_ReadersMolXyz.jar +0 -0
  100. data/share/views/public/plugins/jmol/JmolAppletSigned0_ReadersMore.jar +0 -0
  101. data/share/views/public/plugins/jmol/JmolAppletSigned0_ReadersQuantum.jar +0 -0
  102. data/share/views/public/plugins/jmol/JmolAppletSigned0_ReadersSimple.jar +0 -0
  103. data/share/views/public/plugins/jmol/JmolAppletSigned0_ReadersXml.jar +0 -0
  104. data/share/views/public/plugins/jmol/JmolAppletSigned0_ReadersXtal.jar +0 -0
  105. data/share/views/public/plugins/jmol/JmolAppletSigned0_ShapeBio.jar +0 -0
  106. data/share/views/public/plugins/jmol/JmolAppletSigned0_ShapeSpecial.jar +0 -0
  107. data/share/views/public/plugins/jmol/JmolAppletSigned0_ShapeSurface.jar +0 -0
  108. data/share/views/public/plugins/jmol/JmolAppletSigned0_Smiles.jar +0 -0
  109. data/share/views/public/plugins/jmol/JmolAppletSigned0_Symmetry.jar +0 -0
  110. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_ar.jar +0 -0
  111. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_bs.jar +0 -0
  112. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_ca.jar +0 -0
  113. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_cs.jar +0 -0
  114. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_da.jar +0 -0
  115. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_de.jar +0 -0
  116. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_el.jar +0 -0
  117. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_en_GB.jar +0 -0
  118. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_es.jar +0 -0
  119. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_et.jar +0 -0
  120. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_fi.jar +0 -0
  121. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_fr.jar +0 -0
  122. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_fy.jar +0 -0
  123. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_hu.jar +0 -0
  124. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_hy.jar +0 -0
  125. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_id.jar +0 -0
  126. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_it.jar +0 -0
  127. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_jv.jar +0 -0
  128. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_ko.jar +0 -0
  129. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_ms.jar +0 -0
  130. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_nb.jar +0 -0
  131. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_nl.jar +0 -0
  132. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_oc.jar +0 -0
  133. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_pl.jar +0 -0
  134. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_pt.jar +0 -0
  135. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_pt_BR.jar +0 -0
  136. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_ru.jar +0 -0
  137. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_sl.jar +0 -0
  138. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_sv.jar +0 -0
  139. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_ta.jar +0 -0
  140. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_te.jar +0 -0
  141. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_tr.jar +0 -0
  142. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_uk.jar +0 -0
  143. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_zh_CN.jar +0 -0
  144. data/share/views/public/plugins/jmol/JmolAppletSigned0_i18n_zh_TW.jar +0 -0
  145. data/share/views/public/plugins/jmol/JmolData.jar +0 -0
  146. data/share/views/public/plugins/jmol/LEAME.txt +217 -0
  147. data/share/views/public/plugins/jmol/LICENSE.txt +504 -0
  148. data/share/views/public/plugins/jmol/README.txt +203 -0
  149. data/share/views/public/plugins/jmol/jmol +22 -0
  150. data/share/views/public/plugins/jmol/jmol.bat +5 -0
  151. data/share/views/public/plugins/jmol/jmol.mac +0 -0
  152. data/share/views/public/plugins/jmol/jmol.sh +39 -0
  153. data/share/views/public/plugins/jquery/js/jquery.form.js +980 -0
  154. data/share/views/result.haml +2 -2
  155. metadata +139 -6
  156. data/share/views/workflow_list.haml +0 -5

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