bio-ucsc-api 0.2.0 → 0.2.1

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 (534) hide show
  1. data/README.rdoc +79 -47
  2. data/Rakefile +4 -2
  3. data/VERSION +1 -1
  4. data/bio-ucsc-api.gemspec +408 -3
  5. data/lib/bio-ucsc.rb +162 -8
  6. data/lib/bio-ucsc/ailmel1.rb +21 -0
  7. data/lib/bio-ucsc/ailmel1/db_connection.rb +57 -0
  8. data/lib/bio-ucsc/anocar2.rb +22 -0
  9. data/lib/bio-ucsc/anocar2/db_connection.rb +57 -0
  10. data/lib/bio-ucsc/anogam1.rb +30 -0
  11. data/lib/bio-ucsc/anogam1/chaindm3.rb +81 -0
  12. data/lib/bio-ucsc/anogam1/chaindm3link.rb +81 -0
  13. data/lib/bio-ucsc/anogam1/db_connection.rb +57 -0
  14. data/lib/bio-ucsc/anogam1/est.rb +81 -0
  15. data/lib/bio-ucsc/anogam1/gap.rb +81 -0
  16. data/lib/bio-ucsc/anogam1/gold.rb +81 -0
  17. data/lib/bio-ucsc/anogam1/intronest.rb +81 -0
  18. data/lib/bio-ucsc/anogam1/mrna.rb +81 -0
  19. data/lib/bio-ucsc/anogam1/rmsk.rb +78 -0
  20. data/lib/bio-ucsc/apimel2.rb +26 -0
  21. data/lib/bio-ucsc/apimel2/chaindm2.rb +81 -0
  22. data/lib/bio-ucsc/apimel2/chaindm2link.rb +81 -0
  23. data/lib/bio-ucsc/apimel2/db_connection.rb +57 -0
  24. data/lib/bio-ucsc/aplcal1.rb +33 -0
  25. data/lib/bio-ucsc/aplcal1/chaincaepb1.rb +81 -0
  26. data/lib/bio-ucsc/aplcal1/chaincaepb1link.rb +81 -0
  27. data/lib/bio-ucsc/aplcal1/chaincaerem2.rb +81 -0
  28. data/lib/bio-ucsc/aplcal1/chaincaerem2link.rb +81 -0
  29. data/lib/bio-ucsc/aplcal1/chaincb3.rb +81 -0
  30. data/lib/bio-ucsc/aplcal1/chaincb3link.rb +81 -0
  31. data/lib/bio-ucsc/aplcal1/chaince6.rb +81 -0
  32. data/lib/bio-ucsc/aplcal1/chaince6link.rb +81 -0
  33. data/lib/bio-ucsc/aplcal1/db_connection.rb +57 -0
  34. data/lib/bio-ucsc/aplcal1/gap.rb +81 -0
  35. data/lib/bio-ucsc/aplcal1/gold.rb +81 -0
  36. data/lib/bio-ucsc/aplcal1/rmsk.rb +78 -0
  37. data/lib/bio-ucsc/bostau4.rb +24 -0
  38. data/lib/bio-ucsc/bostau4/db_connection.rb +57 -0
  39. data/lib/bio-ucsc/braflo1.rb +32 -0
  40. data/lib/bio-ucsc/braflo1/chaingalgal3.rb +81 -0
  41. data/lib/bio-ucsc/braflo1/chaingalgal3link.rb +81 -0
  42. data/lib/bio-ucsc/braflo1/chainhg18.rb +81 -0
  43. data/lib/bio-ucsc/braflo1/chainhg18link.rb +81 -0
  44. data/lib/bio-ucsc/braflo1/chainmm9.rb +81 -0
  45. data/lib/bio-ucsc/braflo1/chainmm9link.rb +81 -0
  46. data/lib/bio-ucsc/braflo1/chainpetmar1.rb +81 -0
  47. data/lib/bio-ucsc/braflo1/chainpetmar1link.rb +81 -0
  48. data/lib/bio-ucsc/braflo1/db_connection.rb +57 -0
  49. data/lib/bio-ucsc/braflo1/gap.rb +81 -0
  50. data/lib/bio-ucsc/braflo1/gold.rb +81 -0
  51. data/lib/bio-ucsc/caejap1.rb +26 -0
  52. data/lib/bio-ucsc/caejap1/chaince6.rb +81 -0
  53. data/lib/bio-ucsc/caejap1/chaince6link.rb +81 -0
  54. data/lib/bio-ucsc/caejap1/db_connection.rb +57 -0
  55. data/lib/bio-ucsc/caejap1/gap.rb +81 -0
  56. data/lib/bio-ucsc/caejap1/gold.rb +81 -0
  57. data/lib/bio-ucsc/caepb2.rb +26 -0
  58. data/lib/bio-ucsc/caepb2/chaince6.rb +81 -0
  59. data/lib/bio-ucsc/caepb2/chaince6link.rb +81 -0
  60. data/lib/bio-ucsc/caepb2/db_connection.rb +57 -0
  61. data/lib/bio-ucsc/caepb2/gap.rb +81 -0
  62. data/lib/bio-ucsc/caepb2/gold.rb +81 -0
  63. data/lib/bio-ucsc/caerem3.rb +26 -0
  64. data/lib/bio-ucsc/caerem3/chaince6.rb +81 -0
  65. data/lib/bio-ucsc/caerem3/chaince6link.rb +81 -0
  66. data/lib/bio-ucsc/caerem3/db_connection.rb +57 -0
  67. data/lib/bio-ucsc/caerem3/gap.rb +81 -0
  68. data/lib/bio-ucsc/caerem3/gold.rb +81 -0
  69. data/lib/bio-ucsc/caljac3.rb +24 -0
  70. data/lib/bio-ucsc/caljac3/db_connection.rb +55 -0
  71. data/lib/bio-ucsc/canfam2.rb +39 -0
  72. data/lib/bio-ucsc/canfam2/chainbostau4.rb +81 -0
  73. data/lib/bio-ucsc/canfam2/chainbostau4link.rb +81 -0
  74. data/lib/bio-ucsc/canfam2/chainmm9.rb +81 -0
  75. data/lib/bio-ucsc/canfam2/chainmm9link.rb +81 -0
  76. data/lib/bio-ucsc/canfam2/chainrn4.rb +81 -0
  77. data/lib/bio-ucsc/canfam2/chainrn4link.rb +81 -0
  78. data/lib/bio-ucsc/canfam2/chainself.rb +81 -0
  79. data/lib/bio-ucsc/canfam2/chainselflink.rb +81 -0
  80. data/lib/bio-ucsc/canfam2/db_connection.rb +57 -0
  81. data/lib/bio-ucsc/canfam2/est.rb +81 -0
  82. data/lib/bio-ucsc/canfam2/gap.rb +81 -0
  83. data/lib/bio-ucsc/canfam2/gold.rb +81 -0
  84. data/lib/bio-ucsc/canfam2/intronest.rb +81 -0
  85. data/lib/bio-ucsc/canfam2/mrna.rb +81 -0
  86. data/lib/bio-ucsc/canfam2/rmsk.rb +78 -0
  87. data/lib/bio-ucsc/cavpor3.rb +21 -0
  88. data/lib/bio-ucsc/cavpor3/db_connection.rb +57 -0
  89. data/lib/bio-ucsc/cb3.rb +36 -0
  90. data/lib/bio-ucsc/cb3/chaincaepb1.rb +81 -0
  91. data/lib/bio-ucsc/cb3/chaincaepb1link.rb +81 -0
  92. data/lib/bio-ucsc/cb3/chaincaerem2.rb +81 -0
  93. data/lib/bio-ucsc/cb3/chaincaerem2link.rb +81 -0
  94. data/lib/bio-ucsc/cb3/chaince6.rb +81 -0
  95. data/lib/bio-ucsc/cb3/chaince6link.rb +81 -0
  96. data/lib/bio-ucsc/cb3/chainpripac1.rb +81 -0
  97. data/lib/bio-ucsc/cb3/chainpripac1link.rb +81 -0
  98. data/lib/bio-ucsc/cb3/db_connection.rb +57 -0
  99. data/lib/bio-ucsc/cb3/est.rb +81 -0
  100. data/lib/bio-ucsc/cb3/gap.rb +81 -0
  101. data/lib/bio-ucsc/cb3/gold.rb +81 -0
  102. data/lib/bio-ucsc/cb3/intronest.rb +81 -0
  103. data/lib/bio-ucsc/cb3/mrna.rb +81 -0
  104. data/lib/bio-ucsc/cb3/rmsk.rb +78 -0
  105. data/lib/bio-ucsc/ce6/chaincaejap1.rb +2 -2
  106. data/lib/bio-ucsc/ce6/chaincaejap1link.rb +2 -2
  107. data/lib/bio-ucsc/ce6/chaincaepb2.rb +2 -2
  108. data/lib/bio-ucsc/ce6/chaincaepb2link.rb +2 -2
  109. data/lib/bio-ucsc/ce6/chaincaerem3.rb +2 -2
  110. data/lib/bio-ucsc/ce6/chaincaerem3link.rb +2 -2
  111. data/lib/bio-ucsc/ce6/chaincb3.rb +2 -2
  112. data/lib/bio-ucsc/ce6/chaincb3link.rb +2 -2
  113. data/lib/bio-ucsc/ce6/chainpripac1.rb +2 -2
  114. data/lib/bio-ucsc/ce6/chainpripac1link.rb +2 -2
  115. data/lib/bio-ucsc/ce6/chainself.rb +2 -2
  116. data/lib/bio-ucsc/ce6/chainselflink.rb +2 -2
  117. data/lib/bio-ucsc/ce6/db_connection.rb +5 -6
  118. data/lib/bio-ucsc/ce6/est.rb +2 -2
  119. data/lib/bio-ucsc/ce6/gap.rb +2 -2
  120. data/lib/bio-ucsc/ce6/gold.rb +2 -2
  121. data/lib/bio-ucsc/ce6/intronest.rb +2 -2
  122. data/lib/bio-ucsc/ce6/mrna.rb +2 -2
  123. data/lib/bio-ucsc/ce6/rmsk.rb +2 -2
  124. data/lib/bio-ucsc/ce6/t25mersrepeats.rb +2 -2
  125. data/lib/bio-ucsc/ci2.rb +23 -0
  126. data/lib/bio-ucsc/ci2/db_connection.rb +55 -0
  127. data/lib/bio-ucsc/danrer7.rb +24 -0
  128. data/lib/bio-ucsc/danrer7/db_connection.rb +57 -0
  129. data/lib/bio-ucsc/dm3/chainanogam1.rb +2 -2
  130. data/lib/bio-ucsc/dm3/chainanogam1link.rb +2 -2
  131. data/lib/bio-ucsc/dm3/chainapimel3.rb +2 -2
  132. data/lib/bio-ucsc/dm3/chainapimel3link.rb +2 -2
  133. data/lib/bio-ucsc/dm3/chaindp3.rb +2 -2
  134. data/lib/bio-ucsc/dm3/chaindp3link.rb +2 -2
  135. data/lib/bio-ucsc/dm3/chaindroana2.rb +2 -2
  136. data/lib/bio-ucsc/dm3/chaindroana2link.rb +2 -2
  137. data/lib/bio-ucsc/dm3/chaindroere1.rb +2 -2
  138. data/lib/bio-ucsc/dm3/chaindroere1link.rb +2 -2
  139. data/lib/bio-ucsc/dm3/chaindroper1.rb +2 -2
  140. data/lib/bio-ucsc/dm3/chaindroper1link.rb +2 -2
  141. data/lib/bio-ucsc/dm3/chaindrosec1.rb +2 -2
  142. data/lib/bio-ucsc/dm3/chaindrosec1link.rb +2 -2
  143. data/lib/bio-ucsc/dm3/chaindrosim1.rb +2 -2
  144. data/lib/bio-ucsc/dm3/chaindrosim1link.rb +2 -2
  145. data/lib/bio-ucsc/dm3/chaindroyak2.rb +2 -2
  146. data/lib/bio-ucsc/dm3/chaindroyak2link.rb +2 -2
  147. data/lib/bio-ucsc/dm3/db_connection.rb +5 -6
  148. data/lib/bio-ucsc/dm3/est.rb +2 -2
  149. data/lib/bio-ucsc/dm3/gap.rb +2 -2
  150. data/lib/bio-ucsc/dm3/gold.rb +2 -2
  151. data/lib/bio-ucsc/dm3/intronest.rb +2 -2
  152. data/lib/bio-ucsc/dm3/mrna.rb +2 -2
  153. data/lib/bio-ucsc/dm3/rmsk.rb +2 -2
  154. data/lib/bio-ucsc/dp3.rb +33 -0
  155. data/lib/bio-ucsc/dp3/chaindm3.rb +81 -0
  156. data/lib/bio-ucsc/dp3/chaindm3link.rb +81 -0
  157. data/lib/bio-ucsc/dp3/db_connection.rb +57 -0
  158. data/lib/bio-ucsc/dp3/est.rb +81 -0
  159. data/lib/bio-ucsc/dp3/gap.rb +81 -0
  160. data/lib/bio-ucsc/dp3/gold.rb +81 -0
  161. data/lib/bio-ucsc/dp3/intronest.rb +81 -0
  162. data/lib/bio-ucsc/dp3/mrna.rb +81 -0
  163. data/lib/bio-ucsc/dp3/rmsk.rb +78 -0
  164. data/lib/bio-ucsc/droana2.rb +22 -0
  165. data/lib/bio-ucsc/droana2/db_connection.rb +57 -0
  166. data/lib/bio-ucsc/droere1.rb +22 -0
  167. data/lib/bio-ucsc/droere1/db_connection.rb +57 -0
  168. data/lib/bio-ucsc/drogri1.rb +22 -0
  169. data/lib/bio-ucsc/drogri1/db_connection.rb +57 -0
  170. data/lib/bio-ucsc/dromoj2.rb +22 -0
  171. data/lib/bio-ucsc/dromoj2/db_connection.rb +57 -0
  172. data/lib/bio-ucsc/droper1.rb +22 -0
  173. data/lib/bio-ucsc/droper1/db_connection.rb +57 -0
  174. data/lib/bio-ucsc/drosec1.rb +22 -0
  175. data/lib/bio-ucsc/drosec1/db_connection.rb +57 -0
  176. data/lib/bio-ucsc/drosim1.rb +30 -0
  177. data/lib/bio-ucsc/drosim1/chaindm3.rb +81 -0
  178. data/lib/bio-ucsc/drosim1/chaindm3link.rb +81 -0
  179. data/lib/bio-ucsc/drosim1/db_connection.rb +57 -0
  180. data/lib/bio-ucsc/drosim1/est.rb +81 -0
  181. data/lib/bio-ucsc/drosim1/gap.rb +81 -0
  182. data/lib/bio-ucsc/drosim1/gold.rb +81 -0
  183. data/lib/bio-ucsc/drosim1/intronest.rb +81 -0
  184. data/lib/bio-ucsc/drosim1/mrna.rb +81 -0
  185. data/lib/bio-ucsc/drosim1/rmsk.rb +78 -0
  186. data/lib/bio-ucsc/drovir2.rb +22 -0
  187. data/lib/bio-ucsc/drovir2/db_connection.rb +57 -0
  188. data/lib/bio-ucsc/droyak2.rb +32 -0
  189. data/lib/bio-ucsc/droyak2/chaindm3.rb +81 -0
  190. data/lib/bio-ucsc/droyak2/chaindm3link.rb +81 -0
  191. data/lib/bio-ucsc/droyak2/db_connection.rb +57 -0
  192. data/lib/bio-ucsc/droyak2/est.rb +81 -0
  193. data/lib/bio-ucsc/droyak2/gap.rb +81 -0
  194. data/lib/bio-ucsc/droyak2/gold.rb +81 -0
  195. data/lib/bio-ucsc/droyak2/intronest.rb +81 -0
  196. data/lib/bio-ucsc/droyak2/mrna.rb +81 -0
  197. data/lib/bio-ucsc/droyak2/rmsk.rb +78 -0
  198. data/lib/bio-ucsc/equcab2.rb +31 -0
  199. data/lib/bio-ucsc/equcab2/db_connection.rb +57 -0
  200. data/lib/bio-ucsc/equcab2/est.rb +81 -0
  201. data/lib/bio-ucsc/equcab2/gap.rb +81 -0
  202. data/lib/bio-ucsc/equcab2/gold.rb +81 -0
  203. data/lib/bio-ucsc/equcab2/intronest.rb +81 -0
  204. data/lib/bio-ucsc/equcab2/mrna.rb +81 -0
  205. data/lib/bio-ucsc/equcab2/rmsk.rb +78 -0
  206. data/lib/bio-ucsc/felcat4.rb +23 -0
  207. data/lib/bio-ucsc/felcat4/db_connection.rb +57 -0
  208. data/lib/bio-ucsc/fr2.rb +35 -0
  209. data/lib/bio-ucsc/fr2/chaingalgal3.rb +81 -0
  210. data/lib/bio-ucsc/fr2/chaingalgal3link.rb +81 -0
  211. data/lib/bio-ucsc/fr2/chaingasacu1.rb +81 -0
  212. data/lib/bio-ucsc/fr2/chaingasacu1link.rb +81 -0
  213. data/lib/bio-ucsc/fr2/chainmm9.rb +81 -0
  214. data/lib/bio-ucsc/fr2/chainmm9link.rb +81 -0
  215. data/lib/bio-ucsc/fr2/chainorylat2.rb +81 -0
  216. data/lib/bio-ucsc/fr2/chainorylat2link.rb +81 -0
  217. data/lib/bio-ucsc/fr2/db_connection.rb +57 -0
  218. data/lib/bio-ucsc/fr2/est.rb +81 -0
  219. data/lib/bio-ucsc/fr2/gap.rb +81 -0
  220. data/lib/bio-ucsc/fr2/gold.rb +81 -0
  221. data/lib/bio-ucsc/fr2/intronest.rb +81 -0
  222. data/lib/bio-ucsc/fr2/mrna.rb +81 -0
  223. data/lib/bio-ucsc/fr2/rmsk.rb +78 -0
  224. data/lib/bio-ucsc/galgal3.rb +54 -0
  225. data/lib/bio-ucsc/galgal3/chainanocar1.rb +81 -0
  226. data/lib/bio-ucsc/galgal3/chainanocar1link.rb +81 -0
  227. data/lib/bio-ucsc/galgal3/chainbraflo1.rb +81 -0
  228. data/lib/bio-ucsc/galgal3/chainbraflo1link.rb +81 -0
  229. data/lib/bio-ucsc/galgal3/chaincavpor3.rb +81 -0
  230. data/lib/bio-ucsc/galgal3/chaincavpor3link.rb +81 -0
  231. data/lib/bio-ucsc/galgal3/chaindanrer4.rb +81 -0
  232. data/lib/bio-ucsc/galgal3/chaindanrer4link.rb +81 -0
  233. data/lib/bio-ucsc/galgal3/chainfr2.rb +81 -0
  234. data/lib/bio-ucsc/galgal3/chainfr2link.rb +81 -0
  235. data/lib/bio-ucsc/galgal3/chaingasacu1.rb +81 -0
  236. data/lib/bio-ucsc/galgal3/chaingasacu1link.rb +81 -0
  237. data/lib/bio-ucsc/galgal3/chainmm9.rb +81 -0
  238. data/lib/bio-ucsc/galgal3/chainmm9link.rb +81 -0
  239. data/lib/bio-ucsc/galgal3/chainornana1.rb +81 -0
  240. data/lib/bio-ucsc/galgal3/chainornana1link.rb +81 -0
  241. data/lib/bio-ucsc/galgal3/chainpetmar1.rb +81 -0
  242. data/lib/bio-ucsc/galgal3/chainpetmar1link.rb +81 -0
  243. data/lib/bio-ucsc/galgal3/chainrn4.rb +81 -0
  244. data/lib/bio-ucsc/galgal3/chainrn4link.rb +81 -0
  245. data/lib/bio-ucsc/galgal3/chaintaegut1.rb +81 -0
  246. data/lib/bio-ucsc/galgal3/chaintaegut1link.rb +81 -0
  247. data/lib/bio-ucsc/galgal3/chainxentro2.rb +81 -0
  248. data/lib/bio-ucsc/galgal3/chainxentro2link.rb +81 -0
  249. data/lib/bio-ucsc/galgal3/db_connection.rb +57 -0
  250. data/lib/bio-ucsc/galgal3/est.rb +81 -0
  251. data/lib/bio-ucsc/galgal3/gap.rb +81 -0
  252. data/lib/bio-ucsc/galgal3/gold.rb +81 -0
  253. data/lib/bio-ucsc/galgal3/intronest.rb +81 -0
  254. data/lib/bio-ucsc/galgal3/mrna.rb +81 -0
  255. data/lib/bio-ucsc/galgal3/rmsk.rb +78 -0
  256. data/lib/bio-ucsc/gasacu1.rb +39 -0
  257. data/lib/bio-ucsc/gasacu1/chainanocar1.rb +81 -0
  258. data/lib/bio-ucsc/gasacu1/chainanocar1link.rb +81 -0
  259. data/lib/bio-ucsc/gasacu1/chainfr2.rb +81 -0
  260. data/lib/bio-ucsc/gasacu1/chainfr2link.rb +81 -0
  261. data/lib/bio-ucsc/gasacu1/chaingalgal3.rb +81 -0
  262. data/lib/bio-ucsc/gasacu1/chaingalgal3link.rb +81 -0
  263. data/lib/bio-ucsc/gasacu1/chainmm9.rb +81 -0
  264. data/lib/bio-ucsc/gasacu1/chainmm9link.rb +81 -0
  265. data/lib/bio-ucsc/gasacu1/chainorylat2.rb +81 -0
  266. data/lib/bio-ucsc/gasacu1/chainorylat2link.rb +81 -0
  267. data/lib/bio-ucsc/gasacu1/db_connection.rb +57 -0
  268. data/lib/bio-ucsc/gasacu1/est.rb +81 -0
  269. data/lib/bio-ucsc/gasacu1/intronest.rb +81 -0
  270. data/lib/bio-ucsc/gasacu1/mrna.rb +81 -0
  271. data/lib/bio-ucsc/gasacu1/rmsk.rb +78 -0
  272. data/lib/bio-ucsc/go/db_connection.rb +5 -6
  273. data/lib/bio-ucsc/hg18/chainanocar1.rb +2 -2
  274. data/lib/bio-ucsc/hg18/chainbostau4.rb +2 -2
  275. data/lib/bio-ucsc/hg18/chainbraflo1.rb +2 -2
  276. data/lib/bio-ucsc/hg18/chaincaljac1.rb +2 -2
  277. data/lib/bio-ucsc/hg18/chaincanfam2.rb +2 -2
  278. data/lib/bio-ucsc/hg18/chaincavpor3.rb +2 -2
  279. data/lib/bio-ucsc/hg18/chaindanrer5.rb +2 -2
  280. data/lib/bio-ucsc/hg18/chainequcab1.rb +2 -2
  281. data/lib/bio-ucsc/hg18/chainfelcat3.rb +2 -2
  282. data/lib/bio-ucsc/hg18/chainfr2.rb +2 -2
  283. data/lib/bio-ucsc/hg18/chaingalgal3.rb +2 -2
  284. data/lib/bio-ucsc/hg18/chaingasacu1.rb +2 -2
  285. data/lib/bio-ucsc/hg18/chainmm9.rb +2 -2
  286. data/lib/bio-ucsc/hg18/chainmondom4.rb +2 -2
  287. data/lib/bio-ucsc/hg18/chainornana1.rb +2 -2
  288. data/lib/bio-ucsc/hg18/chainorylat2.rb +2 -2
  289. data/lib/bio-ucsc/hg18/chainpantro2.rb +2 -2
  290. data/lib/bio-ucsc/hg18/chainpetmar1.rb +2 -2
  291. data/lib/bio-ucsc/hg18/chainponabe2.rb +2 -2
  292. data/lib/bio-ucsc/hg18/chainrhemac2.rb +2 -2
  293. data/lib/bio-ucsc/hg18/chainrn4.rb +2 -2
  294. data/lib/bio-ucsc/hg18/chainself.rb +2 -2
  295. data/lib/bio-ucsc/hg18/chainstrpur2.rb +2 -2
  296. data/lib/bio-ucsc/hg18/chaintaegut1.rb +2 -2
  297. data/lib/bio-ucsc/hg18/chaintetnig2.rb +2 -2
  298. data/lib/bio-ucsc/hg18/chainxentro2.rb +2 -2
  299. data/lib/bio-ucsc/hg18/db_connection.rb +5 -7
  300. data/lib/bio-ucsc/hg18/gap.rb +2 -2
  301. data/lib/bio-ucsc/hg18/gold.rb +2 -2
  302. data/lib/bio-ucsc/hg18/intronest.rb +2 -2
  303. data/lib/bio-ucsc/hg18/rmsk.rb +2 -2
  304. data/lib/bio-ucsc/hg18/rmskrm327.rb +2 -2
  305. data/lib/bio-ucsc/hgfixed/db_connection.rb +5 -6
  306. data/lib/bio-ucsc/loxafr3.rb +20 -0
  307. data/lib/bio-ucsc/loxafr3/db_connection.rb +57 -0
  308. data/lib/bio-ucsc/mm9/chainanocar1.rb +2 -2
  309. data/lib/bio-ucsc/mm9/chainanocar1link.rb +2 -2
  310. data/lib/bio-ucsc/mm9/chainbostau4.rb +2 -2
  311. data/lib/bio-ucsc/mm9/chainbostau4link.rb +3 -3
  312. data/lib/bio-ucsc/mm9/chainbraflo1.rb +2 -2
  313. data/lib/bio-ucsc/mm9/chainbraflo1link.rb +2 -2
  314. data/lib/bio-ucsc/mm9/chaincanfam2.rb +2 -2
  315. data/lib/bio-ucsc/mm9/chaincanfam2link.rb +2 -2
  316. data/lib/bio-ucsc/mm9/chaincavpor3.rb +2 -2
  317. data/lib/bio-ucsc/mm9/chaincavpor3link.rb +2 -2
  318. data/lib/bio-ucsc/mm9/chainfr2.rb +2 -2
  319. data/lib/bio-ucsc/mm9/chainfr2link.rb +2 -2
  320. data/lib/bio-ucsc/mm9/chaingalgal3.rb +2 -2
  321. data/lib/bio-ucsc/mm9/chaingalgal3link.rb +2 -2
  322. data/lib/bio-ucsc/mm9/chaingasacu1.rb +2 -2
  323. data/lib/bio-ucsc/mm9/chaingasacu1link.rb +2 -2
  324. data/lib/bio-ucsc/mm9/chainornana1.rb +2 -2
  325. data/lib/bio-ucsc/mm9/chainornana1link.rb +2 -2
  326. data/lib/bio-ucsc/mm9/chainorylat2.rb +2 -2
  327. data/lib/bio-ucsc/mm9/chainorylat2link.rb +2 -2
  328. data/lib/bio-ucsc/mm9/chainpantro2.rb +2 -2
  329. data/lib/bio-ucsc/mm9/chainpantro2link.rb +2 -2
  330. data/lib/bio-ucsc/mm9/chainpetmar1.rb +2 -2
  331. data/lib/bio-ucsc/mm9/chainpetmar1link.rb +2 -2
  332. data/lib/bio-ucsc/mm9/chainponabe2.rb +2 -2
  333. data/lib/bio-ucsc/mm9/chainponabe2link.rb +2 -2
  334. data/lib/bio-ucsc/mm9/chainrhemac2.rb +2 -2
  335. data/lib/bio-ucsc/mm9/chainrhemac2link.rb +2 -2
  336. data/lib/bio-ucsc/mm9/chainrn4.rb +2 -2
  337. data/lib/bio-ucsc/mm9/chainrn4link.rb +2 -2
  338. data/lib/bio-ucsc/mm9/chainxentro2.rb +2 -2
  339. data/lib/bio-ucsc/mm9/chainxentro2link.rb +2 -2
  340. data/lib/bio-ucsc/mm9/db_connection.rb +6 -7
  341. data/lib/bio-ucsc/mm9/est.rb +2 -2
  342. data/lib/bio-ucsc/mm9/gap.rb +2 -2
  343. data/lib/bio-ucsc/mm9/gold.rb +2 -2
  344. data/lib/bio-ucsc/mm9/intronest.rb +2 -2
  345. data/lib/bio-ucsc/mm9/mrna.rb +2 -2
  346. data/lib/bio-ucsc/mm9/rmsk.rb +2 -2
  347. data/lib/bio-ucsc/mondom5.rb +21 -0
  348. data/lib/bio-ucsc/mondom5/db_connection.rb +57 -0
  349. data/lib/bio-ucsc/ornana1.rb +20 -0
  350. data/lib/bio-ucsc/ornana1/db_connection.rb +57 -0
  351. data/lib/bio-ucsc/orycun2.rb +24 -0
  352. data/lib/bio-ucsc/orycun2/db_connection.rb +57 -0
  353. data/lib/bio-ucsc/orylat2.rb +24 -0
  354. data/lib/bio-ucsc/orylat2/db_connection.rb +55 -0
  355. data/lib/bio-ucsc/oviari1.rb +24 -0
  356. data/lib/bio-ucsc/oviari1/db_connection.rb +57 -0
  357. data/lib/bio-ucsc/pantro3.rb +24 -0
  358. data/lib/bio-ucsc/pantro3/db_connection.rb +55 -0
  359. data/lib/bio-ucsc/petmar1.rb +22 -0
  360. data/lib/bio-ucsc/petmar1/db_connection.rb +57 -0
  361. data/lib/bio-ucsc/ponabe2.rb +36 -0
  362. data/lib/bio-ucsc/ponabe2/chainmm9.rb +81 -0
  363. data/lib/bio-ucsc/ponabe2/chainmm9link.rb +81 -0
  364. data/lib/bio-ucsc/ponabe2/chainornana1.rb +81 -0
  365. data/lib/bio-ucsc/ponabe2/chainornana1link.rb +81 -0
  366. data/lib/bio-ucsc/ponabe2/chainrhemac2.rb +81 -0
  367. data/lib/bio-ucsc/ponabe2/chainrhemac2link.rb +81 -0
  368. data/lib/bio-ucsc/ponabe2/db_connection.rb +55 -0
  369. data/lib/bio-ucsc/ponabe2/est.rb +81 -0
  370. data/lib/bio-ucsc/ponabe2/gap.rb +81 -0
  371. data/lib/bio-ucsc/ponabe2/gold.rb +81 -0
  372. data/lib/bio-ucsc/ponabe2/intronest.rb +81 -0
  373. data/lib/bio-ucsc/ponabe2/mrna.rb +81 -0
  374. data/lib/bio-ucsc/ponabe2/rmsk.rb +78 -0
  375. data/lib/bio-ucsc/pripac1.rb +33 -0
  376. data/lib/bio-ucsc/pripac1/chaincaepb1.rb +81 -0
  377. data/lib/bio-ucsc/pripac1/chaincaepb1link.rb +81 -0
  378. data/lib/bio-ucsc/pripac1/chaincaerem2.rb +81 -0
  379. data/lib/bio-ucsc/pripac1/chaincaerem2link.rb +81 -0
  380. data/lib/bio-ucsc/pripac1/chaincb3.rb +81 -0
  381. data/lib/bio-ucsc/pripac1/chaincb3link.rb +81 -0
  382. data/lib/bio-ucsc/pripac1/chaince6.rb +81 -0
  383. data/lib/bio-ucsc/pripac1/chaince6link.rb +81 -0
  384. data/lib/bio-ucsc/pripac1/db_connection.rb +57 -0
  385. data/lib/bio-ucsc/pripac1/gap.rb +81 -0
  386. data/lib/bio-ucsc/pripac1/gold.rb +81 -0
  387. data/lib/bio-ucsc/pripac1/rmsk.rb +78 -0
  388. data/lib/bio-ucsc/proteome/db_connection.rb +5 -7
  389. data/lib/bio-ucsc/rhemac2.rb +32 -0
  390. data/lib/bio-ucsc/rhemac2/chainmm9.rb +81 -0
  391. data/lib/bio-ucsc/rhemac2/chainmm9link.rb +81 -0
  392. data/lib/bio-ucsc/rhemac2/chainpantro2.rb +81 -0
  393. data/lib/bio-ucsc/rhemac2/chainpantro2link.rb +81 -0
  394. data/lib/bio-ucsc/rhemac2/chainponabe2.rb +81 -0
  395. data/lib/bio-ucsc/rhemac2/chainponabe2link.rb +81 -0
  396. data/lib/bio-ucsc/rhemac2/chainrn4.rb +81 -0
  397. data/lib/bio-ucsc/rhemac2/chainrn4link.rb +81 -0
  398. data/lib/bio-ucsc/rhemac2/db_connection.rb +55 -0
  399. data/lib/bio-ucsc/rn4.rb +52 -0
  400. data/lib/bio-ucsc/rn4/chainbostau3.rb +79 -0
  401. data/lib/bio-ucsc/rn4/chainbostau3link.rb +79 -0
  402. data/lib/bio-ucsc/rn4/chaincanfam2.rb +82 -0
  403. data/lib/bio-ucsc/rn4/chaincanfam2link.rb +82 -0
  404. data/lib/bio-ucsc/rn4/chaincavpor3.rb +81 -0
  405. data/lib/bio-ucsc/rn4/chaincavpor3link.rb +81 -0
  406. data/lib/bio-ucsc/rn4/chaindanrer4.rb +81 -0
  407. data/lib/bio-ucsc/rn4/chaindanrer4link.rb +81 -0
  408. data/lib/bio-ucsc/rn4/chainequcab1.rb +81 -0
  409. data/lib/bio-ucsc/rn4/chainequcab1link.rb +81 -0
  410. data/lib/bio-ucsc/rn4/chaingalgal3.rb +81 -0
  411. data/lib/bio-ucsc/rn4/chaingalgal3link.rb +81 -0
  412. data/lib/bio-ucsc/rn4/chainmm9.rb +81 -0
  413. data/lib/bio-ucsc/rn4/chainmm9link.rb +81 -0
  414. data/lib/bio-ucsc/rn4/chainmondom4.rb +81 -0
  415. data/lib/bio-ucsc/rn4/chainmondom4link.rb +81 -0
  416. data/lib/bio-ucsc/rn4/chainpantro2.rb +81 -0
  417. data/lib/bio-ucsc/rn4/chainpantro2link.rb +82 -0
  418. data/lib/bio-ucsc/rn4/chainrhemac2.rb +81 -0
  419. data/lib/bio-ucsc/rn4/chainrhemac2link.rb +81 -0
  420. data/lib/bio-ucsc/rn4/chainxentro2.rb +81 -0
  421. data/lib/bio-ucsc/rn4/chainxentro2link.rb +81 -0
  422. data/lib/bio-ucsc/rn4/db_connection.rb +55 -0
  423. data/lib/bio-ucsc/rn4/est.rb +81 -0
  424. data/lib/bio-ucsc/rn4/gap.rb +81 -0
  425. data/lib/bio-ucsc/rn4/gold.rb +81 -0
  426. data/lib/bio-ucsc/rn4/intronest.rb +81 -0
  427. data/lib/bio-ucsc/rn4/mrna.rb +81 -0
  428. data/lib/bio-ucsc/rn4/rmsk.rb +78 -0
  429. data/lib/bio-ucsc/saccer2.rb +33 -0
  430. data/lib/bio-ucsc/saccer2/db_connection.rb +55 -0
  431. data/lib/bio-ucsc/saccer2/est.rb +83 -0
  432. data/lib/bio-ucsc/saccer2/gap.rb +83 -0
  433. data/lib/bio-ucsc/saccer2/gold.rb +83 -0
  434. data/lib/bio-ucsc/saccer2/intronest.rb +83 -0
  435. data/lib/bio-ucsc/saccer2/mrna.rb +83 -0
  436. data/lib/bio-ucsc/saccer2/t2micron_est.rb +57 -0
  437. data/lib/bio-ucsc/saccer2/t2micron_gap.rb +57 -0
  438. data/lib/bio-ucsc/saccer2/t2micron_gold.rb +58 -0
  439. data/lib/bio-ucsc/saccer2/t2micron_intronEst.rb +57 -0
  440. data/lib/bio-ucsc/saccer2/t2micron_mrna.rb +57 -0
  441. data/lib/bio-ucsc/strpur2.rb +32 -0
  442. data/lib/bio-ucsc/strpur2/chaingalgal3.rb +81 -0
  443. data/lib/bio-ucsc/strpur2/chaingalgal3link.rb +81 -0
  444. data/lib/bio-ucsc/strpur2/chainhg18.rb +81 -0
  445. data/lib/bio-ucsc/strpur2/chainhg18link.rb +81 -0
  446. data/lib/bio-ucsc/strpur2/chainmm9.rb +81 -0
  447. data/lib/bio-ucsc/strpur2/chainmm9link.rb +81 -0
  448. data/lib/bio-ucsc/strpur2/chainpetmar1.rb +81 -0
  449. data/lib/bio-ucsc/strpur2/chainpetmar1link.rb +81 -0
  450. data/lib/bio-ucsc/strpur2/db_connection.rb +57 -0
  451. data/lib/bio-ucsc/strpur2/gap.rb +81 -0
  452. data/lib/bio-ucsc/strpur2/gold.rb +81 -0
  453. data/lib/bio-ucsc/susscr2.rb +26 -0
  454. data/lib/bio-ucsc/susscr2/db_connection.rb +57 -0
  455. data/lib/bio-ucsc/susscr2/est.rb +81 -0
  456. data/lib/bio-ucsc/susscr2/intronest.rb +81 -0
  457. data/lib/bio-ucsc/susscr2/mrna.rb +81 -0
  458. data/lib/bio-ucsc/table_class_detector.rb +18 -22
  459. data/lib/bio-ucsc/taegut1.rb +33 -0
  460. data/lib/bio-ucsc/taegut1/chaingalgal3.rb +81 -0
  461. data/lib/bio-ucsc/taegut1/chaingalgal3link.rb +81 -0
  462. data/lib/bio-ucsc/taegut1/db_connection.rb +57 -0
  463. data/lib/bio-ucsc/taegut1/est.rb +81 -0
  464. data/lib/bio-ucsc/taegut1/gap.rb +81 -0
  465. data/lib/bio-ucsc/taegut1/gold.rb +81 -0
  466. data/lib/bio-ucsc/taegut1/intronest.rb +81 -0
  467. data/lib/bio-ucsc/taegut1/mrna.rb +81 -0
  468. data/lib/bio-ucsc/taegut1/rmsk.rb +78 -0
  469. data/lib/bio-ucsc/tetnig2.rb +25 -0
  470. data/lib/bio-ucsc/tetnig2/db_connection.rb +57 -0
  471. data/lib/bio-ucsc/tetnig2/mrna.rb +81 -0
  472. data/lib/bio-ucsc/uniprot/db_connection.rb +5 -7
  473. data/lib/bio-ucsc/visigene/db_connection.rb +5 -6
  474. data/lib/bio-ucsc/xentro2.rb +30 -0
  475. data/lib/bio-ucsc/xentro2/chaingalgal3.rb +81 -0
  476. data/lib/bio-ucsc/xentro2/chaingalgal3link.rb +81 -0
  477. data/lib/bio-ucsc/xentro2/db_connection.rb +57 -0
  478. data/lib/bio-ucsc/xentro2/est.rb +81 -0
  479. data/lib/bio-ucsc/xentro2/gap.rb +81 -0
  480. data/lib/bio-ucsc/xentro2/gold.rb +81 -0
  481. data/lib/bio-ucsc/xentro2/intronest.rb +81 -0
  482. data/lib/bio-ucsc/xentro2/mrna.rb +81 -0
  483. data/lib/bio-ucsc/xentro2/rmsk.rb +78 -0
  484. data/samples/hg19-2bit-retrieve.rb +5 -2
  485. data/spec/ailmel1_spec.rb +770 -0
  486. data/spec/anocar2_spec.rb +750 -0
  487. data/spec/anogam1_spec.rb +568 -0
  488. data/spec/apimel2_spec.rb +542 -0
  489. data/spec/aplcal1_spec.rb +530 -0
  490. data/spec/bostau4_spec.rb +920 -0
  491. data/spec/braflo1_spec.rb +660 -0
  492. data/spec/caejap1_spec.rb +524 -0
  493. data/spec/caepb2_spec.rb +515 -0
  494. data/spec/caerem3_spec.rb +524 -0
  495. data/spec/caljac3_spec.rb +860 -0
  496. data/spec/canfam2_spec.rb +1145 -0
  497. data/spec/cavpor3_spec.rb +880 -0
  498. data/spec/cb3_spec.rb +634 -0
  499. data/spec/ci2_spec.rb +520 -0
  500. data/spec/danrer7_spec.rb +810 -0
  501. data/spec/dp3_spec.rb +617 -0
  502. data/spec/droana2_spec.rb +500 -0
  503. data/spec/droere1_spec.rb +510 -0
  504. data/spec/drogri1_spec.rb +470 -0
  505. data/spec/dromoj2_spec.rb +510 -0
  506. data/spec/droper1_spec.rb +470 -0
  507. data/spec/drosec1_spec.rb +470 -0
  508. data/spec/drosim1_spec.rb +588 -0
  509. data/spec/drovir2_spec.rb +540 -0
  510. data/spec/droyak2_spec.rb +558 -0
  511. data/spec/equcab2_spec.rb +936 -0
  512. data/spec/felcat4_spec.rb +770 -0
  513. data/spec/fr2_spec.rb +835 -0
  514. data/spec/galgal3_spec.rb +1351 -0
  515. data/spec/gasacu1_spec.rb +924 -0
  516. data/spec/loxafr3_spec.rb +550 -0
  517. data/spec/mondom5_spec.rb +1230 -0
  518. data/spec/ornana1_spec.rb +980 -0
  519. data/spec/orycun2_spec.rb +770 -0
  520. data/spec/orylat2_spec.rb +930 -0
  521. data/spec/oviari1_spec.rb +670 -0
  522. data/spec/pantro3_spec.rb +810 -0
  523. data/spec/petmar1_spec.rb +770 -0
  524. data/spec/ponabe2_spec.rb +962 -0
  525. data/spec/pripac1_spec.rb +621 -0
  526. data/spec/rhemac2_spec.rb +958 -0
  527. data/spec/rn4_spec.rb +2038 -0
  528. data/spec/saccer2_spec.rb +925 -0
  529. data/spec/strpur2_spec.rb +600 -0
  530. data/spec/susscr2_spec.rb +623 -0
  531. data/spec/taegut1_spec.rb +768 -0
  532. data/spec/tetnig2_spec.rb +721 -0
  533. data/spec/xentro2_spec.rb +900 -0
  534. metadata +477 -23
@@ -0,0 +1,2038 @@
1
+ require "bio-ucsc"
2
+ require "pp"
3
+
4
+ describe "Bio::Ucsc::Rn4" do
5
+
6
+ before(:all) do
7
+ Bio::Ucsc::Rn4::DBConnection.connect
8
+ end
9
+
10
+ describe "Bio::Ucsc::Rn4::AffyAllExonProbes" do
11
+ context ".first" do
12
+ it 'returns the first records' do
13
+ result = Bio::Ucsc::Rn4::AffyAllExonProbes.first
14
+ pp result
15
+ result.should be_true
16
+ end
17
+ end
18
+ end
19
+
20
+ describe "Bio::Ucsc::Rn4::AffyExonTissues" do
21
+ context ".first" do
22
+ it 'returns the first records' do
23
+ result = Bio::Ucsc::Rn4::AffyExonTissues.first
24
+ pp result
25
+ result.should be_true
26
+ end
27
+ end
28
+ end
29
+
30
+ describe "Bio::Ucsc::Rn4::AffyExonTissuesGs" do
31
+ context ".first" do
32
+ it 'returns the first records' do
33
+ result = Bio::Ucsc::Rn4::AffyExonTissuesGs.first
34
+ pp result
35
+ result.should be_true
36
+ end
37
+ end
38
+ end
39
+
40
+ describe "Bio::Ucsc::Rn4::AffyExonTissuesGsExps" do
41
+ context ".first" do
42
+ it 'returns the first records' do
43
+ result = Bio::Ucsc::Rn4::AffyExonTissuesGsExps.first
44
+ pp result
45
+ result.should be_true
46
+ end
47
+ end
48
+ end
49
+
50
+ describe "Bio::Ucsc::Rn4::AffyExonTissuesGsMedian" do
51
+ context ".first" do
52
+ it 'returns the first records' do
53
+ result = Bio::Ucsc::Rn4::AffyExonTissuesGsMedian.first
54
+ pp result
55
+ result.should be_true
56
+ end
57
+ end
58
+ end
59
+
60
+ describe "Bio::Ucsc::Rn4::AffyExonTissuesGsMedianDist" do
61
+ context ".first" do
62
+ it 'returns the first records' do
63
+ result = Bio::Ucsc::Rn4::AffyExonTissuesGsMedianDist.first
64
+ pp result
65
+ result.should be_true
66
+ end
67
+ end
68
+ end
69
+
70
+ describe "Bio::Ucsc::Rn4::AffyExonTissuesGsMedianExps" do
71
+ context ".first" do
72
+ it 'returns the first records' do
73
+ result = Bio::Ucsc::Rn4::AffyExonTissuesGsMedianExps.first
74
+ pp result
75
+ result.should be_true
76
+ end
77
+ end
78
+ end
79
+
80
+ describe "Bio::Ucsc::Rn4::AffyRAE230" do
81
+ context ".first" do
82
+ it 'returns the first records' do
83
+ result = Bio::Ucsc::Rn4::AffyRAE230.first
84
+ pp result
85
+ result.should be_true
86
+ end
87
+ end
88
+ end
89
+
90
+ describe "Bio::Ucsc::Rn4::AffyU34A" do
91
+ context ".first" do
92
+ it 'returns the first records' do
93
+ result = Bio::Ucsc::Rn4::AffyU34A.first
94
+ pp result
95
+ result.should be_true
96
+ end
97
+ end
98
+ end
99
+
100
+ describe "Bio::Ucsc::Rn4::AgilentCgh105a" do
101
+ context ".first" do
102
+ it 'returns the first records' do
103
+ result = Bio::Ucsc::Rn4::AgilentCgh105a.first
104
+ pp result
105
+ result.should be_true
106
+ end
107
+ end
108
+ end
109
+
110
+ describe "Bio::Ucsc::Rn4::AgilentCgh1x1m" do
111
+ context ".first" do
112
+ it 'returns the first records' do
113
+ result = Bio::Ucsc::Rn4::AgilentCgh1x1m.first
114
+ pp result
115
+ result.should be_true
116
+ end
117
+ end
118
+ end
119
+
120
+ describe "Bio::Ucsc::Rn4::AgilentCgh244a" do
121
+ context ".first" do
122
+ it 'returns the first records' do
123
+ result = Bio::Ucsc::Rn4::AgilentCgh244a.first
124
+ pp result
125
+ result.should be_true
126
+ end
127
+ end
128
+ end
129
+
130
+ describe "Bio::Ucsc::Rn4::AgilentCgh4x180k" do
131
+ context ".first" do
132
+ it 'returns the first records' do
133
+ result = Bio::Ucsc::Rn4::AgilentCgh4x180k.first
134
+ pp result
135
+ result.should be_true
136
+ end
137
+ end
138
+ end
139
+
140
+ describe "Bio::Ucsc::Rn4::All_bacends" do
141
+ context ".first" do
142
+ it 'returns the first records' do
143
+ result = Bio::Ucsc::Rn4::All_bacends.first
144
+ pp result
145
+ result.should be_true
146
+ end
147
+ end
148
+ end
149
+
150
+ describe "Bio::Ucsc::Rn4::All_est" do
151
+ context ".first" do
152
+ it 'returns the first records' do
153
+ result = Bio::Ucsc::Rn4::All_est.first
154
+ pp result
155
+ result.should be_true
156
+ end
157
+ end
158
+ end
159
+
160
+ describe "Bio::Ucsc::Rn4::All_mrna" do
161
+ context ".first" do
162
+ it 'returns the first records' do
163
+ result = Bio::Ucsc::Rn4::All_mrna.first
164
+ pp result
165
+ result.should be_true
166
+ end
167
+ end
168
+ end
169
+
170
+ describe "Bio::Ucsc::Rn4::All_sts_primer" do
171
+ context ".first" do
172
+ it 'returns the first records' do
173
+ result = Bio::Ucsc::Rn4::All_sts_primer.first
174
+ pp result
175
+ result.should be_true
176
+ end
177
+ end
178
+ end
179
+
180
+ describe "Bio::Ucsc::Rn4::Author" do
181
+ context ".first" do
182
+ it 'returns the first records' do
183
+ result = Bio::Ucsc::Rn4::Author.first
184
+ pp result
185
+ result.should be_true
186
+ end
187
+ end
188
+ end
189
+
190
+ describe "Bio::Ucsc::Rn4::BacEndPairs" do
191
+ context ".first" do
192
+ it 'returns the first records' do
193
+ result = Bio::Ucsc::Rn4::BacEndPairs.first
194
+ pp result
195
+ result.should be_true
196
+ end
197
+ end
198
+ end
199
+
200
+ describe "Bio::Ucsc::Rn4::Cds" do
201
+ context ".first" do
202
+ it 'returns the first records' do
203
+ result = Bio::Ucsc::Rn4::Cds.first
204
+ pp result
205
+ result.should be_true
206
+ end
207
+ end
208
+ end
209
+
210
+ describe "Bio::Ucsc::Rn4::CeBlastTab" do
211
+ context ".first" do
212
+ it 'returns the first records' do
213
+ result = Bio::Ucsc::Rn4::CeBlastTab.first
214
+ pp result
215
+ result.should be_true
216
+ end
217
+ end
218
+ end
219
+
220
+ describe "Bio::Ucsc::Rn4::Cell" do
221
+ context ".first" do
222
+ it 'returns the first records' do
223
+ result = Bio::Ucsc::Rn4::Cell.first
224
+ pp result
225
+ result.should be_true
226
+ end
227
+ end
228
+ end
229
+
230
+ describe "Bio::Ucsc::Rn4::ChainAilMel1" do
231
+ context ".first" do
232
+ it 'returns the first records' do
233
+ result = Bio::Ucsc::Rn4::ChainAilMel1.first
234
+ pp result
235
+ result.should be_true
236
+ end
237
+ end
238
+ end
239
+
240
+ describe "Bio::Ucsc::Rn4::ChainAilMel1Link" do
241
+ context ".first" do
242
+ it 'returns the first records' do
243
+ result = Bio::Ucsc::Rn4::ChainAilMel1Link.first
244
+ pp result
245
+ result.should be_true
246
+ end
247
+ end
248
+ end
249
+
250
+ describe "Bio::Ucsc::Rn4::ChainBosTau3" do
251
+ context ".find_by_interval" do
252
+ it 'returns the first records' do
253
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
254
+ result = Bio::Ucsc::Rn4::ChainBosTau3.find_by_interval gi
255
+ pp result
256
+ result.should be_true
257
+ end
258
+ end
259
+ end
260
+
261
+ describe "Bio::Ucsc::Rn4::ChainBosTau3Link" do
262
+ context ".find_by_interval" do
263
+ it 'returns the first records' do
264
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
265
+ result = Bio::Ucsc::Rn4::ChainBosTau3Link.find_by_interval gi
266
+ pp result
267
+ result.should be_true
268
+ end
269
+ end
270
+ end
271
+
272
+ describe "Bio::Ucsc::Rn4::ChainCanFam2" do
273
+ context ".find_by_interval" do
274
+ it 'returns the first records' do
275
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
276
+ result = Bio::Ucsc::Rn4::ChainCanFam2.find_by_interval gi
277
+ pp result
278
+ result.should be_true
279
+ end
280
+ end
281
+ end
282
+
283
+ describe "Bio::Ucsc::Rn4::ChainCanFam2Link" do
284
+ context ".find_by_interval" do
285
+ it 'returns the first records' do
286
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
287
+ result = Bio::Ucsc::Rn4::ChainCanFam2Link.find_by_interval gi
288
+ pp result
289
+ result.should be_true
290
+ end
291
+ end
292
+ end
293
+
294
+ describe "Bio::Ucsc::Rn4::ChainCavPor3" do
295
+ context ".find_by_interval" do
296
+ it 'returns the first records' do
297
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
298
+ result = Bio::Ucsc::Rn4::ChainCavPor3.find_by_interval gi
299
+ pp result
300
+ result.should be_true
301
+ end
302
+ end
303
+ end
304
+
305
+ describe "Bio::Ucsc::Rn4::ChainCavPor3Link" do
306
+ context ".find_by_interval" do
307
+ it 'returns the first records' do
308
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
309
+ result = Bio::Ucsc::Rn4::ChainCavPor3Link.find_by_interval gi
310
+ pp result
311
+ result.should be_true
312
+ end
313
+ end
314
+ end
315
+
316
+ describe "Bio::Ucsc::Rn4::ChainDanRer4" do
317
+ context ".find_by_interval" do
318
+ it 'returns the first records' do
319
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
320
+ result = Bio::Ucsc::Rn4::ChainDanRer4.find_by_interval gi
321
+ pp result
322
+ result.should be_true
323
+ end
324
+ end
325
+ end
326
+
327
+ describe "Bio::Ucsc::Rn4::ChainDanRer4Link" do
328
+ context ".find_by_interval" do
329
+ it 'returns the first records' do
330
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
331
+ result = Bio::Ucsc::Rn4::ChainDanRer4Link.find_by_interval gi
332
+ pp result
333
+ result.should be_true
334
+ end
335
+ end
336
+ end
337
+
338
+ describe "Bio::Ucsc::Rn4::ChainEquCab1" do
339
+ context ".find_by_interval" do
340
+ it 'returns the first records' do
341
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
342
+ result = Bio::Ucsc::Rn4::ChainEquCab1.find_by_interval gi
343
+ pp result
344
+ result.should be_true
345
+ end
346
+ end
347
+ end
348
+
349
+ describe "Bio::Ucsc::Rn4::ChainEquCab1Link" do
350
+ context ".find_by_interval" do
351
+ it 'returns the first records' do
352
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
353
+ result = Bio::Ucsc::Rn4::ChainEquCab1Link.find_by_interval gi
354
+ pp result
355
+ result.should be_true
356
+ end
357
+ end
358
+ end
359
+
360
+ describe "Bio::Ucsc::Rn4::ChainGalGal3" do
361
+ context ".find_by_interval" do
362
+ it 'returns the first records' do
363
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
364
+ result = Bio::Ucsc::Rn4::ChainGalGal3.find_by_interval gi
365
+ pp result
366
+ result.should be_true
367
+ end
368
+ end
369
+ end
370
+
371
+ describe "Bio::Ucsc::Rn4::ChainGalGal3Link" do
372
+ context ".find_by_interval" do
373
+ it 'returns the first records' do
374
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
375
+ result = Bio::Ucsc::Rn4::ChainGalGal3Link.find_by_interval gi
376
+ pp result
377
+ result.should be_true
378
+ end
379
+ end
380
+ end
381
+
382
+ describe "Bio::Ucsc::Rn4::ChainHg19" do
383
+ context ".first" do
384
+ it 'returns the first records' do
385
+ result = Bio::Ucsc::Rn4::ChainHg19.first
386
+ pp result
387
+ result.should be_true
388
+ end
389
+ end
390
+ end
391
+
392
+ describe "Bio::Ucsc::Rn4::ChainHg19Link" do
393
+ context ".first" do
394
+ it 'returns the first records' do
395
+ result = Bio::Ucsc::Rn4::ChainHg19Link.first
396
+ pp result
397
+ result.should be_true
398
+ end
399
+ end
400
+ end
401
+
402
+ describe "Bio::Ucsc::Rn4::ChainMm9" do
403
+ context ".find_by_interval" do
404
+ it 'returns the first records' do
405
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
406
+ result = Bio::Ucsc::Rn4::ChainMm9.find_by_interval gi
407
+ pp result
408
+ result.should be_true
409
+ end
410
+ end
411
+ end
412
+
413
+ describe "Bio::Ucsc::Rn4::ChainMm9Link" do
414
+ context ".find_by_interval" do
415
+ it 'returns the first records' do
416
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
417
+ result = Bio::Ucsc::Rn4::ChainMm9Link.find_by_interval gi
418
+ pp result
419
+ result.should be_true
420
+ end
421
+ end
422
+ end
423
+
424
+ describe "Bio::Ucsc::Rn4::ChainMonDom4" do
425
+ context ".find_by_interval" do
426
+ it 'returns the first records' do
427
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
428
+ result = Bio::Ucsc::Rn4::ChainMonDom4.find_by_interval gi
429
+ pp result
430
+ result.should be_true
431
+ end
432
+ end
433
+ end
434
+
435
+ describe "Bio::Ucsc::Rn4::ChainMonDom4Link" do
436
+ context ".find_by_interval" do
437
+ it 'returns the first records' do
438
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
439
+ result = Bio::Ucsc::Rn4::ChainMonDom4Link.find_by_interval gi
440
+ pp result
441
+ result.should be_true
442
+ end
443
+ end
444
+ end
445
+
446
+ describe "Bio::Ucsc::Rn4::ChainPanTro2" do
447
+ context ".find_by_interval" do
448
+ it 'returns the first records' do
449
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
450
+ result = Bio::Ucsc::Rn4::ChainPanTro2.find_by_interval gi
451
+ pp result
452
+ result.should be_true
453
+ end
454
+ end
455
+ end
456
+
457
+ describe "Bio::Ucsc::Rn4::ChainPanTro2Link" do
458
+ context ".find_by_interval" do
459
+ it 'returns the first records' do
460
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
461
+ result = Bio::Ucsc::Rn4::ChainPanTro2Link.find_by_interval gi
462
+ pp result
463
+ result.should be_true
464
+ end
465
+ end
466
+ end
467
+
468
+ describe "Bio::Ucsc::Rn4::ChainRheMac2" do
469
+ context ".find_by_interval" do
470
+ it 'returns the first records' do
471
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
472
+ result = Bio::Ucsc::Rn4::ChainRheMac2.find_by_interval gi
473
+ pp result
474
+ result.should be_true
475
+ end
476
+ end
477
+ end
478
+
479
+ describe "Bio::Ucsc::Rn4::ChainRheMac2Link" do
480
+ context ".find_by_interval" do
481
+ it 'returns the first records' do
482
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
483
+ result = Bio::Ucsc::Rn4::ChainRheMac2Link.find_by_interval gi
484
+ pp result
485
+ result.should be_true
486
+ end
487
+ end
488
+ end
489
+
490
+ describe "Bio::Ucsc::Rn4::ChainXenTro2" do
491
+ context ".find_by_interval" do
492
+ it 'returns the first records' do
493
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
494
+ result = Bio::Ucsc::Rn4::ChainXenTro2.find_by_interval gi
495
+ pp result
496
+ result.should be_true
497
+ end
498
+ end
499
+ end
500
+
501
+ describe "Bio::Ucsc::Rn4::ChainXenTro2Link" do
502
+ context ".find_by_interval" do
503
+ it 'returns the first records' do
504
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
505
+ result = Bio::Ucsc::Rn4::ChainXenTro2Link.find_by_interval gi
506
+ pp result
507
+ result.should be_true
508
+ end
509
+ end
510
+ end
511
+
512
+ describe "Bio::Ucsc::Rn4::ChromInfo" do
513
+ context ".first" do
514
+ it 'returns the first records' do
515
+ result = Bio::Ucsc::Rn4::ChromInfo.first
516
+ pp result
517
+ result.should be_true
518
+ end
519
+ end
520
+ end
521
+
522
+ describe "Bio::Ucsc::Rn4::ContrastGene" do
523
+ context ".first" do
524
+ it 'returns the first records' do
525
+ result = Bio::Ucsc::Rn4::ContrastGene.first
526
+ pp result
527
+ result.should be_true
528
+ end
529
+ end
530
+ end
531
+
532
+ describe "Bio::Ucsc::Rn4::CpgIslandExt" do
533
+ context ".first" do
534
+ it 'returns the first records' do
535
+ result = Bio::Ucsc::Rn4::CpgIslandExt.first
536
+ pp result
537
+ result.should be_true
538
+ end
539
+ end
540
+ end
541
+
542
+ describe "Bio::Ucsc::Rn4::CpgIslandGgfAndyMasked" do
543
+ context ".first" do
544
+ it 'returns the first records' do
545
+ result = Bio::Ucsc::Rn4::CpgIslandGgfAndyMasked.first
546
+ pp result
547
+ result.should be_true
548
+ end
549
+ end
550
+ end
551
+
552
+ describe "Bio::Ucsc::Rn4::CytoBand" do
553
+ context ".first" do
554
+ it 'returns the first records' do
555
+ result = Bio::Ucsc::Rn4::CytoBand.first
556
+ pp result
557
+ result.should be_true
558
+ end
559
+ end
560
+ end
561
+
562
+ describe "Bio::Ucsc::Rn4::CytoBandIdeo" do
563
+ context ".first" do
564
+ it 'returns the first records' do
565
+ result = Bio::Ucsc::Rn4::CytoBandIdeo.first
566
+ pp result
567
+ result.should be_true
568
+ end
569
+ end
570
+ end
571
+
572
+ describe "Bio::Ucsc::Rn4::Description" do
573
+ context ".first" do
574
+ it 'returns the first records' do
575
+ result = Bio::Ucsc::Rn4::Description.first
576
+ pp result
577
+ result.should be_true
578
+ end
579
+ end
580
+ end
581
+
582
+ describe "Bio::Ucsc::Rn4::Development" do
583
+ context ".first" do
584
+ it 'returns the first records' do
585
+ result = Bio::Ucsc::Rn4::Development.first
586
+ pp result
587
+ result.should be_true
588
+ end
589
+ end
590
+ end
591
+
592
+ describe "Bio::Ucsc::Rn4::DmBlastTab" do
593
+ context ".first" do
594
+ it 'returns the first records' do
595
+ result = Bio::Ucsc::Rn4::DmBlastTab.first
596
+ pp result
597
+ result.should be_true
598
+ end
599
+ end
600
+ end
601
+
602
+ describe "Bio::Ucsc::Rn4::DrBlastTab" do
603
+ context ".first" do
604
+ it 'returns the first records' do
605
+ result = Bio::Ucsc::Rn4::DrBlastTab.first
606
+ pp result
607
+ result.should be_true
608
+ end
609
+ end
610
+ end
611
+
612
+ describe "Bio::Ucsc::Rn4::DupSpMrna" do
613
+ context ".first" do
614
+ it 'returns the first records' do
615
+ result = Bio::Ucsc::Rn4::DupSpMrna.first
616
+ pp result
617
+ result.should be_true
618
+ end
619
+ end
620
+ end
621
+
622
+ describe "Bio::Ucsc::Rn4::EnsGene" do
623
+ context ".first" do
624
+ it 'returns the first records' do
625
+ result = Bio::Ucsc::Rn4::EnsGene.first
626
+ pp result
627
+ result.should be_true
628
+ end
629
+ end
630
+ end
631
+
632
+ describe "Bio::Ucsc::Rn4::EnsGtp" do
633
+ context ".first" do
634
+ it 'returns the first records' do
635
+ result = Bio::Ucsc::Rn4::EnsGtp.first
636
+ pp result
637
+ result.should be_true
638
+ end
639
+ end
640
+ end
641
+
642
+ describe "Bio::Ucsc::Rn4::EnsPep" do
643
+ context ".first" do
644
+ it 'returns the first records' do
645
+ result = Bio::Ucsc::Rn4::EnsPep.first
646
+ pp result
647
+ result.should be_true
648
+ end
649
+ end
650
+ end
651
+
652
+ describe "Bio::Ucsc::Rn4::EnsemblXref3" do
653
+ context ".first" do
654
+ it 'returns the first records' do
655
+ result = Bio::Ucsc::Rn4::EnsemblXref3.first
656
+ pp result
657
+ result.should be_true
658
+ end
659
+ end
660
+ end
661
+
662
+ describe "Bio::Ucsc::Rn4::Est" do
663
+ context ".find_by_interval" do
664
+ it 'returns the first records' do
665
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
666
+ result = Bio::Ucsc::Rn4::Est.find_by_interval gi
667
+ pp result
668
+ result.should be_true
669
+ end
670
+ end
671
+ end
672
+
673
+ describe "Bio::Ucsc::Rn4::EstOrientInfo" do
674
+ context ".first" do
675
+ it 'returns the first records' do
676
+ result = Bio::Ucsc::Rn4::EstOrientInfo.first
677
+ pp result
678
+ result.should be_true
679
+ end
680
+ end
681
+ end
682
+
683
+ describe "Bio::Ucsc::Rn4::ExtFile" do
684
+ context ".first" do
685
+ it 'returns the first records' do
686
+ result = Bio::Ucsc::Rn4::ExtFile.first
687
+ pp result
688
+ result.should be_true
689
+ end
690
+ end
691
+ end
692
+
693
+ describe "Bio::Ucsc::Rn4::Gap" do
694
+ context ".find_by_interval" do
695
+ it 'returns the first records' do
696
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
697
+ result = Bio::Ucsc::Rn4::Gap.find_by_interval gi
698
+ pp result
699
+ result.should be_true
700
+ end
701
+ end
702
+ end
703
+
704
+ describe "Bio::Ucsc::Rn4::GbCdnaInfo" do
705
+ context ".first" do
706
+ it 'returns the first records' do
707
+ result = Bio::Ucsc::Rn4::GbCdnaInfo.first
708
+ pp result
709
+ result.should be_true
710
+ end
711
+ end
712
+ end
713
+
714
+ describe "Bio::Ucsc::Rn4::GbExtFile" do
715
+ context ".first" do
716
+ it 'returns the first records' do
717
+ result = Bio::Ucsc::Rn4::GbExtFile.first
718
+ pp result
719
+ result.should be_true
720
+ end
721
+ end
722
+ end
723
+
724
+ describe "Bio::Ucsc::Rn4::GbLoaded" do
725
+ context ".first" do
726
+ it 'returns the first records' do
727
+ result = Bio::Ucsc::Rn4::GbLoaded.first
728
+ pp result
729
+ result.should be_true
730
+ end
731
+ end
732
+ end
733
+
734
+ describe "Bio::Ucsc::Rn4::GbMiscDiff" do
735
+ context ".first" do
736
+ it 'returns the first records' do
737
+ result = Bio::Ucsc::Rn4::GbMiscDiff.first
738
+ pp result
739
+ result.should be_true
740
+ end
741
+ end
742
+ end
743
+
744
+ describe "Bio::Ucsc::Rn4::GbSeq" do
745
+ context ".first" do
746
+ it 'returns the first records' do
747
+ result = Bio::Ucsc::Rn4::GbSeq.first
748
+ pp result
749
+ result.should be_true
750
+ end
751
+ end
752
+ end
753
+
754
+ describe "Bio::Ucsc::Rn4::GbStatus" do
755
+ context ".first" do
756
+ it 'returns the first records' do
757
+ result = Bio::Ucsc::Rn4::GbStatus.first
758
+ pp result
759
+ result.should be_true
760
+ end
761
+ end
762
+ end
763
+
764
+ describe "Bio::Ucsc::Rn4::GbWarn" do
765
+ context ".first" do
766
+ it 'returns the first records' do
767
+ result = Bio::Ucsc::Rn4::GbWarn.first
768
+ pp result
769
+ result.should be_true
770
+ end
771
+ end
772
+ end
773
+
774
+ describe "Bio::Ucsc::Rn4::Gc5Base" do
775
+ context ".first" do
776
+ it 'returns the first records' do
777
+ result = Bio::Ucsc::Rn4::Gc5Base.first
778
+ pp result
779
+ result.should be_true
780
+ end
781
+ end
782
+ end
783
+
784
+ describe "Bio::Ucsc::Rn4::GeneName" do
785
+ context ".first" do
786
+ it 'returns the first records' do
787
+ result = Bio::Ucsc::Rn4::GeneName.first
788
+ pp result
789
+ result.should be_true
790
+ end
791
+ end
792
+ end
793
+
794
+ describe "Bio::Ucsc::Rn4::GeneNetworkId" do
795
+ context ".first" do
796
+ it 'returns the first records' do
797
+ result = Bio::Ucsc::Rn4::GeneNetworkId.first
798
+ pp result
799
+ result.should be_true
800
+ end
801
+ end
802
+ end
803
+
804
+ describe "Bio::Ucsc::Rn4::Geneid" do
805
+ context ".first" do
806
+ it 'returns the first records' do
807
+ result = Bio::Ucsc::Rn4::Geneid.first
808
+ pp result
809
+ result.should be_true
810
+ end
811
+ end
812
+ end
813
+
814
+ describe "Bio::Ucsc::Rn4::GeneidPep" do
815
+ context ".first" do
816
+ it 'returns the first records' do
817
+ result = Bio::Ucsc::Rn4::GeneidPep.first
818
+ pp result
819
+ result.should be_true
820
+ end
821
+ end
822
+ end
823
+
824
+ describe "Bio::Ucsc::Rn4::Genscan" do
825
+ context ".first" do
826
+ it 'returns the first records' do
827
+ result = Bio::Ucsc::Rn4::Genscan.first
828
+ pp result
829
+ result.should be_true
830
+ end
831
+ end
832
+ end
833
+
834
+ describe "Bio::Ucsc::Rn4::GenscanPep" do
835
+ context ".first" do
836
+ it 'returns the first records' do
837
+ result = Bio::Ucsc::Rn4::GenscanPep.first
838
+ pp result
839
+ result.should be_true
840
+ end
841
+ end
842
+ end
843
+
844
+ describe "Bio::Ucsc::Rn4::GnfAtlas2" do
845
+ context ".first" do
846
+ it 'returns the first records' do
847
+ result = Bio::Ucsc::Rn4::GnfAtlas2.first
848
+ pp result
849
+ result.should be_true
850
+ end
851
+ end
852
+ end
853
+
854
+ describe "Bio::Ucsc::Rn4::GnfAtlas2Distance" do
855
+ context ".first" do
856
+ it 'returns the first records' do
857
+ result = Bio::Ucsc::Rn4::GnfAtlas2Distance.first
858
+ pp result
859
+ result.should be_true
860
+ end
861
+ end
862
+ end
863
+
864
+ describe "Bio::Ucsc::Rn4::Gold" do
865
+ context ".find_by_interval" do
866
+ it 'returns the first records' do
867
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
868
+ result = Bio::Ucsc::Rn4::Gold.find_by_interval gi
869
+ pp result
870
+ result.should be_true
871
+ end
872
+ end
873
+ end
874
+
875
+ describe "Bio::Ucsc::Rn4::Grp" do
876
+ context ".first" do
877
+ it 'returns the first records' do
878
+ result = Bio::Ucsc::Rn4::Grp.first
879
+ pp result
880
+ result.should be_true
881
+ end
882
+ end
883
+ end
884
+
885
+ describe "Bio::Ucsc::Rn4::HgBlastTab" do
886
+ context ".first" do
887
+ it 'returns the first records' do
888
+ result = Bio::Ucsc::Rn4::HgBlastTab.first
889
+ pp result
890
+ result.should be_true
891
+ end
892
+ end
893
+ end
894
+
895
+ describe "Bio::Ucsc::Rn4::HgFindSpec" do
896
+ context ".first" do
897
+ it 'returns the first records' do
898
+ result = Bio::Ucsc::Rn4::HgFindSpec.first
899
+ pp result
900
+ result.should be_true
901
+ end
902
+ end
903
+ end
904
+
905
+ describe "Bio::Ucsc::Rn4::History" do
906
+ context ".first" do
907
+ it 'returns the first records' do
908
+ result = Bio::Ucsc::Rn4::History.first
909
+ pp result
910
+ result.should be_true
911
+ end
912
+ end
913
+ end
914
+
915
+ describe "Bio::Ucsc::Rn4::ImageClone" do
916
+ context ".first" do
917
+ it 'returns the first records' do
918
+ result = Bio::Ucsc::Rn4::ImageClone.first
919
+ pp result
920
+ result.should be_true
921
+ end
922
+ end
923
+ end
924
+
925
+ describe "Bio::Ucsc::Rn4::IntronEst" do
926
+ context ".find_by_interval" do
927
+ it 'returns the first records' do
928
+ gi = Bio::GenomicInterval.parse("chrX:1-1,000,000")
929
+ result = Bio::Ucsc::Rn4::IntronEst.find_by_interval gi
930
+ pp result
931
+ result.should be_true
932
+ end
933
+ end
934
+ end
935
+
936
+ describe "Bio::Ucsc::Rn4::KeggMapDesc" do
937
+ context ".first" do
938
+ it 'returns the first records' do
939
+ result = Bio::Ucsc::Rn4::KeggMapDesc.first
940
+ pp result
941
+ result.should be_true
942
+ end
943
+ end
944
+ end
945
+
946
+ describe "Bio::Ucsc::Rn4::KeggPathway" do
947
+ context ".first" do
948
+ it 'returns the first records' do
949
+ result = Bio::Ucsc::Rn4::KeggPathway.first
950
+ pp result
951
+ result.should be_true
952
+ end
953
+ end
954
+ end
955
+
956
+ describe "Bio::Ucsc::Rn4::Keyword" do
957
+ context ".first" do
958
+ it 'returns the first records' do
959
+ result = Bio::Ucsc::Rn4::Keyword.first
960
+ pp result
961
+ result.should be_true
962
+ end
963
+ end
964
+ end
965
+
966
+ describe "Bio::Ucsc::Rn4::KgAlias" do
967
+ context ".first" do
968
+ it 'returns the first records' do
969
+ result = Bio::Ucsc::Rn4::KgAlias.first
970
+ pp result
971
+ result.should be_true
972
+ end
973
+ end
974
+ end
975
+
976
+ describe "Bio::Ucsc::Rn4::KgProtAlias" do
977
+ context ".first" do
978
+ it 'returns the first records' do
979
+ result = Bio::Ucsc::Rn4::KgProtAlias.first
980
+ pp result
981
+ result.should be_true
982
+ end
983
+ end
984
+ end
985
+
986
+ describe "Bio::Ucsc::Rn4::KgProtMap" do
987
+ context ".first" do
988
+ it 'returns the first records' do
989
+ result = Bio::Ucsc::Rn4::KgProtMap.first
990
+ pp result
991
+ result.should be_true
992
+ end
993
+ end
994
+ end
995
+
996
+ describe "Bio::Ucsc::Rn4::KgSpAlias" do
997
+ context ".first" do
998
+ it 'returns the first records' do
999
+ result = Bio::Ucsc::Rn4::KgSpAlias.first
1000
+ pp result
1001
+ result.should be_true
1002
+ end
1003
+ end
1004
+ end
1005
+
1006
+ describe "Bio::Ucsc::Rn4::KgXref" do
1007
+ context ".first" do
1008
+ it 'returns the first records' do
1009
+ result = Bio::Ucsc::Rn4::KgXref.first
1010
+ pp result
1011
+ result.should be_true
1012
+ end
1013
+ end
1014
+ end
1015
+
1016
+ describe "Bio::Ucsc::Rn4::KnownBlastTab" do
1017
+ context ".first" do
1018
+ it 'returns the first records' do
1019
+ result = Bio::Ucsc::Rn4::KnownBlastTab.first
1020
+ pp result
1021
+ result.should be_true
1022
+ end
1023
+ end
1024
+ end
1025
+
1026
+ describe "Bio::Ucsc::Rn4::KnownCanonical" do
1027
+ context ".first" do
1028
+ it 'returns the first records' do
1029
+ result = Bio::Ucsc::Rn4::KnownCanonical.first
1030
+ pp result
1031
+ result.should be_true
1032
+ end
1033
+ end
1034
+ end
1035
+
1036
+ describe "Bio::Ucsc::Rn4::KnownGene" do
1037
+ context ".first" do
1038
+ it 'returns the first records' do
1039
+ result = Bio::Ucsc::Rn4::KnownGene.first
1040
+ pp result
1041
+ result.should be_true
1042
+ end
1043
+ end
1044
+ end
1045
+
1046
+ describe "Bio::Ucsc::Rn4::KnownGeneMrna" do
1047
+ context ".first" do
1048
+ it 'returns the first records' do
1049
+ result = Bio::Ucsc::Rn4::KnownGeneMrna.first
1050
+ pp result
1051
+ result.should be_true
1052
+ end
1053
+ end
1054
+ end
1055
+
1056
+ describe "Bio::Ucsc::Rn4::KnownGenePep" do
1057
+ context ".first" do
1058
+ it 'returns the first records' do
1059
+ result = Bio::Ucsc::Rn4::KnownGenePep.first
1060
+ pp result
1061
+ result.should be_true
1062
+ end
1063
+ end
1064
+ end
1065
+
1066
+ describe "Bio::Ucsc::Rn4::KnownIsoforms" do
1067
+ context ".first" do
1068
+ it 'returns the first records' do
1069
+ result = Bio::Ucsc::Rn4::KnownIsoforms.first
1070
+ pp result
1071
+ result.should be_true
1072
+ end
1073
+ end
1074
+ end
1075
+
1076
+ describe "Bio::Ucsc::Rn4::KnownToEnsembl" do
1077
+ context ".first" do
1078
+ it 'returns the first records' do
1079
+ result = Bio::Ucsc::Rn4::KnownToEnsembl.first
1080
+ pp result
1081
+ result.should be_true
1082
+ end
1083
+ end
1084
+ end
1085
+
1086
+ describe "Bio::Ucsc::Rn4::KnownToGnfAtlas2" do
1087
+ context ".first" do
1088
+ it 'returns the first records' do
1089
+ result = Bio::Ucsc::Rn4::KnownToGnfAtlas2.first
1090
+ pp result
1091
+ result.should be_true
1092
+ end
1093
+ end
1094
+ end
1095
+
1096
+ describe "Bio::Ucsc::Rn4::KnownToKeggEntrez" do
1097
+ context ".first" do
1098
+ it 'returns the first records' do
1099
+ result = Bio::Ucsc::Rn4::KnownToKeggEntrez.first
1100
+ pp result
1101
+ result.should be_true
1102
+ end
1103
+ end
1104
+ end
1105
+
1106
+ describe "Bio::Ucsc::Rn4::KnownToLocusLink" do
1107
+ context ".first" do
1108
+ it 'returns the first records' do
1109
+ result = Bio::Ucsc::Rn4::KnownToLocusLink.first
1110
+ pp result
1111
+ result.should be_true
1112
+ end
1113
+ end
1114
+ end
1115
+
1116
+ describe "Bio::Ucsc::Rn4::KnownToPfam" do
1117
+ context ".first" do
1118
+ it 'returns the first records' do
1119
+ result = Bio::Ucsc::Rn4::KnownToPfam.first
1120
+ pp result
1121
+ result.should be_true
1122
+ end
1123
+ end
1124
+ end
1125
+
1126
+ describe "Bio::Ucsc::Rn4::KnownToRAE230" do
1127
+ context ".first" do
1128
+ it 'returns the first records' do
1129
+ result = Bio::Ucsc::Rn4::KnownToRAE230.first
1130
+ pp result
1131
+ result.should be_true
1132
+ end
1133
+ end
1134
+ end
1135
+
1136
+ describe "Bio::Ucsc::Rn4::KnownToRefSeq" do
1137
+ context ".first" do
1138
+ it 'returns the first records' do
1139
+ result = Bio::Ucsc::Rn4::KnownToRefSeq.first
1140
+ pp result
1141
+ result.should be_true
1142
+ end
1143
+ end
1144
+ end
1145
+
1146
+ describe "Bio::Ucsc::Rn4::KnownToSuper" do
1147
+ context ".first" do
1148
+ it 'returns the first records' do
1149
+ result = Bio::Ucsc::Rn4::KnownToSuper.first
1150
+ pp result
1151
+ result.should be_true
1152
+ end
1153
+ end
1154
+ end
1155
+
1156
+ describe "Bio::Ucsc::Rn4::KnownToU34A" do
1157
+ context ".first" do
1158
+ it 'returns the first records' do
1159
+ result = Bio::Ucsc::Rn4::KnownToU34A.first
1160
+ pp result
1161
+ result.should be_true
1162
+ end
1163
+ end
1164
+ end
1165
+
1166
+ describe "Bio::Ucsc::Rn4::Library" do
1167
+ context ".first" do
1168
+ it 'returns the first records' do
1169
+ result = Bio::Ucsc::Rn4::Library.first
1170
+ pp result
1171
+ result.should be_true
1172
+ end
1173
+ end
1174
+ end
1175
+
1176
+ describe "Bio::Ucsc::Rn4::MgcFullMrna" do
1177
+ context ".first" do
1178
+ it 'returns the first records' do
1179
+ result = Bio::Ucsc::Rn4::MgcFullMrna.first
1180
+ pp result
1181
+ result.should be_true
1182
+ end
1183
+ end
1184
+ end
1185
+
1186
+ describe "Bio::Ucsc::Rn4::MgcGenes" do
1187
+ context ".first" do
1188
+ it 'returns the first records' do
1189
+ result = Bio::Ucsc::Rn4::MgcGenes.first
1190
+ pp result
1191
+ result.should be_true
1192
+ end
1193
+ end
1194
+ end
1195
+
1196
+ describe "Bio::Ucsc::Rn4::MiRNA" do
1197
+ context ".first" do
1198
+ it 'returns the first records' do
1199
+ result = Bio::Ucsc::Rn4::MiRNA.first
1200
+ pp result
1201
+ result.should be_true
1202
+ end
1203
+ end
1204
+ end
1205
+
1206
+ describe "Bio::Ucsc::Rn4::Microsat" do
1207
+ context ".first" do
1208
+ it 'returns the first records' do
1209
+ result = Bio::Ucsc::Rn4::Microsat.first
1210
+ pp result
1211
+ result.should be_true
1212
+ end
1213
+ end
1214
+ end
1215
+
1216
+ describe "Bio::Ucsc::Rn4::MmBlastTab" do
1217
+ context ".first" do
1218
+ it 'returns the first records' do
1219
+ result = Bio::Ucsc::Rn4::MmBlastTab.first
1220
+ pp result
1221
+ result.should be_true
1222
+ end
1223
+ end
1224
+ end
1225
+
1226
+ describe "Bio::Ucsc::Rn4::Mrna" do
1227
+ context ".find_by_interval" do
1228
+ it 'returns the first records' do
1229
+ gi = Bio::GenomicInterval.parse("chrX:1-5,000,000")
1230
+ result = Bio::Ucsc::Rn4::Mrna.find_by_interval gi
1231
+ pp result
1232
+ result.should be_true
1233
+ end
1234
+ end
1235
+ end
1236
+
1237
+ describe "Bio::Ucsc::Rn4::MrnaClone" do
1238
+ context ".first" do
1239
+ it 'returns the first records' do
1240
+ result = Bio::Ucsc::Rn4::MrnaClone.first
1241
+ pp result
1242
+ result.should be_true
1243
+ end
1244
+ end
1245
+ end
1246
+
1247
+ describe "Bio::Ucsc::Rn4::MrnaOrientInfo" do
1248
+ context ".first" do
1249
+ it 'returns the first records' do
1250
+ result = Bio::Ucsc::Rn4::MrnaOrientInfo.first
1251
+ pp result
1252
+ result.should be_true
1253
+ end
1254
+ end
1255
+ end
1256
+
1257
+ describe "Bio::Ucsc::Rn4::MrnaRefseq" do
1258
+ context ".first" do
1259
+ it 'returns the first records' do
1260
+ result = Bio::Ucsc::Rn4::MrnaRefseq.first
1261
+ pp result
1262
+ result.should be_true
1263
+ end
1264
+ end
1265
+ end
1266
+
1267
+ describe "Bio::Ucsc::Rn4::Multiz9way" do
1268
+ context ".first" do
1269
+ it 'returns the first records' do
1270
+ result = Bio::Ucsc::Rn4::Multiz9way.first
1271
+ pp result
1272
+ result.should be_true
1273
+ end
1274
+ end
1275
+ end
1276
+
1277
+ describe "Bio::Ucsc::Rn4::Multiz9wayFrames" do
1278
+ context ".first" do
1279
+ it 'returns the first records' do
1280
+ result = Bio::Ucsc::Rn4::Multiz9wayFrames.first
1281
+ pp result
1282
+ result.should be_true
1283
+ end
1284
+ end
1285
+ end
1286
+
1287
+ describe "Bio::Ucsc::Rn4::Multiz9waySummary" do
1288
+ context ".first" do
1289
+ it 'returns the first records' do
1290
+ result = Bio::Ucsc::Rn4::Multiz9waySummary.first
1291
+ pp result
1292
+ result.should be_true
1293
+ end
1294
+ end
1295
+ end
1296
+
1297
+ describe "Bio::Ucsc::Rn4::NetAilMel1" do
1298
+ context ".first" do
1299
+ it 'returns the first records' do
1300
+ result = Bio::Ucsc::Rn4::NetAilMel1.first
1301
+ pp result
1302
+ result.should be_true
1303
+ end
1304
+ end
1305
+ end
1306
+
1307
+ describe "Bio::Ucsc::Rn4::NetBosTau3" do
1308
+ context ".first" do
1309
+ it 'returns the first records' do
1310
+ result = Bio::Ucsc::Rn4::NetBosTau3.first
1311
+ pp result
1312
+ result.should be_true
1313
+ end
1314
+ end
1315
+ end
1316
+
1317
+ describe "Bio::Ucsc::Rn4::NetCanFam2" do
1318
+ context ".first" do
1319
+ it 'returns the first records' do
1320
+ result = Bio::Ucsc::Rn4::NetCanFam2.first
1321
+ pp result
1322
+ result.should be_true
1323
+ end
1324
+ end
1325
+ end
1326
+
1327
+ describe "Bio::Ucsc::Rn4::NetCavPor3" do
1328
+ context ".first" do
1329
+ it 'returns the first records' do
1330
+ result = Bio::Ucsc::Rn4::NetCavPor3.first
1331
+ pp result
1332
+ result.should be_true
1333
+ end
1334
+ end
1335
+ end
1336
+
1337
+ describe "Bio::Ucsc::Rn4::NetDanRer4" do
1338
+ context ".first" do
1339
+ it 'returns the first records' do
1340
+ result = Bio::Ucsc::Rn4::NetDanRer4.first
1341
+ pp result
1342
+ result.should be_true
1343
+ end
1344
+ end
1345
+ end
1346
+
1347
+ describe "Bio::Ucsc::Rn4::NetEquCab1" do
1348
+ context ".first" do
1349
+ it 'returns the first records' do
1350
+ result = Bio::Ucsc::Rn4::NetEquCab1.first
1351
+ pp result
1352
+ result.should be_true
1353
+ end
1354
+ end
1355
+ end
1356
+
1357
+ describe "Bio::Ucsc::Rn4::NetGalGal3" do
1358
+ context ".first" do
1359
+ it 'returns the first records' do
1360
+ result = Bio::Ucsc::Rn4::NetGalGal3.first
1361
+ pp result
1362
+ result.should be_true
1363
+ end
1364
+ end
1365
+ end
1366
+
1367
+ describe "Bio::Ucsc::Rn4::NetHg19" do
1368
+ context ".first" do
1369
+ it 'returns the first records' do
1370
+ result = Bio::Ucsc::Rn4::NetHg19.first
1371
+ pp result
1372
+ result.should be_true
1373
+ end
1374
+ end
1375
+ end
1376
+
1377
+ describe "Bio::Ucsc::Rn4::NetMm9" do
1378
+ context ".first" do
1379
+ it 'returns the first records' do
1380
+ result = Bio::Ucsc::Rn4::NetMm9.first
1381
+ pp result
1382
+ result.should be_true
1383
+ end
1384
+ end
1385
+ end
1386
+
1387
+ describe "Bio::Ucsc::Rn4::NetMonDom4" do
1388
+ context ".first" do
1389
+ it 'returns the first records' do
1390
+ result = Bio::Ucsc::Rn4::NetMonDom4.first
1391
+ pp result
1392
+ result.should be_true
1393
+ end
1394
+ end
1395
+ end
1396
+
1397
+ describe "Bio::Ucsc::Rn4::NetPanTro2" do
1398
+ context ".first" do
1399
+ it 'returns the first records' do
1400
+ result = Bio::Ucsc::Rn4::NetPanTro2.first
1401
+ pp result
1402
+ result.should be_true
1403
+ end
1404
+ end
1405
+ end
1406
+
1407
+ describe "Bio::Ucsc::Rn4::NetRheMac2" do
1408
+ context ".first" do
1409
+ it 'returns the first records' do
1410
+ result = Bio::Ucsc::Rn4::NetRheMac2.first
1411
+ pp result
1412
+ result.should be_true
1413
+ end
1414
+ end
1415
+ end
1416
+
1417
+ describe "Bio::Ucsc::Rn4::NetXenTro2" do
1418
+ context ".first" do
1419
+ it 'returns the first records' do
1420
+ result = Bio::Ucsc::Rn4::NetXenTro2.first
1421
+ pp result
1422
+ result.should be_true
1423
+ end
1424
+ end
1425
+ end
1426
+
1427
+ describe "Bio::Ucsc::Rn4::NscanGene" do
1428
+ context ".first" do
1429
+ it 'returns the first records' do
1430
+ result = Bio::Ucsc::Rn4::NscanGene.first
1431
+ pp result
1432
+ result.should be_true
1433
+ end
1434
+ end
1435
+ end
1436
+
1437
+ describe "Bio::Ucsc::Rn4::NscanPep" do
1438
+ context ".first" do
1439
+ it 'returns the first records' do
1440
+ result = Bio::Ucsc::Rn4::NscanPep.first
1441
+ pp result
1442
+ result.should be_true
1443
+ end
1444
+ end
1445
+ end
1446
+
1447
+ describe "Bio::Ucsc::Rn4::Organism" do
1448
+ context ".first" do
1449
+ it 'returns the first records' do
1450
+ result = Bio::Ucsc::Rn4::Organism.first
1451
+ pp result
1452
+ result.should be_true
1453
+ end
1454
+ end
1455
+ end
1456
+
1457
+ describe "Bio::Ucsc::Rn4::PbAnomLimit" do
1458
+ context ".first" do
1459
+ it 'returns the first records' do
1460
+ result = Bio::Ucsc::Rn4::PbAnomLimit.first
1461
+ pp result
1462
+ result.should be_true
1463
+ end
1464
+ end
1465
+ end
1466
+
1467
+ describe "Bio::Ucsc::Rn4::PbResAvgStd" do
1468
+ context ".first" do
1469
+ it 'returns the first records' do
1470
+ result = Bio::Ucsc::Rn4::PbResAvgStd.first
1471
+ pp result
1472
+ result.should be_true
1473
+ end
1474
+ end
1475
+ end
1476
+
1477
+ describe "Bio::Ucsc::Rn4::PbStamp" do
1478
+ context ".first" do
1479
+ it 'returns the first records' do
1480
+ result = Bio::Ucsc::Rn4::PbStamp.first
1481
+ pp result
1482
+ result.should be_true
1483
+ end
1484
+ end
1485
+ end
1486
+
1487
+ describe "Bio::Ucsc::Rn4::PepCCntDist" do
1488
+ context ".first" do
1489
+ it 'returns the first records' do
1490
+ result = Bio::Ucsc::Rn4::PepCCntDist.first
1491
+ pp result
1492
+ result.should be_true
1493
+ end
1494
+ end
1495
+ end
1496
+
1497
+ describe "Bio::Ucsc::Rn4::PepExonCntDist" do
1498
+ context ".first" do
1499
+ it 'returns the first records' do
1500
+ result = Bio::Ucsc::Rn4::PepExonCntDist.first
1501
+ pp result
1502
+ result.should be_true
1503
+ end
1504
+ end
1505
+ end
1506
+
1507
+ describe "Bio::Ucsc::Rn4::PepHydroDist" do
1508
+ context ".first" do
1509
+ it 'returns the first records' do
1510
+ result = Bio::Ucsc::Rn4::PepHydroDist.first
1511
+ pp result
1512
+ result.should be_true
1513
+ end
1514
+ end
1515
+ end
1516
+
1517
+ describe "Bio::Ucsc::Rn4::PepIPCntDist" do
1518
+ context ".first" do
1519
+ it 'returns the first records' do
1520
+ result = Bio::Ucsc::Rn4::PepIPCntDist.first
1521
+ pp result
1522
+ result.should be_true
1523
+ end
1524
+ end
1525
+ end
1526
+
1527
+ describe "Bio::Ucsc::Rn4::PepMolWtDist" do
1528
+ context ".first" do
1529
+ it 'returns the first records' do
1530
+ result = Bio::Ucsc::Rn4::PepMolWtDist.first
1531
+ pp result
1532
+ result.should be_true
1533
+ end
1534
+ end
1535
+ end
1536
+
1537
+ describe "Bio::Ucsc::Rn4::PepMwAa" do
1538
+ context ".first" do
1539
+ it 'returns the first records' do
1540
+ result = Bio::Ucsc::Rn4::PepMwAa.first
1541
+ pp result
1542
+ result.should be_true
1543
+ end
1544
+ end
1545
+ end
1546
+
1547
+ describe "Bio::Ucsc::Rn4::PepPi" do
1548
+ context ".first" do
1549
+ it 'returns the first records' do
1550
+ result = Bio::Ucsc::Rn4::PepPi.first
1551
+ pp result
1552
+ result.should be_true
1553
+ end
1554
+ end
1555
+ end
1556
+
1557
+ describe "Bio::Ucsc::Rn4::PepPiDist" do
1558
+ context ".first" do
1559
+ it 'returns the first records' do
1560
+ result = Bio::Ucsc::Rn4::PepPiDist.first
1561
+ pp result
1562
+ result.should be_true
1563
+ end
1564
+ end
1565
+ end
1566
+
1567
+ describe "Bio::Ucsc::Rn4::PepResDist" do
1568
+ context ".first" do
1569
+ it 'returns the first records' do
1570
+ result = Bio::Ucsc::Rn4::PepResDist.first
1571
+ pp result
1572
+ result.should be_true
1573
+ end
1574
+ end
1575
+ end
1576
+
1577
+ describe "Bio::Ucsc::Rn4::PhastCons9way" do
1578
+ context ".first" do
1579
+ it 'returns the first records' do
1580
+ result = Bio::Ucsc::Rn4::PhastCons9way.first
1581
+ pp result
1582
+ result.should be_true
1583
+ end
1584
+ end
1585
+ end
1586
+
1587
+ describe "Bio::Ucsc::Rn4::PhastConsElements9way" do
1588
+ context ".first" do
1589
+ it 'returns the first records' do
1590
+ result = Bio::Ucsc::Rn4::PhastConsElements9way.first
1591
+ pp result
1592
+ result.should be_true
1593
+ end
1594
+ end
1595
+ end
1596
+
1597
+ describe "Bio::Ucsc::Rn4::ProductName" do
1598
+ context ".first" do
1599
+ it 'returns the first records' do
1600
+ result = Bio::Ucsc::Rn4::ProductName.first
1601
+ pp result
1602
+ result.should be_true
1603
+ end
1604
+ end
1605
+ end
1606
+
1607
+ describe "Bio::Ucsc::Rn4::RefFlat" do
1608
+ context ".first" do
1609
+ it 'returns the first records' do
1610
+ result = Bio::Ucsc::Rn4::RefFlat.first
1611
+ pp result
1612
+ result.should be_true
1613
+ end
1614
+ end
1615
+ end
1616
+
1617
+ describe "Bio::Ucsc::Rn4::RefGene" do
1618
+ context ".first" do
1619
+ it 'returns the first records' do
1620
+ result = Bio::Ucsc::Rn4::RefGene.first
1621
+ pp result
1622
+ result.should be_true
1623
+ end
1624
+ end
1625
+ end
1626
+
1627
+ describe "Bio::Ucsc::Rn4::RefLink" do
1628
+ context ".first" do
1629
+ it 'returns the first records' do
1630
+ result = Bio::Ucsc::Rn4::RefLink.first
1631
+ pp result
1632
+ result.should be_true
1633
+ end
1634
+ end
1635
+ end
1636
+
1637
+ describe "Bio::Ucsc::Rn4::RefSeqAli" do
1638
+ context ".first" do
1639
+ it 'returns the first records' do
1640
+ result = Bio::Ucsc::Rn4::RefSeqAli.first
1641
+ pp result
1642
+ result.should be_true
1643
+ end
1644
+ end
1645
+ end
1646
+
1647
+ describe "Bio::Ucsc::Rn4::RefSeqStatus" do
1648
+ context ".first" do
1649
+ it 'returns the first records' do
1650
+ result = Bio::Ucsc::Rn4::RefSeqStatus.first
1651
+ pp result
1652
+ result.should be_true
1653
+ end
1654
+ end
1655
+ end
1656
+
1657
+ describe "Bio::Ucsc::Rn4::RefSeqSummary" do
1658
+ context ".first" do
1659
+ it 'returns the first records' do
1660
+ result = Bio::Ucsc::Rn4::RefSeqSummary.first
1661
+ pp result
1662
+ result.should be_true
1663
+ end
1664
+ end
1665
+ end
1666
+
1667
+ describe "Bio::Ucsc::Rn4::RgdQtl" do
1668
+ context ".first" do
1669
+ it 'returns the first records' do
1670
+ result = Bio::Ucsc::Rn4::RgdQtl.first
1671
+ pp result
1672
+ result.should be_true
1673
+ end
1674
+ end
1675
+ end
1676
+
1677
+ describe "Bio::Ucsc::Rn4::RgdQtlLink" do
1678
+ context ".first" do
1679
+ it 'returns the first records' do
1680
+ result = Bio::Ucsc::Rn4::RgdQtlLink.first
1681
+ pp result
1682
+ result.should be_true
1683
+ end
1684
+ end
1685
+ end
1686
+
1687
+ describe "Bio::Ucsc::Rn4::Rmsk" do
1688
+ context ".first" do
1689
+ it 'returns the first records' do
1690
+ gi = Bio::GenomicInterval.parse("chrX:1-5,000,000")
1691
+ result = Bio::Ucsc::Rn4::Rmsk.find_by_interval gi
1692
+ pp result
1693
+ result.should be_true
1694
+ end
1695
+ end
1696
+ end
1697
+
1698
+ describe "Bio::Ucsc::Rn4::ScBlastTab" do
1699
+ context ".first" do
1700
+ it 'returns the first records' do
1701
+ result = Bio::Ucsc::Rn4::ScBlastTab.first
1702
+ pp result
1703
+ result.should be_true
1704
+ end
1705
+ end
1706
+ end
1707
+
1708
+ describe "Bio::Ucsc::Rn4::Seq" do
1709
+ context ".first" do
1710
+ it 'returns the first records' do
1711
+ result = Bio::Ucsc::Rn4::Seq.first
1712
+ pp result
1713
+ result.should be_true
1714
+ end
1715
+ end
1716
+ end
1717
+
1718
+ describe "Bio::Ucsc::Rn4::Sex" do
1719
+ context ".first" do
1720
+ it 'returns the first records' do
1721
+ result = Bio::Ucsc::Rn4::Sex.first
1722
+ pp result
1723
+ result.should be_true
1724
+ end
1725
+ end
1726
+ end
1727
+
1728
+ describe "Bio::Ucsc::Rn4::SfAssign" do
1729
+ context ".first" do
1730
+ it 'returns the first records' do
1731
+ result = Bio::Ucsc::Rn4::SfAssign.first
1732
+ pp result
1733
+ result.should be_true
1734
+ end
1735
+ end
1736
+ end
1737
+
1738
+ describe "Bio::Ucsc::Rn4::SfDes" do
1739
+ context ".first" do
1740
+ it 'returns the first records' do
1741
+ result = Bio::Ucsc::Rn4::SfDes.first
1742
+ pp result
1743
+ result.should be_true
1744
+ end
1745
+ end
1746
+ end
1747
+
1748
+ describe "Bio::Ucsc::Rn4::SfDescription" do
1749
+ context ".first" do
1750
+ it 'returns the first records' do
1751
+ result = Bio::Ucsc::Rn4::SfDescription.first
1752
+ pp result
1753
+ result.should be_true
1754
+ end
1755
+ end
1756
+ end
1757
+
1758
+ describe "Bio::Ucsc::Rn4::SgpGene" do
1759
+ context ".first" do
1760
+ it 'returns the first records' do
1761
+ result = Bio::Ucsc::Rn4::SgpGene.first
1762
+ pp result
1763
+ result.should be_true
1764
+ end
1765
+ end
1766
+ end
1767
+
1768
+ describe "Bio::Ucsc::Rn4::SimpleRepeat" do
1769
+ context ".first" do
1770
+ it 'returns the first records' do
1771
+ result = Bio::Ucsc::Rn4::SimpleRepeat.first
1772
+ pp result
1773
+ result.should be_true
1774
+ end
1775
+ end
1776
+ end
1777
+
1778
+ describe "Bio::Ucsc::Rn4::Snp125" do
1779
+ context ".first" do
1780
+ it 'returns the first records' do
1781
+ result = Bio::Ucsc::Rn4::Snp125.first
1782
+ pp result
1783
+ result.should be_true
1784
+ end
1785
+ end
1786
+ end
1787
+
1788
+ describe "Bio::Ucsc::Rn4::Snp125ExceptionDesc" do
1789
+ context ".first" do
1790
+ it 'returns the first records' do
1791
+ result = Bio::Ucsc::Rn4::Snp125ExceptionDesc.first
1792
+ pp result
1793
+ result.should be_true
1794
+ end
1795
+ end
1796
+ end
1797
+
1798
+ describe "Bio::Ucsc::Rn4::Snp125Exceptions" do
1799
+ context ".first" do
1800
+ it 'returns the first records' do
1801
+ result = Bio::Ucsc::Rn4::Snp125Exceptions.first
1802
+ pp result
1803
+ result.should be_true
1804
+ end
1805
+ end
1806
+ end
1807
+
1808
+ describe "Bio::Ucsc::Rn4::SnpSeq" do
1809
+ context ".first" do
1810
+ it 'returns the first records' do
1811
+ result = Bio::Ucsc::Rn4::SnpSeq.first
1812
+ pp result
1813
+ result.should be_true
1814
+ end
1815
+ end
1816
+ end
1817
+
1818
+ describe "Bio::Ucsc::Rn4::Source" do
1819
+ context ".first" do
1820
+ it 'returns the first records' do
1821
+ result = Bio::Ucsc::Rn4::Source.first
1822
+ pp result
1823
+ result.should be_true
1824
+ end
1825
+ end
1826
+ end
1827
+
1828
+ describe "Bio::Ucsc::Rn4::SpMrna" do
1829
+ context ".first" do
1830
+ it 'returns the first records' do
1831
+ result = Bio::Ucsc::Rn4::SpMrna.first
1832
+ pp result
1833
+ result.should be_true
1834
+ end
1835
+ end
1836
+ end
1837
+
1838
+ describe "Bio::Ucsc::Rn4::StsAlias" do
1839
+ context ".first" do
1840
+ it 'returns the first records' do
1841
+ result = Bio::Ucsc::Rn4::StsAlias.first
1842
+ pp result
1843
+ result.should be_true
1844
+ end
1845
+ end
1846
+ end
1847
+
1848
+ describe "Bio::Ucsc::Rn4::StsInfoRat" do
1849
+ context ".first" do
1850
+ it 'returns the first records' do
1851
+ result = Bio::Ucsc::Rn4::StsInfoRat.first
1852
+ pp result
1853
+ result.should be_true
1854
+ end
1855
+ end
1856
+ end
1857
+
1858
+ describe "Bio::Ucsc::Rn4::StsMapRat" do
1859
+ context ".first" do
1860
+ it 'returns the first records' do
1861
+ result = Bio::Ucsc::Rn4::StsMapRat.first
1862
+ pp result
1863
+ result.should be_true
1864
+ end
1865
+ end
1866
+ end
1867
+
1868
+ describe "Bio::Ucsc::Rn4::TRNAs" do
1869
+ context ".first" do
1870
+ it 'returns the first records' do
1871
+ result = Bio::Ucsc::Rn4::TRNAs.first
1872
+ pp result
1873
+ result.should be_true
1874
+ end
1875
+ end
1876
+ end
1877
+
1878
+ describe "Bio::Ucsc::Rn4::TableDescriptions" do
1879
+ context ".first" do
1880
+ it 'returns the first records' do
1881
+ result = Bio::Ucsc::Rn4::TableDescriptions.first
1882
+ pp result
1883
+ result.should be_true
1884
+ end
1885
+ end
1886
+ end
1887
+
1888
+ describe "Bio::Ucsc::Rn4::Tissue" do
1889
+ context ".first" do
1890
+ it 'returns the first records' do
1891
+ result = Bio::Ucsc::Rn4::Tissue.first
1892
+ pp result
1893
+ result.should be_true
1894
+ end
1895
+ end
1896
+ end
1897
+
1898
+ describe "Bio::Ucsc::Rn4::TrackDb" do
1899
+ context ".first" do
1900
+ it 'returns the first records' do
1901
+ result = Bio::Ucsc::Rn4::TrackDb.first
1902
+ pp result
1903
+ result.should be_true
1904
+ end
1905
+ end
1906
+ end
1907
+
1908
+ describe "Bio::Ucsc::Rn4::TransMapAlnMRna" do
1909
+ context ".first" do
1910
+ it 'returns the first records' do
1911
+ result = Bio::Ucsc::Rn4::TransMapAlnMRna.first
1912
+ pp result
1913
+ result.should be_true
1914
+ end
1915
+ end
1916
+ end
1917
+
1918
+ describe "Bio::Ucsc::Rn4::TransMapAlnRefSeq" do
1919
+ context ".first" do
1920
+ it 'returns the first records' do
1921
+ result = Bio::Ucsc::Rn4::TransMapAlnRefSeq.first
1922
+ pp result
1923
+ result.should be_true
1924
+ end
1925
+ end
1926
+ end
1927
+
1928
+ describe "Bio::Ucsc::Rn4::TransMapAlnSplicedEst" do
1929
+ context ".first" do
1930
+ it 'returns the first records' do
1931
+ result = Bio::Ucsc::Rn4::TransMapAlnSplicedEst.first
1932
+ pp result
1933
+ result.should be_true
1934
+ end
1935
+ end
1936
+ end
1937
+
1938
+ describe "Bio::Ucsc::Rn4::TransMapAlnUcscGenes" do
1939
+ context ".first" do
1940
+ it 'returns the first records' do
1941
+ result = Bio::Ucsc::Rn4::TransMapAlnUcscGenes.first
1942
+ pp result
1943
+ result.should be_true
1944
+ end
1945
+ end
1946
+ end
1947
+
1948
+ describe "Bio::Ucsc::Rn4::TransMapInfoMRna" do
1949
+ context ".first" do
1950
+ it 'returns the first records' do
1951
+ result = Bio::Ucsc::Rn4::TransMapInfoMRna.first
1952
+ pp result
1953
+ result.should be_true
1954
+ end
1955
+ end
1956
+ end
1957
+
1958
+ describe "Bio::Ucsc::Rn4::TransMapInfoRefSeq" do
1959
+ context ".first" do
1960
+ it 'returns the first records' do
1961
+ result = Bio::Ucsc::Rn4::TransMapInfoRefSeq.first
1962
+ pp result
1963
+ result.should be_true
1964
+ end
1965
+ end
1966
+ end
1967
+
1968
+ describe "Bio::Ucsc::Rn4::TransMapInfoSplicedEst" do
1969
+ context ".first" do
1970
+ it 'returns the first records' do
1971
+ result = Bio::Ucsc::Rn4::TransMapInfoSplicedEst.first
1972
+ pp result
1973
+ result.should be_true
1974
+ end
1975
+ end
1976
+ end
1977
+
1978
+ describe "Bio::Ucsc::Rn4::TransMapInfoUcscGenes" do
1979
+ context ".first" do
1980
+ it 'returns the first records' do
1981
+ result = Bio::Ucsc::Rn4::TransMapInfoUcscGenes.first
1982
+ pp result
1983
+ result.should be_true
1984
+ end
1985
+ end
1986
+ end
1987
+
1988
+ describe "Bio::Ucsc::Rn4::WgEncodeNhgriBip" do
1989
+ context ".first" do
1990
+ it 'returns the first records' do
1991
+ result = Bio::Ucsc::Rn4::WgEncodeNhgriBip.first
1992
+ pp result
1993
+ result.should be_true
1994
+ end
1995
+ end
1996
+ end
1997
+
1998
+ describe "Bio::Ucsc::Rn4::XenoMrna" do
1999
+ context ".first" do
2000
+ it 'returns the first records' do
2001
+ result = Bio::Ucsc::Rn4::XenoMrna.first
2002
+ pp result
2003
+ result.should be_true
2004
+ end
2005
+ end
2006
+ end
2007
+
2008
+ describe "Bio::Ucsc::Rn4::XenoRefFlat" do
2009
+ context ".first" do
2010
+ it 'returns the first records' do
2011
+ result = Bio::Ucsc::Rn4::XenoRefFlat.first
2012
+ pp result
2013
+ result.should be_true
2014
+ end
2015
+ end
2016
+ end
2017
+
2018
+ describe "Bio::Ucsc::Rn4::XenoRefGene" do
2019
+ context ".first" do
2020
+ it 'returns the first records' do
2021
+ result = Bio::Ucsc::Rn4::XenoRefGene.first
2022
+ pp result
2023
+ result.should be_true
2024
+ end
2025
+ end
2026
+ end
2027
+
2028
+ describe "Bio::Ucsc::Rn4::XenoRefSeqAli" do
2029
+ context ".first" do
2030
+ it 'returns the first records' do
2031
+ result = Bio::Ucsc::Rn4::XenoRefSeqAli.first
2032
+ pp result
2033
+ result.should be_true
2034
+ end
2035
+ end
2036
+ end
2037
+
2038
+ end