bel_parser 1.0.0.alpha.27-java

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Files changed (332) hide show
  1. checksums.yaml +7 -0
  2. data/.gemspec-java +32 -0
  3. data/CHANGELOG.md +10 -0
  4. data/LICENSE +191 -0
  5. data/README.md +20 -0
  6. data/VERSION +1 -0
  7. data/bin/bel2_validator +62 -0
  8. data/bin/bel_script_reader +132 -0
  9. data/lib/bel/translator/plugins/bel_script.rb +38 -0
  10. data/lib/bel/translator/plugins/bel_script/bel_citation_serialization.rb +125 -0
  11. data/lib/bel/translator/plugins/bel_script/bel_discrete_serialization.rb +109 -0
  12. data/lib/bel/translator/plugins/bel_script/bel_top_down_serialization.rb +100 -0
  13. data/lib/bel/translator/plugins/bel_script/nanopub_serialization.rb +79 -0
  14. data/lib/bel/translator/plugins/bel_script/reader.rb +39 -0
  15. data/lib/bel/translator/plugins/bel_script/translator.rb +37 -0
  16. data/lib/bel/translator/plugins/bel_script/writer.rb +180 -0
  17. data/lib/bel_parser.rb +23 -0
  18. data/lib/bel_parser/ast_filter.rb +44 -0
  19. data/lib/bel_parser/ast_generator.rb +83 -0
  20. data/lib/bel_parser/expression.rb +3 -0
  21. data/lib/bel_parser/expression/filter.rb +31 -0
  22. data/lib/bel_parser/expression/parser.rb +72 -0
  23. data/lib/bel_parser/expression/validator.rb +79 -0
  24. data/lib/bel_parser/language.rb +114 -0
  25. data/lib/bel_parser/language/amino_acid.rb +68 -0
  26. data/lib/bel_parser/language/apply_namespace_encoding.rb +98 -0
  27. data/lib/bel_parser/language/base_specification.rb +82 -0
  28. data/lib/bel_parser/language/covalent_protein_modification.rb +56 -0
  29. data/lib/bel_parser/language/expression_validator.rb +68 -0
  30. data/lib/bel_parser/language/function.rb +67 -0
  31. data/lib/bel_parser/language/relationship.rb +102 -0
  32. data/lib/bel_parser/language/semantics.rb +40 -0
  33. data/lib/bel_parser/language/semantics/deeply_nested_statement.rb +65 -0
  34. data/lib/bel_parser/language/semantics/function_deprecation.rb +43 -0
  35. data/lib/bel_parser/language/semantics/list_function_subject.rb +45 -0
  36. data/lib/bel_parser/language/semantics/multiple_subject_object.rb +55 -0
  37. data/lib/bel_parser/language/semantics/non_causal_nested_statement.rb +50 -0
  38. data/lib/bel_parser/language/semantics/non_object_list.rb +56 -0
  39. data/lib/bel_parser/language/semantics/relationship_deprecation.rb +44 -0
  40. data/lib/bel_parser/language/semantics/relationship_not_listable.rb +60 -0
  41. data/lib/bel_parser/language/semantics/signature_mapping.rb +83 -0
  42. data/lib/bel_parser/language/semantics_ast.rb +784 -0
  43. data/lib/bel_parser/language/semantics_ast_warnings.rb +180 -0
  44. data/lib/bel_parser/language/semantics_function.rb +16 -0
  45. data/lib/bel_parser/language/semantics_match.rb +28 -0
  46. data/lib/bel_parser/language/semantics_result.rb +33 -0
  47. data/lib/bel_parser/language/semantics_type_warning.rb +22 -0
  48. data/lib/bel_parser/language/semantics_warning.rb +27 -0
  49. data/lib/bel_parser/language/signature.rb +39 -0
  50. data/lib/bel_parser/language/specification.rb +118 -0
  51. data/lib/bel_parser/language/syntax.rb +38 -0
  52. data/lib/bel_parser/language/syntax/invalid_function.rb +39 -0
  53. data/lib/bel_parser/language/syntax/invalid_relationship.rb +42 -0
  54. data/lib/bel_parser/language/syntax/undefined_namespace.rb +49 -0
  55. data/lib/bel_parser/language/syntax/undefined_namespace_value.rb +44 -0
  56. data/lib/bel_parser/language/syntax_error.rb +32 -0
  57. data/lib/bel_parser/language/syntax_function.rb +16 -0
  58. data/lib/bel_parser/language/syntax_result.rb +32 -0
  59. data/lib/bel_parser/language/syntax_warning.rb +27 -0
  60. data/lib/bel_parser/language/version1_0.rb +20 -0
  61. data/lib/bel_parser/language/version1_0/functions/abundance.rb +83 -0
  62. data/lib/bel_parser/language/version1_0/functions/biological_process.rb +83 -0
  63. data/lib/bel_parser/language/version1_0/functions/catalytic_activity.rb +114 -0
  64. data/lib/bel_parser/language/version1_0/functions/cell_secretion.rb +83 -0
  65. data/lib/bel_parser/language/version1_0/functions/cell_surface_expression.rb +83 -0
  66. data/lib/bel_parser/language/version1_0/functions/chaperone_activity.rb +114 -0
  67. data/lib/bel_parser/language/version1_0/functions/complex_abundance.rb +115 -0
  68. data/lib/bel_parser/language/version1_0/functions/composite_abundance.rb +81 -0
  69. data/lib/bel_parser/language/version1_0/functions/degradation.rb +83 -0
  70. data/lib/bel_parser/language/version1_0/functions/fusion.rb +287 -0
  71. data/lib/bel_parser/language/version1_0/functions/gene_abundance.rb +122 -0
  72. data/lib/bel_parser/language/version1_0/functions/gtp_bound_activity.rb +113 -0
  73. data/lib/bel_parser/language/version1_0/functions/kinase_activity.rb +114 -0
  74. data/lib/bel_parser/language/version1_0/functions/list.rb +114 -0
  75. data/lib/bel_parser/language/version1_0/functions/micro_rna_abundance.rb +85 -0
  76. data/lib/bel_parser/language/version1_0/functions/molecular_activity.rb +82 -0
  77. data/lib/bel_parser/language/version1_0/functions/pathology.rb +83 -0
  78. data/lib/bel_parser/language/version1_0/functions/peptidase_activity.rb +112 -0
  79. data/lib/bel_parser/language/version1_0/functions/phosphatase_activity.rb +112 -0
  80. data/lib/bel_parser/language/version1_0/functions/products.rb +79 -0
  81. data/lib/bel_parser/language/version1_0/functions/protein_abundance.rb +234 -0
  82. data/lib/bel_parser/language/version1_0/functions/protein_modification.rb +179 -0
  83. data/lib/bel_parser/language/version1_0/functions/reactants.rb +79 -0
  84. data/lib/bel_parser/language/version1_0/functions/reaction.rb +86 -0
  85. data/lib/bel_parser/language/version1_0/functions/ribosylation_activity.rb +114 -0
  86. data/lib/bel_parser/language/version1_0/functions/rna_abundance.rb +122 -0
  87. data/lib/bel_parser/language/version1_0/functions/substitution.rb +93 -0
  88. data/lib/bel_parser/language/version1_0/functions/transcriptional_activity.rb +114 -0
  89. data/lib/bel_parser/language/version1_0/functions/translocation.rb +98 -0
  90. data/lib/bel_parser/language/version1_0/functions/transport_activity.rb +115 -0
  91. data/lib/bel_parser/language/version1_0/functions/truncation.rb +81 -0
  92. data/lib/bel_parser/language/version1_0/relationships/acts_in.rb +61 -0
  93. data/lib/bel_parser/language/version1_0/relationships/analogous.rb +41 -0
  94. data/lib/bel_parser/language/version1_0/relationships/association.rb +42 -0
  95. data/lib/bel_parser/language/version1_0/relationships/biomarker_for.rb +42 -0
  96. data/lib/bel_parser/language/version1_0/relationships/causes_no_change.rb +50 -0
  97. data/lib/bel_parser/language/version1_0/relationships/decreases.rb +63 -0
  98. data/lib/bel_parser/language/version1_0/relationships/directly_decreases.rb +56 -0
  99. data/lib/bel_parser/language/version1_0/relationships/directly_increases.rb +56 -0
  100. data/lib/bel_parser/language/version1_0/relationships/has_component.rb +62 -0
  101. data/lib/bel_parser/language/version1_0/relationships/has_components.rb +61 -0
  102. data/lib/bel_parser/language/version1_0/relationships/has_member.rb +48 -0
  103. data/lib/bel_parser/language/version1_0/relationships/has_members.rb +57 -0
  104. data/lib/bel_parser/language/version1_0/relationships/has_modification.rb +54 -0
  105. data/lib/bel_parser/language/version1_0/relationships/has_product.rb +60 -0
  106. data/lib/bel_parser/language/version1_0/relationships/has_variant.rb +54 -0
  107. data/lib/bel_parser/language/version1_0/relationships/includes.rb +59 -0
  108. data/lib/bel_parser/language/version1_0/relationships/increases.rb +63 -0
  109. data/lib/bel_parser/language/version1_0/relationships/is_a.rb +48 -0
  110. data/lib/bel_parser/language/version1_0/relationships/negative_correlation.rb +50 -0
  111. data/lib/bel_parser/language/version1_0/relationships/orthologous.rb +48 -0
  112. data/lib/bel_parser/language/version1_0/relationships/positive_correlation.rb +46 -0
  113. data/lib/bel_parser/language/version1_0/relationships/prognostic_biomarker_for.rb +44 -0
  114. data/lib/bel_parser/language/version1_0/relationships/rate_limiting_step_of.rb +53 -0
  115. data/lib/bel_parser/language/version1_0/relationships/reactant_in.rb +60 -0
  116. data/lib/bel_parser/language/version1_0/relationships/sub_process_of.rb +55 -0
  117. data/lib/bel_parser/language/version1_0/relationships/transcribed_to.rb +53 -0
  118. data/lib/bel_parser/language/version1_0/relationships/translated_to.rb +54 -0
  119. data/lib/bel_parser/language/version1_0/relationships/translocates.rb +57 -0
  120. data/lib/bel_parser/language/version1_0/return_types/abundance.rb +20 -0
  121. data/lib/bel_parser/language/version1_0/return_types/any.rb +74 -0
  122. data/lib/bel_parser/language/version1_0/return_types/biological_process.rb +17 -0
  123. data/lib/bel_parser/language/version1_0/return_types/catalytic_activity.rb +20 -0
  124. data/lib/bel_parser/language/version1_0/return_types/chaperone_activity.rb +20 -0
  125. data/lib/bel_parser/language/version1_0/return_types/complex_abundance.rb +17 -0
  126. data/lib/bel_parser/language/version1_0/return_types/fusion.rb +17 -0
  127. data/lib/bel_parser/language/version1_0/return_types/gene_abundance.rb +17 -0
  128. data/lib/bel_parser/language/version1_0/return_types/gtp_bound_activity.rb +20 -0
  129. data/lib/bel_parser/language/version1_0/return_types/kinase_activity.rb +20 -0
  130. data/lib/bel_parser/language/version1_0/return_types/list.rb +17 -0
  131. data/lib/bel_parser/language/version1_0/return_types/micro_rna_abundance.rb +17 -0
  132. data/lib/bel_parser/language/version1_0/return_types/molecular_activity.rb +20 -0
  133. data/lib/bel_parser/language/version1_0/return_types/pathology.rb +17 -0
  134. data/lib/bel_parser/language/version1_0/return_types/peptidase_activity.rb +20 -0
  135. data/lib/bel_parser/language/version1_0/return_types/phosphatase_activity.rb +20 -0
  136. data/lib/bel_parser/language/version1_0/return_types/products.rb +17 -0
  137. data/lib/bel_parser/language/version1_0/return_types/protein_abundance.rb +17 -0
  138. data/lib/bel_parser/language/version1_0/return_types/protein_modification.rb +17 -0
  139. data/lib/bel_parser/language/version1_0/return_types/reactants.rb +17 -0
  140. data/lib/bel_parser/language/version1_0/return_types/ribosylation_activity.rb +20 -0
  141. data/lib/bel_parser/language/version1_0/return_types/rna_abundance.rb +17 -0
  142. data/lib/bel_parser/language/version1_0/return_types/substitution.rb +17 -0
  143. data/lib/bel_parser/language/version1_0/return_types/transcriptional_activity.rb +20 -0
  144. data/lib/bel_parser/language/version1_0/return_types/transport_activity.rb +20 -0
  145. data/lib/bel_parser/language/version1_0/return_types/truncation.rb +17 -0
  146. data/lib/bel_parser/language/version1_0/value_encodings/abundance.rb +21 -0
  147. data/lib/bel_parser/language/version1_0/value_encodings/any.rb +74 -0
  148. data/lib/bel_parser/language/version1_0/value_encodings/biological_process.rb +21 -0
  149. data/lib/bel_parser/language/version1_0/value_encodings/complex_abundance.rb +21 -0
  150. data/lib/bel_parser/language/version1_0/value_encodings/gene_abundance.rb +21 -0
  151. data/lib/bel_parser/language/version1_0/value_encodings/micro_rna_abundance.rb +21 -0
  152. data/lib/bel_parser/language/version1_0/value_encodings/pathology.rb +21 -0
  153. data/lib/bel_parser/language/version1_0/value_encodings/protein_abundance.rb +21 -0
  154. data/lib/bel_parser/language/version1_0/value_encodings/rna_abundance.rb +21 -0
  155. data/lib/bel_parser/language/version2_0.rb +20 -0
  156. data/lib/bel_parser/language/version2_0/functions/abundance.rb +161 -0
  157. data/lib/bel_parser/language/version2_0/functions/activity.rb +118 -0
  158. data/lib/bel_parser/language/version2_0/functions/biological_process.rb +84 -0
  159. data/lib/bel_parser/language/version2_0/functions/cell_secretion.rb +83 -0
  160. data/lib/bel_parser/language/version2_0/functions/cell_surface_expression.rb +83 -0
  161. data/lib/bel_parser/language/version2_0/functions/complex_abundance.rb +190 -0
  162. data/lib/bel_parser/language/version2_0/functions/composite_abundance.rb +81 -0
  163. data/lib/bel_parser/language/version2_0/functions/degradation.rb +83 -0
  164. data/lib/bel_parser/language/version2_0/functions/fragment.rb +116 -0
  165. data/lib/bel_parser/language/version2_0/functions/from_location.rb +85 -0
  166. data/lib/bel_parser/language/version2_0/functions/fusion.rb +203 -0
  167. data/lib/bel_parser/language/version2_0/functions/gene_abundance.rb +192 -0
  168. data/lib/bel_parser/language/version2_0/functions/list.rb +114 -0
  169. data/lib/bel_parser/language/version2_0/functions/location.rb +83 -0
  170. data/lib/bel_parser/language/version2_0/functions/micro_rna_abundance.rb +163 -0
  171. data/lib/bel_parser/language/version2_0/functions/molecular_activity.rb +86 -0
  172. data/lib/bel_parser/language/version2_0/functions/pathology.rb +83 -0
  173. data/lib/bel_parser/language/version2_0/functions/products.rb +79 -0
  174. data/lib/bel_parser/language/version2_0/functions/protein_abundance.rb +270 -0
  175. data/lib/bel_parser/language/version2_0/functions/protein_modification.rb +172 -0
  176. data/lib/bel_parser/language/version2_0/functions/reactants.rb +79 -0
  177. data/lib/bel_parser/language/version2_0/functions/reaction.rb +86 -0
  178. data/lib/bel_parser/language/version2_0/functions/rna_abundance.rb +192 -0
  179. data/lib/bel_parser/language/version2_0/functions/to_location.rb +84 -0
  180. data/lib/bel_parser/language/version2_0/functions/translocation.rb +91 -0
  181. data/lib/bel_parser/language/version2_0/functions/variant.rb +80 -0
  182. data/lib/bel_parser/language/version2_0/relationships/acts_in.rb +61 -0
  183. data/lib/bel_parser/language/version2_0/relationships/analogous.rb +45 -0
  184. data/lib/bel_parser/language/version2_0/relationships/association.rb +42 -0
  185. data/lib/bel_parser/language/version2_0/relationships/biomarker_for.rb +46 -0
  186. data/lib/bel_parser/language/version2_0/relationships/causes_no_change.rb +50 -0
  187. data/lib/bel_parser/language/version2_0/relationships/decreases.rb +63 -0
  188. data/lib/bel_parser/language/version2_0/relationships/directly_decreases.rb +56 -0
  189. data/lib/bel_parser/language/version2_0/relationships/directly_increases.rb +56 -0
  190. data/lib/bel_parser/language/version2_0/relationships/has_component.rb +62 -0
  191. data/lib/bel_parser/language/version2_0/relationships/has_components.rb +61 -0
  192. data/lib/bel_parser/language/version2_0/relationships/has_member.rb +48 -0
  193. data/lib/bel_parser/language/version2_0/relationships/has_members.rb +57 -0
  194. data/lib/bel_parser/language/version2_0/relationships/has_modification.rb +54 -0
  195. data/lib/bel_parser/language/version2_0/relationships/has_product.rb +60 -0
  196. data/lib/bel_parser/language/version2_0/relationships/has_variant.rb +54 -0
  197. data/lib/bel_parser/language/version2_0/relationships/includes.rb +59 -0
  198. data/lib/bel_parser/language/version2_0/relationships/increases.rb +63 -0
  199. data/lib/bel_parser/language/version2_0/relationships/is_a.rb +48 -0
  200. data/lib/bel_parser/language/version2_0/relationships/negative_correlation.rb +50 -0
  201. data/lib/bel_parser/language/version2_0/relationships/orthologous.rb +48 -0
  202. data/lib/bel_parser/language/version2_0/relationships/positive_correlation.rb +46 -0
  203. data/lib/bel_parser/language/version2_0/relationships/prognostic_biomarker_for.rb +48 -0
  204. data/lib/bel_parser/language/version2_0/relationships/rate_limiting_step_of.rb +53 -0
  205. data/lib/bel_parser/language/version2_0/relationships/reactant_in.rb +60 -0
  206. data/lib/bel_parser/language/version2_0/relationships/regulates.rb +51 -0
  207. data/lib/bel_parser/language/version2_0/relationships/sub_process_of.rb +55 -0
  208. data/lib/bel_parser/language/version2_0/relationships/transcribed_to.rb +53 -0
  209. data/lib/bel_parser/language/version2_0/relationships/translated_to.rb +54 -0
  210. data/lib/bel_parser/language/version2_0/relationships/translocates.rb +57 -0
  211. data/lib/bel_parser/language/version2_0/return_types/abundance.rb +20 -0
  212. data/lib/bel_parser/language/version2_0/return_types/activity.rb +20 -0
  213. data/lib/bel_parser/language/version2_0/return_types/any.rb +74 -0
  214. data/lib/bel_parser/language/version2_0/return_types/biological_process.rb +17 -0
  215. data/lib/bel_parser/language/version2_0/return_types/complex_abundance.rb +17 -0
  216. data/lib/bel_parser/language/version2_0/return_types/fragment.rb +20 -0
  217. data/lib/bel_parser/language/version2_0/return_types/from_location.rb +20 -0
  218. data/lib/bel_parser/language/version2_0/return_types/fusion.rb +17 -0
  219. data/lib/bel_parser/language/version2_0/return_types/gene_abundance.rb +17 -0
  220. data/lib/bel_parser/language/version2_0/return_types/list.rb +17 -0
  221. data/lib/bel_parser/language/version2_0/return_types/location.rb +20 -0
  222. data/lib/bel_parser/language/version2_0/return_types/micro_rna_abundance.rb +17 -0
  223. data/lib/bel_parser/language/version2_0/return_types/molecular_activity.rb +20 -0
  224. data/lib/bel_parser/language/version2_0/return_types/pathology.rb +17 -0
  225. data/lib/bel_parser/language/version2_0/return_types/products.rb +17 -0
  226. data/lib/bel_parser/language/version2_0/return_types/protein_abundance.rb +17 -0
  227. data/lib/bel_parser/language/version2_0/return_types/protein_modification.rb +17 -0
  228. data/lib/bel_parser/language/version2_0/return_types/reactants.rb +17 -0
  229. data/lib/bel_parser/language/version2_0/return_types/rna_abundance.rb +17 -0
  230. data/lib/bel_parser/language/version2_0/return_types/to_location.rb +20 -0
  231. data/lib/bel_parser/language/version2_0/return_types/variant.rb +20 -0
  232. data/lib/bel_parser/language/version2_0/value_encodings/abundance.rb +21 -0
  233. data/lib/bel_parser/language/version2_0/value_encodings/activity.rb +21 -0
  234. data/lib/bel_parser/language/version2_0/value_encodings/any.rb +74 -0
  235. data/lib/bel_parser/language/version2_0/value_encodings/biological_process.rb +21 -0
  236. data/lib/bel_parser/language/version2_0/value_encodings/complex_abundance.rb +21 -0
  237. data/lib/bel_parser/language/version2_0/value_encodings/gene_abundance.rb +21 -0
  238. data/lib/bel_parser/language/version2_0/value_encodings/location.rb +21 -0
  239. data/lib/bel_parser/language/version2_0/value_encodings/micro_rna_abundance.rb +21 -0
  240. data/lib/bel_parser/language/version2_0/value_encodings/pathology.rb +21 -0
  241. data/lib/bel_parser/language/version2_0/value_encodings/protein_abundance.rb +21 -0
  242. data/lib/bel_parser/language/version2_0/value_encodings/protein_modification.rb +21 -0
  243. data/lib/bel_parser/language/version2_0/value_encodings/rna_abundance.rb +21 -0
  244. data/lib/bel_parser/mixin/line_continuator.rb +15 -0
  245. data/lib/bel_parser/mixin/line_mapping.rb +14 -0
  246. data/lib/bel_parser/parsers/ast/node.rb +987 -0
  247. data/lib/bel_parser/parsers/ast/sexp.rb +8 -0
  248. data/lib/bel_parser/parsers/bel_script.rb +5 -0
  249. data/lib/bel_parser/parsers/bel_script/define_annotation.rb +5920 -0
  250. data/lib/bel_parser/parsers/bel_script/define_annotation.rl +141 -0
  251. data/lib/bel_parser/parsers/bel_script/define_namespace.rb +1780 -0
  252. data/lib/bel_parser/parsers/bel_script/define_namespace.rl +121 -0
  253. data/lib/bel_parser/parsers/bel_script/set.rb +5008 -0
  254. data/lib/bel_parser/parsers/bel_script/set.rl +116 -0
  255. data/lib/bel_parser/parsers/bel_script/set_document.rb +7722 -0
  256. data/lib/bel_parser/parsers/bel_script/set_document.rl +97 -0
  257. data/lib/bel_parser/parsers/bel_script/unset.rb +706 -0
  258. data/lib/bel_parser/parsers/bel_script/unset.rl +95 -0
  259. data/lib/bel_parser/parsers/common.rb +5 -0
  260. data/lib/bel_parser/parsers/common/blank_line.rb +211 -0
  261. data/lib/bel_parser/parsers/common/blank_line.rl +81 -0
  262. data/lib/bel_parser/parsers/common/comment_line.rb +245 -0
  263. data/lib/bel_parser/parsers/common/comment_line.rl +97 -0
  264. data/lib/bel_parser/parsers/common/common.rb +7 -0
  265. data/lib/bel_parser/parsers/common/common.rl +13 -0
  266. data/lib/bel_parser/parsers/common/identifier.rb +289 -0
  267. data/lib/bel_parser/parsers/common/identifier.rl +106 -0
  268. data/lib/bel_parser/parsers/common/list.rb +2388 -0
  269. data/lib/bel_parser/parsers/common/list.rl +146 -0
  270. data/lib/bel_parser/parsers/common/string.rb +271 -0
  271. data/lib/bel_parser/parsers/common/string.rl +107 -0
  272. data/lib/bel_parser/parsers/expression.rb +7 -0
  273. data/lib/bel_parser/parsers/expression/comment.rb +239 -0
  274. data/lib/bel_parser/parsers/expression/comment.rl +97 -0
  275. data/lib/bel_parser/parsers/expression/nested_statement.rb +17802 -0
  276. data/lib/bel_parser/parsers/expression/nested_statement.rl +141 -0
  277. data/lib/bel_parser/parsers/expression/observed_term.rb +7291 -0
  278. data/lib/bel_parser/parsers/expression/observed_term.rl +92 -0
  279. data/lib/bel_parser/parsers/expression/parameter.rb +1506 -0
  280. data/lib/bel_parser/parsers/expression/parameter.rl +97 -0
  281. data/lib/bel_parser/parsers/expression/relationship.rb +254 -0
  282. data/lib/bel_parser/parsers/expression/relationship.rl +98 -0
  283. data/lib/bel_parser/parsers/expression/simple_statement.rb +10475 -0
  284. data/lib/bel_parser/parsers/expression/simple_statement.rl +112 -0
  285. data/lib/bel_parser/parsers/expression/term.rb +3989 -0
  286. data/lib/bel_parser/parsers/expression/term.rl +157 -0
  287. data/lib/bel_parser/parsers/line_parser.rb +92 -0
  288. data/lib/bel_parser/parsers/mixin/buffer.rb +10 -0
  289. data/lib/bel_parser/parsers/nonblocking_io_wrapper.rb +50 -0
  290. data/lib/bel_parser/parsers/serializer.rb +205 -0
  291. data/lib/bel_parser/quoting.rb +177 -0
  292. data/lib/bel_parser/resource/concept.rb +56 -0
  293. data/lib/bel_parser/resource/concept_scheme.rb +35 -0
  294. data/lib/bel_parser/resource/dataset.rb +34 -0
  295. data/lib/bel_parser/resource/eager_reader.rb +89 -0
  296. data/lib/bel_parser/resource/eager_sparql_reader.rb +51 -0
  297. data/lib/bel_parser/resource/file_resource.rb +21 -0
  298. data/lib/bel_parser/resource/file_resource_value.rb +24 -0
  299. data/lib/bel_parser/resource/jena_tdb_reader.rb +246 -0
  300. data/lib/bel_parser/resource/lru_cache.rb +111 -0
  301. data/lib/bel_parser/resource/lru_reader.rb +34 -0
  302. data/lib/bel_parser/resource/reader.rb +18 -0
  303. data/lib/bel_parser/resource/resource_url_reader.rb +181 -0
  304. data/lib/bel_parser/resource/sparql_reader.rb +179 -0
  305. data/lib/bel_parser/resource/value.rb +31 -0
  306. data/lib/bel_parser/script.rb +8 -0
  307. data/lib/bel_parser/script/filter.rb +35 -0
  308. data/lib/bel_parser/script/first_node.rb +21 -0
  309. data/lib/bel_parser/script/keywords.rb +32 -0
  310. data/lib/bel_parser/script/nanopub_mapper.rb +182 -0
  311. data/lib/bel_parser/script/parser.rb +51 -0
  312. data/lib/bel_parser/script/state/annotation_definition.rb +62 -0
  313. data/lib/bel_parser/script/state/bel_version.rb +36 -0
  314. data/lib/bel_parser/script/state/document_property.rb +29 -0
  315. data/lib/bel_parser/script/state/namespace_definition.rb +32 -0
  316. data/lib/bel_parser/script/state/set.rb +82 -0
  317. data/lib/bel_parser/script/state/unset.rb +46 -0
  318. data/lib/bel_parser/script/state_aggregator.rb +49 -0
  319. data/lib/bel_parser/script/state_function.rb +10 -0
  320. data/lib/bel_parser/script/syntax/expression_validation.rb +46 -0
  321. data/lib/bel_parser/script/syntax/invalid_regex_pattern.rb +49 -0
  322. data/lib/bel_parser/script/syntax/undefined_annotation.rb +61 -0
  323. data/lib/bel_parser/script/syntax/undefined_annotation_value.rb +84 -0
  324. data/lib/bel_parser/script/syntax/unresolvable_namespace.rb +54 -0
  325. data/lib/bel_parser/script/syntax/unsupported_bel_version.rb +59 -0
  326. data/lib/bel_parser/script/validator.rb +65 -0
  327. data/lib/bel_parser/vendor/ast.rb +17 -0
  328. data/lib/bel_parser/vendor/ast/node.rb +254 -0
  329. data/lib/bel_parser/vendor/ast/processor.rb +12 -0
  330. data/lib/bel_parser/vendor/ast/processor/mixin.rb +282 -0
  331. data/lib/bel_parser/vendor/ast/sexp.rb +30 -0
  332. metadata +390 -0
@@ -0,0 +1,97 @@
1
+ # begin: ragel
2
+ =begin
3
+ %%{
4
+ machine bel;
5
+
6
+ include 'set.rl';
7
+
8
+ DOCUMENT_KW = [dD][oO][cC][uU][mM][eE][nN][tT];
9
+
10
+ action yield_document_property {
11
+ yield(
12
+ document_property(
13
+ *@buffers[:set].children))
14
+ }
15
+
16
+ set_document :=
17
+ SET_KW %set_keyword
18
+ SP+
19
+ DOCUMENT_KW
20
+ SP+
21
+ IDENT %name
22
+ SP+
23
+ EQL
24
+ SP+
25
+ (
26
+ STRING %string_value |
27
+ LIST %list_value |
28
+ IDENT %ident_value
29
+ ) NL @yield_document_property;
30
+ }%%
31
+ =end
32
+ # end: ragel
33
+
34
+ require_relative '../ast/node'
35
+ require_relative '../mixin/buffer'
36
+ require_relative '../nonblocking_io_wrapper'
37
+
38
+ module BELParser
39
+ module Parsers
40
+ module BELScript
41
+ module SetDocument
42
+
43
+ class << self
44
+
45
+ MAX_LENGTH = 1024 * 128 # 128K
46
+
47
+ def parse(content)
48
+ return nil unless content
49
+
50
+ Parser.new(content).each do |obj|
51
+ yield obj
52
+ end
53
+ end
54
+ end
55
+
56
+ private
57
+
58
+ class Parser
59
+ include Enumerable
60
+ include BELParser::Parsers::Buffer
61
+ include BELParser::Parsers::AST::Sexp
62
+
63
+ def initialize(content)
64
+ @content = content
65
+ # begin: ragel
66
+ %% write data;
67
+ # end: ragel
68
+ end
69
+
70
+ def each
71
+ @buffers = {}
72
+ data = @content.unpack('C*')
73
+ p = 0
74
+ pe = data.length
75
+ eof = data.length
76
+
77
+ # begin: ragel
78
+ %% write init;
79
+ %% write exec;
80
+ # end: ragel
81
+ end
82
+ end
83
+ end
84
+ end
85
+ end
86
+ end
87
+
88
+ if __FILE__ == $0
89
+ $stdin.each_line do |line|
90
+ BELParser::Parsers::BELScript::SetDocument.parse(line) { |obj|
91
+ puts obj.inspect
92
+ }
93
+ end
94
+ end
95
+
96
+ # vim: ft=ruby ts=2 sw=2:
97
+ # encoding: utf-8
@@ -0,0 +1,706 @@
1
+
2
+ # begin: ragel
3
+ =begin
4
+
5
+ class << self
6
+ attr_accessor :_bel_trans_keys
7
+ private :_bel_trans_keys, :_bel_trans_keys=
8
+ end
9
+ self._bel_trans_keys = [
10
+ 0, 0, 85, 117, 78, 110,
11
+ 83, 115, 69, 101, 84,
12
+ 116, 9, 32, 9, 122,
13
+ 10, 122, 48, 122, 10, 122,
14
+ 0, 0, 0, 0, 0
15
+ ]
16
+
17
+ class << self
18
+ attr_accessor :_bel_key_spans
19
+ private :_bel_key_spans, :_bel_key_spans=
20
+ end
21
+ self._bel_key_spans = [
22
+ 0, 33, 33, 33, 33, 33, 24, 114,
23
+ 113, 75, 113, 0, 0
24
+ ]
25
+
26
+ class << self
27
+ attr_accessor :_bel_index_offsets
28
+ private :_bel_index_offsets, :_bel_index_offsets=
29
+ end
30
+ self._bel_index_offsets = [
31
+ 0, 0, 34, 68, 102, 136, 170, 195,
32
+ 310, 424, 500, 614, 615
33
+ ]
34
+
35
+ class << self
36
+ attr_accessor :_bel_indicies
37
+ private :_bel_indicies, :_bel_indicies=
38
+ end
39
+ self._bel_indicies = [
40
+ 0, 1, 1, 1, 1, 1, 1, 1,
41
+ 1, 1, 1, 1, 1, 1, 1, 1,
42
+ 1, 1, 1, 1, 1, 1, 1, 1,
43
+ 1, 1, 1, 1, 1, 1, 1, 1,
44
+ 0, 1, 2, 1, 1, 1, 1, 1,
45
+ 1, 1, 1, 1, 1, 1, 1, 1,
46
+ 1, 1, 1, 1, 1, 1, 1, 1,
47
+ 1, 1, 1, 1, 1, 1, 1, 1,
48
+ 1, 1, 2, 1, 3, 1, 1, 1,
49
+ 1, 1, 1, 1, 1, 1, 1, 1,
50
+ 1, 1, 1, 1, 1, 1, 1, 1,
51
+ 1, 1, 1, 1, 1, 1, 1, 1,
52
+ 1, 1, 1, 1, 3, 1, 4, 1,
53
+ 1, 1, 1, 1, 1, 1, 1, 1,
54
+ 1, 1, 1, 1, 1, 1, 1, 1,
55
+ 1, 1, 1, 1, 1, 1, 1, 1,
56
+ 1, 1, 1, 1, 1, 1, 4, 1,
57
+ 5, 1, 1, 1, 1, 1, 1, 1,
58
+ 1, 1, 1, 1, 1, 1, 1, 1,
59
+ 1, 1, 1, 1, 1, 1, 1, 1,
60
+ 1, 1, 1, 1, 1, 1, 1, 1,
61
+ 5, 1, 6, 1, 1, 1, 1, 1,
62
+ 1, 1, 1, 1, 1, 1, 1, 1,
63
+ 1, 1, 1, 1, 1, 1, 1, 1,
64
+ 1, 6, 1, 8, 7, 7, 7, 7,
65
+ 7, 7, 7, 7, 7, 7, 7, 7,
66
+ 7, 7, 7, 7, 7, 7, 7, 7,
67
+ 7, 7, 8, 7, 7, 7, 7, 7,
68
+ 7, 7, 7, 7, 7, 7, 7, 7,
69
+ 7, 7, 9, 9, 9, 9, 9, 9,
70
+ 9, 9, 9, 9, 7, 7, 7, 7,
71
+ 7, 7, 7, 9, 9, 9, 9, 9,
72
+ 9, 9, 9, 9, 9, 9, 9, 9,
73
+ 9, 9, 9, 9, 9, 9, 9, 9,
74
+ 9, 9, 9, 9, 9, 7, 7, 7,
75
+ 7, 9, 7, 9, 9, 9, 9, 9,
76
+ 9, 9, 9, 9, 9, 9, 9, 9,
77
+ 9, 9, 9, 9, 9, 9, 9, 9,
78
+ 9, 9, 9, 9, 9, 7, 10, 7,
79
+ 7, 7, 7, 7, 7, 7, 7, 7,
80
+ 7, 7, 7, 7, 7, 7, 7, 7,
81
+ 7, 7, 7, 7, 7, 7, 7, 7,
82
+ 7, 7, 7, 7, 7, 7, 7, 7,
83
+ 7, 7, 7, 7, 11, 11, 11, 11,
84
+ 11, 11, 11, 11, 11, 11, 7, 7,
85
+ 7, 7, 7, 7, 7, 11, 11, 11,
86
+ 11, 11, 11, 11, 11, 11, 11, 11,
87
+ 11, 11, 11, 11, 11, 11, 11, 11,
88
+ 11, 11, 11, 11, 11, 11, 11, 7,
89
+ 7, 7, 7, 11, 7, 11, 11, 11,
90
+ 11, 11, 11, 11, 11, 11, 11, 11,
91
+ 11, 11, 11, 11, 11, 11, 11, 11,
92
+ 11, 11, 11, 11, 11, 11, 11, 7,
93
+ 13, 13, 13, 13, 13, 13, 13, 13,
94
+ 13, 13, 12, 12, 12, 12, 12, 12,
95
+ 12, 13, 13, 13, 13, 13, 13, 13,
96
+ 13, 13, 13, 13, 13, 13, 13, 13,
97
+ 13, 13, 13, 13, 13, 13, 13, 13,
98
+ 13, 13, 13, 12, 12, 12, 12, 13,
99
+ 12, 13, 13, 13, 13, 13, 13, 13,
100
+ 13, 13, 13, 13, 13, 13, 13, 13,
101
+ 13, 13, 13, 13, 13, 13, 13, 13,
102
+ 13, 13, 13, 12, 14, 12, 12, 12,
103
+ 12, 12, 12, 12, 12, 12, 12, 12,
104
+ 12, 12, 12, 12, 12, 12, 12, 12,
105
+ 12, 12, 12, 12, 12, 12, 12, 12,
106
+ 12, 12, 12, 12, 12, 12, 12, 12,
107
+ 12, 12, 15, 15, 15, 15, 15, 15,
108
+ 15, 15, 15, 15, 12, 12, 12, 12,
109
+ 12, 12, 12, 15, 15, 15, 15, 15,
110
+ 15, 15, 15, 15, 15, 15, 15, 15,
111
+ 15, 15, 15, 15, 15, 15, 15, 15,
112
+ 15, 15, 15, 15, 15, 12, 12, 12,
113
+ 12, 15, 12, 15, 15, 15, 15, 15,
114
+ 15, 15, 15, 15, 15, 15, 15, 15,
115
+ 15, 15, 15, 15, 15, 15, 15, 15,
116
+ 15, 15, 15, 15, 15, 12, 1, 1,
117
+ 0
118
+ ]
119
+
120
+ class << self
121
+ attr_accessor :_bel_trans_targs
122
+ private :_bel_trans_targs, :_bel_trans_targs=
123
+ end
124
+ self._bel_trans_targs = [
125
+ 2, 0, 3, 4, 5, 6, 7, 0,
126
+ 7, 8, 11, 8, 0, 10, 12, 10
127
+ ]
128
+
129
+ class << self
130
+ attr_accessor :_bel_trans_actions
131
+ private :_bel_trans_actions, :_bel_trans_actions=
132
+ end
133
+ self._bel_trans_actions = [
134
+ 0, 0, 0, 0, 0, 0, 1, 2,
135
+ 0, 3, 4, 5, 6, 3, 7, 5
136
+ ]
137
+
138
+ class << self
139
+ attr_accessor :_bel_eof_actions
140
+ private :_bel_eof_actions, :_bel_eof_actions=
141
+ end
142
+ self._bel_eof_actions = [
143
+ 0, 0, 0, 0, 0, 0, 0, 2,
144
+ 2, 6, 6, 0, 0
145
+ ]
146
+
147
+ class << self
148
+ attr_accessor :bel_start
149
+ end
150
+ self.bel_start = 1;
151
+ class << self
152
+ attr_accessor :bel_first_final
153
+ end
154
+ self.bel_first_final = 11;
155
+ class << self
156
+ attr_accessor :bel_error
157
+ end
158
+ self.bel_error = 0;
159
+
160
+ class << self
161
+ attr_accessor :bel_en_ident
162
+ end
163
+ self.bel_en_ident = 9;
164
+ class << self
165
+ attr_accessor :bel_en_unset
166
+ end
167
+ self.bel_en_unset = 1;
168
+
169
+
170
+ begin
171
+ p ||= 0
172
+ pe ||= data.length
173
+ cs = bel_start
174
+ end
175
+
176
+ begin
177
+ testEof = false
178
+ _slen, _trans, _keys, _inds, _acts, _nacts = nil
179
+ _goto_level = 0
180
+ _resume = 10
181
+ _eof_trans = 15
182
+ _again = 20
183
+ _test_eof = 30
184
+ _out = 40
185
+ while true
186
+ if _goto_level <= 0
187
+ if p == pe
188
+ _goto_level = _test_eof
189
+ next
190
+ end
191
+ if cs == 0
192
+ _goto_level = _out
193
+ next
194
+ end
195
+ end
196
+ if _goto_level <= _resume
197
+ _keys = cs << 1
198
+ _inds = _bel_index_offsets[cs]
199
+ _slen = _bel_key_spans[cs]
200
+ _wide = data[p].ord
201
+ _trans = if ( _slen > 0 &&
202
+ _bel_trans_keys[_keys] <= _wide &&
203
+ _wide <= _bel_trans_keys[_keys + 1]
204
+ ) then
205
+ _bel_indicies[ _inds + _wide - _bel_trans_keys[_keys] ]
206
+ else
207
+ _bel_indicies[ _inds + _slen ]
208
+ end
209
+ cs = _bel_trans_targs[_trans]
210
+ if _bel_trans_actions[_trans] != 0
211
+ case _bel_trans_actions[_trans]
212
+ when 5 then
213
+ begin
214
+
215
+ (@buffers[:ident] ||= []) << data[p].ord
216
+ end
217
+ when 2 then
218
+ begin
219
+
220
+ unless @buffers[:ident].is_a?(::AST::Node)
221
+ @buffers[:ident] ||= []
222
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
223
+ end
224
+ end
225
+ when 1 then
226
+ begin
227
+
228
+ @buffers[:unset] = unset()
229
+ end
230
+ when 3 then
231
+ begin
232
+
233
+ @buffers[:ident] = []
234
+ end
235
+ begin
236
+
237
+ (@buffers[:ident] ||= []) << data[p].ord
238
+ end
239
+ when 7 then
240
+ begin
241
+
242
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]))
243
+ end
244
+ begin
245
+
246
+ yield @buffers[:ident]
247
+ end
248
+ when 6 then
249
+ begin
250
+
251
+ unless @buffers[:ident].is_a?(::AST::Node)
252
+ @buffers[:ident] ||= []
253
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
254
+ end
255
+ end
256
+ begin
257
+
258
+ @buffers[:ident] ||= []
259
+ yield @buffers[:ident]
260
+ end
261
+ when 4 then
262
+ begin
263
+
264
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]))
265
+ end
266
+ begin
267
+
268
+ @buffers[:unset] = @buffers[:unset] << name(@buffers[:ident])
269
+ end
270
+ begin
271
+
272
+ yield @buffers[:unset]
273
+ end
274
+ end
275
+ end
276
+ end
277
+ if _goto_level <= _again
278
+ if cs == 0
279
+ _goto_level = _out
280
+ next
281
+ end
282
+ p += 1
283
+ if p != pe
284
+ _goto_level = _resume
285
+ next
286
+ end
287
+ end
288
+ if _goto_level <= _test_eof
289
+ if p == eof
290
+ case _bel_eof_actions[cs]
291
+ when 2 then
292
+ begin
293
+
294
+ unless @buffers[:ident].is_a?(::AST::Node)
295
+ @buffers[:ident] ||= []
296
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
297
+ end
298
+ end
299
+ when 6 then
300
+ begin
301
+
302
+ unless @buffers[:ident].is_a?(::AST::Node)
303
+ @buffers[:ident] ||= []
304
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
305
+ end
306
+ end
307
+ begin
308
+
309
+ @buffers[:ident] ||= []
310
+ yield @buffers[:ident]
311
+ end
312
+ end
313
+ end
314
+
315
+ end
316
+ if _goto_level <= _out
317
+ break
318
+ end
319
+ end
320
+ end
321
+
322
+
323
+ =end
324
+ # end: ragel
325
+
326
+ require_relative '../ast/node'
327
+ require_relative '../mixin/buffer'
328
+ require_relative '../nonblocking_io_wrapper'
329
+
330
+ module BELParser
331
+ module Parsers
332
+ module BELScript
333
+ module Unset
334
+
335
+ class << self
336
+
337
+ MAX_LENGTH = 1024 * 128 # 128K
338
+
339
+ def parse(content)
340
+ return nil unless content
341
+
342
+ Parser.new(content).each do |obj|
343
+ yield obj
344
+ end
345
+ end
346
+ end
347
+
348
+ private
349
+
350
+ class Parser
351
+ include Enumerable
352
+ include BELParser::Parsers::Buffer
353
+ include BELParser::Parsers::AST::Sexp
354
+
355
+ def initialize(content)
356
+ @content = content
357
+ # begin: ragel
358
+
359
+ class << self
360
+ attr_accessor :_bel_trans_keys
361
+ private :_bel_trans_keys, :_bel_trans_keys=
362
+ end
363
+ self._bel_trans_keys = [
364
+ 0, 0, 85, 117, 78, 110,
365
+ 83, 115, 69, 101, 84,
366
+ 116, 9, 32, 9, 122,
367
+ 10, 122, 48, 122, 10, 122,
368
+ 0, 0, 0, 0, 0
369
+ ]
370
+
371
+ class << self
372
+ attr_accessor :_bel_key_spans
373
+ private :_bel_key_spans, :_bel_key_spans=
374
+ end
375
+ self._bel_key_spans = [
376
+ 0, 33, 33, 33, 33, 33, 24, 114,
377
+ 113, 75, 113, 0, 0
378
+ ]
379
+
380
+ class << self
381
+ attr_accessor :_bel_index_offsets
382
+ private :_bel_index_offsets, :_bel_index_offsets=
383
+ end
384
+ self._bel_index_offsets = [
385
+ 0, 0, 34, 68, 102, 136, 170, 195,
386
+ 310, 424, 500, 614, 615
387
+ ]
388
+
389
+ class << self
390
+ attr_accessor :_bel_indicies
391
+ private :_bel_indicies, :_bel_indicies=
392
+ end
393
+ self._bel_indicies = [
394
+ 0, 1, 1, 1, 1, 1, 1, 1,
395
+ 1, 1, 1, 1, 1, 1, 1, 1,
396
+ 1, 1, 1, 1, 1, 1, 1, 1,
397
+ 1, 1, 1, 1, 1, 1, 1, 1,
398
+ 0, 1, 2, 1, 1, 1, 1, 1,
399
+ 1, 1, 1, 1, 1, 1, 1, 1,
400
+ 1, 1, 1, 1, 1, 1, 1, 1,
401
+ 1, 1, 1, 1, 1, 1, 1, 1,
402
+ 1, 1, 2, 1, 3, 1, 1, 1,
403
+ 1, 1, 1, 1, 1, 1, 1, 1,
404
+ 1, 1, 1, 1, 1, 1, 1, 1,
405
+ 1, 1, 1, 1, 1, 1, 1, 1,
406
+ 1, 1, 1, 1, 3, 1, 4, 1,
407
+ 1, 1, 1, 1, 1, 1, 1, 1,
408
+ 1, 1, 1, 1, 1, 1, 1, 1,
409
+ 1, 1, 1, 1, 1, 1, 1, 1,
410
+ 1, 1, 1, 1, 1, 1, 4, 1,
411
+ 5, 1, 1, 1, 1, 1, 1, 1,
412
+ 1, 1, 1, 1, 1, 1, 1, 1,
413
+ 1, 1, 1, 1, 1, 1, 1, 1,
414
+ 1, 1, 1, 1, 1, 1, 1, 1,
415
+ 5, 1, 6, 1, 1, 1, 1, 1,
416
+ 1, 1, 1, 1, 1, 1, 1, 1,
417
+ 1, 1, 1, 1, 1, 1, 1, 1,
418
+ 1, 6, 1, 8, 7, 7, 7, 7,
419
+ 7, 7, 7, 7, 7, 7, 7, 7,
420
+ 7, 7, 7, 7, 7, 7, 7, 7,
421
+ 7, 7, 8, 7, 7, 7, 7, 7,
422
+ 7, 7, 7, 7, 7, 7, 7, 7,
423
+ 7, 7, 9, 9, 9, 9, 9, 9,
424
+ 9, 9, 9, 9, 7, 7, 7, 7,
425
+ 7, 7, 7, 9, 9, 9, 9, 9,
426
+ 9, 9, 9, 9, 9, 9, 9, 9,
427
+ 9, 9, 9, 9, 9, 9, 9, 9,
428
+ 9, 9, 9, 9, 9, 7, 7, 7,
429
+ 7, 9, 7, 9, 9, 9, 9, 9,
430
+ 9, 9, 9, 9, 9, 9, 9, 9,
431
+ 9, 9, 9, 9, 9, 9, 9, 9,
432
+ 9, 9, 9, 9, 9, 7, 10, 7,
433
+ 7, 7, 7, 7, 7, 7, 7, 7,
434
+ 7, 7, 7, 7, 7, 7, 7, 7,
435
+ 7, 7, 7, 7, 7, 7, 7, 7,
436
+ 7, 7, 7, 7, 7, 7, 7, 7,
437
+ 7, 7, 7, 7, 11, 11, 11, 11,
438
+ 11, 11, 11, 11, 11, 11, 7, 7,
439
+ 7, 7, 7, 7, 7, 11, 11, 11,
440
+ 11, 11, 11, 11, 11, 11, 11, 11,
441
+ 11, 11, 11, 11, 11, 11, 11, 11,
442
+ 11, 11, 11, 11, 11, 11, 11, 7,
443
+ 7, 7, 7, 11, 7, 11, 11, 11,
444
+ 11, 11, 11, 11, 11, 11, 11, 11,
445
+ 11, 11, 11, 11, 11, 11, 11, 11,
446
+ 11, 11, 11, 11, 11, 11, 11, 7,
447
+ 13, 13, 13, 13, 13, 13, 13, 13,
448
+ 13, 13, 12, 12, 12, 12, 12, 12,
449
+ 12, 13, 13, 13, 13, 13, 13, 13,
450
+ 13, 13, 13, 13, 13, 13, 13, 13,
451
+ 13, 13, 13, 13, 13, 13, 13, 13,
452
+ 13, 13, 13, 12, 12, 12, 12, 13,
453
+ 12, 13, 13, 13, 13, 13, 13, 13,
454
+ 13, 13, 13, 13, 13, 13, 13, 13,
455
+ 13, 13, 13, 13, 13, 13, 13, 13,
456
+ 13, 13, 13, 12, 14, 12, 12, 12,
457
+ 12, 12, 12, 12, 12, 12, 12, 12,
458
+ 12, 12, 12, 12, 12, 12, 12, 12,
459
+ 12, 12, 12, 12, 12, 12, 12, 12,
460
+ 12, 12, 12, 12, 12, 12, 12, 12,
461
+ 12, 12, 15, 15, 15, 15, 15, 15,
462
+ 15, 15, 15, 15, 12, 12, 12, 12,
463
+ 12, 12, 12, 15, 15, 15, 15, 15,
464
+ 15, 15, 15, 15, 15, 15, 15, 15,
465
+ 15, 15, 15, 15, 15, 15, 15, 15,
466
+ 15, 15, 15, 15, 15, 12, 12, 12,
467
+ 12, 15, 12, 15, 15, 15, 15, 15,
468
+ 15, 15, 15, 15, 15, 15, 15, 15,
469
+ 15, 15, 15, 15, 15, 15, 15, 15,
470
+ 15, 15, 15, 15, 15, 12, 1, 1,
471
+ 0
472
+ ]
473
+
474
+ class << self
475
+ attr_accessor :_bel_trans_targs
476
+ private :_bel_trans_targs, :_bel_trans_targs=
477
+ end
478
+ self._bel_trans_targs = [
479
+ 2, 0, 3, 4, 5, 6, 7, 0,
480
+ 7, 8, 11, 8, 0, 10, 12, 10
481
+ ]
482
+
483
+ class << self
484
+ attr_accessor :_bel_trans_actions
485
+ private :_bel_trans_actions, :_bel_trans_actions=
486
+ end
487
+ self._bel_trans_actions = [
488
+ 0, 0, 0, 0, 0, 0, 1, 2,
489
+ 0, 3, 4, 5, 6, 3, 7, 5
490
+ ]
491
+
492
+ class << self
493
+ attr_accessor :_bel_eof_actions
494
+ private :_bel_eof_actions, :_bel_eof_actions=
495
+ end
496
+ self._bel_eof_actions = [
497
+ 0, 0, 0, 0, 0, 0, 0, 2,
498
+ 2, 6, 6, 0, 0
499
+ ]
500
+
501
+ class << self
502
+ attr_accessor :bel_start
503
+ end
504
+ self.bel_start = 1;
505
+ class << self
506
+ attr_accessor :bel_first_final
507
+ end
508
+ self.bel_first_final = 11;
509
+ class << self
510
+ attr_accessor :bel_error
511
+ end
512
+ self.bel_error = 0;
513
+
514
+ class << self
515
+ attr_accessor :bel_en_ident
516
+ end
517
+ self.bel_en_ident = 9;
518
+ class << self
519
+ attr_accessor :bel_en_unset
520
+ end
521
+ self.bel_en_unset = 1;
522
+
523
+
524
+ # end: ragel
525
+ end
526
+
527
+ def each
528
+ @buffers = {}
529
+ data = @content.unpack('C*')
530
+ p = 0
531
+ pe = data.length
532
+ eof = data.length
533
+
534
+ # begin: ragel
535
+
536
+ begin
537
+ p ||= 0
538
+ pe ||= data.length
539
+ cs = bel_start
540
+ end
541
+
542
+
543
+ begin
544
+ testEof = false
545
+ _slen, _trans, _keys, _inds, _acts, _nacts = nil
546
+ _goto_level = 0
547
+ _resume = 10
548
+ _eof_trans = 15
549
+ _again = 20
550
+ _test_eof = 30
551
+ _out = 40
552
+ while true
553
+ if _goto_level <= 0
554
+ if p == pe
555
+ _goto_level = _test_eof
556
+ next
557
+ end
558
+ if cs == 0
559
+ _goto_level = _out
560
+ next
561
+ end
562
+ end
563
+ if _goto_level <= _resume
564
+ _keys = cs << 1
565
+ _inds = _bel_index_offsets[cs]
566
+ _slen = _bel_key_spans[cs]
567
+ _wide = data[p].ord
568
+ _trans = if ( _slen > 0 &&
569
+ _bel_trans_keys[_keys] <= _wide &&
570
+ _wide <= _bel_trans_keys[_keys + 1]
571
+ ) then
572
+ _bel_indicies[ _inds + _wide - _bel_trans_keys[_keys] ]
573
+ else
574
+ _bel_indicies[ _inds + _slen ]
575
+ end
576
+ cs = _bel_trans_targs[_trans]
577
+ if _bel_trans_actions[_trans] != 0
578
+ case _bel_trans_actions[_trans]
579
+ when 5 then
580
+ begin
581
+
582
+ (@buffers[:ident] ||= []) << data[p].ord
583
+ end
584
+ when 2 then
585
+ begin
586
+
587
+ unless @buffers[:ident].is_a?(::AST::Node)
588
+ @buffers[:ident] ||= []
589
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
590
+ end
591
+ end
592
+ when 1 then
593
+ begin
594
+
595
+ @buffers[:unset] = unset()
596
+ end
597
+ when 3 then
598
+ begin
599
+
600
+ @buffers[:ident] = []
601
+ end
602
+ begin
603
+
604
+ (@buffers[:ident] ||= []) << data[p].ord
605
+ end
606
+ when 7 then
607
+ begin
608
+
609
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]))
610
+ end
611
+ begin
612
+
613
+ yield @buffers[:ident]
614
+ end
615
+ when 6 then
616
+ begin
617
+
618
+ unless @buffers[:ident].is_a?(::AST::Node)
619
+ @buffers[:ident] ||= []
620
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
621
+ end
622
+ end
623
+ begin
624
+
625
+ @buffers[:ident] ||= []
626
+ yield @buffers[:ident]
627
+ end
628
+ when 4 then
629
+ begin
630
+
631
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]))
632
+ end
633
+ begin
634
+
635
+ @buffers[:unset] = @buffers[:unset] << name(@buffers[:ident])
636
+ end
637
+ begin
638
+
639
+ yield @buffers[:unset]
640
+ end
641
+ end
642
+ end
643
+ end
644
+ if _goto_level <= _again
645
+ if cs == 0
646
+ _goto_level = _out
647
+ next
648
+ end
649
+ p += 1
650
+ if p != pe
651
+ _goto_level = _resume
652
+ next
653
+ end
654
+ end
655
+ if _goto_level <= _test_eof
656
+ if p == eof
657
+ case _bel_eof_actions[cs]
658
+ when 2 then
659
+ begin
660
+
661
+ unless @buffers[:ident].is_a?(::AST::Node)
662
+ @buffers[:ident] ||= []
663
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
664
+ end
665
+ end
666
+ when 6 then
667
+ begin
668
+
669
+ unless @buffers[:ident].is_a?(::AST::Node)
670
+ @buffers[:ident] ||= []
671
+ @buffers[:ident] = identifier(utf8_string(@buffers[:ident]).sub(/\n$/, ''))
672
+ end
673
+ end
674
+ begin
675
+
676
+ @buffers[:ident] ||= []
677
+ yield @buffers[:ident]
678
+ end
679
+ end
680
+ end
681
+
682
+ end
683
+ if _goto_level <= _out
684
+ break
685
+ end
686
+ end
687
+ end
688
+
689
+ # end: ragel
690
+ end
691
+ end
692
+ end
693
+ end
694
+ end
695
+ end
696
+
697
+ if __FILE__ == $0
698
+ $stdin.each_line do |line|
699
+ BELParser::Parsers::BELScript::Unset.parse(line) { |obj|
700
+ puts obj.inspect
701
+ }
702
+ end
703
+ end
704
+
705
+ # vim: ft=ruby ts=2 sw=2:
706
+ # encoding: utf-8