sequenceserver 2.0.0 → 2.1.0

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Files changed (667) hide show
  1. checksums.yaml +4 -4
  2. data/lib/sequenceserver/api_errors.rb +24 -2
  3. data/lib/sequenceserver/blast/job.rb +41 -7
  4. data/lib/sequenceserver/blast/report.rb +36 -30
  5. data/lib/sequenceserver/config.rb +49 -27
  6. data/lib/sequenceserver/job.rb +13 -3
  7. data/lib/sequenceserver/job_remover.rb +25 -29
  8. data/lib/sequenceserver/refinements.rb +15 -0
  9. data/lib/sequenceserver/routes.rb +69 -7
  10. data/lib/sequenceserver/sequence.rb +8 -7
  11. data/lib/sequenceserver/sys.rb +2 -2
  12. data/lib/sequenceserver/version.rb +1 -1
  13. data/lib/sequenceserver/zip_file_generator.rb +56 -0
  14. data/lib/sequenceserver.rb +1 -0
  15. data/public/config.js +149 -143
  16. data/public/css/sequenceserver.css +44 -3
  17. data/public/css/sequenceserver.min.css +3 -3
  18. data/public/js/alignment_exporter.js +16 -8
  19. data/public/js/circos.js +370 -234
  20. data/public/js/cloud_share_modal.js +216 -0
  21. data/public/js/databases.js +144 -0
  22. data/public/js/databases_tree.js +42 -113
  23. data/public/js/dnd.js +164 -0
  24. data/public/js/error_modal.js +4 -11
  25. data/public/js/exporter.js +7 -3
  26. data/public/js/form.js +260 -0
  27. data/public/js/grapher.js +113 -106
  28. data/public/js/hit.js +80 -67
  29. data/public/js/hits_overview.js +2 -2
  30. data/public/js/hsp.js +343 -288
  31. data/public/js/jquery_world.js +4 -4
  32. data/public/js/mailto.js +36 -0
  33. data/public/js/options.js +84 -0
  34. data/public/js/query.js +319 -59
  35. data/public/js/report.js +315 -269
  36. data/public/js/report_root.js +75 -0
  37. data/public/js/search.js +28 -1011
  38. data/public/js/search_button.js +195 -0
  39. data/public/js/sequence.js +2409 -2411
  40. data/public/js/sequence_modal.js +152 -159
  41. data/public/js/share_url.js +23 -0
  42. data/public/js/sidebar.js +262 -83
  43. data/public/js/tests/database.spec.js +60 -0
  44. data/public/js/tests/mock_data/databases.json +91 -0
  45. data/public/js/tests/mock_data/long_response.json +269 -0
  46. data/public/js/tests/mock_data/short_response.json +2240 -0
  47. data/public/js/tests/report.spec.js +99 -0
  48. data/public/js/tests/search_button.spec.js +14 -0
  49. data/public/js/tests/search_query.spec.js +41 -0
  50. data/public/packages/circosJS@1.7.0.js +1640 -0
  51. data/public/packages/jquery-ui@1.11.4.js +16624 -0
  52. data/public/sequenceserver-report.min.js +2425 -19
  53. data/public/sequenceserver-search.min.js +2337 -15
  54. data/public/vendor/github/jspm/nodelibs-assert@0.1.0/index.js +2 -0
  55. data/public/vendor/github/jspm/{nodelibs-buffer@0.1.0 → nodelibs-assert@0.1.0}/package.json +1 -1
  56. data/public/vendor/github/jspm/nodelibs-assert@0.1.0.js +1 -0
  57. data/public/vendor/github/jspm/nodelibs-buffer@0.1.1/package.json +6 -0
  58. data/public/vendor/github/jspm/nodelibs-buffer@0.1.1.js +1 -0
  59. data/public/vendor/github/jspm/{nodelibs-process@0.1.1 → nodelibs-process@0.1.2}/package.json +2 -2
  60. data/public/vendor/github/jspm/nodelibs-process@0.1.2.js +1 -0
  61. data/public/vendor/github/jspm/nodelibs-vm@0.1.0/index.js +2 -0
  62. data/public/vendor/github/jspm/nodelibs-vm@0.1.0/package.json +6 -0
  63. data/public/vendor/github/jspm/nodelibs-vm@0.1.0.js +1 -0
  64. data/public/vendor/npm/assert@1.5.0/CHANGELOG.md +8 -0
  65. data/public/vendor/npm/assert@1.5.0/README.md +105 -0
  66. data/public/vendor/npm/assert@1.5.0/assert.js +327 -0
  67. data/public/vendor/npm/assert@1.5.0/package.json +32 -0
  68. data/public/vendor/npm/assert@1.5.0/test.js +288 -0
  69. data/public/vendor/npm/assert@1.5.0.js +1 -0
  70. data/public/vendor/npm/{base64-js@0.0.8/LICENSE.MIT → base64-js@1.5.1/LICENSE} +1 -1
  71. data/public/vendor/npm/{base64-js@0.0.8 → base64-js@1.5.1}/README.md +10 -7
  72. data/public/vendor/npm/base64-js@1.5.1/base64js.min.js +3 -0
  73. data/public/vendor/npm/base64-js@1.5.1/index.d.ts +3 -0
  74. data/public/vendor/npm/base64-js@1.5.1/index.js +151 -0
  75. data/public/vendor/npm/base64-js@1.5.1/package.json +47 -0
  76. data/public/vendor/npm/base64-js@1.5.1.js +1 -0
  77. data/public/vendor/npm/buffer@5.7.1/AUTHORS.md +70 -0
  78. data/public/vendor/npm/{buffer@3.4.3 → buffer@5.7.1}/README.md +111 -41
  79. data/public/vendor/npm/buffer@5.7.1/index.d.ts +186 -0
  80. data/public/vendor/npm/buffer@5.7.1/index.js +1817 -0
  81. data/public/vendor/npm/buffer@5.7.1/package.json +96 -0
  82. data/public/vendor/npm/buffer@5.7.1.js +1 -0
  83. data/public/vendor/npm/core-util-is@1.0.3/LICENSE +19 -0
  84. data/public/vendor/npm/core-util-is@1.0.3/lib/util.js +64 -0
  85. data/public/vendor/npm/{core-util-is@1.0.1 → core-util-is@1.0.3}/package.json +13 -1
  86. data/public/vendor/npm/core-util-is@1.0.3.js +1 -0
  87. data/public/vendor/npm/events@1.0.2/tests/add-listeners.js +2 -2
  88. data/public/vendor/npm/events@1.0.2/tests/check-listener-leaks.js +3 -3
  89. data/public/vendor/npm/events@1.0.2/tests/common.js +1 -1
  90. data/public/vendor/npm/events@1.0.2/tests/index.js +13 -13
  91. data/public/vendor/npm/events@1.0.2/tests/listeners-side-effects.js +2 -2
  92. data/public/vendor/npm/events@1.0.2/tests/listeners.js +2 -2
  93. data/public/vendor/npm/events@1.0.2/tests/max-listeners.js +2 -2
  94. data/public/vendor/npm/events@1.0.2/tests/modify-in-emit.js +2 -2
  95. data/public/vendor/npm/events@1.0.2/tests/num-args.js +2 -2
  96. data/public/vendor/npm/events@1.0.2/tests/once.js +2 -2
  97. data/public/vendor/npm/events@1.0.2/tests/remove-all-listeners.js +3 -3
  98. data/public/vendor/npm/events@1.0.2/tests/remove-listeners.js +3 -3
  99. data/public/vendor/npm/events@1.0.2/tests/set-max-listeners-side-effects.js +2 -2
  100. data/public/vendor/npm/events@1.0.2/tests/subclass.js +3 -3
  101. data/public/vendor/npm/events@1.0.2.js +1 -1
  102. data/public/vendor/npm/ieee754@1.2.1/LICENSE +11 -0
  103. data/public/vendor/npm/{ieee754@1.1.6 → ieee754@1.2.1}/README.md +12 -8
  104. data/public/vendor/npm/ieee754@1.2.1/index.d.ts +10 -0
  105. data/public/vendor/npm/{ieee754@1.1.6 → ieee754@1.2.1}/index.js +6 -6
  106. data/public/vendor/npm/ieee754@1.2.1/package.json +52 -0
  107. data/public/vendor/npm/ieee754@1.2.1.js +1 -0
  108. data/public/vendor/npm/{is-array@1.0.1 → indexof@0.0.1}/Makefile +3 -3
  109. data/public/vendor/npm/indexof@0.0.1/Readme.md +15 -0
  110. data/public/vendor/npm/indexof@0.0.1/component.json +10 -0
  111. data/public/vendor/npm/indexof@0.0.1/index.js +11 -0
  112. data/public/vendor/npm/indexof@0.0.1/package.json +12 -0
  113. data/public/vendor/npm/indexof@0.0.1.js +1 -0
  114. data/public/vendor/npm/inherits@2.0.1/inherits.js +1 -1
  115. data/public/vendor/npm/inherits@2.0.1.js +1 -1
  116. data/public/vendor/npm/isarray@0.0.1.js +1 -1
  117. data/public/vendor/npm/js-tokens@4.0.0/index.js +23 -0
  118. data/public/vendor/npm/js-tokens@4.0.0/package.json +30 -0
  119. data/public/vendor/npm/js-tokens@4.0.0.js +1 -0
  120. data/public/vendor/npm/loose-envify@1.4.0/LICENSE +21 -0
  121. data/public/vendor/npm/loose-envify@1.4.0/README.md +45 -0
  122. data/public/vendor/npm/loose-envify@1.4.0/cli.js +12 -0
  123. data/public/vendor/npm/loose-envify@1.4.0/custom.js +3 -0
  124. data/public/vendor/npm/loose-envify@1.4.0/index.js +5 -0
  125. data/public/vendor/npm/loose-envify@1.4.0/loose-envify.js +33 -0
  126. data/public/vendor/npm/loose-envify@1.4.0/package.json +36 -0
  127. data/public/vendor/npm/loose-envify@1.4.0/replace.js +52 -0
  128. data/public/vendor/npm/loose-envify@1.4.0.js +1 -0
  129. data/public/vendor/npm/object-assign@4.1.1/index.js +90 -0
  130. data/public/vendor/npm/object-assign@4.1.1/package.json +42 -0
  131. data/public/vendor/npm/object-assign@4.1.1.js +1 -0
  132. data/public/vendor/npm/path-browserify@0.0.0/index.js +1 -1
  133. data/public/vendor/npm/path-browserify@0.0.0.js +1 -1
  134. data/public/vendor/npm/{process@0.10.1 → process@0.11.10}/README.md +4 -1
  135. data/public/vendor/npm/process@0.11.10/browser.js +184 -0
  136. data/public/vendor/npm/{process@0.10.1 → process@0.11.10}/package.json +10 -1
  137. data/public/vendor/npm/process@0.11.10/test.js +185 -0
  138. data/public/vendor/npm/process@0.11.10.js +1 -0
  139. data/public/vendor/npm/react-dom@18.0.0/LICENSE +21 -0
  140. data/public/vendor/npm/react-dom@18.0.0/README.md +50 -0
  141. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server-legacy.browser.development.js +4771 -0
  142. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server-legacy.browser.production.min.js +85 -0
  143. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server-legacy.node.development.js +4813 -0
  144. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server-legacy.node.production.min.js +1705 -0
  145. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server.browser.development.js +4746 -0
  146. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server.browser.production.min.js +90 -0
  147. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server.node.development.js +4714 -0
  148. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-server.node.production.min.js +1746 -0
  149. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-test-utils.development.js +1017 -0
  150. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom-test-utils.production.min.js +617 -0
  151. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom.development.js +20092 -0
  152. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom.production.min.js +322 -0
  153. data/public/vendor/npm/react-dom@18.0.0/cjs/react-dom.profiling.min.js +364 -0
  154. data/public/vendor/npm/react-dom@18.0.0/client.js +27 -0
  155. data/public/vendor/npm/react-dom@18.0.0/index.js +23 -0
  156. data/public/vendor/npm/react-dom@18.0.0/package.json +62 -0
  157. data/public/vendor/npm/react-dom@18.0.0/profiling.js +23 -0
  158. data/public/vendor/npm/react-dom@18.0.0/server.browser.js +19 -0
  159. data/public/vendor/npm/react-dom@18.0.0/server.js +3 -0
  160. data/public/vendor/npm/react-dom@18.0.0/server.node.js +19 -0
  161. data/public/vendor/npm/react-dom@18.0.0/test-utils.js +9 -0
  162. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom-server-legacy.browser.development.js +4770 -0
  163. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom-server-legacy.browser.production.min.js +72 -0
  164. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom-server.browser.development.js +4745 -0
  165. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom-server.browser.production.min.js +74 -0
  166. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom-test-utils.development.js +1013 -0
  167. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom-test-utils.production.min.js +625 -0
  168. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom.development.js +20106 -0
  169. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom.production.min.js +269 -0
  170. data/public/vendor/npm/react-dom@18.0.0/umd/react-dom.profiling.min.js +285 -0
  171. data/public/vendor/npm/react-dom@18.0.0.js +1 -0
  172. data/public/vendor/npm/react@18.0.0/LICENSE +21 -0
  173. data/public/vendor/npm/react@18.0.0/README.md +13 -0
  174. data/public/vendor/npm/react@18.0.0/cjs/react-jsx-dev-runtime.development.js +837 -0
  175. data/public/vendor/npm/react@18.0.0/cjs/react-jsx-dev-runtime.production.min.js +10 -0
  176. data/public/vendor/npm/react@18.0.0/cjs/react-jsx-dev-runtime.profiling.min.js +10 -0
  177. data/public/vendor/npm/react@18.0.0/cjs/react-jsx-runtime.development.js +849 -0
  178. data/public/vendor/npm/react@18.0.0/cjs/react-jsx-runtime.production.min.js +38 -0
  179. data/public/vendor/npm/react@18.0.0/cjs/react-jsx-runtime.profiling.min.js +38 -0
  180. data/public/vendor/npm/react@18.0.0/cjs/react.development.js +1746 -0
  181. data/public/vendor/npm/react@18.0.0/cjs/react.production.min.js +26 -0
  182. data/public/vendor/npm/react@18.0.0/cjs/react.shared-subset.development.js +10 -0
  183. data/public/vendor/npm/react@18.0.0/cjs/react.shared-subset.production.min.js +12 -0
  184. data/public/vendor/npm/react@18.0.0/index.js +9 -0
  185. data/public/vendor/npm/react@18.0.0/jsx-dev-runtime.js +9 -0
  186. data/public/vendor/npm/react@18.0.0/jsx-runtime.js +9 -0
  187. data/public/vendor/npm/react@18.0.0/package.json +47 -0
  188. data/public/vendor/npm/react@18.0.0/react.shared-subset.js +9 -0
  189. data/public/vendor/npm/react@18.0.0/umd/react.development.js +2186 -0
  190. data/public/vendor/npm/react@18.0.0/umd/react.production.min.js +33 -0
  191. data/public/vendor/npm/react@18.0.0/umd/react.profiling.min.js +33 -0
  192. data/public/vendor/npm/react@18.0.0.js +1 -0
  193. data/public/vendor/npm/readable-stream@1.1.14/LICENSE +18 -0
  194. data/public/vendor/npm/readable-stream@1.1.14/duplex.js +2 -0
  195. data/public/vendor/npm/{readable-stream@1.1.13 → readable-stream@1.1.14}/lib/_stream_duplex.js +5 -5
  196. data/public/vendor/npm/{readable-stream@1.1.13 → readable-stream@1.1.14}/lib/_stream_passthrough.js +3 -3
  197. data/public/vendor/npm/{readable-stream@1.1.13 → readable-stream@1.1.14}/lib/_stream_readable.js +10 -10
  198. data/public/vendor/npm/{readable-stream@1.1.13 → readable-stream@1.1.14}/lib/_stream_transform.js +4 -4
  199. data/public/vendor/npm/{readable-stream@1.1.13 → readable-stream@1.1.14}/lib/_stream_writable.js +6 -6
  200. data/public/vendor/npm/{readable-stream@1.1.13 → readable-stream@1.1.14}/package.json +1 -1
  201. data/public/vendor/npm/readable-stream@1.1.14/passthrough.js +2 -0
  202. data/public/vendor/npm/readable-stream@1.1.14/readable.js +13 -0
  203. data/public/vendor/npm/readable-stream@1.1.14/transform.js +2 -0
  204. data/public/vendor/npm/readable-stream@1.1.14/writable.js +2 -0
  205. data/public/vendor/npm/readable-stream@1.1.14.js +1 -0
  206. data/public/vendor/npm/scheduler@0.21.0/LICENSE +21 -0
  207. data/public/vendor/npm/scheduler@0.21.0/README.md +9 -0
  208. data/public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_mock.development.js +530 -0
  209. data/public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_mock.production.min.js +20 -0
  210. data/public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_post_task.development.js +153 -0
  211. data/public/vendor/npm/scheduler@0.21.0/cjs/scheduler-unstable_post_task.production.min.js +14 -0
  212. data/public/vendor/npm/scheduler@0.21.0/cjs/scheduler.development.js +444 -0
  213. data/public/vendor/npm/scheduler@0.21.0/cjs/scheduler.production.min.js +19 -0
  214. data/public/vendor/npm/scheduler@0.21.0/index.js +9 -0
  215. data/public/vendor/npm/scheduler@0.21.0/package.json +36 -0
  216. data/public/vendor/npm/scheduler@0.21.0/umd/scheduler-unstable_mock.development.js +701 -0
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  220. data/public/vendor/npm/scheduler@0.21.0/umd/scheduler.profiling.min.js +148 -0
  221. data/public/vendor/npm/scheduler@0.21.0/unstable_mock.js +9 -0
  222. data/public/vendor/npm/scheduler@0.21.0/unstable_post_task.js +9 -0
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  224. data/public/vendor/npm/stream-browserify@1.0.0/index.js +7 -7
  225. data/public/vendor/npm/stream-browserify@1.0.0/test/buf.js +5 -5
  226. data/public/vendor/npm/stream-browserify@1.0.0.js +1 -1
  227. data/public/vendor/npm/string_decoder@0.10.31/index.js +2 -2
  228. data/public/vendor/npm/string_decoder@0.10.31.js +1 -1
  229. data/public/vendor/npm/util@0.10.3/support/isBuffer.js +1 -1
  230. data/public/vendor/npm/util@0.10.3/test/browser/inspect.js +2 -2
  231. data/public/vendor/npm/util@0.10.3/test/browser/is.js +3 -3
  232. data/public/vendor/npm/util@0.10.3/test/node/debug.js +4 -4
  233. data/public/vendor/npm/util@0.10.3/test/node/format.js +2 -2
  234. data/public/vendor/npm/util@0.10.3/test/node/inspect.js +3 -3
  235. data/public/vendor/npm/util@0.10.3/test/node/log.js +3 -3
  236. data/public/vendor/npm/util@0.10.3/test/node/util.js +3 -3
  237. data/public/vendor/npm/util@0.10.3/util.js +3 -3
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  239. data/public/vendor/npm/vm-browserify@0.0.4/LICENSE +18 -0
  240. data/public/vendor/npm/vm-browserify@0.0.4/example/run/bundle.js +376 -0
  241. data/public/vendor/npm/vm-browserify@0.0.4/example/run/entry.js +6 -0
  242. data/public/vendor/npm/vm-browserify@0.0.4/example/run/index.html +9 -0
  243. data/public/vendor/npm/vm-browserify@0.0.4/example/run/server.js +6 -0
  244. data/public/vendor/npm/vm-browserify@0.0.4/index.js +139 -0
  245. data/public/vendor/npm/vm-browserify@0.0.4/package.json +46 -0
  246. data/public/vendor/npm/vm-browserify@0.0.4/readme.markdown +67 -0
  247. data/public/vendor/npm/vm-browserify@0.0.4/test/vm.js +34 -0
  248. data/public/vendor/npm/vm-browserify@0.0.4.js +1 -0
  249. data/public/vendor/npm/webshim@1.15.8/Gruntfile.js +4 -4
  250. data/public/vendor/npm/webshim@1.15.8/build/combobuild.js +2 -2
  251. data/public/vendor/npm/webshim@1.15.8/js-webshim/dev/shims/color-picker.js +1 -1
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  659. /data/public/vendor/github/jspm/{nodelibs-buffer@0.1.0 → nodelibs-buffer@0.1.1}/index.js +0 -0
  660. /data/public/vendor/github/jspm/{nodelibs-process@0.1.1 → nodelibs-process@0.1.2}/index.js +0 -0
  661. /data/public/vendor/npm/{readable-stream@1.1.13 → assert@1.5.0}/LICENSE +0 -0
  662. /data/public/vendor/npm/{buffer@3.4.3 → buffer@5.7.1}/LICENSE +0 -0
  663. /data/public/vendor/npm/{core-util-is@1.0.1 → core-util-is@1.0.3}/README.md +0 -0
  664. /data/public/vendor/npm/{process@0.10.1 → process@0.11.10}/LICENSE +0 -0
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@@ -1,67 +0,0 @@
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- {
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- "name": "buffer",
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- "description": "Node.js Buffer API, for the browser",
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- "version": "3.4.3",
5
- "author": {
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- "name": "Feross Aboukhadijeh",
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- "email": "feross@feross.org",
8
- "url": "http://feross.org"
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- },
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- "bugs": {
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- "url": "https://github.com/feross/buffer/issues"
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- },
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- "contributors": [
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- "Romain Beauxis <toots@rastageeks.org>",
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- "James Halliday <mail@substack.net>"
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- ],
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- "dependencies": {
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- "base64-js": "0.0.8",
19
- "ieee754": "^1.1.4",
20
- "is-array": "^1.0.1"
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- },
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- "devDependencies": {
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- "benchmark": "^1.0.0",
24
- "browserify": "^11.0.1",
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- "concat-stream": "^1.4.7",
26
- "hyperquest": "^1.0.1",
27
- "is-nan": "^1.0.1",
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- "split": "^1.0.0",
29
- "standard": "^5.0.0",
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- "tape": "^4.0.0",
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- "through2": "^2.0.0",
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- "zuul": "^3.0.0"
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- },
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- "homepage": "https://github.com/feross/buffer",
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- "keywords": [
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- "buffer",
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- "browserify",
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- "compatible",
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- "browser",
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- "arraybuffer",
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- "uint8array",
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- "dataview"
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- ],
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- "license": "MIT",
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- "main": "index.js",
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- "repository": {
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- "type": "git",
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- "url": "git://github.com/feross/buffer.git"
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- },
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- "scripts": {
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- "test": "standard && node ./bin/test.js",
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- "test-browser": "zuul -- test/*.js test/node/*.js",
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- "test-browser-local": "zuul --local -- test/*.js test/node/*.js",
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- "test-node": "tape test/*.js test/node/*.js test/node-es6/*.js && OBJECT_IMPL=true tape test/*.js test/node/*.js",
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- "perf": "browserify --debug perf/bracket-notation.js > perf/bundle.js && open perf/index.html",
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- "perf-node": "node perf/bracket-notation.js && node perf/concat.js && node perf/copy-big.js && node perf/copy.js && node perf/new-big.js && node perf/new.js && node perf/readDoubleBE.js && node perf/readFloatBE.js && node perf/readUInt32LE.js && node perf/slice.js && node perf/writeFloatBE.js",
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- "size": "browserify -r ./ | uglifyjs -c -m | gzip | wc -c"
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- },
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- "standard": {
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- "ignore": [
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- "test/node/*.js",
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- "test/node-es6/*.js",
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- "test/_polyfill.js",
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- "perf/*.js"
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- ]
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- }
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- }
@@ -1,152 +0,0 @@
1
- /* */
2
- "format cjs";
3
- if (!Array.prototype.forEach) {
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-
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- Array.prototype.forEach = function(callback, thisArg) {
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-
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- var T, k;
8
-
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- if (this == null) {
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- throw new TypeError(' this is null or not defined');
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- }
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-
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- // 1. Let O be the result of calling ToObject passing the |this| value as the argument.
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- var O = Object(this);
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-
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- // 2. Let lenValue be the result of calling the Get internal method of O with the argument "length".
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- // 3. Let len be ToUint32(lenValue).
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- var len = O.length >>> 0;
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-
20
- // 4. If IsCallable(callback) is false, throw a TypeError exception.
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- // See: http://es5.github.com/#x9.11
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- if (typeof callback !== "function") {
23
- throw new TypeError(callback + ' is not a function');
24
- }
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-
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- // 5. If thisArg was supplied, let T be thisArg; else let T be undefined.
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- if (arguments.length > 1) {
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- T = thisArg;
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- }
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-
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- // 6. Let k be 0
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- k = 0;
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-
34
- // 7. Repeat, while k < len
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- while (k < len) {
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-
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- var kValue;
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-
39
- // a. Let Pk be ToString(k).
40
- // This is implicit for LHS operands of the in operator
41
- // b. Let kPresent be the result of calling the HasProperty internal method of O with argument Pk.
42
- // This step can be combined with c
43
- // c. If kPresent is true, then
44
- if (k in O) {
45
-
46
- // i. Let kValue be the result of calling the Get internal method of O with argument Pk.
47
- kValue = O[k];
48
-
49
- // ii. Call the Call internal method of callback with T as the this value and
50
- // argument list containing kValue, k, and O.
51
- callback.call(T, kValue, k, O);
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- }
53
- // d. Increase k by 1.
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- k++;
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- }
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- // 8. return undefined
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- };
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- }
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-
60
- if (!Array.isArray) {
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- Array.isArray = function(arg) {
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- return Object.prototype.toString.call(arg) === '[object Array]';
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- };
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- }
65
-
66
- if (!Array.prototype.map) {
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-
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- Array.prototype.map = function(callback, thisArg) {
69
-
70
- var T, A, k;
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-
72
- if (this == null) {
73
- throw new TypeError(' this is null or not defined');
74
- }
75
-
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- // 1. Let O be the result of calling ToObject passing the |this|
77
- // value as the argument.
78
- var O = Object(this);
79
-
80
- // 2. Let lenValue be the result of calling the Get internal
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- // method of O with the argument "length".
82
- // 3. Let len be ToUint32(lenValue).
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- var len = O.length >>> 0;
84
-
85
- // 4. If IsCallable(callback) is false, throw a TypeError exception.
86
- // See: http://es5.github.com/#x9.11
87
- if (typeof callback !== 'function') {
88
- throw new TypeError(callback + ' is not a function');
89
- }
90
-
91
- // 5. If thisArg was supplied, let T be thisArg; else let T be undefined.
92
- if (arguments.length > 1) {
93
- T = thisArg;
94
- }
95
-
96
- // 6. Let A be a new array created as if by the expression new Array(len)
97
- // where Array is the standard built-in constructor with that name and
98
- // len is the value of len.
99
- A = new Array(len);
100
-
101
- // 7. Let k be 0
102
- k = 0;
103
-
104
- // 8. Repeat, while k < len
105
- while (k < len) {
106
-
107
- var kValue, mappedValue;
108
-
109
- // a. Let Pk be ToString(k).
110
- // This is implicit for LHS operands of the in operator
111
- // b. Let kPresent be the result of calling the HasProperty internal
112
- // method of O with argument Pk.
113
- // This step can be combined with c
114
- // c. If kPresent is true, then
115
- if (k in O) {
116
-
117
- // i. Let kValue be the result of calling the Get internal
118
- // method of O with argument Pk.
119
- kValue = O[k];
120
-
121
- // ii. Let mappedValue be the result of calling the Call internal
122
- // method of callback with T as the this value and argument
123
- // list containing kValue, k, and O.
124
- mappedValue = callback.call(T, kValue, k, O);
125
-
126
- // iii. Call the DefineOwnProperty internal method of A with arguments
127
- // Pk, Property Descriptor
128
- // { Value: mappedValue,
129
- // Writable: true,
130
- // Enumerable: true,
131
- // Configurable: true },
132
- // and false.
133
-
134
- // In browsers that support Object.defineProperty, use the following:
135
- // Object.defineProperty(A, k, {
136
- // value: mappedValue,
137
- // writable: true,
138
- // enumerable: true,
139
- // configurable: true
140
- // });
141
-
142
- // For best browser support, use the following:
143
- A[k] = mappedValue;
144
- }
145
- // d. Increase k by 1.
146
- k++;
147
- }
148
-
149
- // 9. return A
150
- return A;
151
- };
152
- }
@@ -1,33 +0,0 @@
1
- /* */
2
- (function(process) {
3
- var B = require("../index").Buffer;
4
- var test = require("tape");
5
- if (process.env.OBJECT_IMPL)
6
- B.TYPED_ARRAY_SUPPORT = false;
7
- test('base64: ignore whitespace', function(t) {
8
- var text = '\n YW9ldQ== ';
9
- var buf = new B(text, 'base64');
10
- t.equal(buf.toString(), 'aoeu');
11
- t.end();
12
- });
13
- test('base64: strings without padding', function(t) {
14
- t.equal((new B('YW9ldQ', 'base64').toString()), 'aoeu');
15
- t.end();
16
- });
17
- test('base64: newline in utf8 -- should not be an issue', function(t) {
18
- t.equal(new B('LS0tCnRpdGxlOiBUaHJlZSBkYXNoZXMgbWFya3MgdGhlIHNwb3QKdGFnczoK', 'base64').toString('utf8'), '---\ntitle: Three dashes marks the spot\ntags:\n');
19
- t.end();
20
- });
21
- test('base64: newline in base64 -- should get stripped', function(t) {
22
- t.equal(new B('LS0tCnRpdGxlOiBUaHJlZSBkYXNoZXMgbWFya3MgdGhlIHNwb3QKdGFnczoK\nICAtIHlhbWwKICAtIGZyb250LW1hdHRlcgogIC0gZGFzaGVzCmV4cGFuZWQt', 'base64').toString('utf8'), '---\ntitle: Three dashes marks the spot\ntags:\n - yaml\n - front-matter\n - dashes\nexpaned-');
23
- t.end();
24
- });
25
- test('base64: tab characters in base64 - should get stripped', function(t) {
26
- t.equal(new B('LS0tCnRpdGxlOiBUaHJlZSBkYXNoZXMgbWFya3MgdGhlIHNwb3QKdGFnczoK\t\t\t\tICAtIHlhbWwKICAtIGZyb250LW1hdHRlcgogIC0gZGFzaGVzCmV4cGFuZWQt', 'base64').toString('utf8'), '---\ntitle: Three dashes marks the spot\ntags:\n - yaml\n - front-matter\n - dashes\nexpaned-');
27
- t.end();
28
- });
29
- test('base64: invalid non-alphanumeric characters -- should be stripped', function(t) {
30
- t.equal(new B('!"#$%&\'()*,.:;<=>?@[\\]^`{|}~', 'base64').toString('utf8'), '');
31
- t.end();
32
- });
33
- })(require("process"));
@@ -1,58 +0,0 @@
1
- /* */
2
- (function(process) {
3
- var B = require("../index").Buffer;
4
- var test = require("tape");
5
- if (process.env.OBJECT_IMPL)
6
- B.TYPED_ARRAY_SUPPORT = false;
7
- test('buf.constructor is Buffer', function(t) {
8
- var buf = new B([1, 2]);
9
- t.strictEqual(buf.constructor, B);
10
- t.end();
11
- });
12
- test('convert to Uint8Array in modern browsers', function(t) {
13
- if (B.TYPED_ARRAY_SUPPORT) {
14
- var buf = new B([1, 2]);
15
- var uint8array = new Uint8Array(buf.buffer);
16
- t.ok(uint8array instanceof Uint8Array);
17
- t.equal(uint8array[0], 1);
18
- t.equal(uint8array[1], 2);
19
- } else {
20
- t.pass('object impl: skipping test');
21
- }
22
- t.end();
23
- });
24
- test('indexes from a string', function(t) {
25
- var buf = new B('abc');
26
- t.equal(buf[0], 97);
27
- t.equal(buf[1], 98);
28
- t.equal(buf[2], 99);
29
- t.end();
30
- });
31
- test('indexes from an array', function(t) {
32
- var buf = new B([97, 98, 99]);
33
- t.equal(buf[0], 97);
34
- t.equal(buf[1], 98);
35
- t.equal(buf[2], 99);
36
- t.end();
37
- });
38
- test('setting index value should modify buffer contents', function(t) {
39
- var buf = new B([97, 98, 99]);
40
- t.equal(buf[2], 99);
41
- t.equal(buf.toString(), 'abc');
42
- buf[2] += 10;
43
- t.equal(buf[2], 109);
44
- t.equal(buf.toString(), 'abm');
45
- t.end();
46
- });
47
- test('storing negative number should cast to unsigned', function(t) {
48
- var buf = new B(1);
49
- if (B.TYPED_ARRAY_SUPPORT) {
50
- buf[0] = -3;
51
- t.equal(buf[0], 253);
52
- }
53
- buf = new B(1);
54
- buf.writeInt8(-3, 0);
55
- t.equal(buf[0], 253);
56
- t.end();
57
- });
58
- })(require("process"));
@@ -1,53 +0,0 @@
1
- /* */
2
- (function(process) {
3
- var B = require("../index").Buffer;
4
- var test = require("tape");
5
- if (process.env.OBJECT_IMPL)
6
- B.TYPED_ARRAY_SUPPORT = false;
7
- test('buffer.compare', function(t) {
8
- var b = new B(1).fill('a');
9
- var c = new B(1).fill('c');
10
- var d = new B(2).fill('aa');
11
- t.equal(b.compare(c), -1);
12
- t.equal(c.compare(d), 1);
13
- t.equal(d.compare(b), 1);
14
- t.equal(b.compare(d), -1);
15
- t.equal(B.compare(b, c), -1);
16
- t.equal(B.compare(c, d), 1);
17
- t.equal(B.compare(d, b), 1);
18
- t.equal(B.compare(b, d), -1);
19
- t.end();
20
- });
21
- test('buffer.compare argument validation', function(t) {
22
- t.throws(function() {
23
- var b = new B(1);
24
- B.compare(b, 'abc');
25
- });
26
- t.throws(function() {
27
- var b = new B(1);
28
- B.compare('abc', b);
29
- });
30
- t.throws(function() {
31
- var b = new B(1);
32
- b.compare('abc');
33
- });
34
- t.end();
35
- });
36
- test('buffer.equals', function(t) {
37
- var b = new B(5).fill('abcdf');
38
- var c = new B(5).fill('abcdf');
39
- var d = new B(5).fill('abcde');
40
- var e = new B(6).fill('abcdef');
41
- t.ok(b.equals(c));
42
- t.ok(!c.equals(d));
43
- t.ok(!d.equals(e));
44
- t.end();
45
- });
46
- test('buffer.equals argument validation', function(t) {
47
- t.throws(function() {
48
- var b = new B(1);
49
- b.equals('abc');
50
- });
51
- t.end();
52
- });
53
- })(require("process"));
@@ -1,132 +0,0 @@
1
- /* */
2
- (function(process) {
3
- var B = require("../index").Buffer;
4
- var test = require("tape");
5
- if (process.env.OBJECT_IMPL)
6
- B.TYPED_ARRAY_SUPPORT = false;
7
- test('new buffer from array', function(t) {
8
- t.equal(new B([1, 2, 3]).toString(), '\u0001\u0002\u0003');
9
- t.end();
10
- });
11
- test('new buffer from array w/ negatives', function(t) {
12
- t.equal(new B([-1, -2, -3]).toString('hex'), 'fffefd');
13
- t.end();
14
- });
15
- test('new buffer from array with mixed signed input', function(t) {
16
- t.equal(new B([-255, 255, -128, 128, 512, -512, 511, -511]).toString('hex'), '01ff80800000ff01');
17
- t.end();
18
- });
19
- test('new buffer from string', function(t) {
20
- t.equal(new B('hey', 'utf8').toString(), 'hey');
21
- t.end();
22
- });
23
- test('new buffer from buffer', function(t) {
24
- var b1 = new B('asdf');
25
- var b2 = new B(b1);
26
- t.equal(b1.toString('hex'), b2.toString('hex'));
27
- t.end();
28
- });
29
- test('new buffer from Uint8Array', function(t) {
30
- if (typeof Uint8Array !== 'undefined') {
31
- var b1 = new Uint8Array([0, 1, 2, 3]);
32
- var b2 = new B(b1);
33
- t.equal(b1.length, b2.length);
34
- t.equal(b1[0], 0);
35
- t.equal(b1[1], 1);
36
- t.equal(b1[2], 2);
37
- t.equal(b1[3], 3);
38
- t.equal(b1[4], undefined);
39
- }
40
- t.end();
41
- });
42
- test('new buffer from Uint16Array', function(t) {
43
- if (typeof Uint16Array !== 'undefined') {
44
- var b1 = new Uint16Array([0, 1, 2, 3]);
45
- var b2 = new B(b1);
46
- t.equal(b1.length, b2.length);
47
- t.equal(b1[0], 0);
48
- t.equal(b1[1], 1);
49
- t.equal(b1[2], 2);
50
- t.equal(b1[3], 3);
51
- t.equal(b1[4], undefined);
52
- }
53
- t.end();
54
- });
55
- test('new buffer from Uint32Array', function(t) {
56
- if (typeof Uint32Array !== 'undefined') {
57
- var b1 = new Uint32Array([0, 1, 2, 3]);
58
- var b2 = new B(b1);
59
- t.equal(b1.length, b2.length);
60
- t.equal(b1[0], 0);
61
- t.equal(b1[1], 1);
62
- t.equal(b1[2], 2);
63
- t.equal(b1[3], 3);
64
- t.equal(b1[4], undefined);
65
- }
66
- t.end();
67
- });
68
- test('new buffer from Int16Array', function(t) {
69
- if (typeof Int16Array !== 'undefined') {
70
- var b1 = new Int16Array([0, 1, 2, 3]);
71
- var b2 = new B(b1);
72
- t.equal(b1.length, b2.length);
73
- t.equal(b1[0], 0);
74
- t.equal(b1[1], 1);
75
- t.equal(b1[2], 2);
76
- t.equal(b1[3], 3);
77
- t.equal(b1[4], undefined);
78
- }
79
- t.end();
80
- });
81
- test('new buffer from Int32Array', function(t) {
82
- if (typeof Int32Array !== 'undefined') {
83
- var b1 = new Int32Array([0, 1, 2, 3]);
84
- var b2 = new B(b1);
85
- t.equal(b1.length, b2.length);
86
- t.equal(b1[0], 0);
87
- t.equal(b1[1], 1);
88
- t.equal(b1[2], 2);
89
- t.equal(b1[3], 3);
90
- t.equal(b1[4], undefined);
91
- }
92
- t.end();
93
- });
94
- test('new buffer from Float32Array', function(t) {
95
- if (typeof Float32Array !== 'undefined') {
96
- var b1 = new Float32Array([0, 1, 2, 3]);
97
- var b2 = new B(b1);
98
- t.equal(b1.length, b2.length);
99
- t.equal(b1[0], 0);
100
- t.equal(b1[1], 1);
101
- t.equal(b1[2], 2);
102
- t.equal(b1[3], 3);
103
- t.equal(b1[4], undefined);
104
- }
105
- t.end();
106
- });
107
- test('new buffer from Float64Array', function(t) {
108
- if (typeof Float64Array !== 'undefined') {
109
- var b1 = new Float64Array([0, 1, 2, 3]);
110
- var b2 = new B(b1);
111
- t.equal(b1.length, b2.length);
112
- t.equal(b1[0], 0);
113
- t.equal(b1[1], 1);
114
- t.equal(b1[2], 2);
115
- t.equal(b1[3], 3);
116
- t.equal(b1[4], undefined);
117
- }
118
- t.end();
119
- });
120
- test('new buffer from buffer.toJSON() output', function(t) {
121
- if (typeof JSON === 'undefined') {
122
- t.end();
123
- return;
124
- }
125
- var buf = new B('test');
126
- var json = JSON.stringify(buf);
127
- var obj = JSON.parse(json);
128
- var copy = new B(obj);
129
- t.ok(buf.equals(copy));
130
- t.end();
131
- });
132
- })(require("process"));
@@ -1,21 +0,0 @@
1
- /* */
2
- (function(process) {
3
- var B = require("../index").Buffer;
4
- var test = require("tape");
5
- if (process.env.OBJECT_IMPL)
6
- B.TYPED_ARRAY_SUPPORT = false;
7
- test('.get (deprecated)', function(t) {
8
- var b = new B([7, 42]);
9
- t.equal(b.get(0), 7);
10
- t.equal(b.get(1), 42);
11
- t.end();
12
- });
13
- test('.set (deprecated)', function(t) {
14
- var b = new B(2);
15
- b.set(7, 0);
16
- b.set(42, 1);
17
- t.equal(b[0], 7);
18
- t.equal(b[1], 42);
19
- t.end();
20
- });
21
- })(require("process"));
@@ -1,105 +0,0 @@
1
- /* */
2
- (function(process) {
3
- var B = require("../index").Buffer;
4
- var test = require("tape");
5
- if (process.env.OBJECT_IMPL)
6
- B.TYPED_ARRAY_SUPPORT = false;
7
- test('detect utf16 surrogate pairs', function(t) {
8
- var text = '\uD83D\uDE38' + '\uD83D\uDCAD' + '\uD83D\uDC4D';
9
- var buf = new B(text);
10
- t.equal(text, buf.toString());
11
- t.end();
12
- });
13
- test('replace orphaned utf16 surrogate lead code point', function(t) {
14
- var text = '\uD83D\uDE38' + '\uD83D' + '\uD83D\uDC4D';
15
- var buf = new B(text);
16
- t.deepEqual(buf, new B([0xf0, 0x9f, 0x98, 0xb8, 0xef, 0xbf, 0xbd, 0xf0, 0x9f, 0x91, 0x8d]));
17
- t.end();
18
- });
19
- test('replace orphaned utf16 surrogate trail code point', function(t) {
20
- var text = '\uD83D\uDE38' + '\uDCAD' + '\uD83D\uDC4D';
21
- var buf = new B(text);
22
- t.deepEqual(buf, new B([0xf0, 0x9f, 0x98, 0xb8, 0xef, 0xbf, 0xbd, 0xf0, 0x9f, 0x91, 0x8d]));
23
- t.end();
24
- });
25
- test('do not write partial utf16 code units', function(t) {
26
- var f = new B([0, 0, 0, 0, 0]);
27
- t.equal(f.length, 5);
28
- var size = f.write('あいうえお', 'utf16le');
29
- t.equal(size, 4);
30
- t.deepEqual(f, new B([0x42, 0x30, 0x44, 0x30, 0x00]));
31
- t.end();
32
- });
33
- test('handle partial utf16 code points when encoding to utf8 the way node does', function(t) {
34
- var text = '\uD83D\uDE38' + '\uD83D\uDC4D';
35
- var buf = new B(8);
36
- buf.fill(0);
37
- buf.write(text);
38
- t.deepEqual(buf, new B([0xf0, 0x9f, 0x98, 0xb8, 0xf0, 0x9f, 0x91, 0x8d]));
39
- buf = new B(7);
40
- buf.fill(0);
41
- buf.write(text);
42
- t.deepEqual(buf, new B([0xf0, 0x9f, 0x98, 0xb8, 0x00, 0x00, 0x00]));
43
- buf = new B(6);
44
- buf.fill(0);
45
- buf.write(text);
46
- t.deepEqual(buf, new B([0xf0, 0x9f, 0x98, 0xb8, 0x00, 0x00]));
47
- buf = new B(5);
48
- buf.fill(0);
49
- buf.write(text);
50
- t.deepEqual(buf, new B([0xf0, 0x9f, 0x98, 0xb8, 0x00]));
51
- buf = new B(4);
52
- buf.fill(0);
53
- buf.write(text);
54
- t.deepEqual(buf, new B([0xf0, 0x9f, 0x98, 0xb8]));
55
- buf = new B(3);
56
- buf.fill(0);
57
- buf.write(text);
58
- t.deepEqual(buf, new B([0x00, 0x00, 0x00]));
59
- buf = new B(2);
60
- buf.fill(0);
61
- buf.write(text);
62
- t.deepEqual(buf, new B([0x00, 0x00]));
63
- buf = new B(1);
64
- buf.fill(0);
65
- buf.write(text);
66
- t.deepEqual(buf, new B([0x00]));
67
- t.end();
68
- });
69
- test('handle invalid utf16 code points when encoding to utf8 the way node does', function(t) {
70
- var text = 'a' + '\uDE38\uD83D' + 'b';
71
- var buf = new B(8);
72
- buf.fill(0);
73
- buf.write(text);
74
- t.deepEqual(buf, new B([0x61, 0xef, 0xbf, 0xbd, 0xef, 0xbf, 0xbd, 0x62]));
75
- buf = new B(7);
76
- buf.fill(0);
77
- buf.write(text);
78
- t.deepEqual(buf, new B([0x61, 0xef, 0xbf, 0xbd, 0xef, 0xbf, 0xbd]));
79
- buf = new B(6);
80
- buf.fill(0);
81
- buf.write(text);
82
- t.deepEqual(buf, new B([0x61, 0xef, 0xbf, 0xbd, 0x00, 0x00]));
83
- buf = new B(5);
84
- buf.fill(0);
85
- buf.write(text);
86
- t.deepEqual(buf, new B([0x61, 0xef, 0xbf, 0xbd, 0x00]));
87
- buf = new B(4);
88
- buf.fill(0);
89
- buf.write(text);
90
- t.deepEqual(buf, new B([0x61, 0xef, 0xbf, 0xbd]));
91
- buf = new B(3);
92
- buf.fill(0);
93
- buf.write(text);
94
- t.deepEqual(buf, new B([0x61, 0x00, 0x00]));
95
- buf = new B(2);
96
- buf.fill(0);
97
- buf.write(text);
98
- t.deepEqual(buf, new B([0x61, 0x00]));
99
- buf = new B(1);
100
- buf.fill(0);
101
- buf.write(text);
102
- t.deepEqual(buf, new B([0x61]));
103
- t.end();
104
- });
105
- })(require("process"));