scitex 2.0.0__py2.py3-none-any.whl → 2.1.0__py2.py3-none-any.whl

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 (704) hide show
  1. scitex/__init__.py +53 -15
  2. scitex/__main__.py +72 -26
  3. scitex/__version__.py +1 -1
  4. scitex/_sh.py +145 -23
  5. scitex/ai/__init__.py +30 -16
  6. scitex/ai/_gen_ai/_Anthropic.py +5 -7
  7. scitex/ai/_gen_ai/_BaseGenAI.py +2 -2
  8. scitex/ai/_gen_ai/_DeepSeek.py +10 -2
  9. scitex/ai/_gen_ai/_Google.py +2 -2
  10. scitex/ai/_gen_ai/_Llama.py +2 -2
  11. scitex/ai/_gen_ai/_OpenAI.py +2 -2
  12. scitex/ai/_gen_ai/_PARAMS.py +51 -65
  13. scitex/ai/_gen_ai/_Perplexity.py +2 -2
  14. scitex/ai/_gen_ai/__init__.py +25 -14
  15. scitex/ai/_gen_ai/_format_output_func.py +4 -4
  16. scitex/ai/classification/{classifier_server.py → Classifier.py} +5 -5
  17. scitex/ai/classification/CrossValidationExperiment.py +374 -0
  18. scitex/ai/classification/__init__.py +43 -4
  19. scitex/ai/classification/reporters/_BaseClassificationReporter.py +281 -0
  20. scitex/ai/classification/reporters/_ClassificationReporter.py +773 -0
  21. scitex/ai/classification/reporters/_MultiClassificationReporter.py +406 -0
  22. scitex/ai/classification/reporters/_SingleClassificationReporter.py +1834 -0
  23. scitex/ai/classification/reporters/__init__.py +11 -0
  24. scitex/ai/classification/reporters/reporter_utils/_Plotter.py +1028 -0
  25. scitex/ai/classification/reporters/reporter_utils/__init__.py +80 -0
  26. scitex/ai/classification/reporters/reporter_utils/aggregation.py +457 -0
  27. scitex/ai/classification/reporters/reporter_utils/data_models.py +313 -0
  28. scitex/ai/classification/reporters/reporter_utils/reporting.py +1056 -0
  29. scitex/ai/classification/reporters/reporter_utils/storage.py +221 -0
  30. scitex/ai/classification/reporters/reporter_utils/validation.py +395 -0
  31. scitex/ai/classification/timeseries/_TimeSeriesBlockingSplit.py +568 -0
  32. scitex/ai/classification/timeseries/_TimeSeriesCalendarSplit.py +688 -0
  33. scitex/ai/classification/timeseries/_TimeSeriesMetadata.py +139 -0
  34. scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +1716 -0
  35. scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit_v01-not-using-n_splits.py +1685 -0
  36. scitex/ai/classification/timeseries/_TimeSeriesStrategy.py +84 -0
  37. scitex/ai/classification/timeseries/_TimeSeriesStratifiedSplit.py +610 -0
  38. scitex/ai/classification/timeseries/__init__.py +39 -0
  39. scitex/ai/classification/timeseries/_normalize_timestamp.py +436 -0
  40. scitex/ai/clustering/_umap.py +2 -2
  41. scitex/ai/feature_extraction/vit.py +1 -0
  42. scitex/ai/feature_selection/__init__.py +30 -0
  43. scitex/ai/feature_selection/feature_selection.py +364 -0
  44. scitex/ai/loss/multi_task_loss.py +1 -1
  45. scitex/ai/metrics/__init__.py +51 -4
  46. scitex/ai/metrics/_calc_bacc.py +61 -0
  47. scitex/ai/metrics/_calc_bacc_from_conf_mat.py +38 -0
  48. scitex/ai/metrics/_calc_clf_report.py +78 -0
  49. scitex/ai/metrics/_calc_conf_mat.py +93 -0
  50. scitex/ai/metrics/_calc_feature_importance.py +183 -0
  51. scitex/ai/metrics/_calc_mcc.py +61 -0
  52. scitex/ai/metrics/_calc_pre_rec_auc.py +116 -0
  53. scitex/ai/metrics/_calc_roc_auc.py +110 -0
  54. scitex/ai/metrics/_calc_seizure_prediction_metrics.py +490 -0
  55. scitex/ai/metrics/{silhoute_score_block.py → _calc_silhouette_score.py} +15 -8
  56. scitex/ai/metrics/_normalize_labels.py +83 -0
  57. scitex/ai/plt/__init__.py +47 -8
  58. scitex/ai/plt/{_conf_mat.py → _plot_conf_mat.py} +158 -87
  59. scitex/ai/plt/_plot_feature_importance.py +323 -0
  60. scitex/ai/plt/_plot_learning_curve.py +345 -0
  61. scitex/ai/plt/_plot_optuna_study.py +225 -0
  62. scitex/ai/plt/_plot_pre_rec_curve.py +290 -0
  63. scitex/ai/plt/_plot_roc_curve.py +255 -0
  64. scitex/ai/training/{learning_curve_logger.py → _LearningCurveLogger.py} +197 -213
  65. scitex/ai/training/__init__.py +2 -2
  66. scitex/ai/utils/grid_search.py +3 -3
  67. scitex/benchmark/__init__.py +52 -0
  68. scitex/benchmark/benchmark.py +400 -0
  69. scitex/benchmark/monitor.py +370 -0
  70. scitex/benchmark/profiler.py +297 -0
  71. scitex/browser/__init__.py +48 -0
  72. scitex/browser/automation/CookieHandler.py +216 -0
  73. scitex/browser/automation/__init__.py +7 -0
  74. scitex/browser/collaboration/__init__.py +55 -0
  75. scitex/browser/collaboration/auth_helpers.py +94 -0
  76. scitex/browser/collaboration/collaborative_agent.py +136 -0
  77. scitex/browser/collaboration/credential_manager.py +188 -0
  78. scitex/browser/collaboration/interactive_panel.py +400 -0
  79. scitex/browser/collaboration/persistent_browser.py +170 -0
  80. scitex/browser/collaboration/shared_session.py +383 -0
  81. scitex/browser/collaboration/standard_interactions.py +246 -0
  82. scitex/browser/collaboration/visual_feedback.py +181 -0
  83. scitex/browser/core/BrowserMixin.py +326 -0
  84. scitex/browser/core/ChromeProfileManager.py +446 -0
  85. scitex/browser/core/__init__.py +9 -0
  86. scitex/browser/debugging/__init__.py +18 -0
  87. scitex/browser/debugging/_browser_logger.py +657 -0
  88. scitex/browser/debugging/_highlight_element.py +143 -0
  89. scitex/browser/debugging/_show_grid.py +154 -0
  90. scitex/browser/interaction/__init__.py +24 -0
  91. scitex/browser/interaction/click_center.py +149 -0
  92. scitex/browser/interaction/click_with_fallbacks.py +206 -0
  93. scitex/browser/interaction/close_popups.py +498 -0
  94. scitex/browser/interaction/fill_with_fallbacks.py +209 -0
  95. scitex/browser/pdf/__init__.py +14 -0
  96. scitex/browser/pdf/click_download_for_chrome_pdf_viewer.py +200 -0
  97. scitex/browser/pdf/detect_chrome_pdf_viewer.py +198 -0
  98. scitex/browser/remote/CaptchaHandler.py +434 -0
  99. scitex/browser/remote/ZenRowsAPIClient.py +347 -0
  100. scitex/browser/remote/ZenRowsBrowserManager.py +570 -0
  101. scitex/browser/remote/__init__.py +11 -0
  102. scitex/browser/stealth/HumanBehavior.py +344 -0
  103. scitex/browser/stealth/StealthManager.py +1008 -0
  104. scitex/browser/stealth/__init__.py +9 -0
  105. scitex/browser/template.py +122 -0
  106. scitex/capture/__init__.py +110 -0
  107. scitex/capture/__main__.py +25 -0
  108. scitex/capture/capture.py +848 -0
  109. scitex/capture/cli.py +233 -0
  110. scitex/capture/gif.py +344 -0
  111. scitex/capture/mcp_server.py +961 -0
  112. scitex/capture/session.py +70 -0
  113. scitex/capture/utils.py +705 -0
  114. scitex/cli/__init__.py +17 -0
  115. scitex/cli/cloud.py +447 -0
  116. scitex/cli/main.py +42 -0
  117. scitex/cli/scholar.py +280 -0
  118. scitex/context/_suppress_output.py +5 -3
  119. scitex/db/__init__.py +30 -3
  120. scitex/db/__main__.py +75 -0
  121. scitex/db/_check_health.py +381 -0
  122. scitex/db/_delete_duplicates.py +25 -386
  123. scitex/db/_inspect.py +335 -114
  124. scitex/db/_inspect_optimized.py +301 -0
  125. scitex/db/{_PostgreSQL.py → _postgresql/_PostgreSQL.py} +3 -3
  126. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_BackupMixin.py +1 -1
  127. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_BatchMixin.py +1 -1
  128. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_BlobMixin.py +1 -1
  129. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_ConnectionMixin.py +1 -1
  130. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_MaintenanceMixin.py +1 -1
  131. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_QueryMixin.py +1 -1
  132. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_SchemaMixin.py +1 -1
  133. scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_TransactionMixin.py +1 -1
  134. scitex/db/_postgresql/__init__.py +6 -0
  135. scitex/db/_sqlite3/_SQLite3.py +210 -0
  136. scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin.py +581 -0
  137. scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin_v01-need-_hash-col.py +517 -0
  138. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_BatchMixin.py +1 -1
  139. scitex/db/_sqlite3/_SQLite3Mixins/_BlobMixin.py +281 -0
  140. scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin.py +548 -0
  141. scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin_v01-indentation-issues.py +583 -0
  142. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_ConnectionMixin.py +29 -13
  143. scitex/db/_sqlite3/_SQLite3Mixins/_GitMixin.py +583 -0
  144. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_ImportExportMixin.py +1 -1
  145. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_IndexMixin.py +1 -1
  146. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_MaintenanceMixin.py +2 -1
  147. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_QueryMixin.py +37 -10
  148. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_RowMixin.py +46 -6
  149. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_TableMixin.py +56 -10
  150. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_TransactionMixin.py +1 -1
  151. scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/__init__.py +14 -2
  152. scitex/db/_sqlite3/__init__.py +7 -0
  153. scitex/db/_sqlite3/_delete_duplicates.py +274 -0
  154. scitex/decorators/__init__.py +2 -0
  155. scitex/decorators/_cache_disk.py +13 -5
  156. scitex/decorators/_cache_disk_async.py +49 -0
  157. scitex/decorators/_deprecated.py +175 -10
  158. scitex/decorators/_timeout.py +1 -1
  159. scitex/dev/_analyze_code_flow.py +2 -2
  160. scitex/dict/_DotDict.py +73 -15
  161. scitex/dict/_DotDict_v01-not-handling-recursive-instantiations.py +442 -0
  162. scitex/dict/_DotDict_v02-not-serializing-Path-object.py +446 -0
  163. scitex/dict/__init__.py +2 -0
  164. scitex/dict/_flatten.py +27 -0
  165. scitex/dsp/_crop.py +2 -2
  166. scitex/dsp/_demo_sig.py +2 -2
  167. scitex/dsp/_detect_ripples.py +2 -2
  168. scitex/dsp/_hilbert.py +2 -2
  169. scitex/dsp/_listen.py +6 -6
  170. scitex/dsp/_modulation_index.py +2 -2
  171. scitex/dsp/_pac.py +1 -1
  172. scitex/dsp/_psd.py +2 -2
  173. scitex/dsp/_resample.py +2 -1
  174. scitex/dsp/_time.py +3 -2
  175. scitex/dsp/_wavelet.py +3 -2
  176. scitex/dsp/add_noise.py +2 -2
  177. scitex/dsp/example.py +1 -0
  178. scitex/dsp/filt.py +10 -9
  179. scitex/dsp/template.py +3 -2
  180. scitex/dsp/utils/_differential_bandpass_filters.py +1 -1
  181. scitex/dsp/utils/pac.py +2 -2
  182. scitex/dt/_normalize_timestamp.py +432 -0
  183. scitex/errors.py +572 -0
  184. scitex/gen/_DimHandler.py +2 -2
  185. scitex/gen/__init__.py +37 -7
  186. scitex/gen/_deprecated_close.py +80 -0
  187. scitex/gen/_deprecated_start.py +26 -0
  188. scitex/gen/_detect_environment.py +152 -0
  189. scitex/gen/_detect_notebook_path.py +169 -0
  190. scitex/gen/_embed.py +6 -2
  191. scitex/gen/_get_notebook_path.py +257 -0
  192. scitex/gen/_less.py +1 -1
  193. scitex/gen/_list_packages.py +2 -2
  194. scitex/gen/_norm.py +44 -9
  195. scitex/gen/_norm_cache.py +269 -0
  196. scitex/gen/_src.py +3 -5
  197. scitex/gen/_title_case.py +3 -3
  198. scitex/io/__init__.py +28 -6
  199. scitex/io/_glob.py +13 -7
  200. scitex/io/_load.py +108 -21
  201. scitex/io/_load_cache.py +303 -0
  202. scitex/io/_load_configs.py +40 -15
  203. scitex/io/{_H5Explorer.py → _load_modules/_H5Explorer.py} +80 -17
  204. scitex/io/_load_modules/_ZarrExplorer.py +114 -0
  205. scitex/io/_load_modules/_bibtex.py +207 -0
  206. scitex/io/_load_modules/_hdf5.py +53 -178
  207. scitex/io/_load_modules/_json.py +5 -3
  208. scitex/io/_load_modules/_pdf.py +871 -16
  209. scitex/io/_load_modules/_sqlite3.py +15 -0
  210. scitex/io/_load_modules/_txt.py +41 -12
  211. scitex/io/_load_modules/_yaml.py +4 -3
  212. scitex/io/_load_modules/_zarr.py +126 -0
  213. scitex/io/_save.py +429 -171
  214. scitex/io/_save_modules/__init__.py +6 -0
  215. scitex/io/_save_modules/_bibtex.py +194 -0
  216. scitex/io/_save_modules/_csv.py +8 -4
  217. scitex/io/_save_modules/_excel.py +174 -15
  218. scitex/io/_save_modules/_hdf5.py +251 -226
  219. scitex/io/_save_modules/_image.py +1 -3
  220. scitex/io/_save_modules/_json.py +49 -4
  221. scitex/io/_save_modules/_listed_dfs_as_csv.py +1 -3
  222. scitex/io/_save_modules/_listed_scalars_as_csv.py +1 -3
  223. scitex/io/_save_modules/_tex.py +277 -0
  224. scitex/io/_save_modules/_yaml.py +42 -3
  225. scitex/io/_save_modules/_zarr.py +160 -0
  226. scitex/io/utils/__init__.py +20 -0
  227. scitex/io/utils/h5_to_zarr.py +616 -0
  228. scitex/linalg/_geometric_median.py +6 -2
  229. scitex/{gen/_tee.py → logging/_Tee.py} +43 -84
  230. scitex/logging/__init__.py +122 -0
  231. scitex/logging/_config.py +158 -0
  232. scitex/logging/_context.py +103 -0
  233. scitex/logging/_formatters.py +128 -0
  234. scitex/logging/_handlers.py +64 -0
  235. scitex/logging/_levels.py +35 -0
  236. scitex/logging/_logger.py +163 -0
  237. scitex/logging/_print_capture.py +95 -0
  238. scitex/ml/__init__.py +69 -0
  239. scitex/{ai/genai/anthropic.py → ml/_gen_ai/_Anthropic.py} +13 -19
  240. scitex/{ai/genai/base_genai.py → ml/_gen_ai/_BaseGenAI.py} +5 -5
  241. scitex/{ai/genai/deepseek.py → ml/_gen_ai/_DeepSeek.py} +11 -16
  242. scitex/{ai/genai/google.py → ml/_gen_ai/_Google.py} +7 -15
  243. scitex/{ai/genai/groq.py → ml/_gen_ai/_Groq.py} +1 -8
  244. scitex/{ai/genai/llama.py → ml/_gen_ai/_Llama.py} +3 -16
  245. scitex/{ai/genai/openai.py → ml/_gen_ai/_OpenAI.py} +3 -3
  246. scitex/{ai/genai/params.py → ml/_gen_ai/_PARAMS.py} +51 -65
  247. scitex/{ai/genai/perplexity.py → ml/_gen_ai/_Perplexity.py} +3 -14
  248. scitex/ml/_gen_ai/__init__.py +43 -0
  249. scitex/{ai/genai/calc_cost.py → ml/_gen_ai/_calc_cost.py} +1 -1
  250. scitex/{ai/genai/format_output_func.py → ml/_gen_ai/_format_output_func.py} +4 -4
  251. scitex/{ai/genai/genai_factory.py → ml/_gen_ai/_genai_factory.py} +8 -8
  252. scitex/ml/activation/__init__.py +8 -0
  253. scitex/ml/activation/_define.py +11 -0
  254. scitex/{ai/classifier_server.py → ml/classification/Classifier.py} +5 -5
  255. scitex/ml/classification/CrossValidationExperiment.py +374 -0
  256. scitex/ml/classification/__init__.py +46 -0
  257. scitex/ml/classification/reporters/_BaseClassificationReporter.py +281 -0
  258. scitex/ml/classification/reporters/_ClassificationReporter.py +773 -0
  259. scitex/ml/classification/reporters/_MultiClassificationReporter.py +406 -0
  260. scitex/ml/classification/reporters/_SingleClassificationReporter.py +1834 -0
  261. scitex/ml/classification/reporters/__init__.py +11 -0
  262. scitex/ml/classification/reporters/reporter_utils/_Plotter.py +1028 -0
  263. scitex/ml/classification/reporters/reporter_utils/__init__.py +80 -0
  264. scitex/ml/classification/reporters/reporter_utils/aggregation.py +457 -0
  265. scitex/ml/classification/reporters/reporter_utils/data_models.py +313 -0
  266. scitex/ml/classification/reporters/reporter_utils/reporting.py +1056 -0
  267. scitex/ml/classification/reporters/reporter_utils/storage.py +221 -0
  268. scitex/ml/classification/reporters/reporter_utils/validation.py +395 -0
  269. scitex/ml/classification/timeseries/_TimeSeriesBlockingSplit.py +568 -0
  270. scitex/ml/classification/timeseries/_TimeSeriesCalendarSplit.py +688 -0
  271. scitex/ml/classification/timeseries/_TimeSeriesMetadata.py +139 -0
  272. scitex/ml/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +1716 -0
  273. scitex/ml/classification/timeseries/_TimeSeriesSlidingWindowSplit_v01-not-using-n_splits.py +1685 -0
  274. scitex/ml/classification/timeseries/_TimeSeriesStrategy.py +84 -0
  275. scitex/ml/classification/timeseries/_TimeSeriesStratifiedSplit.py +610 -0
  276. scitex/ml/classification/timeseries/__init__.py +39 -0
  277. scitex/ml/classification/timeseries/_normalize_timestamp.py +436 -0
  278. scitex/ml/clustering/__init__.py +11 -0
  279. scitex/ml/clustering/_pca.py +115 -0
  280. scitex/ml/clustering/_umap.py +376 -0
  281. scitex/ml/feature_extraction/__init__.py +56 -0
  282. scitex/ml/feature_extraction/vit.py +149 -0
  283. scitex/ml/feature_selection/__init__.py +30 -0
  284. scitex/ml/feature_selection/feature_selection.py +364 -0
  285. scitex/ml/loss/_L1L2Losses.py +34 -0
  286. scitex/ml/loss/__init__.py +12 -0
  287. scitex/ml/loss/multi_task_loss.py +47 -0
  288. scitex/ml/metrics/__init__.py +56 -0
  289. scitex/ml/metrics/_calc_bacc.py +61 -0
  290. scitex/ml/metrics/_calc_bacc_from_conf_mat.py +38 -0
  291. scitex/ml/metrics/_calc_clf_report.py +78 -0
  292. scitex/ml/metrics/_calc_conf_mat.py +93 -0
  293. scitex/ml/metrics/_calc_feature_importance.py +183 -0
  294. scitex/ml/metrics/_calc_mcc.py +61 -0
  295. scitex/ml/metrics/_calc_pre_rec_auc.py +116 -0
  296. scitex/ml/metrics/_calc_roc_auc.py +110 -0
  297. scitex/ml/metrics/_calc_seizure_prediction_metrics.py +490 -0
  298. scitex/ml/metrics/_calc_silhouette_score.py +503 -0
  299. scitex/ml/metrics/_normalize_labels.py +83 -0
  300. scitex/ml/optim/Ranger_Deep_Learning_Optimizer/__init__.py +0 -0
  301. scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/__init__.py +3 -0
  302. scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger.py +207 -0
  303. scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger2020.py +238 -0
  304. scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger913A.py +215 -0
  305. scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/rangerqh.py +184 -0
  306. scitex/ml/optim/Ranger_Deep_Learning_Optimizer/setup.py +24 -0
  307. scitex/ml/optim/__init__.py +13 -0
  308. scitex/ml/optim/_get_set.py +31 -0
  309. scitex/ml/optim/_optimizers.py +71 -0
  310. scitex/ml/plt/__init__.py +60 -0
  311. scitex/ml/plt/_plot_conf_mat.py +663 -0
  312. scitex/ml/plt/_plot_feature_importance.py +323 -0
  313. scitex/ml/plt/_plot_learning_curve.py +345 -0
  314. scitex/ml/plt/_plot_optuna_study.py +225 -0
  315. scitex/ml/plt/_plot_pre_rec_curve.py +290 -0
  316. scitex/ml/plt/_plot_roc_curve.py +255 -0
  317. scitex/ml/sk/__init__.py +11 -0
  318. scitex/ml/sk/_clf.py +58 -0
  319. scitex/ml/sk/_to_sktime.py +100 -0
  320. scitex/ml/sklearn/__init__.py +26 -0
  321. scitex/ml/sklearn/clf.py +58 -0
  322. scitex/ml/sklearn/to_sktime.py +100 -0
  323. scitex/{ai/training/early_stopping.py → ml/training/_EarlyStopping.py} +1 -2
  324. scitex/{ai → ml/training}/_LearningCurveLogger.py +198 -242
  325. scitex/ml/training/__init__.py +7 -0
  326. scitex/ml/utils/__init__.py +22 -0
  327. scitex/ml/utils/_check_params.py +50 -0
  328. scitex/ml/utils/_default_dataset.py +46 -0
  329. scitex/ml/utils/_format_samples_for_sktime.py +26 -0
  330. scitex/ml/utils/_label_encoder.py +134 -0
  331. scitex/ml/utils/_merge_labels.py +22 -0
  332. scitex/ml/utils/_sliding_window_data_augmentation.py +11 -0
  333. scitex/ml/utils/_under_sample.py +51 -0
  334. scitex/ml/utils/_verify_n_gpus.py +16 -0
  335. scitex/ml/utils/grid_search.py +148 -0
  336. scitex/nn/_BNet.py +15 -9
  337. scitex/nn/_Filters.py +2 -2
  338. scitex/nn/_ModulationIndex.py +2 -2
  339. scitex/nn/_PAC.py +1 -1
  340. scitex/nn/_Spectrogram.py +12 -3
  341. scitex/nn/__init__.py +9 -10
  342. scitex/path/__init__.py +18 -0
  343. scitex/path/_clean.py +4 -0
  344. scitex/path/_find.py +9 -4
  345. scitex/path/_symlink.py +348 -0
  346. scitex/path/_version.py +4 -3
  347. scitex/pd/__init__.py +2 -0
  348. scitex/pd/_get_unique.py +99 -0
  349. scitex/plt/__init__.py +114 -5
  350. scitex/plt/_subplots/_AxesWrapper.py +1 -3
  351. scitex/plt/_subplots/_AxisWrapper.py +7 -3
  352. scitex/plt/_subplots/_AxisWrapperMixins/_AdjustmentMixin.py +47 -13
  353. scitex/plt/_subplots/_AxisWrapperMixins/_MatplotlibPlotMixin.py +160 -2
  354. scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin.py +26 -4
  355. scitex/plt/_subplots/_AxisWrapperMixins/_UnitAwareMixin.py +322 -0
  356. scitex/plt/_subplots/_AxisWrapperMixins/__init__.py +1 -0
  357. scitex/plt/_subplots/_FigWrapper.py +62 -6
  358. scitex/plt/_subplots/_export_as_csv.py +43 -27
  359. scitex/plt/_subplots/_export_as_csv_formatters/__init__.py +5 -4
  360. scitex/plt/_subplots/_export_as_csv_formatters/_format_annotate.py +81 -0
  361. scitex/plt/_subplots/_export_as_csv_formatters/_format_bar.py +1 -3
  362. scitex/plt/_subplots/_export_as_csv_formatters/_format_barh.py +20 -5
  363. scitex/plt/_subplots/_export_as_csv_formatters/_format_boxplot.py +1 -3
  364. scitex/plt/_subplots/_export_as_csv_formatters/_format_contour.py +1 -3
  365. scitex/plt/_subplots/_export_as_csv_formatters/_format_errorbar.py +35 -18
  366. scitex/plt/_subplots/_export_as_csv_formatters/_format_eventplot.py +1 -3
  367. scitex/plt/_subplots/_export_as_csv_formatters/_format_fill.py +1 -3
  368. scitex/plt/_subplots/_export_as_csv_formatters/_format_fill_between.py +1 -3
  369. scitex/plt/_subplots/_export_as_csv_formatters/_format_hist.py +1 -3
  370. scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow.py +1 -3
  371. scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow2d.py +1 -3
  372. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot.py +15 -3
  373. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_box.py +1 -3
  374. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_conf_mat.py +1 -3
  375. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_ecdf.py +1 -3
  376. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_fillv.py +1 -3
  377. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_heatmap.py +1 -3
  378. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_image.py +1 -3
  379. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_joyplot.py +1 -3
  380. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_kde.py +1 -3
  381. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_line.py +1 -3
  382. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_mean_ci.py +1 -3
  383. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_mean_std.py +1 -3
  384. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_median_iqr.py +1 -3
  385. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_raster.py +1 -3
  386. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_rectangle.py +1 -3
  387. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_scatter.py +35 -0
  388. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_scatter_hist.py +1 -3
  389. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_shaded_line.py +1 -3
  390. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_violin.py +1 -3
  391. scitex/plt/_subplots/_export_as_csv_formatters/_format_scatter.py +6 -4
  392. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_barplot.py +1 -3
  393. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_boxplot.py +1 -3
  394. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_heatmap.py +1 -3
  395. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_histplot.py +1 -3
  396. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_jointplot.py +1 -3
  397. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_kdeplot.py +1 -3
  398. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_lineplot.py +1 -3
  399. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_pairplot.py +1 -3
  400. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_scatterplot.py +1 -3
  401. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_stripplot.py +1 -3
  402. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_swarmplot.py +1 -3
  403. scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_violinplot.py +1 -3
  404. scitex/plt/_subplots/_export_as_csv_formatters/_format_text.py +60 -0
  405. scitex/plt/_subplots/_export_as_csv_formatters/_format_violin.py +1 -3
  406. scitex/plt/_subplots/_export_as_csv_formatters/_format_violinplot.py +1 -3
  407. scitex/plt/_subplots/_export_as_csv_formatters/test_formatters.py +1 -3
  408. scitex/plt/_subplots/_export_as_csv_formatters.py +56 -59
  409. scitex/plt/ax/_style/_hide_spines.py +1 -3
  410. scitex/plt/ax/_style/_rotate_labels.py +180 -76
  411. scitex/plt/ax/_style/_rotate_labels_v01.py +248 -0
  412. scitex/plt/ax/_style/_set_meta.py +11 -4
  413. scitex/plt/ax/_style/_set_supxyt.py +3 -3
  414. scitex/plt/ax/_style/_set_xyt.py +3 -3
  415. scitex/plt/ax/_style/_share_axes.py +2 -2
  416. scitex/plt/color/__init__.py +4 -4
  417. scitex/plt/color/{_get_colors_from_cmap.py → _get_colors_from_conf_matap.py} +7 -7
  418. scitex/plt/utils/_configure_mpl.py +99 -86
  419. scitex/plt/utils/_histogram_utils.py +1 -3
  420. scitex/plt/utils/_is_valid_axis.py +1 -3
  421. scitex/plt/utils/_scitex_config.py +1 -0
  422. scitex/repro/__init__.py +75 -0
  423. scitex/{reproduce → repro}/_gen_ID.py +1 -1
  424. scitex/{reproduce → repro}/_gen_timestamp.py +1 -1
  425. scitex/repro_rng/_RandomStateManager.py +590 -0
  426. scitex/repro_rng/_RandomStateManager_v01-no-verbose-options.py +414 -0
  427. scitex/repro_rng/__init__.py +39 -0
  428. scitex/reproduce/__init__.py +25 -13
  429. scitex/reproduce/_hash_array.py +22 -0
  430. scitex/resource/_get_processor_usages.py +4 -4
  431. scitex/resource/_get_specs.py +2 -2
  432. scitex/resource/_log_processor_usages.py +2 -2
  433. scitex/rng/_RandomStateManager.py +590 -0
  434. scitex/rng/_RandomStateManager_v01-no-verbose-options.py +414 -0
  435. scitex/rng/__init__.py +39 -0
  436. scitex/scholar/__init__.py +309 -19
  437. scitex/scholar/__main__.py +319 -0
  438. scitex/scholar/auth/ScholarAuthManager.py +308 -0
  439. scitex/scholar/auth/__init__.py +12 -0
  440. scitex/scholar/auth/core/AuthenticationGateway.py +473 -0
  441. scitex/scholar/auth/core/BrowserAuthenticator.py +386 -0
  442. scitex/scholar/auth/core/StrategyResolver.py +309 -0
  443. scitex/scholar/auth/core/__init__.py +16 -0
  444. scitex/scholar/auth/gateway/_OpenURLLinkFinder.py +120 -0
  445. scitex/scholar/auth/gateway/_OpenURLResolver.py +209 -0
  446. scitex/scholar/auth/gateway/__init__.py +38 -0
  447. scitex/scholar/auth/gateway/_resolve_functions.py +101 -0
  448. scitex/scholar/auth/providers/BaseAuthenticator.py +166 -0
  449. scitex/scholar/auth/providers/EZProxyAuthenticator.py +484 -0
  450. scitex/scholar/auth/providers/OpenAthensAuthenticator.py +619 -0
  451. scitex/scholar/auth/providers/ShibbolethAuthenticator.py +686 -0
  452. scitex/scholar/auth/providers/__init__.py +18 -0
  453. scitex/scholar/auth/session/AuthCacheManager.py +189 -0
  454. scitex/scholar/auth/session/SessionManager.py +159 -0
  455. scitex/scholar/auth/session/__init__.py +11 -0
  456. scitex/scholar/auth/sso/BaseSSOAutomator.py +373 -0
  457. scitex/scholar/auth/sso/OpenAthensSSOAutomator.py +378 -0
  458. scitex/scholar/auth/sso/SSOAutomator.py +180 -0
  459. scitex/scholar/auth/sso/UniversityOfMelbourneSSOAutomator.py +380 -0
  460. scitex/scholar/auth/sso/__init__.py +15 -0
  461. scitex/scholar/browser/ScholarBrowserManager.py +705 -0
  462. scitex/scholar/browser/__init__.py +38 -0
  463. scitex/scholar/browser/utils/__init__.py +13 -0
  464. scitex/scholar/browser/utils/click_and_wait.py +205 -0
  465. scitex/scholar/browser/utils/close_unwanted_pages.py +140 -0
  466. scitex/scholar/browser/utils/wait_redirects.py +732 -0
  467. scitex/scholar/config/PublisherRules.py +132 -0
  468. scitex/scholar/config/ScholarConfig.py +126 -0
  469. scitex/scholar/config/__init__.py +17 -0
  470. scitex/scholar/core/Paper.py +627 -0
  471. scitex/scholar/core/Papers.py +722 -0
  472. scitex/scholar/core/Scholar.py +1975 -0
  473. scitex/scholar/core/__init__.py +9 -0
  474. scitex/scholar/impact_factor/ImpactFactorEngine.py +204 -0
  475. scitex/scholar/impact_factor/__init__.py +20 -0
  476. scitex/scholar/impact_factor/estimation/ImpactFactorEstimationEngine.py +0 -0
  477. scitex/scholar/impact_factor/estimation/__init__.py +40 -0
  478. scitex/scholar/impact_factor/estimation/build_database.py +0 -0
  479. scitex/scholar/impact_factor/estimation/core/__init__.py +28 -0
  480. scitex/scholar/impact_factor/estimation/core/cache_manager.py +523 -0
  481. scitex/scholar/impact_factor/estimation/core/calculator.py +355 -0
  482. scitex/scholar/impact_factor/estimation/core/journal_matcher.py +428 -0
  483. scitex/scholar/integration/__init__.py +59 -0
  484. scitex/scholar/integration/base.py +502 -0
  485. scitex/scholar/integration/mendeley/__init__.py +22 -0
  486. scitex/scholar/integration/mendeley/exporter.py +166 -0
  487. scitex/scholar/integration/mendeley/importer.py +236 -0
  488. scitex/scholar/integration/mendeley/linker.py +79 -0
  489. scitex/scholar/integration/mendeley/mapper.py +212 -0
  490. scitex/scholar/integration/zotero/__init__.py +27 -0
  491. scitex/scholar/integration/zotero/__main__.py +264 -0
  492. scitex/scholar/integration/zotero/exporter.py +351 -0
  493. scitex/scholar/integration/zotero/importer.py +372 -0
  494. scitex/scholar/integration/zotero/linker.py +415 -0
  495. scitex/scholar/integration/zotero/mapper.py +286 -0
  496. scitex/scholar/metadata_engines/ScholarEngine.py +588 -0
  497. scitex/scholar/metadata_engines/__init__.py +21 -0
  498. scitex/scholar/metadata_engines/individual/ArXivEngine.py +397 -0
  499. scitex/scholar/metadata_engines/individual/CrossRefEngine.py +274 -0
  500. scitex/scholar/metadata_engines/individual/CrossRefLocalEngine.py +263 -0
  501. scitex/scholar/metadata_engines/individual/OpenAlexEngine.py +350 -0
  502. scitex/scholar/metadata_engines/individual/PubMedEngine.py +329 -0
  503. scitex/scholar/metadata_engines/individual/SemanticScholarEngine.py +438 -0
  504. scitex/scholar/metadata_engines/individual/URLDOIEngine.py +410 -0
  505. scitex/scholar/metadata_engines/individual/_BaseDOIEngine.py +487 -0
  506. scitex/scholar/metadata_engines/individual/__init__.py +7 -0
  507. scitex/scholar/metadata_engines/utils/_PubMedConverter.py +469 -0
  508. scitex/scholar/metadata_engines/utils/_URLDOIExtractor.py +283 -0
  509. scitex/scholar/metadata_engines/utils/__init__.py +30 -0
  510. scitex/scholar/metadata_engines/utils/_metadata2bibtex.py +103 -0
  511. scitex/scholar/metadata_engines/utils/_standardize_metadata.py +376 -0
  512. scitex/scholar/pdf_download/ScholarPDFDownloader.py +579 -0
  513. scitex/scholar/pdf_download/__init__.py +5 -0
  514. scitex/scholar/pdf_download/strategies/__init__.py +38 -0
  515. scitex/scholar/pdf_download/strategies/chrome_pdf_viewer.py +376 -0
  516. scitex/scholar/pdf_download/strategies/direct_download.py +131 -0
  517. scitex/scholar/pdf_download/strategies/manual_download_fallback.py +167 -0
  518. scitex/scholar/pdf_download/strategies/manual_download_utils.py +996 -0
  519. scitex/scholar/pdf_download/strategies/response_body.py +207 -0
  520. scitex/scholar/pipelines/ScholarPipelineBibTeX.py +364 -0
  521. scitex/scholar/pipelines/ScholarPipelineParallel.py +478 -0
  522. scitex/scholar/pipelines/ScholarPipelineSingle.py +767 -0
  523. scitex/scholar/pipelines/__init__.py +49 -0
  524. scitex/scholar/storage/BibTeXHandler.py +1018 -0
  525. scitex/scholar/storage/PaperIO.py +468 -0
  526. scitex/scholar/storage/ScholarLibrary.py +182 -0
  527. scitex/scholar/storage/_DeduplicationManager.py +548 -0
  528. scitex/scholar/storage/_LibraryCacheManager.py +724 -0
  529. scitex/scholar/storage/_LibraryManager.py +1835 -0
  530. scitex/scholar/storage/__init__.py +28 -0
  531. scitex/scholar/url_finder/ScholarURLFinder.py +379 -0
  532. scitex/scholar/url_finder/__init__.py +7 -0
  533. scitex/scholar/url_finder/strategies/__init__.py +33 -0
  534. scitex/scholar/url_finder/strategies/find_pdf_urls_by_direct_links.py +261 -0
  535. scitex/scholar/url_finder/strategies/find_pdf_urls_by_dropdown.py +67 -0
  536. scitex/scholar/url_finder/strategies/find_pdf_urls_by_href.py +204 -0
  537. scitex/scholar/url_finder/strategies/find_pdf_urls_by_navigation.py +256 -0
  538. scitex/scholar/url_finder/strategies/find_pdf_urls_by_publisher_patterns.py +165 -0
  539. scitex/scholar/url_finder/strategies/find_pdf_urls_by_zotero_translators.py +163 -0
  540. scitex/scholar/url_finder/strategies/find_supplementary_urls_by_href.py +70 -0
  541. scitex/scholar/utils/__init__.py +22 -0
  542. scitex/scholar/utils/bibtex/__init__.py +9 -0
  543. scitex/scholar/utils/bibtex/_parse_bibtex.py +71 -0
  544. scitex/scholar/utils/cleanup/__init__.py +8 -0
  545. scitex/scholar/utils/cleanup/_cleanup_scholar_processes.py +96 -0
  546. scitex/scholar/utils/cleanup/cleanup_old_extractions.py +117 -0
  547. scitex/scholar/utils/text/_TextNormalizer.py +407 -0
  548. scitex/scholar/utils/text/__init__.py +9 -0
  549. scitex/scholar/zotero/__init__.py +38 -0
  550. scitex/session/__init__.py +51 -0
  551. scitex/session/_lifecycle.py +736 -0
  552. scitex/session/_manager.py +102 -0
  553. scitex/session/template.py +122 -0
  554. scitex/stats/__init__.py +30 -26
  555. scitex/stats/correct/__init__.py +21 -0
  556. scitex/stats/correct/_correct_bonferroni.py +551 -0
  557. scitex/stats/correct/_correct_fdr.py +634 -0
  558. scitex/stats/correct/_correct_holm.py +548 -0
  559. scitex/stats/correct/_correct_sidak.py +499 -0
  560. scitex/stats/descriptive/__init__.py +85 -0
  561. scitex/stats/descriptive/_circular.py +540 -0
  562. scitex/stats/descriptive/_describe.py +219 -0
  563. scitex/stats/descriptive/_nan.py +518 -0
  564. scitex/stats/descriptive/_real.py +189 -0
  565. scitex/stats/effect_sizes/__init__.py +41 -0
  566. scitex/stats/effect_sizes/_cliffs_delta.py +325 -0
  567. scitex/stats/effect_sizes/_cohens_d.py +342 -0
  568. scitex/stats/effect_sizes/_epsilon_squared.py +315 -0
  569. scitex/stats/effect_sizes/_eta_squared.py +302 -0
  570. scitex/stats/effect_sizes/_prob_superiority.py +296 -0
  571. scitex/stats/posthoc/__init__.py +19 -0
  572. scitex/stats/posthoc/_dunnett.py +463 -0
  573. scitex/stats/posthoc/_games_howell.py +383 -0
  574. scitex/stats/posthoc/_tukey_hsd.py +367 -0
  575. scitex/stats/power/__init__.py +19 -0
  576. scitex/stats/power/_power.py +433 -0
  577. scitex/stats/template.py +119 -0
  578. scitex/stats/utils/__init__.py +62 -0
  579. scitex/stats/utils/_effect_size.py +985 -0
  580. scitex/stats/utils/_formatters.py +270 -0
  581. scitex/stats/utils/_normalizers.py +927 -0
  582. scitex/stats/utils/_power.py +433 -0
  583. scitex/stats_v01/_EffectSizeCalculator.py +488 -0
  584. scitex/stats_v01/_StatisticalValidator.py +411 -0
  585. scitex/stats_v01/__init__.py +60 -0
  586. scitex/stats_v01/_additional_tests.py +415 -0
  587. scitex/{stats → stats_v01}/_p2stars.py +19 -5
  588. scitex/stats_v01/_two_sample_tests.py +141 -0
  589. scitex/stats_v01/desc/__init__.py +83 -0
  590. scitex/stats_v01/desc/_circular.py +540 -0
  591. scitex/stats_v01/desc/_describe.py +219 -0
  592. scitex/stats_v01/desc/_nan.py +518 -0
  593. scitex/{stats/desc/_nan.py → stats_v01/desc/_nan_v01-20250920_145731.py} +23 -12
  594. scitex/stats_v01/desc/_real.py +189 -0
  595. scitex/stats_v01/tests/__corr_test_optimized.py +221 -0
  596. scitex/stats_v01/tests/_corr_test_optimized.py +179 -0
  597. scitex/str/__init__.py +1 -3
  598. scitex/str/_clean_path.py +6 -2
  599. scitex/str/_latex_fallback.py +267 -160
  600. scitex/str/_parse.py +44 -36
  601. scitex/str/_printc.py +1 -3
  602. scitex/template/__init__.py +87 -0
  603. scitex/template/_create_project.py +267 -0
  604. scitex/template/create_pip_project.py +80 -0
  605. scitex/template/create_research.py +80 -0
  606. scitex/template/create_singularity.py +80 -0
  607. scitex/units.py +291 -0
  608. scitex/utils/_compress_hdf5.py +14 -3
  609. scitex/utils/_email.py +21 -2
  610. scitex/utils/_grid.py +6 -4
  611. scitex/utils/_notify.py +13 -10
  612. scitex/utils/_verify_scitex_format.py +589 -0
  613. scitex/utils/_verify_scitex_format_v01.py +370 -0
  614. scitex/utils/template.py +122 -0
  615. scitex/web/_search_pubmed.py +62 -16
  616. scitex-2.1.0.dist-info/LICENSE +21 -0
  617. scitex-2.1.0.dist-info/METADATA +677 -0
  618. scitex-2.1.0.dist-info/RECORD +919 -0
  619. {scitex-2.0.0.dist-info → scitex-2.1.0.dist-info}/WHEEL +1 -1
  620. scitex-2.1.0.dist-info/entry_points.txt +3 -0
  621. scitex/ai/__Classifiers.py +0 -101
  622. scitex/ai/classification/classification_reporter.py +0 -1137
  623. scitex/ai/classification/classifiers.py +0 -101
  624. scitex/ai/classification_reporter.py +0 -1161
  625. scitex/ai/genai/__init__.py +0 -277
  626. scitex/ai/genai/anthropic_provider.py +0 -320
  627. scitex/ai/genai/anthropic_refactored.py +0 -109
  628. scitex/ai/genai/auth_manager.py +0 -200
  629. scitex/ai/genai/base_provider.py +0 -291
  630. scitex/ai/genai/chat_history.py +0 -307
  631. scitex/ai/genai/cost_tracker.py +0 -276
  632. scitex/ai/genai/deepseek_provider.py +0 -251
  633. scitex/ai/genai/google_provider.py +0 -228
  634. scitex/ai/genai/groq_provider.py +0 -248
  635. scitex/ai/genai/image_processor.py +0 -250
  636. scitex/ai/genai/llama_provider.py +0 -214
  637. scitex/ai/genai/mock_provider.py +0 -127
  638. scitex/ai/genai/model_registry.py +0 -304
  639. scitex/ai/genai/openai_provider.py +0 -293
  640. scitex/ai/genai/perplexity_provider.py +0 -205
  641. scitex/ai/genai/provider_base.py +0 -302
  642. scitex/ai/genai/provider_factory.py +0 -370
  643. scitex/ai/genai/response_handler.py +0 -235
  644. scitex/ai/layer/_Pass.py +0 -21
  645. scitex/ai/layer/__init__.py +0 -10
  646. scitex/ai/layer/_switch.py +0 -8
  647. scitex/ai/metrics/_bACC.py +0 -51
  648. scitex/ai/plt/_learning_curve.py +0 -194
  649. scitex/ai/plt/_optuna_study.py +0 -111
  650. scitex/ai/plt/aucs/__init__.py +0 -2
  651. scitex/ai/plt/aucs/example.py +0 -60
  652. scitex/ai/plt/aucs/pre_rec_auc.py +0 -223
  653. scitex/ai/plt/aucs/roc_auc.py +0 -246
  654. scitex/ai/sampling/undersample.py +0 -29
  655. scitex/db/_SQLite3.py +0 -2136
  656. scitex/db/_SQLite3Mixins/_BlobMixin.py +0 -229
  657. scitex/gen/_close.py +0 -222
  658. scitex/gen/_start.py +0 -451
  659. scitex/general/__init__.py +0 -5
  660. scitex/io/_load_modules/_db.py +0 -24
  661. scitex/life/__init__.py +0 -10
  662. scitex/life/_monitor_rain.py +0 -49
  663. scitex/reproduce/_fix_seeds.py +0 -45
  664. scitex/res/__init__.py +0 -5
  665. scitex/scholar/_local_search.py +0 -454
  666. scitex/scholar/_paper.py +0 -244
  667. scitex/scholar/_pdf_downloader.py +0 -325
  668. scitex/scholar/_search.py +0 -393
  669. scitex/scholar/_vector_search.py +0 -370
  670. scitex/scholar/_web_sources.py +0 -457
  671. scitex/stats/desc/__init__.py +0 -40
  672. scitex-2.0.0.dist-info/METADATA +0 -307
  673. scitex-2.0.0.dist-info/RECORD +0 -572
  674. scitex-2.0.0.dist-info/licenses/LICENSE +0 -7
  675. /scitex/ai/{act → activation}/__init__.py +0 -0
  676. /scitex/ai/{act → activation}/_define.py +0 -0
  677. /scitex/ai/{early_stopping.py → training/_EarlyStopping.py} +0 -0
  678. /scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_ImportExportMixin.py +0 -0
  679. /scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_IndexMixin.py +0 -0
  680. /scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_RowMixin.py +0 -0
  681. /scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_TableMixin.py +0 -0
  682. /scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/__init__.py +0 -0
  683. /scitex/{stats → stats_v01}/_calc_partial_corr.py +0 -0
  684. /scitex/{stats → stats_v01}/_corr_test_multi.py +0 -0
  685. /scitex/{stats → stats_v01}/_corr_test_wrapper.py +0 -0
  686. /scitex/{stats → stats_v01}/_describe_wrapper.py +0 -0
  687. /scitex/{stats → stats_v01}/_multiple_corrections.py +0 -0
  688. /scitex/{stats → stats_v01}/_nan_stats.py +0 -0
  689. /scitex/{stats → stats_v01}/_p2stars_wrapper.py +0 -0
  690. /scitex/{stats → stats_v01}/_statistical_tests.py +0 -0
  691. /scitex/{stats/desc/_describe.py → stats_v01/desc/_describe_v01-20250920_145731.py} +0 -0
  692. /scitex/{stats/desc/_real.py → stats_v01/desc/_real_v01-20250920_145731.py} +0 -0
  693. /scitex/{stats → stats_v01}/multiple/__init__.py +0 -0
  694. /scitex/{stats → stats_v01}/multiple/_bonferroni_correction.py +0 -0
  695. /scitex/{stats → stats_v01}/multiple/_fdr_correction.py +0 -0
  696. /scitex/{stats → stats_v01}/multiple/_multicompair.py +0 -0
  697. /scitex/{stats → stats_v01}/tests/__corr_test.py +0 -0
  698. /scitex/{stats → stats_v01}/tests/__corr_test_multi.py +0 -0
  699. /scitex/{stats → stats_v01}/tests/__corr_test_single.py +0 -0
  700. /scitex/{stats → stats_v01}/tests/__init__.py +0 -0
  701. /scitex/{stats → stats_v01}/tests/_brunner_munzel_test.py +0 -0
  702. /scitex/{stats → stats_v01}/tests/_nocorrelation_test.py +0 -0
  703. /scitex/{stats → stats_v01}/tests/_smirnov_grubbs.py +0 -0
  704. {scitex-2.0.0.dist-info → scitex-2.1.0.dist-info}/top_level.txt +0 -0
@@ -0,0 +1,14 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # SciTeX Browser PDF Utilities
4
+ # ----------------------------------------
5
+
6
+ from .detect_chrome_pdf_viewer import detect_chrome_pdf_viewer_async
7
+ from .click_download_for_chrome_pdf_viewer import click_download_for_chrome_pdf_viewer_async
8
+
9
+ __all__ = [
10
+ "detect_chrome_pdf_viewer_async",
11
+ "click_download_for_chrome_pdf_viewer_async",
12
+ ]
13
+
14
+ # EOF
@@ -0,0 +1,200 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # Timestamp: "2025-10-10 03:24:13 (ywatanabe)"
4
+ # File: /home/ywatanabe/proj/scitex_repo/src/scitex/browser/pdf/click_download_for_chrome_pdf_viewer.py
5
+ # ----------------------------------------
6
+ from __future__ import annotations
7
+ import os
8
+ __FILE__ = (
9
+ "./src/scitex/browser/pdf/click_download_for_chrome_pdf_viewer.py"
10
+ )
11
+ __DIR__ = os.path.dirname(__FILE__)
12
+ # ----------------------------------------
13
+
14
+ from pathlib import Path
15
+
16
+ __FILE__ = __file__
17
+
18
+ """
19
+ Functionalities:
20
+ - Clicks download button in Chrome PDF viewer and saves PDF file
21
+ - Locates download button at top-right corner of PDF viewer
22
+ - Verifies successful download with file size check
23
+ - Demonstrates PDF download when run standalone
24
+
25
+ Dependencies:
26
+ - packages:
27
+ - playwright
28
+
29
+ IO:
30
+ - input-files:
31
+ - None
32
+ - output-files:
33
+ - User-specified PDF output path
34
+ """
35
+
36
+ """Imports"""
37
+ import argparse
38
+
39
+ from scitex import logging
40
+
41
+ logger = logging.getLogger(__name__)
42
+ from ..debugging import browser_logger
43
+
44
+ """Functions & Classes"""
45
+ async def click_download_for_chrome_pdf_viewer_async(
46
+ page,
47
+ output_path: Path | str,
48
+ verbose: bool = False,
49
+ func_name="click_download_for_chrome_pdf_viewer_async",
50
+ ) -> bool:
51
+ """
52
+ Click download button in Chrome PDF viewer and save the PDF file.
53
+
54
+ This function locates the download button in Chrome's built-in PDF viewer
55
+ (typically at top-right corner) and triggers the download, then saves the
56
+ file to the specified path.
57
+
58
+ Args:
59
+ page: Playwright page object showing a PDF in Chrome's PDF viewer
60
+ output_path: Path where the PDF file should be saved
61
+ verbose: Enable visual feedback via popup system (default False)
62
+
63
+ Returns:
64
+ bool: True if download succeeded and file is valid (>1KB), False otherwise
65
+
66
+ Example:
67
+ >>> await click_download_for_chrome_pdf_viewer_async(
68
+ ... page, "paper.pdf", verbose=True
69
+ ... )
70
+ True
71
+
72
+ Note:
73
+ - Expects Chrome PDF viewer to be already loaded on the page
74
+ - Download button position is at approximately (95%, 3%) of viewport
75
+ - Waits up to 120 seconds for download to start
76
+ - Waits 10 seconds for download to complete after starting
77
+ """
78
+ try:
79
+ output_path = Path(output_path)
80
+
81
+ # Ensure .pdf extension
82
+ if not str(output_path).endswith(".pdf"):
83
+ output_path = Path(str(output_path) + ".pdf")
84
+
85
+ viewport = page.viewport_size
86
+ viewport_width = viewport["width"]
87
+ viewport_height = viewport["height"]
88
+
89
+ # Download button is typically at top-right corner (95%, 3%)
90
+ download_button_x = int(viewport_width * 0.95)
91
+ download_button_y = int(viewport_height * 0.03)
92
+
93
+ if verbose:
94
+ await browser_logger.debug(
95
+ page,
96
+ f"{func_name}: Clicking PDF download button...",
97
+ )
98
+
99
+ # Click download button and wait for download to start
100
+ async with page.expect_download(timeout=120_000) as download_info:
101
+ await page.mouse.click(download_button_x, download_button_y)
102
+
103
+ download = await download_info.value
104
+
105
+ # Monitor download progress with real-time updates
106
+ if verbose:
107
+ await browser_logger.info(
108
+ page,
109
+ f"{func_name}: Download started, monitoring progress...",
110
+ )
111
+
112
+ # Wait for download to complete and get final path
113
+ download_path = await download.path()
114
+
115
+ # Show download completion
116
+ if download_path:
117
+ temp_size = Path(download_path).stat().st_size if Path(download_path).exists() else 0
118
+ size_mb = temp_size / (1024 * 1024)
119
+ if verbose:
120
+ await browser_logger.success(
121
+ page,
122
+ f"{func_name}: Download complete! Size: {size_mb:.2f} MB",
123
+ )
124
+
125
+ await page.wait_for_timeout(2_000) # Brief pause to show completion message
126
+
127
+ if download_path:
128
+ # Save download to specified path
129
+ await download.save_as(output_path)
130
+
131
+ # Verify download succeeded
132
+ if output_path.exists() and output_path.stat().st_size > 1024:
133
+ file_size_mb = output_path.stat().st_size / 1e6
134
+ logger.success(
135
+ f"Downloaded PDF: {output_path} ({file_size_mb:.1f} MB)"
136
+ )
137
+ return True
138
+
139
+ return False
140
+
141
+ except Exception as e:
142
+ logger.error(f"Chrome PDF viewer download failed: {e}")
143
+ return False
144
+
145
+
146
+ def main(args):
147
+ logger.debug(
148
+ "Chrome PDF download utility - use click_download_for_chrome_pdf_viewer_async() in your code"
149
+ )
150
+ return 0
151
+
152
+
153
+ def parse_args() -> argparse.Namespace:
154
+ """Parse command line arguments."""
155
+ import scitex as stx
156
+
157
+ parser = argparse.ArgumentParser(
158
+ description="Chrome PDF viewer download utility"
159
+ )
160
+ args = parser.parse_args()
161
+ return args
162
+
163
+
164
+ def run_main() -> None:
165
+ """Initialize scitex framework, run main function, and cleanup."""
166
+ global CONFIG, CC, sys, plt, rng
167
+
168
+ import sys
169
+
170
+ import matplotlib.pyplot as plt
171
+
172
+ import scitex as stx
173
+
174
+ args = parse_args()
175
+
176
+ CONFIG, sys.stdout, sys.stderr, plt, CC, rng = stx.session.start(
177
+ sys,
178
+ plt,
179
+ args=args,
180
+ file=__FILE__,
181
+ sdir_suffix=None,
182
+ verbose=False,
183
+ agg=True,
184
+ )
185
+
186
+ exit_status = main(args)
187
+
188
+ stx.session.close(
189
+ CONFIG,
190
+ verbose=False,
191
+ notify=False,
192
+ message="",
193
+ exit_status=exit_status,
194
+ )
195
+
196
+
197
+ if __name__ == "__main__":
198
+ run_main()
199
+
200
+ # EOF
@@ -0,0 +1,198 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # Timestamp: "2025-10-11 03:47:51 (ywatanabe)"
4
+ # File: /home/ywatanabe/proj/scitex_repo/src/scitex/browser/pdf/detect_chrome_pdf_viewer.py
5
+ # ----------------------------------------
6
+ from __future__ import annotations
7
+ import os
8
+ __FILE__ = (
9
+ "./src/scitex/browser/pdf/detect_chrome_pdf_viewer.py"
10
+ )
11
+ __DIR__ = os.path.dirname(__FILE__)
12
+ # ----------------------------------------
13
+
14
+ __FILE__ = __file__
15
+ from scitex import logging
16
+
17
+ from ..debugging import browser_logger
18
+
19
+ logger = logging.getLogger(__name__)
20
+
21
+
22
+ async def detect_chrome_pdf_viewer_async(
23
+ page, verbose: bool = False, func_name="detect_chrome_pdf_viewer_async"
24
+ ):
25
+ """
26
+ Detect if Chrome PDF viewer is present on the page.
27
+
28
+ Universal utility for detecting PDF viewer across any browser automation workflow.
29
+
30
+ NOTE: Caller should wait for networkidle BEFORE calling this function.
31
+ This function does NOT wait for networkidle to avoid redundant waits.
32
+
33
+ Args:
34
+ page: Playwright page object
35
+ verbose: Enable visual feedback via popup system (default False)
36
+
37
+ Returns:
38
+ bool: True if PDF viewer detected, False otherwise
39
+ """
40
+
41
+ if verbose:
42
+ await browser_logger.debug(
43
+ page, f"{func_name}: Detecting Chrome PDF Viewer..."
44
+ )
45
+
46
+ # Try multiple detection methods
47
+ detected = await page.evaluate(
48
+ """
49
+ () => {
50
+ // Method 1: Standard PDF embed/iframe/object
51
+ const embedPDF = document.querySelector('embed[type="application/pdf"]');
52
+ const iframePDF = document.querySelector('iframe[src*=".pdf"]');
53
+ const objectPDF = document.querySelector('object[type="application/pdf"]');
54
+
55
+ // Method 2: Chrome's built-in PDF viewer
56
+ const chromeViewer = window.PDFViewerApplication;
57
+
58
+ // Method 3: Common PDF viewer attributes
59
+ const pdfViewerDiv = document.querySelector('[data-testid="pdf-viewer"]');
60
+
61
+ // Method 4: Check if there's a PDF plugin
62
+ const pdfPlugin = navigator.mimeTypes['application/pdf'];
63
+
64
+ // Method 5: Check for IEEE-specific PDF viewer elements
65
+ const ieeePDFViewer = document.querySelector('#pdfViewer') ||
66
+ document.querySelector('.pdf-viewer') ||
67
+ document.querySelector('[id*="pdf"]') ||
68
+ document.querySelector('[class*="pdf-viewer"]');
69
+
70
+ // Method 6: Check if main frame contains PDF content
71
+ const contentType = document.contentType || document.mimeType;
72
+ const isPDFContent = contentType === 'application/pdf';
73
+
74
+ console.log('PDF Detection Results:', {
75
+ embedPDF: !!embedPDF,
76
+ iframePDF: !!iframePDF,
77
+ objectPDF: !!objectPDF,
78
+ chromeViewer: !!chromeViewer,
79
+ pdfViewerDiv: !!pdfViewerDiv,
80
+ pdfPlugin: !!pdfPlugin,
81
+ ieeePDFViewer: !!ieeePDFViewer,
82
+ isPDFContent: isPDFContent
83
+ });
84
+
85
+ return !!(
86
+ embedPDF || iframePDF || objectPDF ||
87
+ chromeViewer || pdfViewerDiv || pdfPlugin ||
88
+ ieeePDFViewer || isPDFContent
89
+ );
90
+ }
91
+ """
92
+ )
93
+
94
+ if detected:
95
+ if verbose:
96
+ await browser_logger.success(
97
+ page, f"{func_name}: ✓ PDF viewer elements found!"
98
+ )
99
+ return True
100
+ else:
101
+ if verbose:
102
+ await browser_logger.debug(
103
+ page, f"{func_name}: ✗ No PDF viewer elements found"
104
+ )
105
+ return False
106
+
107
+
108
+ def main(args):
109
+ """Demonstrate detect_chrome_pdf_viewer functionality."""
110
+ import asyncio
111
+
112
+ from playwright.async_api import async_playwright
113
+
114
+ from ..debugging import browser_logger
115
+
116
+ async def demo():
117
+ async with async_playwright() as p:
118
+ browser = await p.chromium.launch(headless=False)
119
+ page = await browser.new_page()
120
+
121
+ await browser_logger.debug(
122
+ page, "PDF Detection: Starting demo", verbose=True
123
+ )
124
+
125
+ # Navigate to a PDF file
126
+ test_pdf_url = "https://www.w3.org/WAI/ER/tests/xhtml/testfiles/resources/pdf/dummy.pdf"
127
+ await page.goto(test_pdf_url, timeout=30000)
128
+
129
+ await browser_logger.debug(
130
+ page, "Waiting for page to load...", verbose=True
131
+ )
132
+
133
+ await page.wait_for_load_state("networkidle", timeout=10000)
134
+
135
+ # Detect PDF viewer
136
+ detected = await detect_chrome_pdf_viewer_async(page, verbose=True)
137
+
138
+ if detected:
139
+ logger.success("PDF viewer detected successfully")
140
+ else:
141
+ logger.debug("No PDF viewer detected (this may be expected)")
142
+
143
+ await browser_logger.debug(page, "✓ Demo complete", verbose=True)
144
+
145
+ await asyncio.sleep(2)
146
+ await browser.close()
147
+
148
+ asyncio.run(demo())
149
+ return 0
150
+
151
+
152
+ def parse_args():
153
+ """Parse command line arguments."""
154
+ import argparse
155
+
156
+ parser = argparse.ArgumentParser(description="PDF viewer detection demo")
157
+ return parser.parse_args()
158
+
159
+
160
+ def run_main() -> None:
161
+ """Initialize scitex framework, run main function, and cleanup."""
162
+ global CONFIG, CC, sys, plt, rng
163
+
164
+ import sys
165
+
166
+ import matplotlib.pyplot as plt
167
+
168
+ import scitex as stx
169
+
170
+ args = parse_args()
171
+
172
+ CONFIG, sys.stdout, sys.stderr, plt, CC, rng = stx.session.start(
173
+ sys,
174
+ plt,
175
+ args=args,
176
+ file=__FILE__,
177
+ sdir_suffix=None,
178
+ verbose=False,
179
+ agg=True,
180
+ )
181
+
182
+ exit_status = main(args)
183
+
184
+ stx.session.close(
185
+ CONFIG,
186
+ verbose=False,
187
+ notify=False,
188
+ message="",
189
+ exit_status=exit_status,
190
+ )
191
+
192
+
193
+ if __name__ == "__main__":
194
+ run_main()
195
+
196
+ # python -m scitex.browser.pdf.detect_chrome_pdf_viewer
197
+
198
+ # EOF