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

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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
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  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
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  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
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  344. scitex/path/_find.py +9 -4
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  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
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  357. scitex/plt/_subplots/_FigWrapper.py +62 -6
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  360. scitex/plt/_subplots/_export_as_csv_formatters/_format_annotate.py +81 -0
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  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
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  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
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  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
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  431. scitex/resource/_get_specs.py +2 -2
  432. scitex/resource/_log_processor_usages.py +2 -2
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  434. scitex/rng/_RandomStateManager_v01-no-verbose-options.py +414 -0
  435. scitex/rng/__init__.py +39 -0
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  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
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  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
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  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
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  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
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  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
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  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
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  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
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  543. scitex/scholar/utils/bibtex/_parse_bibtex.py +71 -0
  544. scitex/scholar/utils/cleanup/__init__.py +8 -0
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  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
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  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
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  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
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  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 +1,216 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # Timestamp: "2025-10-11 00:41:46 (ywatanabe)"
4
+ # File: /home/ywatanabe/proj/scitex_repo/src/scitex/browser/automation/CookieHandler.py
5
+ # ----------------------------------------
6
+ from __future__ import annotations
7
+ import os
8
+ __FILE__ = (
9
+ "./src/scitex/browser/automation/CookieHandler.py"
10
+ )
11
+ __DIR__ = os.path.dirname(__FILE__)
12
+ # ----------------------------------------
13
+
14
+ __FILE__ = __file__
15
+
16
+ import json
17
+
18
+ from playwright.async_api import Page
19
+
20
+ from scitex import logging
21
+
22
+ logger = logging.getLogger(__name__)
23
+
24
+
25
+ class CookieAutoAcceptor:
26
+ """Automatically handles cookie consent banners on web pages."""
27
+
28
+ def __init__(self):
29
+ self.name = self.__class__.__name__
30
+ self.cookie_texts = [
31
+ "Accept all cookies",
32
+ "Accept All",
33
+ "Accept cookies",
34
+ "Accept",
35
+ "I Accept",
36
+ "OK",
37
+ "Continue",
38
+ "Agree",
39
+ "Continue without an account",
40
+ "Don't ask again",
41
+ ]
42
+
43
+ self.selectors = [
44
+ "[data-testid*='accept']",
45
+ "[id*='accept']",
46
+ "[class*='accept']",
47
+ "button[aria-label*='Accept']",
48
+ ".cookie-banner button:first-of-type",
49
+ "#cookie-banner button:first-of-type",
50
+ ]
51
+
52
+ async def inject_auto_acceptor_async(self, context):
53
+ """Inject auto-acceptor script into browser context."""
54
+ logger.warning(f"{self.name}: Use get_auto_acceptor_script instead")
55
+ script = self.get_auto_acceptor_script()
56
+ await context.add_init_script(script)
57
+ logger.debug(f"{self.name}: Injected auto-acceptor script")
58
+
59
+ def get_auto_acceptor_script(
60
+ self,
61
+ ):
62
+ return f"""
63
+ (() => {{
64
+ const cookieTexts = {json.dumps(self.cookie_texts)};
65
+ const selectors = {json.dumps(self.selectors)};
66
+
67
+ function acceptCookies() {{
68
+ // Try text-based buttons
69
+ for (const text of cookieTexts) {{
70
+ const buttons = Array.from(document.querySelectorAll('button, a'));
71
+ const match = buttons.find(btn =>
72
+ btn.textContent.trim().toLowerCase() === text.toLowerCase() &&
73
+ !btn.hasAttribute('data-scitex-no-auto-click') && // SKIP SciTeX buttons!
74
+ !btn.closest('[data-scitex-no-auto-click]') && // SKIP if inside SciTeX container!
75
+ btn.id !== 'stop-automation-btn' && // SKIP manual download button by ID!
76
+ !btn.id.includes('scitex') // SKIP any scitex-related button
77
+ );
78
+ if (match && match.offsetParent !== null) {{
79
+ match.click();
80
+ console.log('Auto-accepted cookies:', text);
81
+ return true;
82
+ }}
83
+ }}
84
+
85
+ // Try CSS selectors
86
+ for (const selector of selectors) {{
87
+ try {{
88
+ const elements = document.querySelectorAll(selector);
89
+ for (const elem of elements) {{
90
+ // SKIP SciTeX buttons!
91
+ if (elem.hasAttribute('data-scitex-no-auto-click') ||
92
+ elem.closest('[data-scitex-no-auto-click]') ||
93
+ elem.id === 'stop-automation-btn' || // SKIP by ID!
94
+ elem.id.includes('scitex')) {{ // SKIP any scitex ID
95
+ continue;
96
+ }}
97
+
98
+ if (elem.offsetParent !== null) {{
99
+ elem.click();
100
+ console.log('Auto-accepted cookies:', selector);
101
+ return true;
102
+ }}
103
+ }}
104
+ }} catch (e) {{}}
105
+ }}
106
+ return false;
107
+ }}
108
+
109
+ // Check periodically
110
+ const interval = setInterval(() => {{
111
+ if (acceptCookies()) {{
112
+ clearInterval(interval);
113
+ }}
114
+ }}, 1000);
115
+
116
+ // Stop after 30 seconds
117
+ setTimeout(() => clearInterval(interval), 30000);
118
+ }})();
119
+ """
120
+
121
+ async def check_cookie_banner_exists_async(self, page: Page) -> bool:
122
+ """Check if a cookie banner is still visible."""
123
+ try:
124
+ exists = await page.locator(
125
+ ".cookie-banner, [class*='cookie']"
126
+ ).first.is_visible()
127
+ logger.debug(f"{self.name}: Cookie banner exists: {exists}")
128
+ return exists
129
+ except:
130
+ logger.debug(f"{self.name}: Cookie banner not found")
131
+ return False
132
+
133
+
134
+ def main(args):
135
+ """Demonstrate CookieAutoAcceptor functionality."""
136
+ import asyncio
137
+
138
+ from playwright.async_api import async_playwright
139
+
140
+ from ..debugging import browser_logger
141
+
142
+ async def demo():
143
+ acceptor = CookieAutoAcceptor()
144
+
145
+ async with async_playwright() as p:
146
+ logger.info("Starting demo")
147
+ browser = await p.chromium.launch(headless=False)
148
+ context = await browser.new_context()
149
+
150
+ await context.add_init_script(acceptor.get_auto_acceptor_script())
151
+
152
+ page = await context.new_page()
153
+
154
+ logger.info("Navigating to https://www.springer.com")
155
+ await page.goto("https://www.springer.com", timeout=30000)
156
+
157
+ logger.debug("Waiting for cookie banner detection")
158
+ await asyncio.sleep(5)
159
+
160
+ banner_exists = await acceptor.check_cookie_banner_exists_async(page)
161
+
162
+ logger.success("Auto-acceptor demo complete")
163
+
164
+ await browser.close()
165
+
166
+ asyncio.run(demo())
167
+ return 0
168
+
169
+
170
+ def parse_args():
171
+ """Parse command line arguments."""
172
+ import argparse
173
+
174
+ parser = argparse.ArgumentParser(description="CookieAutoAcceptor demo")
175
+ return parser.parse_args()
176
+
177
+
178
+ def run_main() -> None:
179
+ """Initialize scitex framework, run main function, and cleanup."""
180
+ global CONFIG, CC, sys, plt, rng
181
+
182
+ import sys
183
+
184
+ import matplotlib.pyplot as plt
185
+
186
+ import scitex as stx
187
+
188
+ args = parse_args()
189
+
190
+ CONFIG, sys.stdout, sys.stderr, plt, CC, rng = stx.session.start(
191
+ sys,
192
+ plt,
193
+ args=args,
194
+ file=__FILE__,
195
+ sdir_suffix=None,
196
+ verbose=False,
197
+ agg=True,
198
+ )
199
+
200
+ exit_status = main(args)
201
+
202
+ stx.session.close(
203
+ CONFIG,
204
+ verbose=False,
205
+ notify=False,
206
+ message="",
207
+ exit_status=exit_status,
208
+ )
209
+
210
+
211
+ if __name__ == "__main__":
212
+ run_main()
213
+
214
+ # python -m scitex.browser.automation.CookieHandler
215
+
216
+ # EOF
@@ -0,0 +1,7 @@
1
+ """Browser automation utilities."""
2
+
3
+ from .CookieHandler import CookieAutoAcceptor
4
+
5
+ __all__ = [
6
+ "CookieAutoAcceptor",
7
+ ]
@@ -0,0 +1,55 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # Timestamp: "2025-10-19 05:20:00 (ywatanabe)"
4
+ # File: ./src/scitex/browser/collaboration/__init__.py
5
+ # ----------------------------------------
6
+ """
7
+ scitex.browser.collaboration - Interactive browser automation for AI-human teams.
8
+
9
+ This is a NEW module that does NOT affect existing scitex.browser functionality.
10
+
11
+ Features:
12
+ - Persistent shared browser sessions
13
+ - Multi-agent coordination
14
+ - AI-human collaboration
15
+ - Authentication handling
16
+ - Content extraction
17
+
18
+ Version: 0.1.0-alpha (experimental)
19
+ """
20
+
21
+ __version__ = "0.1.0-alpha"
22
+ __experimental__ = True
23
+
24
+ # Import components
25
+ from .shared_session import SharedBrowserSession, SessionConfig
26
+ from .visual_feedback import VisualFeedback
27
+ from .credential_manager import CredentialManager
28
+
29
+ # Exports
30
+ __all__ = [
31
+ "SharedBrowserSession",
32
+ "SessionConfig",
33
+ "VisualFeedback",
34
+ "CredentialManager",
35
+ ]
36
+
37
+ # Compatibility check - ensure we don't break existing code
38
+ def _check_compatibility():
39
+ """Verify existing scitex.browser still works."""
40
+ try:
41
+ from scitex.browser import browser_logger
42
+ from scitex.browser.automation import CookieAutoAcceptor
43
+ from scitex.browser.interaction import click_center_async
44
+ return True
45
+ except ImportError as e:
46
+ raise RuntimeError(
47
+ f"❌ Collaboration module broke existing imports: {e}\n"
48
+ "This should never happen! Please report this bug."
49
+ )
50
+
51
+ _check_compatibility()
52
+
53
+ print("✅ scitex.browser.collaboration loaded (experimental)")
54
+
55
+ # EOF
@@ -0,0 +1,94 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # Timestamp: "2025-10-19 05:40:00 (ywatanabe)"
4
+ # File: ./src/scitex/browser/collaboration/auth_helpers.py
5
+ # ----------------------------------------
6
+ """
7
+ Simple authentication helpers for SharedBrowserSession.
8
+
9
+ Start small - just Django login for now.
10
+ """
11
+
12
+ import os
13
+ from typing import Optional
14
+ from playwright.async_api import Page
15
+
16
+
17
+ class DjangoAuthHelper:
18
+ """
19
+ Simple Django authentication helper.
20
+
21
+ Example:
22
+ auth = DjangoAuthHelper(
23
+ login_url="http://127.0.0.1:8000/auth/login/",
24
+ username="your_user",
25
+ password="your_pass",
26
+ )
27
+
28
+ success = await auth.login(page)
29
+ """
30
+
31
+ def __init__(
32
+ self,
33
+ login_url: str,
34
+ username: Optional[str] = None,
35
+ password: Optional[str] = None,
36
+ username_field: str = "#id_username",
37
+ password_field: str = "#id_password",
38
+ submit_button: str = "button[type='submit']",
39
+ success_indicator: str = "/core/", # URL contains this after login
40
+ ):
41
+ self.login_url = login_url
42
+ self.username = username or os.getenv("SCITEX_CLOUD_USERNAME", "")
43
+ self.password = password or os.getenv("SCITEX_CLOUD_PASSWORD", "")
44
+ self.username_field = username_field
45
+ self.password_field = password_field
46
+ self.submit_button = submit_button
47
+ self.success_indicator = success_indicator
48
+
49
+ async def login(self, page: Page) -> bool:
50
+ """
51
+ Perform Django login.
52
+
53
+ Returns:
54
+ True if successful, False otherwise
55
+ """
56
+ try:
57
+ # Navigate to login page
58
+ await page.goto(self.login_url, wait_until="load")
59
+
60
+ # Fill username
61
+ await page.fill(self.username_field, self.username)
62
+
63
+ # Fill password
64
+ await page.fill(self.password_field, self.password)
65
+
66
+ # Submit
67
+ await page.click(self.submit_button)
68
+
69
+ # Wait for redirect (success indicator in URL)
70
+ await page.wait_for_url(f"**{self.success_indicator}**", timeout=5000)
71
+
72
+ print(f"✅ Logged in as: {self.username}")
73
+ return True
74
+
75
+ except Exception as e:
76
+ print(f"❌ Login failed: {e}")
77
+ return False
78
+
79
+ async def is_logged_in(self, page: Page) -> bool:
80
+ """
81
+ Check if currently logged in.
82
+
83
+ Simple check: not on login page.
84
+ """
85
+ current_url = page.url
86
+ is_logged_in = "login" not in current_url.lower()
87
+ return is_logged_in
88
+
89
+ async def logout(self, page: Page, logout_url: str = "http://127.0.0.1:8000/auth/logout/"):
90
+ """Logout (navigate to logout URL)."""
91
+ await page.goto(logout_url)
92
+
93
+
94
+ # EOF
@@ -0,0 +1,136 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # Timestamp: "2025-10-19 06:10:00 (ywatanabe)"
4
+ # File: ./src/scitex/browser/collaboration/collaborative_agent.py
5
+ # ----------------------------------------
6
+ """
7
+ Collaborative Agent - Watches browser and responds to user actions.
8
+
9
+ Runs continuously, responds to:
10
+ - User clicks panel buttons
11
+ - User fills panel fields
12
+ - User navigates
13
+ - DOM changes
14
+
15
+ This is the "watching agent" pattern for true collaboration!
16
+ """
17
+
18
+ import asyncio
19
+ import signal
20
+ from typing import Optional, Callable, Dict
21
+ from playwright.async_api import Page
22
+
23
+ from scitex.browser.debugging import browser_logger
24
+ from .interactive_panel import InteractivePanel
25
+
26
+
27
+ class CollaborativeAgent:
28
+ """
29
+ Agent that watches browser and responds to user.
30
+
31
+ Runs continuously, reacts to user input in real-time.
32
+
33
+ Example:
34
+ agent = CollaborativeAgent(page)
35
+
36
+ # Define what to do when user provides email
37
+ @agent.on_input("email")
38
+ async def handle_email(email):
39
+ print(f"Got email: {email}")
40
+ # Automatically navigate to login
41
+
42
+ await agent.run() # Runs forever, watching
43
+ """
44
+
45
+ def __init__(
46
+ self,
47
+ page: Page,
48
+ panel: InteractivePanel,
49
+ check_interval: float = 0.5,
50
+ ):
51
+ self.page = page
52
+ self.panel = panel
53
+ self.check_interval = check_interval
54
+
55
+ self.running = False
56
+ self.handlers: Dict[str, Callable] = {}
57
+
58
+ # State
59
+ self.last_url = None
60
+ self.last_panel_data = {}
61
+
62
+ def on_input(self, key: str):
63
+ """Decorator to register handler for input."""
64
+ def decorator(func: Callable):
65
+ self.handlers[key] = func
66
+ return func
67
+ return decorator
68
+
69
+ def on_url_change(self, func: Callable):
70
+ """Decorator to register handler for URL changes."""
71
+ self.handlers["__url_change__"] = func
72
+ return func
73
+
74
+ async def run(self):
75
+ """
76
+ Run agent - watch browser continuously.
77
+
78
+ Responds to user actions automatically.
79
+ """
80
+ self.running = True
81
+
82
+ print("🤖 Collaborative agent started")
83
+ print(" Watching browser for user actions...")
84
+ print(" Press Ctrl+C to stop")
85
+
86
+ # Signal handling
87
+ loop = asyncio.get_event_loop()
88
+
89
+ def stop_agent(sig, frame):
90
+ print("\n\n🛑 Stopping agent...")
91
+ self.running = False
92
+
93
+ signal.signal(signal.SIGINT, stop_agent)
94
+ signal.signal(signal.SIGTERM, stop_agent)
95
+
96
+ # Watch loop
97
+ try:
98
+ while self.running:
99
+ await self._check_changes()
100
+ await asyncio.sleep(self.check_interval)
101
+
102
+ except Exception as e:
103
+ print(f"❌ Agent error: {e}")
104
+
105
+ finally:
106
+ print("✅ Agent stopped")
107
+
108
+ async def _check_changes(self):
109
+ """Check for changes and trigger handlers."""
110
+
111
+ # Check URL change
112
+ current_url = self.page.url
113
+ if current_url != self.last_url:
114
+ self.last_url = current_url
115
+
116
+ if "__url_change__" in self.handlers:
117
+ await self.handlers["__url_change__"](current_url)
118
+
119
+ # Check panel data changes
120
+ current_data = await self.page.evaluate("window.scitexPanel?.data || {}")
121
+
122
+ for key, value in current_data.items():
123
+ # New or changed value
124
+ if key not in self.last_panel_data or self.last_panel_data[key] != value:
125
+ self.last_panel_data[key] = value
126
+
127
+ # Trigger handler if registered
128
+ if key in self.handlers:
129
+ await self.handlers[key](value)
130
+
131
+ async def stop(self):
132
+ """Stop the agent."""
133
+ self.running = False
134
+
135
+
136
+ # EOF
@@ -0,0 +1,188 @@
1
+ #!/usr/bin/env python3
2
+ # -*- coding: utf-8 -*-
3
+ # Timestamp: "2025-10-19 05:50:00 (ywatanabe)"
4
+ # File: ./src/scitex/browser/collaboration/credential_manager.py
5
+ # ----------------------------------------
6
+ """
7
+ Flexible credential management for browser automation.
8
+
9
+ Safe, clear communication with user.
10
+ Multiple input methods: env vars, terminal, browser.
11
+ """
12
+
13
+ import os
14
+ import getpass
15
+ from typing import Optional, Dict
16
+ from playwright.async_api import Page
17
+
18
+
19
+ class CredentialManager:
20
+ """
21
+ Flexible credential retrieval.
22
+
23
+ Tries multiple sources in order:
24
+ 1. Explicitly provided credentials
25
+ 2. Environment variables
26
+ 3. Terminal prompt (if terminal available)
27
+ 4. Browser prompt (if browser available)
28
+
29
+ Always clearly communicates what it's doing!
30
+ """
31
+
32
+ def __init__(self, verbose: bool = True):
33
+ self.verbose = verbose
34
+ self.cache: Dict[str, str] = {} # Session cache (not persistent)
35
+
36
+ async def get_credential(
37
+ self,
38
+ name: str,
39
+ env_var: Optional[str] = None,
40
+ prompt_text: Optional[str] = None,
41
+ page: Optional[Page] = None,
42
+ mask: bool = False, # For passwords
43
+ ) -> str:
44
+ """
45
+ Get credential from best available source.
46
+
47
+ Args:
48
+ name: Credential name (for caching)
49
+ env_var: Environment variable to check
50
+ prompt_text: Text to show in prompt
51
+ page: Playwright page (for browser prompts)
52
+ mask: Whether to mask input (for passwords)
53
+
54
+ Returns:
55
+ Credential value
56
+
57
+ Example:
58
+ username = await creds.get_credential(
59
+ name="username",
60
+ env_var="SCITEX_CLOUD_USERNAME",
61
+ prompt_text="Django username",
62
+ page=page,
63
+ )
64
+ """
65
+ # Check cache first
66
+ if name in self.cache:
67
+ if self.verbose:
68
+ print(f"🔑 Using cached {name}")
69
+ return self.cache[name]
70
+
71
+ # Try environment variable
72
+ if env_var:
73
+ value = os.getenv(env_var)
74
+ if value:
75
+ if self.verbose:
76
+ display_value = "***" if mask else value
77
+ print(f"🔑 Using {name} from ${env_var}: {display_value}")
78
+ self.cache[name] = value
79
+ return value
80
+
81
+ # Try terminal prompt
82
+ if self._is_terminal_available():
83
+ value = await self._prompt_terminal(name, prompt_text, mask)
84
+ if value:
85
+ self.cache[name] = value
86
+ return value
87
+
88
+ # Try browser prompt
89
+ if page:
90
+ value = await self._prompt_browser(page, name, prompt_text)
91
+ if value:
92
+ self.cache[name] = value
93
+ return value
94
+
95
+ raise ValueError(f"Could not get credential: {name}")
96
+
97
+ def _is_terminal_available(self) -> bool:
98
+ """Check if we can prompt in terminal."""
99
+ try:
100
+ return os.isatty(0) # stdin is a terminal
101
+ except:
102
+ return False
103
+
104
+ async def _prompt_terminal(
105
+ self,
106
+ name: str,
107
+ prompt_text: Optional[str],
108
+ mask: bool,
109
+ ) -> Optional[str]:
110
+ """Prompt user in terminal."""
111
+ prompt_text = prompt_text or name
112
+
113
+ print(f"\n🔑 Credential needed: {name}")
114
+ print(f" (No environment variable found)")
115
+
116
+ if mask:
117
+ value = getpass.getpass(f" Enter {prompt_text}: ")
118
+ else:
119
+ value = input(f" Enter {prompt_text}: ")
120
+
121
+ return value if value else None
122
+
123
+ async def _prompt_browser(
124
+ self,
125
+ page: Page,
126
+ name: str,
127
+ prompt_text: Optional[str],
128
+ ) -> Optional[str]:
129
+ """Prompt user in browser window."""
130
+ prompt_text = prompt_text or name
131
+
132
+ print(f"\n🔑 Asking for {name} in browser...")
133
+
134
+ # Wait for page to be ready
135
+ try:
136
+ await page.wait_for_load_state("domcontentloaded", timeout=2000)
137
+ except:
138
+ pass # Continue anyway
139
+
140
+ value = await page.evaluate(f"""
141
+ () => {{
142
+ const response = prompt('🔑 Credential needed: {prompt_text}\\n\\n(You can also set ${name.upper()} environment variable)');
143
+ return response;
144
+ }}
145
+ """)
146
+
147
+ return value if value else None
148
+
149
+ async def get_login_credentials(
150
+ self,
151
+ page: Optional[Page] = None,
152
+ username_env: str = "SCITEX_CLOUD_USERNAME",
153
+ password_env: str = "SCITEX_CLOUD_PASSWORD",
154
+ ) -> Dict[str, str]:
155
+ """
156
+ Get both username and password.
157
+
158
+ Convenient helper for login flows.
159
+
160
+ Returns:
161
+ {'username': '...', 'password': '...'}
162
+ """
163
+ username = await self.get_credential(
164
+ name="username",
165
+ env_var=username_env,
166
+ prompt_text="Username",
167
+ page=page,
168
+ mask=False,
169
+ )
170
+
171
+ password = await self.get_credential(
172
+ name="password",
173
+ env_var=password_env,
174
+ prompt_text="Password",
175
+ page=page,
176
+ mask=True,
177
+ )
178
+
179
+ return {"username": username, "password": password}
180
+
181
+ def clear_cache(self):
182
+ """Clear credential cache."""
183
+ self.cache = {}
184
+ if self.verbose:
185
+ print("🔑 Credential cache cleared")
186
+
187
+
188
+ # EOF