scitex 2.5.0__py3-none-any.whl → 2.7.0__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 (1091) hide show
  1. scitex/__init__.py +19 -8
  2. scitex/__main__.py +2 -1
  3. scitex/__version__.py +1 -1
  4. scitex/_optional_deps.py +13 -20
  5. scitex/ai/__init__.py +5 -0
  6. scitex/ai/_gen_ai/_Anthropic.py +3 -1
  7. scitex/ai/_gen_ai/_BaseGenAI.py +3 -2
  8. scitex/ai/_gen_ai/_DeepSeek.py +1 -1
  9. scitex/ai/_gen_ai/_Google.py +3 -2
  10. scitex/ai/_gen_ai/_Llama.py +4 -2
  11. scitex/ai/_gen_ai/_OpenAI.py +3 -1
  12. scitex/ai/_gen_ai/_PARAMS.py +1 -0
  13. scitex/ai/_gen_ai/_Perplexity.py +3 -1
  14. scitex/ai/_gen_ai/__init__.py +1 -0
  15. scitex/ai/_gen_ai/_format_output_func.py +3 -1
  16. scitex/ai/classification/CrossValidationExperiment.py +8 -14
  17. scitex/ai/classification/examples/timeseries_cv_demo.py +128 -112
  18. scitex/ai/classification/reporters/_BaseClassificationReporter.py +2 -0
  19. scitex/ai/classification/reporters/_ClassificationReporter.py +30 -45
  20. scitex/ai/classification/reporters/_MultiClassificationReporter.py +8 -11
  21. scitex/ai/classification/reporters/_SingleClassificationReporter.py +126 -182
  22. scitex/ai/classification/reporters/__init__.py +1 -1
  23. scitex/ai/classification/reporters/reporter_utils/_Plotter.py +213 -119
  24. scitex/ai/classification/reporters/reporter_utils/__init__.py +28 -36
  25. scitex/ai/classification/reporters/reporter_utils/aggregation.py +125 -143
  26. scitex/ai/classification/reporters/reporter_utils/data_models.py +128 -120
  27. scitex/ai/classification/reporters/reporter_utils/reporting.py +507 -340
  28. scitex/ai/classification/reporters/reporter_utils/storage.py +4 -1
  29. scitex/ai/classification/reporters/reporter_utils/validation.py +141 -154
  30. scitex/ai/classification/timeseries/_TimeSeriesBlockingSplit.py +204 -129
  31. scitex/ai/classification/timeseries/_TimeSeriesCalendarSplit.py +215 -171
  32. scitex/ai/classification/timeseries/_TimeSeriesMetadata.py +17 -17
  33. scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +67 -143
  34. scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit_v01-not-using-n_splits.py +67 -143
  35. scitex/ai/classification/timeseries/_TimeSeriesStrategy.py +12 -13
  36. scitex/ai/classification/timeseries/_TimeSeriesStratifiedSplit.py +231 -144
  37. scitex/ai/classification/timeseries/__init__.py +2 -4
  38. scitex/ai/classification/timeseries/_normalize_timestamp.py +3 -0
  39. scitex/ai/clustering/_pca.py +0 -1
  40. scitex/ai/clustering/_umap.py +1 -2
  41. scitex/ai/feature_extraction/__init__.py +10 -8
  42. scitex/ai/feature_extraction/vit.py +0 -1
  43. scitex/ai/feature_selection/feature_selection.py +3 -8
  44. scitex/ai/metrics/_calc_conf_mat.py +2 -0
  45. scitex/ai/metrics/_calc_feature_importance.py +3 -7
  46. scitex/ai/metrics/_calc_pre_rec_auc.py +5 -5
  47. scitex/ai/metrics/_calc_roc_auc.py +4 -2
  48. scitex/ai/metrics/_calc_seizure_prediction_metrics.py +35 -20
  49. scitex/ai/metrics/_calc_silhouette_score.py +1 -3
  50. scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger.py +0 -3
  51. scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger2020.py +0 -3
  52. scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger913A.py +0 -3
  53. scitex/ai/optim/_optimizers.py +1 -1
  54. scitex/ai/plt/__init__.py +6 -1
  55. scitex/ai/plt/_plot_feature_importance.py +1 -3
  56. scitex/ai/plt/_plot_learning_curve.py +9 -24
  57. scitex/ai/plt/_plot_optuna_study.py +4 -3
  58. scitex/ai/plt/_plot_pre_rec_curve.py +9 -15
  59. scitex/ai/plt/_plot_roc_curve.py +6 -8
  60. scitex/ai/plt/_stx_conf_mat.py +121 -122
  61. scitex/ai/sampling/undersample.py +3 -2
  62. scitex/ai/sklearn/__init__.py +2 -2
  63. scitex/ai/training/_LearningCurveLogger.py +23 -10
  64. scitex/ai/utils/_check_params.py +0 -1
  65. scitex/benchmark/__init__.py +15 -25
  66. scitex/benchmark/benchmark.py +124 -117
  67. scitex/benchmark/monitor.py +117 -107
  68. scitex/benchmark/profiler.py +61 -58
  69. scitex/bridge/__init__.py +110 -0
  70. scitex/bridge/_helpers.py +149 -0
  71. scitex/bridge/_plt_vis.py +529 -0
  72. scitex/bridge/_protocol.py +283 -0
  73. scitex/bridge/_stats_plt.py +261 -0
  74. scitex/bridge/_stats_vis.py +265 -0
  75. scitex/browser/__init__.py +0 -2
  76. scitex/browser/auth/__init__.py +0 -0
  77. scitex/browser/auth/google.py +16 -11
  78. scitex/browser/automation/CookieHandler.py +2 -3
  79. scitex/browser/collaboration/__init__.py +3 -0
  80. scitex/browser/collaboration/auth_helpers.py +3 -1
  81. scitex/browser/collaboration/collaborative_agent.py +2 -0
  82. scitex/browser/collaboration/interactive_panel.py +2 -2
  83. scitex/browser/collaboration/shared_session.py +20 -11
  84. scitex/browser/collaboration/standard_interactions.py +1 -0
  85. scitex/browser/core/BrowserMixin.py +12 -30
  86. scitex/browser/core/ChromeProfileManager.py +9 -24
  87. scitex/browser/debugging/_browser_logger.py +15 -25
  88. scitex/browser/debugging/_failure_capture.py +9 -2
  89. scitex/browser/debugging/_highlight_element.py +15 -6
  90. scitex/browser/debugging/_show_grid.py +5 -6
  91. scitex/browser/debugging/_sync_session.py +4 -3
  92. scitex/browser/debugging/_test_monitor.py +14 -5
  93. scitex/browser/debugging/_visual_cursor.py +46 -35
  94. scitex/browser/interaction/click_center.py +4 -3
  95. scitex/browser/interaction/click_with_fallbacks.py +7 -10
  96. scitex/browser/interaction/close_popups.py +79 -66
  97. scitex/browser/interaction/fill_with_fallbacks.py +8 -8
  98. scitex/browser/pdf/__init__.py +3 -1
  99. scitex/browser/pdf/click_download_for_chrome_pdf_viewer.py +11 -10
  100. scitex/browser/pdf/detect_chrome_pdf_viewer.py +3 -6
  101. scitex/browser/remote/CaptchaHandler.py +109 -96
  102. scitex/browser/remote/ZenRowsAPIClient.py +91 -97
  103. scitex/browser/remote/ZenRowsBrowserManager.py +138 -112
  104. scitex/browser/stealth/HumanBehavior.py +4 -9
  105. scitex/browser/stealth/StealthManager.py +11 -26
  106. scitex/capture/__init__.py +17 -17
  107. scitex/capture/__main__.py +2 -3
  108. scitex/capture/capture.py +23 -51
  109. scitex/capture/cli.py +14 -39
  110. scitex/capture/gif.py +5 -9
  111. scitex/capture/mcp_server.py +7 -20
  112. scitex/capture/session.py +4 -3
  113. scitex/capture/utils.py +18 -53
  114. scitex/cli/__init__.py +1 -1
  115. scitex/cli/cloud.py +158 -116
  116. scitex/cli/config.py +224 -0
  117. scitex/cli/main.py +41 -40
  118. scitex/cli/scholar.py +60 -27
  119. scitex/cli/security.py +14 -20
  120. scitex/cli/web.py +87 -90
  121. scitex/cli/writer.py +51 -45
  122. scitex/cloud/__init__.py +14 -11
  123. scitex/cloud/_matplotlib_hook.py +6 -6
  124. scitex/config/README.md +313 -0
  125. scitex/config/{PriorityConfig.py → _PriorityConfig.py} +114 -17
  126. scitex/config/_ScitexConfig.py +319 -0
  127. scitex/config/__init__.py +41 -9
  128. scitex/config/_paths.py +325 -0
  129. scitex/config/default.yaml +81 -0
  130. scitex/context/_suppress_output.py +2 -3
  131. scitex/db/_BaseMixins/_BaseBackupMixin.py +3 -1
  132. scitex/db/_BaseMixins/_BaseBatchMixin.py +3 -1
  133. scitex/db/_BaseMixins/_BaseBlobMixin.py +3 -1
  134. scitex/db/_BaseMixins/_BaseImportExportMixin.py +1 -3
  135. scitex/db/_BaseMixins/_BaseIndexMixin.py +3 -1
  136. scitex/db/_BaseMixins/_BaseMaintenanceMixin.py +1 -3
  137. scitex/db/_BaseMixins/_BaseQueryMixin.py +3 -1
  138. scitex/db/_BaseMixins/_BaseRowMixin.py +3 -1
  139. scitex/db/_BaseMixins/_BaseTableMixin.py +3 -1
  140. scitex/db/_BaseMixins/_BaseTransactionMixin.py +1 -3
  141. scitex/db/_BaseMixins/__init__.py +1 -1
  142. scitex/db/__init__.py +9 -1
  143. scitex/db/__main__.py +8 -21
  144. scitex/db/_check_health.py +15 -31
  145. scitex/db/_delete_duplicates.py +7 -4
  146. scitex/db/_inspect.py +22 -38
  147. scitex/db/_inspect_optimized.py +89 -85
  148. scitex/db/_postgresql/_PostgreSQL.py +0 -1
  149. scitex/db/_postgresql/_PostgreSQLMixins/_BlobMixin.py +3 -1
  150. scitex/db/_postgresql/_PostgreSQLMixins/_ConnectionMixin.py +1 -3
  151. scitex/db/_postgresql/_PostgreSQLMixins/_ImportExportMixin.py +1 -3
  152. scitex/db/_postgresql/_PostgreSQLMixins/_MaintenanceMixin.py +1 -4
  153. scitex/db/_postgresql/_PostgreSQLMixins/_QueryMixin.py +3 -3
  154. scitex/db/_postgresql/_PostgreSQLMixins/_RowMixin.py +3 -1
  155. scitex/db/_postgresql/_PostgreSQLMixins/_TransactionMixin.py +1 -3
  156. scitex/db/_postgresql/__init__.py +1 -1
  157. scitex/db/_sqlite3/_SQLite3.py +2 -4
  158. scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin.py +11 -12
  159. scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin_v01-need-_hash-col.py +19 -14
  160. scitex/db/_sqlite3/_SQLite3Mixins/_BatchMixin.py +3 -1
  161. scitex/db/_sqlite3/_SQLite3Mixins/_BlobMixin.py +7 -7
  162. scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin.py +118 -111
  163. scitex/db/_sqlite3/_SQLite3Mixins/_ConnectionMixin.py +8 -10
  164. scitex/db/_sqlite3/_SQLite3Mixins/_GitMixin.py +17 -45
  165. scitex/db/_sqlite3/_SQLite3Mixins/_ImportExportMixin.py +1 -3
  166. scitex/db/_sqlite3/_SQLite3Mixins/_IndexMixin.py +3 -1
  167. scitex/db/_sqlite3/_SQLite3Mixins/_QueryMixin.py +3 -4
  168. scitex/db/_sqlite3/_SQLite3Mixins/_RowMixin.py +9 -9
  169. scitex/db/_sqlite3/_SQLite3Mixins/_TableMixin.py +18 -11
  170. scitex/db/_sqlite3/_SQLite3Mixins/__init__.py +1 -0
  171. scitex/db/_sqlite3/__init__.py +1 -1
  172. scitex/db/_sqlite3/_delete_duplicates.py +13 -11
  173. scitex/decorators/__init__.py +29 -4
  174. scitex/decorators/_auto_order.py +43 -43
  175. scitex/decorators/_batch_fn.py +12 -6
  176. scitex/decorators/_cache_disk.py +8 -9
  177. scitex/decorators/_cache_disk_async.py +8 -7
  178. scitex/decorators/_combined.py +19 -13
  179. scitex/decorators/_converters.py +16 -3
  180. scitex/decorators/_deprecated.py +32 -22
  181. scitex/decorators/_numpy_fn.py +18 -4
  182. scitex/decorators/_pandas_fn.py +17 -5
  183. scitex/decorators/_signal_fn.py +17 -3
  184. scitex/decorators/_torch_fn.py +32 -15
  185. scitex/decorators/_xarray_fn.py +23 -9
  186. scitex/dev/_analyze_code_flow.py +0 -2
  187. scitex/dict/_DotDict.py +15 -19
  188. scitex/dict/_flatten.py +1 -0
  189. scitex/dict/_listed_dict.py +1 -0
  190. scitex/dict/_pop_keys.py +1 -0
  191. scitex/dict/_replace.py +1 -0
  192. scitex/dict/_safe_merge.py +1 -0
  193. scitex/dict/_to_str.py +2 -3
  194. scitex/dsp/__init__.py +13 -4
  195. scitex/dsp/_crop.py +3 -1
  196. scitex/dsp/_detect_ripples.py +3 -1
  197. scitex/dsp/_modulation_index.py +3 -1
  198. scitex/dsp/_time.py +3 -1
  199. scitex/dsp/_wavelet.py +0 -1
  200. scitex/dsp/example.py +0 -5
  201. scitex/dsp/filt.py +4 -0
  202. scitex/dsp/utils/__init__.py +4 -1
  203. scitex/dsp/utils/pac.py +3 -3
  204. scitex/dt/_normalize_timestamp.py +4 -1
  205. scitex/errors.py +3 -6
  206. scitex/etc/__init__.py +1 -1
  207. scitex/gen/_DimHandler.py +6 -6
  208. scitex/gen/__init__.py +5 -1
  209. scitex/gen/_deprecated_close.py +1 -0
  210. scitex/gen/_deprecated_start.py +5 -3
  211. scitex/gen/_detect_environment.py +44 -41
  212. scitex/gen/_detect_notebook_path.py +51 -47
  213. scitex/gen/_embed.py +1 -1
  214. scitex/gen/_get_notebook_path.py +81 -62
  215. scitex/gen/_inspect_module.py +0 -1
  216. scitex/gen/_norm.py +16 -7
  217. scitex/gen/_norm_cache.py +78 -65
  218. scitex/gen/_print_config.py +0 -3
  219. scitex/gen/_src.py +2 -3
  220. scitex/gen/_title_case.py +3 -2
  221. scitex/gen/_to_even.py +8 -8
  222. scitex/gen/_transpose.py +3 -3
  223. scitex/gen/misc.py +0 -3
  224. scitex/gists/_SigMacro_processFigure_S.py +2 -2
  225. scitex/gists/_SigMacro_toBlue.py +2 -2
  226. scitex/gists/__init__.py +4 -1
  227. scitex/git/_branch.py +19 -11
  228. scitex/git/_clone.py +23 -15
  229. scitex/git/_commit.py +10 -12
  230. scitex/git/_init.py +15 -38
  231. scitex/git/_remote.py +9 -3
  232. scitex/git/_result.py +3 -0
  233. scitex/git/_retry.py +2 -5
  234. scitex/git/_types.py +4 -0
  235. scitex/git/_validation.py +8 -8
  236. scitex/git/_workflow.py +4 -4
  237. scitex/io/__init__.py +2 -1
  238. scitex/io/_glob.py +2 -2
  239. scitex/io/_json2md.py +3 -3
  240. scitex/io/_load.py +6 -8
  241. scitex/io/_load_cache.py +71 -71
  242. scitex/io/_load_configs.py +2 -3
  243. scitex/io/_load_modules/_H5Explorer.py +6 -12
  244. scitex/io/_load_modules/_ZarrExplorer.py +3 -3
  245. scitex/io/_load_modules/_bibtex.py +62 -63
  246. scitex/io/_load_modules/_canvas.py +4 -9
  247. scitex/io/_load_modules/_catboost.py +7 -2
  248. scitex/io/_load_modules/_hdf5.py +2 -0
  249. scitex/io/_load_modules/_image.py +5 -1
  250. scitex/io/_load_modules/_matlab.py +3 -1
  251. scitex/io/_load_modules/_optuna.py +0 -1
  252. scitex/io/_load_modules/_pdf.py +38 -29
  253. scitex/io/_load_modules/_sqlite3.py +1 -0
  254. scitex/io/_load_modules/_txt.py +2 -0
  255. scitex/io/_load_modules/_xml.py +9 -9
  256. scitex/io/_load_modules/_zarr.py +12 -10
  257. scitex/io/_metadata.py +76 -37
  258. scitex/io/_qr_utils.py +18 -13
  259. scitex/io/_save.py +220 -63
  260. scitex/io/_save_modules/__init__.py +7 -2
  261. scitex/io/_save_modules/_bibtex.py +66 -61
  262. scitex/io/_save_modules/_canvas.py +5 -6
  263. scitex/io/_save_modules/_catboost.py +2 -2
  264. scitex/io/_save_modules/_csv.py +4 -4
  265. scitex/io/_save_modules/_excel.py +5 -9
  266. scitex/io/_save_modules/_hdf5.py +9 -21
  267. scitex/io/_save_modules/_html.py +5 -5
  268. scitex/io/_save_modules/_image.py +105 -8
  269. scitex/io/_save_modules/_joblib.py +2 -2
  270. scitex/io/_save_modules/_json.py +51 -6
  271. scitex/io/_save_modules/_listed_dfs_as_csv.py +2 -1
  272. scitex/io/_save_modules/_listed_scalars_as_csv.py +2 -1
  273. scitex/io/_save_modules/_matlab.py +2 -2
  274. scitex/io/_save_modules/_numpy.py +6 -8
  275. scitex/io/_save_modules/_pickle.py +4 -4
  276. scitex/io/_save_modules/_plotly.py +3 -3
  277. scitex/io/_save_modules/_tex.py +23 -25
  278. scitex/io/_save_modules/_text.py +2 -2
  279. scitex/io/_save_modules/_yaml.py +9 -9
  280. scitex/io/_save_modules/_zarr.py +15 -15
  281. scitex/io/utils/__init__.py +2 -1
  282. scitex/io/utils/h5_to_zarr.py +173 -155
  283. scitex/linalg/__init__.py +1 -1
  284. scitex/linalg/_geometric_median.py +4 -3
  285. scitex/logging/_Tee.py +5 -7
  286. scitex/logging/__init__.py +18 -19
  287. scitex/logging/_config.py +4 -1
  288. scitex/logging/_context.py +6 -5
  289. scitex/logging/_formatters.py +2 -3
  290. scitex/logging/_handlers.py +19 -20
  291. scitex/logging/_levels.py +9 -17
  292. scitex/logging/_logger.py +74 -15
  293. scitex/logging/_print_capture.py +17 -17
  294. scitex/nn/_BNet.py +1 -3
  295. scitex/nn/_Filters.py +6 -2
  296. scitex/nn/_ModulationIndex.py +3 -1
  297. scitex/nn/_PAC.py +3 -2
  298. scitex/nn/_PSD.py +0 -1
  299. scitex/nn/__init__.py +16 -3
  300. scitex/path/_clean.py +10 -8
  301. scitex/path/_find.py +1 -1
  302. scitex/path/_get_spath.py +1 -2
  303. scitex/path/_mk_spath.py +1 -1
  304. scitex/path/_symlink.py +5 -10
  305. scitex/pd/__init__.py +4 -1
  306. scitex/pd/_force_df.py +24 -24
  307. scitex/pd/_get_unique.py +1 -0
  308. scitex/pd/_merge_columns.py +1 -1
  309. scitex/pd/_round.py +11 -7
  310. scitex/pd/_to_xy.py +0 -1
  311. scitex/plt/REQUESTS.md +191 -0
  312. scitex/plt/__init__.py +185 -87
  313. scitex/plt/_subplots/_AxesWrapper.py +22 -6
  314. scitex/plt/_subplots/_AxisWrapper.py +100 -39
  315. scitex/plt/_subplots/_AxisWrapperMixins/_AdjustmentMixin.py +74 -52
  316. scitex/plt/_subplots/_AxisWrapperMixins/_MatplotlibPlotMixin.py +183 -73
  317. scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin.py +61 -45
  318. scitex/plt/_subplots/_AxisWrapperMixins/_TrackingMixin.py +26 -14
  319. scitex/plt/_subplots/_AxisWrapperMixins/_UnitAwareMixin.py +80 -73
  320. scitex/plt/_subplots/_FigWrapper.py +93 -60
  321. scitex/plt/_subplots/_SubplotsWrapper.py +135 -68
  322. scitex/plt/_subplots/__init__.py +10 -0
  323. scitex/plt/_subplots/_export_as_csv.py +89 -47
  324. scitex/plt/_subplots/_export_as_csv_formatters/__init__.py +1 -0
  325. scitex/plt/_subplots/_export_as_csv_formatters/_format_annotate.py +6 -4
  326. scitex/plt/_subplots/_export_as_csv_formatters/_format_bar.py +88 -38
  327. scitex/plt/_subplots/_export_as_csv_formatters/_format_barh.py +25 -31
  328. scitex/plt/_subplots/_export_as_csv_formatters/_format_boxplot.py +53 -23
  329. scitex/plt/_subplots/_export_as_csv_formatters/_format_contour.py +38 -25
  330. scitex/plt/_subplots/_export_as_csv_formatters/_format_contourf.py +17 -9
  331. scitex/plt/_subplots/_export_as_csv_formatters/_format_errorbar.py +70 -124
  332. scitex/plt/_subplots/_export_as_csv_formatters/_format_eventplot.py +12 -10
  333. scitex/plt/_subplots/_export_as_csv_formatters/_format_fill.py +31 -17
  334. scitex/plt/_subplots/_export_as_csv_formatters/_format_fill_between.py +33 -21
  335. scitex/plt/_subplots/_export_as_csv_formatters/_format_hexbin.py +14 -4
  336. scitex/plt/_subplots/_export_as_csv_formatters/_format_hist.py +43 -29
  337. scitex/plt/_subplots/_export_as_csv_formatters/_format_hist2d.py +14 -4
  338. scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow.py +27 -11
  339. scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow2d.py +7 -5
  340. scitex/plt/_subplots/_export_as_csv_formatters/_format_matshow.py +9 -7
  341. scitex/plt/_subplots/_export_as_csv_formatters/_format_pie.py +15 -6
  342. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot.py +85 -46
  343. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_box.py +52 -27
  344. scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_imshow.py +1 -0
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  891. scitex/scholar/url_finder/translators/individual/sciencedirect.py +36 -17
  892. scitex/scholar/url_finder/translators/individual/semantics_visual_library.py +3 -1
  893. scitex/scholar/url_finder/translators/individual/silverchair.py +70 -52
  894. scitex/scholar/url_finder/translators/individual/sora.py +3 -1
  895. scitex/scholar/url_finder/translators/individual/springer.py +15 -11
  896. scitex/scholar/url_finder/translators/individual/ssrn.py +3 -3
  897. scitex/scholar/url_finder/translators/individual/stanford_encyclopedia_of_philosophy.py +3 -1
  898. scitex/scholar/url_finder/translators/individual/superlib.py +3 -1
  899. scitex/scholar/url_finder/translators/individual/treesearch.py +3 -1
  900. scitex/scholar/url_finder/translators/individual/university_of_chicago_press_books.py +3 -1
  901. scitex/scholar/url_finder/translators/individual/vlex.py +3 -1
  902. scitex/scholar/url_finder/translators/individual/web_of_science.py +3 -1
  903. scitex/scholar/url_finder/translators/individual/web_of_science_nextgen.py +3 -1
  904. scitex/scholar/url_finder/translators/individual/wiley.py +31 -25
  905. scitex/scholar/url_finder/translators/individual/wilson_center_digital_archive.py +3 -1
  906. scitex/scholar/utils/bibtex/_parse_bibtex.py +3 -3
  907. scitex/scholar/utils/cleanup/_cleanup_scholar_processes.py +5 -9
  908. scitex/scholar/utils/text/_TextNormalizer.py +249 -176
  909. scitex/scholar/utils/validation/DOIValidator.py +31 -28
  910. scitex/scholar/utils/validation/__init__.py +0 -0
  911. scitex/scholar/utils/validation/validate_library_dois.py +61 -57
  912. scitex/scholar/zotero/__init__.py +1 -1
  913. scitex/security/cli.py +7 -20
  914. scitex/security/github.py +45 -32
  915. scitex/session/__init__.py +8 -9
  916. scitex/session/_decorator.py +49 -42
  917. scitex/session/_lifecycle.py +39 -39
  918. scitex/session/_manager.py +24 -20
  919. scitex/sh/__init__.py +4 -3
  920. scitex/sh/_execute.py +10 -7
  921. scitex/sh/_security.py +3 -3
  922. scitex/sh/_types.py +2 -3
  923. scitex/stats/__init__.py +57 -6
  924. scitex/stats/_schema.py +42 -569
  925. scitex/stats/auto/__init__.py +188 -0
  926. scitex/stats/auto/_context.py +331 -0
  927. scitex/stats/auto/_formatting.py +679 -0
  928. scitex/stats/auto/_rules.py +901 -0
  929. scitex/stats/auto/_selector.py +554 -0
  930. scitex/stats/auto/_styles.py +721 -0
  931. scitex/stats/correct/__init__.py +4 -4
  932. scitex/stats/correct/_correct_bonferroni.py +43 -34
  933. scitex/stats/correct/_correct_fdr.py +14 -40
  934. scitex/stats/correct/_correct_fdr_.py +39 -46
  935. scitex/stats/correct/_correct_holm.py +14 -32
  936. scitex/stats/correct/_correct_sidak.py +36 -21
  937. scitex/stats/descriptive/_circular.py +20 -21
  938. scitex/stats/descriptive/_describe.py +19 -5
  939. scitex/stats/descriptive/_nan.py +5 -7
  940. scitex/stats/descriptive/_real.py +4 -3
  941. scitex/stats/effect_sizes/__init__.py +10 -11
  942. scitex/stats/effect_sizes/_cliffs_delta.py +35 -32
  943. scitex/stats/effect_sizes/_cohens_d.py +30 -31
  944. scitex/stats/effect_sizes/_epsilon_squared.py +19 -22
  945. scitex/stats/effect_sizes/_eta_squared.py +23 -27
  946. scitex/stats/effect_sizes/_prob_superiority.py +18 -21
  947. scitex/stats/posthoc/__init__.py +3 -3
  948. scitex/stats/posthoc/_dunnett.py +75 -55
  949. scitex/stats/posthoc/_games_howell.py +61 -43
  950. scitex/stats/posthoc/_tukey_hsd.py +42 -34
  951. scitex/stats/power/__init__.py +2 -2
  952. scitex/stats/power/_power.py +56 -56
  953. scitex/stats/tests/__init__.py +1 -1
  954. scitex/stats/tests/correlation/__init__.py +1 -1
  955. scitex/stats/tests/correlation/_test_pearson.py +28 -38
  956. scitex/stats/utils/__init__.py +14 -17
  957. scitex/stats/utils/_effect_size.py +85 -78
  958. scitex/stats/utils/_formatters.py +49 -43
  959. scitex/stats/utils/_normalizers.py +7 -14
  960. scitex/stats/utils/_power.py +56 -56
  961. scitex/str/__init__.py +1 -0
  962. scitex/str/_clean_path.py +3 -3
  963. scitex/str/_factor_out_digits.py +86 -58
  964. scitex/str/_format_plot_text.py +180 -111
  965. scitex/str/_latex.py +19 -19
  966. scitex/str/_latex_fallback.py +9 -10
  967. scitex/str/_parse.py +3 -6
  968. scitex/str/_print_debug.py +13 -13
  969. scitex/str/_printc.py +2 -0
  970. scitex/str/_search.py +3 -3
  971. scitex/template/.legacy/_clone_project.py +9 -13
  972. scitex/template/__init__.py +10 -2
  973. scitex/template/_clone_project.py +7 -2
  974. scitex/template/_copy.py +1 -0
  975. scitex/template/_customize.py +3 -6
  976. scitex/template/_git_strategy.py +2 -3
  977. scitex/template/_rename.py +1 -0
  978. scitex/template/clone_pip_project.py +6 -7
  979. scitex/template/clone_research.py +7 -10
  980. scitex/template/clone_singularity.py +6 -7
  981. scitex/template/clone_writer_directory.py +6 -7
  982. scitex/tex/_preview.py +26 -11
  983. scitex/tex/_to_vec.py +10 -7
  984. scitex/torch/__init__.py +11 -1
  985. scitex/types/_ArrayLike.py +2 -0
  986. scitex/types/_is_listed_X.py +3 -3
  987. scitex/units.py +110 -77
  988. scitex/utils/_compress_hdf5.py +3 -3
  989. scitex/utils/_email.py +8 -4
  990. scitex/utils/_notify.py +14 -8
  991. scitex/utils/_search.py +6 -6
  992. scitex/utils/_verify_scitex_format.py +17 -42
  993. scitex/utils/_verify_scitex_format_v01.py +12 -34
  994. scitex/utils/template.py +4 -3
  995. scitex/vis/__init__.py +0 -0
  996. scitex/vis/backend/__init__.py +3 -3
  997. scitex/vis/backend/{export.py → _export.py} +1 -1
  998. scitex/vis/backend/{parser.py → _parser.py} +1 -3
  999. scitex/vis/backend/{render.py → _render.py} +1 -1
  1000. scitex/vis/canvas.py +15 -3
  1001. scitex/vis/editor/__init__.py +0 -0
  1002. scitex/vis/editor/_dearpygui_editor.py +450 -304
  1003. scitex/vis/editor/_defaults.py +114 -123
  1004. scitex/vis/editor/_edit.py +38 -26
  1005. scitex/vis/editor/_flask_editor.py +8 -8
  1006. scitex/vis/editor/_mpl_editor.py +63 -48
  1007. scitex/vis/editor/_qt_editor.py +210 -159
  1008. scitex/vis/editor/_tkinter_editor.py +146 -89
  1009. scitex/vis/editor/flask_editor/__init__.py +10 -10
  1010. scitex/vis/editor/flask_editor/_bbox.py +529 -0
  1011. scitex/vis/editor/flask_editor/{core.py → _core.py} +45 -29
  1012. scitex/vis/editor/flask_editor/_plotter.py +567 -0
  1013. scitex/vis/editor/flask_editor/_renderer.py +393 -0
  1014. scitex/vis/editor/flask_editor/{utils.py → _utils.py} +13 -14
  1015. scitex/vis/editor/flask_editor/templates/__init__.py +5 -5
  1016. scitex/vis/editor/flask_editor/templates/{html.py → _html.py} +234 -16
  1017. scitex/vis/editor/flask_editor/templates/_scripts.py +1261 -0
  1018. scitex/vis/editor/flask_editor/templates/{styles.py → _styles.py} +192 -2
  1019. scitex/vis/io/__init__.py +5 -5
  1020. scitex/vis/io/{canvas.py → _canvas.py} +8 -4
  1021. scitex/vis/io/{data.py → _data.py} +13 -9
  1022. scitex/vis/io/{directory.py → _directory.py} +7 -4
  1023. scitex/vis/io/{export.py → _export.py} +15 -12
  1024. scitex/vis/io/{load.py → _load.py} +1 -1
  1025. scitex/vis/io/{panel.py → _panel.py} +21 -13
  1026. scitex/vis/io/{save.py → _save.py} +0 -0
  1027. scitex/vis/model/__init__.py +7 -7
  1028. scitex/vis/model/{annotations.py → _annotations.py} +2 -4
  1029. scitex/vis/model/{axes.py → _axes.py} +1 -1
  1030. scitex/vis/model/{figure.py → _figure.py} +0 -0
  1031. scitex/vis/model/{guides.py → _guides.py} +1 -1
  1032. scitex/vis/model/{plot.py → _plot.py} +2 -4
  1033. scitex/vis/model/{plot_types.py → _plot_types.py} +0 -0
  1034. scitex/vis/model/{styles.py → _styles.py} +0 -0
  1035. scitex/vis/utils/__init__.py +2 -2
  1036. scitex/vis/utils/{defaults.py → _defaults.py} +1 -2
  1037. scitex/vis/utils/{validate.py → _validate.py} +3 -9
  1038. scitex/web/__init__.py +7 -1
  1039. scitex/web/_scraping.py +54 -38
  1040. scitex/web/_search_pubmed.py +30 -14
  1041. scitex/writer/.legacy/Writer_v01-refactored.py +4 -4
  1042. scitex/writer/.legacy/_compile.py +18 -28
  1043. scitex/writer/Writer.py +8 -21
  1044. scitex/writer/__init__.py +11 -11
  1045. scitex/writer/_clone_writer_project.py +2 -6
  1046. scitex/writer/_compile/__init__.py +1 -0
  1047. scitex/writer/_compile/_parser.py +1 -0
  1048. scitex/writer/_compile/_runner.py +35 -38
  1049. scitex/writer/_compile/_validator.py +1 -0
  1050. scitex/writer/_compile/manuscript.py +1 -0
  1051. scitex/writer/_compile/revision.py +1 -0
  1052. scitex/writer/_compile/supplementary.py +1 -0
  1053. scitex/writer/_compile_async.py +5 -12
  1054. scitex/writer/_project/__init__.py +1 -0
  1055. scitex/writer/_project/_create.py +10 -25
  1056. scitex/writer/_project/_trees.py +4 -9
  1057. scitex/writer/_project/_validate.py +2 -3
  1058. scitex/writer/_validate_tree_structures.py +7 -18
  1059. scitex/writer/dataclasses/__init__.py +8 -10
  1060. scitex/writer/dataclasses/config/_CONSTANTS.py +2 -3
  1061. scitex/writer/dataclasses/config/_WriterConfig.py +4 -9
  1062. scitex/writer/dataclasses/contents/_ManuscriptContents.py +14 -25
  1063. scitex/writer/dataclasses/contents/_RevisionContents.py +21 -16
  1064. scitex/writer/dataclasses/contents/_SupplementaryContents.py +21 -24
  1065. scitex/writer/dataclasses/core/_Document.py +2 -3
  1066. scitex/writer/dataclasses/core/_DocumentSection.py +8 -23
  1067. scitex/writer/dataclasses/results/_CompilationResult.py +2 -3
  1068. scitex/writer/dataclasses/results/_LaTeXIssue.py +3 -6
  1069. scitex/writer/dataclasses/results/_SaveSectionsResponse.py +20 -9
  1070. scitex/writer/dataclasses/results/_SectionReadResponse.py +24 -10
  1071. scitex/writer/dataclasses/tree/_ConfigTree.py +7 -4
  1072. scitex/writer/dataclasses/tree/_ManuscriptTree.py +10 -13
  1073. scitex/writer/dataclasses/tree/_RevisionTree.py +16 -17
  1074. scitex/writer/dataclasses/tree/_ScriptsTree.py +10 -5
  1075. scitex/writer/dataclasses/tree/_SharedTree.py +10 -13
  1076. scitex/writer/dataclasses/tree/_SupplementaryTree.py +15 -14
  1077. scitex/writer/utils/.legacy_git_retry.py +3 -8
  1078. scitex/writer/utils/_parse_latex_logs.py +2 -3
  1079. scitex/writer/utils/_parse_script_args.py +20 -23
  1080. scitex/writer/utils/_watch.py +5 -5
  1081. {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/METADATA +4 -10
  1082. {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/RECORD +1071 -975
  1083. scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin_v01-indentation-issues.py +0 -583
  1084. scitex/plt/_subplots/_export_as_csv_formatters.py +0 -112
  1085. scitex/vis/editor/flask_editor/bbox.py +0 -216
  1086. scitex/vis/editor/flask_editor/plotter.py +0 -130
  1087. scitex/vis/editor/flask_editor/renderer.py +0 -184
  1088. scitex/vis/editor/flask_editor/templates/scripts.py +0 -614
  1089. {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/WHEEL +0 -0
  1090. {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/entry_points.txt +0 -0
  1091. {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/licenses/LICENSE +0 -0
@@ -1,216 +0,0 @@
1
- #!/usr/bin/env python3
2
- # -*- coding: utf-8 -*-
3
- # File: ./src/scitex/vis/editor/flask_editor/bbox.py
4
- """Bounding box extraction for figure elements."""
5
-
6
- from typing import Dict, Any
7
-
8
-
9
- def extract_bboxes(fig, ax, renderer, img_width: int, img_height: int) -> Dict[str, Any]:
10
- """Extract bounding boxes for all figure elements."""
11
- from matplotlib.transforms import Bbox
12
-
13
- # Get figure tight bbox in inches
14
- fig_bbox = fig.get_tightbbox(renderer)
15
- tight_x0 = fig_bbox.x0
16
- tight_y0 = fig_bbox.y0
17
- tight_width = fig_bbox.width
18
- tight_height = fig_bbox.height
19
-
20
- # bbox_inches='tight' adds pad_inches (default 0.1) around the tight bbox
21
- pad_inches = 0.1
22
- saved_width_inches = tight_width + 2 * pad_inches
23
- saved_height_inches = tight_height + 2 * pad_inches
24
-
25
- # Scale factors for converting inches to pixels
26
- scale_x = img_width / saved_width_inches
27
- scale_y = img_height / saved_height_inches
28
-
29
- bboxes = {}
30
-
31
- def get_element_bbox(element, name):
32
- """Get element bbox in image pixel coordinates."""
33
- try:
34
- bbox = element.get_window_extent(renderer)
35
-
36
- elem_x0_inches = bbox.x0 / fig.dpi
37
- elem_x1_inches = bbox.x1 / fig.dpi
38
- elem_y0_inches = bbox.y0 / fig.dpi
39
- elem_y1_inches = bbox.y1 / fig.dpi
40
-
41
- x0_rel = elem_x0_inches - tight_x0 + pad_inches
42
- x1_rel = elem_x1_inches - tight_x0 + pad_inches
43
- y0_rel = saved_height_inches - (elem_y1_inches - tight_y0 + pad_inches)
44
- y1_rel = saved_height_inches - (elem_y0_inches - tight_y0 + pad_inches)
45
-
46
- bboxes[name] = {
47
- 'x0': max(0, int(x0_rel * scale_x)),
48
- 'y0': max(0, int(y0_rel * scale_y)),
49
- 'x1': min(img_width, int(x1_rel * scale_x)),
50
- 'y1': min(img_height, int(y1_rel * scale_y)),
51
- 'label': name.replace('_', ' ').title()
52
- }
53
- except Exception as e:
54
- print(f"Error getting bbox for {name}: {e}")
55
-
56
- def bbox_to_img_coords(bbox):
57
- """Convert matplotlib bbox to image pixel coordinates."""
58
- x0_inches = bbox.x0 / fig.dpi
59
- y0_inches = bbox.y0 / fig.dpi
60
- x1_inches = bbox.x1 / fig.dpi
61
- y1_inches = bbox.y1 / fig.dpi
62
- x0_rel = x0_inches - tight_x0 + pad_inches
63
- y0_rel = y0_inches - tight_y0 + pad_inches
64
- x1_rel = x1_inches - tight_x0 + pad_inches
65
- y1_rel = y1_inches - tight_y0 + pad_inches
66
- return {
67
- 'x0': int(x0_rel * scale_x),
68
- 'y0': int((saved_height_inches - y1_rel) * scale_y),
69
- 'x1': int(x1_rel * scale_x),
70
- 'y1': int((saved_height_inches - y0_rel) * scale_y),
71
- }
72
-
73
- # Get bboxes for title, labels
74
- if ax.title.get_text():
75
- get_element_bbox(ax.title, 'title')
76
- if ax.xaxis.label.get_text():
77
- get_element_bbox(ax.xaxis.label, 'xlabel')
78
- if ax.yaxis.label.get_text():
79
- get_element_bbox(ax.yaxis.label, 'ylabel')
80
-
81
- # Get axis bboxes
82
- _extract_axis_bboxes(ax, renderer, bboxes, bbox_to_img_coords, Bbox)
83
-
84
- # Get legend bbox
85
- legend = ax.get_legend()
86
- if legend:
87
- get_element_bbox(legend, 'legend')
88
-
89
- # Get trace (line) bboxes
90
- _extract_trace_bboxes(ax, fig, renderer, bboxes, get_element_bbox,
91
- tight_x0, tight_y0, saved_height_inches, scale_x, scale_y, pad_inches)
92
-
93
- return bboxes
94
-
95
-
96
- def _extract_axis_bboxes(ax, renderer, bboxes, bbox_to_img_coords, Bbox):
97
- """Extract bboxes for X and Y axis elements."""
98
- try:
99
- # X-axis: combine spine and tick labels into one bbox
100
- x_axis_bboxes = []
101
- for ticklabel in ax.xaxis.get_ticklabels():
102
- if ticklabel.get_visible():
103
- try:
104
- tb = ticklabel.get_window_extent(renderer)
105
- if tb.width > 0:
106
- x_axis_bboxes.append(tb)
107
- except Exception:
108
- pass
109
- for tick in ax.xaxis.get_major_ticks():
110
- if tick.tick1line.get_visible():
111
- try:
112
- tb = tick.tick1line.get_window_extent(renderer)
113
- if tb.width > 0 or tb.height > 0:
114
- x_axis_bboxes.append(tb)
115
- except Exception:
116
- pass
117
- spine_bbox = ax.spines['bottom'].get_window_extent(renderer)
118
- if spine_bbox.width > 0:
119
- if x_axis_bboxes:
120
- tick_union = Bbox.union(x_axis_bboxes)
121
- constrained_spine = Bbox.from_extents(
122
- tick_union.x0, spine_bbox.y0,
123
- tick_union.x1, spine_bbox.y1
124
- )
125
- x_axis_bboxes.append(constrained_spine)
126
- else:
127
- x_axis_bboxes.append(spine_bbox)
128
- if x_axis_bboxes:
129
- combined = Bbox.union(x_axis_bboxes)
130
- bboxes['xaxis_ticks'] = bbox_to_img_coords(combined)
131
- bboxes['xaxis_ticks']['label'] = 'X Spine & Ticks'
132
-
133
- # Y-axis: combine spine and tick labels into one bbox
134
- y_axis_bboxes = []
135
- for ticklabel in ax.yaxis.get_ticklabels():
136
- if ticklabel.get_visible():
137
- try:
138
- tb = ticklabel.get_window_extent(renderer)
139
- if tb.width > 0:
140
- y_axis_bboxes.append(tb)
141
- except Exception:
142
- pass
143
- for tick in ax.yaxis.get_major_ticks():
144
- if tick.tick1line.get_visible():
145
- try:
146
- tb = tick.tick1line.get_window_extent(renderer)
147
- if tb.width > 0 or tb.height > 0:
148
- y_axis_bboxes.append(tb)
149
- except Exception:
150
- pass
151
- spine_bbox = ax.spines['left'].get_window_extent(renderer)
152
- if spine_bbox.height > 0:
153
- if y_axis_bboxes:
154
- tick_union = Bbox.union(y_axis_bboxes)
155
- constrained_spine = Bbox.from_extents(
156
- spine_bbox.x0, tick_union.y0,
157
- spine_bbox.x1, tick_union.y1
158
- )
159
- y_axis_bboxes.append(constrained_spine)
160
- else:
161
- y_axis_bboxes.append(spine_bbox)
162
- if y_axis_bboxes:
163
- combined = Bbox.union(y_axis_bboxes)
164
- padded = Bbox.from_extents(
165
- combined.x0 - 10,
166
- combined.y0 - 5,
167
- combined.x1 + 5,
168
- combined.y1 + 5
169
- )
170
- bboxes['yaxis_ticks'] = bbox_to_img_coords(padded)
171
- bboxes['yaxis_ticks']['label'] = 'Y Spine & Ticks'
172
-
173
- except Exception as e:
174
- print(f"Error getting axis bboxes: {e}")
175
-
176
-
177
- def _extract_trace_bboxes(ax, fig, renderer, bboxes, get_element_bbox,
178
- tight_x0, tight_y0, saved_height_inches, scale_x, scale_y, pad_inches):
179
- """Extract bboxes for trace (line) elements with proximity detection points."""
180
- for idx, line in enumerate(ax.get_lines()):
181
- try:
182
- label = line.get_label()
183
- if label.startswith('_'):
184
- continue
185
- get_element_bbox(line, f'trace_{idx}')
186
- if f'trace_{idx}' in bboxes:
187
- bboxes[f'trace_{idx}']['label'] = label or f'Trace {idx}'
188
- bboxes[f'trace_{idx}']['trace_idx'] = idx
189
-
190
- # Get line data points in pixel coordinates for proximity detection
191
- xdata, ydata = line.get_xdata(), line.get_ydata()
192
- if len(xdata) > 0:
193
- transform = ax.transData
194
- points_display = transform.transform(list(zip(xdata, ydata)))
195
-
196
- points_img = []
197
- for px, py in points_display:
198
- px_inches = px / fig.dpi
199
- py_inches = py / fig.dpi
200
- x_rel = px_inches - tight_x0 + pad_inches
201
- y_rel = saved_height_inches - (py_inches - tight_y0 + pad_inches)
202
- x_img = int(x_rel * scale_x)
203
- y_img = int(y_rel * scale_y)
204
- points_img.append([x_img, y_img])
205
-
206
- # Downsample points if too many
207
- if len(points_img) > 100:
208
- step = len(points_img) // 100
209
- points_img = points_img[::step]
210
-
211
- bboxes[f'trace_{idx}']['points'] = points_img
212
- except Exception as e:
213
- print(f"Error getting trace bbox: {e}")
214
-
215
-
216
- # EOF
@@ -1,130 +0,0 @@
1
- #!/usr/bin/env python3
2
- # -*- coding: utf-8 -*-
3
- # File: ./src/scitex/vis/editor/flask_editor/plotter.py
4
- """CSV plotting functionality for Flask editor."""
5
-
6
- from typing import Dict, Any, Optional
7
- import pandas as pd
8
-
9
-
10
- def plot_from_csv(ax, csv_data: Optional[pd.DataFrame], overrides: Dict[str, Any], linewidth: float = 1.0):
11
- """Reconstruct plot from CSV data using trace info from overrides.
12
-
13
- Args:
14
- ax: Matplotlib axes object
15
- csv_data: DataFrame containing CSV data
16
- overrides: Dictionary with override settings including traces
17
- linewidth: Default line width in points
18
- """
19
- if csv_data is None or not isinstance(csv_data, pd.DataFrame):
20
- return
21
-
22
- df = csv_data
23
- o = overrides
24
-
25
- # Get legend settings from overrides
26
- legend_fontsize = o.get('legend_fontsize', 6)
27
- legend_visible = o.get('legend_visible', True)
28
- legend_frameon = o.get('legend_frameon', False)
29
- legend_loc = o.get('legend_loc', 'best')
30
- legend_x = o.get('legend_x', 0.5)
31
- legend_y = o.get('legend_y', 0.5)
32
-
33
- # Get traces from overrides (which may have been edited by user)
34
- traces = o.get('traces', [])
35
-
36
- if traces:
37
- _plot_with_traces(ax, df, traces, linewidth, legend_fontsize, legend_visible,
38
- legend_frameon, legend_loc, legend_x, legend_y)
39
- else:
40
- _plot_fallback(ax, df, linewidth, legend_fontsize, legend_visible,
41
- legend_frameon, legend_loc, legend_x, legend_y)
42
-
43
-
44
- def _plot_with_traces(ax, df, traces, linewidth, legend_fontsize, legend_visible,
45
- legend_frameon, legend_loc, legend_x, legend_y):
46
- """Plot using trace information from overrides."""
47
- for trace in traces:
48
- csv_cols = trace.get('csv_columns', {})
49
- x_col = csv_cols.get('x')
50
- y_col = csv_cols.get('y')
51
-
52
- if x_col in df.columns and y_col in df.columns:
53
- ax.plot(
54
- df[x_col],
55
- df[y_col],
56
- label=trace.get('label', trace.get('id', '')),
57
- color=trace.get('color'),
58
- linestyle=trace.get('linestyle', '-'),
59
- linewidth=trace.get('linewidth', linewidth),
60
- marker=trace.get('marker', None),
61
- markersize=trace.get('markersize', 6),
62
- )
63
-
64
- # Add legend if there are labeled traces
65
- if legend_visible and any(t.get('label') for t in traces):
66
- _add_legend(ax, legend_fontsize, legend_frameon, legend_loc, legend_x, legend_y)
67
-
68
-
69
- def _plot_fallback(ax, df, linewidth, legend_fontsize, legend_visible,
70
- legend_frameon, legend_loc, legend_x, legend_y):
71
- """Fallback plotting when no trace info available - smart parsing of column names."""
72
- cols = df.columns.tolist()
73
-
74
- # Group columns by trace ID
75
- trace_groups = {}
76
- for col in cols:
77
- if col.endswith('_x'):
78
- trace_id = col[:-2] # Remove '_x'
79
- y_col = trace_id + '_y'
80
- if y_col in cols:
81
- # Extract label from column name (e.g., ax_00_sine_plot -> sine)
82
- parts = trace_id.split('_')
83
- label = parts[2] if len(parts) > 2 else trace_id
84
- trace_groups[trace_id] = {
85
- 'x_col': col,
86
- 'y_col': y_col,
87
- 'label': label,
88
- }
89
-
90
- if trace_groups:
91
- for trace_id, info in trace_groups.items():
92
- ax.plot(
93
- df[info['x_col']],
94
- df[info['y_col']],
95
- label=info['label'],
96
- linewidth=linewidth,
97
- )
98
- if legend_visible:
99
- _add_legend(ax, legend_fontsize, legend_frameon, legend_loc, legend_x, legend_y)
100
-
101
- elif len(cols) >= 2:
102
- # Last resort: assume first column is x, rest are y
103
- x_col = cols[0]
104
- for y_col in cols[1:]:
105
- try:
106
- ax.plot(df[x_col], df[y_col], label=str(y_col), linewidth=linewidth)
107
- except Exception:
108
- pass
109
- if len(cols) > 2 and legend_visible:
110
- _add_legend(ax, legend_fontsize, legend_frameon, legend_loc, legend_x, legend_y)
111
-
112
-
113
- def _add_legend(ax, fontsize, frameon, loc, x, y):
114
- """Add legend to axes with specified settings."""
115
- if loc == 'custom':
116
- ax.legend(
117
- fontsize=fontsize,
118
- frameon=frameon,
119
- loc='upper left',
120
- bbox_to_anchor=(x, y),
121
- )
122
- else:
123
- ax.legend(
124
- fontsize=fontsize,
125
- frameon=frameon,
126
- loc=loc,
127
- )
128
-
129
-
130
- # EOF
@@ -1,184 +0,0 @@
1
- #!/usr/bin/env python3
2
- # -*- coding: utf-8 -*-
3
- # File: ./src/scitex/vis/editor/flask_editor/renderer.py
4
- """Figure rendering for Flask editor."""
5
-
6
- from typing import Dict, Any, Tuple
7
- import base64
8
- import io
9
-
10
- import matplotlib
11
- matplotlib.use('Agg')
12
- import matplotlib.pyplot as plt
13
- from matplotlib.ticker import MaxNLocator
14
- from PIL import Image
15
-
16
- from .plotter import plot_from_csv
17
- from .bbox import extract_bboxes
18
-
19
- # mm to pt conversion factor
20
- MM_TO_PT = 2.83465
21
-
22
-
23
- def render_preview_with_bboxes(csv_data, overrides: Dict[str, Any], axis_fontsize: int = 7
24
- ) -> Tuple[str, Dict[str, Any], Dict[str, int]]:
25
- """Render figure and return base64 PNG along with element bounding boxes.
26
-
27
- Args:
28
- csv_data: DataFrame containing CSV data
29
- overrides: Dictionary with override settings
30
- axis_fontsize: Default font size for axis labels
31
-
32
- Returns:
33
- tuple: (base64_image_data, bboxes_dict, image_size)
34
- """
35
- o = overrides
36
-
37
- # Dimensions
38
- dpi = o.get('dpi', 300)
39
- fig_size = o.get('fig_size', [3.15, 2.68])
40
-
41
- # Font sizes
42
- axis_fontsize = o.get('axis_fontsize', 7)
43
- tick_fontsize = o.get('tick_fontsize', 7)
44
- title_fontsize = o.get('title_fontsize', 8)
45
-
46
- # Line/axis thickness
47
- linewidth_pt = o.get('linewidth', 0.57)
48
- axis_width_pt = o.get('axis_width', 0.2) * MM_TO_PT
49
- tick_length_pt = o.get('tick_length', 0.8) * MM_TO_PT
50
- tick_width_pt = o.get('tick_width', 0.2) * MM_TO_PT
51
- tick_direction = o.get('tick_direction', 'out')
52
- x_n_ticks = o.get('x_n_ticks', o.get('n_ticks', 4))
53
- y_n_ticks = o.get('y_n_ticks', o.get('n_ticks', 4))
54
- hide_x_ticks = o.get('hide_x_ticks', False)
55
- hide_y_ticks = o.get('hide_y_ticks', False)
56
-
57
- transparent = o.get('transparent', True)
58
-
59
- # Create figure
60
- fig, ax = plt.subplots(figsize=fig_size, dpi=dpi)
61
- _apply_background(fig, ax, o, transparent)
62
-
63
- # Plot from CSV data
64
- if csv_data is not None:
65
- plot_from_csv(ax, csv_data, overrides, linewidth=linewidth_pt)
66
- else:
67
- ax.text(0.5, 0.5, "No plot data available\n(CSV not found)",
68
- ha='center', va='center', transform=ax.transAxes,
69
- fontsize=axis_fontsize)
70
-
71
- # Apply labels
72
- _apply_labels(ax, o, title_fontsize, axis_fontsize)
73
-
74
- # Tick styling
75
- _apply_tick_styling(ax, tick_fontsize, tick_length_pt, tick_width_pt, tick_direction,
76
- x_n_ticks, y_n_ticks, hide_x_ticks, hide_y_ticks)
77
-
78
- # Apply grid, limits, spines
79
- _apply_style(ax, o, axis_width_pt)
80
-
81
- # Apply annotations
82
- _apply_annotations(ax, o, axis_fontsize)
83
-
84
- fig.tight_layout()
85
-
86
- # Get element bounding boxes BEFORE saving (need renderer)
87
- fig.canvas.draw()
88
- renderer = fig.canvas.get_renderer()
89
-
90
- # Save to buffer first to get actual image size
91
- buf = io.BytesIO()
92
- fig.savefig(buf, format='png', dpi=dpi, bbox_inches='tight', transparent=transparent)
93
- buf.seek(0)
94
-
95
- # Get actual saved image dimensions
96
- img = Image.open(buf)
97
- img_width, img_height = img.size
98
- buf.seek(0)
99
-
100
- # Get bboxes
101
- bboxes = extract_bboxes(fig, ax, renderer, img_width, img_height)
102
-
103
- img_data = base64.b64encode(buf.read()).decode('utf-8')
104
- plt.close(fig)
105
-
106
- return img_data, bboxes, {'width': img_width, 'height': img_height}
107
-
108
-
109
- def _apply_background(fig, ax, o, transparent):
110
- """Apply background settings to figure."""
111
- if transparent:
112
- fig.patch.set_facecolor('none')
113
- ax.patch.set_facecolor('none')
114
- elif o.get('facecolor'):
115
- fig.patch.set_facecolor(o['facecolor'])
116
- ax.patch.set_facecolor(o['facecolor'])
117
-
118
-
119
- def _apply_labels(ax, o, title_fontsize, axis_fontsize):
120
- """Apply title and axis labels."""
121
- if o.get('title'):
122
- ax.set_title(o['title'], fontsize=title_fontsize)
123
- if o.get('xlabel'):
124
- ax.set_xlabel(o['xlabel'], fontsize=axis_fontsize)
125
- if o.get('ylabel'):
126
- ax.set_ylabel(o['ylabel'], fontsize=axis_fontsize)
127
-
128
-
129
- def _apply_tick_styling(ax, tick_fontsize, tick_length_pt, tick_width_pt, tick_direction,
130
- x_n_ticks, y_n_ticks, hide_x_ticks, hide_y_ticks):
131
- """Apply tick styling to axes."""
132
- ax.tick_params(
133
- axis='both',
134
- labelsize=tick_fontsize,
135
- length=tick_length_pt,
136
- width=tick_width_pt,
137
- direction=tick_direction,
138
- )
139
-
140
- if hide_x_ticks:
141
- ax.xaxis.set_ticks([])
142
- ax.xaxis.set_ticklabels([])
143
- else:
144
- ax.xaxis.set_major_locator(MaxNLocator(nbins=x_n_ticks))
145
- if hide_y_ticks:
146
- ax.yaxis.set_ticks([])
147
- ax.yaxis.set_ticklabels([])
148
- else:
149
- ax.yaxis.set_major_locator(MaxNLocator(nbins=y_n_ticks))
150
-
151
-
152
- def _apply_style(ax, o, axis_width_pt):
153
- """Apply grid, axis limits, and spine settings."""
154
- if o.get('grid'):
155
- ax.grid(True, linewidth=axis_width_pt, alpha=0.3)
156
-
157
- if o.get('xlim'):
158
- ax.set_xlim(o['xlim'])
159
- if o.get('ylim'):
160
- ax.set_ylim(o['ylim'])
161
-
162
- if o.get('hide_top_spine', True):
163
- ax.spines['top'].set_visible(False)
164
- if o.get('hide_right_spine', True):
165
- ax.spines['right'].set_visible(False)
166
-
167
- for spine in ax.spines.values():
168
- spine.set_linewidth(axis_width_pt)
169
-
170
-
171
- def _apply_annotations(ax, o, axis_fontsize):
172
- """Apply text annotations to figure."""
173
- for annot in o.get('annotations', []):
174
- if annot.get('type') == 'text':
175
- ax.text(
176
- annot.get('x', 0.5),
177
- annot.get('y', 0.5),
178
- annot.get('text', ''),
179
- transform=ax.transAxes,
180
- fontsize=annot.get('fontsize', axis_fontsize),
181
- )
182
-
183
-
184
- # EOF