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
@@ -3,7 +3,7 @@
3
3
  # File: ./src/scitex/vis/editor/flask_editor/templates/styles.py
4
4
  """CSS styles for the Flask editor UI."""
5
5
 
6
- CSS_STYLES = '''
6
+ CSS_STYLES = """
7
7
  /* =============================================================================
8
8
  * SciTeX Color System - Based on scitex-cloud/static/shared/css
9
9
  * ============================================================================= */
@@ -188,6 +188,99 @@ body {
188
188
  pointer-events: none;
189
189
  }
190
190
 
191
+ .hover-scatter {
192
+ fill: rgba(100, 180, 255, 0.7);
193
+ stroke: rgba(100, 180, 255, 0.9);
194
+ stroke-width: 1;
195
+ pointer-events: none;
196
+ }
197
+
198
+ .selected-scatter {
199
+ fill: rgba(255, 200, 80, 0.7);
200
+ stroke: rgba(255, 200, 80, 0.9);
201
+ stroke-width: 2;
202
+ pointer-events: none;
203
+ }
204
+
205
+ /* =============================================================================
206
+ * Selected Element Panel
207
+ * ============================================================================= */
208
+ #section-selected {
209
+ border: 2px solid var(--accent-muted);
210
+ background: var(--bg-secondary);
211
+ }
212
+
213
+ #section-selected .section-header {
214
+ background: var(--accent-muted);
215
+ color: var(--text-primary);
216
+ font-weight: 600;
217
+ }
218
+
219
+ .selected-info {
220
+ display: flex;
221
+ align-items: center;
222
+ gap: 10px;
223
+ margin-bottom: 12px;
224
+ padding: 8px;
225
+ background: var(--bg-primary);
226
+ border-radius: 4px;
227
+ }
228
+
229
+ .element-type-badge {
230
+ padding: 4px 10px;
231
+ border-radius: 12px;
232
+ font-size: 11px;
233
+ font-weight: 600;
234
+ text-transform: uppercase;
235
+ }
236
+
237
+ .element-type-badge.trace { background: #3498db; color: white; }
238
+ .element-type-badge.scatter { background: #e74c3c; color: white; }
239
+ .element-type-badge.fill { background: #9b59b6; color: white; }
240
+ .element-type-badge.bar { background: #f39c12; color: white; }
241
+ .element-type-badge.label { background: #2ecc71; color: white; }
242
+ .element-type-badge.panel { background: #34495e; color: white; }
243
+ .element-type-badge.legend { background: #1abc9c; color: white; }
244
+
245
+ .element-axis-info {
246
+ font-size: 12px;
247
+ color: var(--text-secondary);
248
+ }
249
+
250
+ .element-props {
251
+ border-top: 1px solid var(--border-color);
252
+ padding-top: 12px;
253
+ margin-top: 8px;
254
+ }
255
+
256
+ /* Range slider styling */
257
+ input[type="range"] {
258
+ width: 100%;
259
+ height: 6px;
260
+ border-radius: 3px;
261
+ background: var(--bg-tertiary);
262
+ outline: none;
263
+ -webkit-appearance: none;
264
+ }
265
+
266
+ input[type="range"]::-webkit-slider-thumb {
267
+ -webkit-appearance: none;
268
+ width: 16px;
269
+ height: 16px;
270
+ border-radius: 50%;
271
+ background: var(--accent);
272
+ cursor: pointer;
273
+ }
274
+
275
+ input[type="range"]::-moz-range-thumb {
276
+ width: 16px;
277
+ height: 16px;
278
+ border-radius: 50%;
279
+ background: var(--accent);
280
+ cursor: pointer;
281
+ border: none;
282
+ }
283
+
191
284
  /* =============================================================================
192
285
  * Controls Panel
193
286
  * ============================================================================= */
@@ -470,6 +563,103 @@ body {
470
563
  background: var(--color-cta-hover);
471
564
  }
472
565
 
566
+ /* =============================================================================
567
+ * Unit Toggle
568
+ * ============================================================================= */
569
+ .unit-toggle {
570
+ display: flex;
571
+ gap: 0;
572
+ border-radius: 4px;
573
+ overflow: hidden;
574
+ border: 1px solid var(--border-default);
575
+ }
576
+
577
+ .unit-btn {
578
+ padding: 4px 12px;
579
+ font-size: 0.8em;
580
+ font-weight: 500;
581
+ border: none;
582
+ background: var(--bg-muted);
583
+ color: var(--text-muted);
584
+ cursor: pointer;
585
+ transition: all 0.15s;
586
+ }
587
+
588
+ .unit-btn:first-child {
589
+ border-right: 1px solid var(--border-default);
590
+ }
591
+
592
+ .unit-btn:hover {
593
+ background: var(--bg-surface);
594
+ color: var(--text-secondary);
595
+ }
596
+
597
+ .unit-btn.active {
598
+ background: var(--color-cta);
599
+ color: white;
600
+ }
601
+
602
+ /* =============================================================================
603
+ * Background Type Toggle
604
+ * ============================================================================= */
605
+ .bg-toggle {
606
+ display: flex;
607
+ gap: 6px;
608
+ }
609
+
610
+ .bg-btn {
611
+ display: flex;
612
+ flex-direction: column;
613
+ align-items: center;
614
+ gap: 4px;
615
+ padding: 6px 10px;
616
+ font-size: 0.75em;
617
+ border: 1px solid var(--border-default);
618
+ border-radius: 4px;
619
+ background: var(--bg-muted);
620
+ color: var(--text-muted);
621
+ cursor: pointer;
622
+ transition: all 0.15s;
623
+ flex: 1;
624
+ }
625
+
626
+ .bg-btn:hover {
627
+ background: var(--bg-surface);
628
+ color: var(--text-secondary);
629
+ }
630
+
631
+ .bg-btn.active {
632
+ border-color: var(--color-cta);
633
+ background: var(--bg-surface);
634
+ color: var(--text-primary);
635
+ box-shadow: 0 0 0 1px var(--color-cta);
636
+ }
637
+
638
+ .bg-preview {
639
+ width: 20px;
640
+ height: 14px;
641
+ border-radius: 2px;
642
+ border: 1px solid var(--border-default);
643
+ }
644
+
645
+ .bg-preview.white {
646
+ background: #ffffff;
647
+ }
648
+
649
+ .bg-preview.transparent {
650
+ background: linear-gradient(45deg, #ccc 25%, transparent 25%),
651
+ linear-gradient(-45deg, #ccc 25%, transparent 25%),
652
+ linear-gradient(45deg, transparent 75%, #ccc 75%),
653
+ linear-gradient(-45deg, transparent 75%, #ccc 75%);
654
+ background-size: 8px 8px;
655
+ background-position: 0 0, 0 4px, 4px -4px, -4px 0px;
656
+ background-color: #fff;
657
+ }
658
+
659
+ .bg-preview.black {
660
+ background: #000000;
661
+ }
662
+
473
663
  /* =============================================================================
474
664
  * Status Bar
475
665
  * ============================================================================= */
@@ -543,7 +733,7 @@ body {
543
733
  .annotations-list::-webkit-scrollbar-thumb:hover {
544
734
  background: var(--text-muted);
545
735
  }
546
- '''
736
+ """
547
737
 
548
738
 
549
739
  # EOF
scitex/vis/io/__init__.py CHANGED
@@ -18,7 +18,7 @@ The .canvas extension makes directories self-documenting, portable, and detectab
18
18
  Schema Version: 2.0.0
19
19
  """
20
20
 
21
- from .directory import (
21
+ from ._directory import (
22
22
  SCHEMA_VERSION,
23
23
  CANVAS_EXTENSION,
24
24
  ensure_canvas_directory,
@@ -28,14 +28,14 @@ from .directory import (
28
28
  canvas_directory_exists,
29
29
  )
30
30
 
31
- from .canvas import (
31
+ from ._canvas import (
32
32
  save_canvas_json,
33
33
  load_canvas_json,
34
34
  update_canvas_json,
35
35
  get_canvas_schema_version,
36
36
  )
37
37
 
38
- from .panel import (
38
+ from ._panel import (
39
39
  add_panel_from_scitex,
40
40
  add_panel_from_image,
41
41
  remove_panel,
@@ -45,7 +45,7 @@ from .panel import (
45
45
  reorder_panels,
46
46
  )
47
47
 
48
- from .data import (
48
+ from ._data import (
49
49
  HashMismatchError,
50
50
  compute_file_hash,
51
51
  verify_data_hash,
@@ -54,7 +54,7 @@ from .data import (
54
54
  list_data_files,
55
55
  )
56
56
 
57
- from .export import (
57
+ from ._export import (
58
58
  export_canvas_to_file,
59
59
  export_canvas_to_multiple_formats,
60
60
  list_canvas_exports,
@@ -13,7 +13,7 @@ from typing import Dict, Any, Union, Optional
13
13
  from datetime import datetime
14
14
  import json
15
15
 
16
- from .directory import get_canvas_directory_path, SCHEMA_VERSION
16
+ from ._directory import get_canvas_directory_path, SCHEMA_VERSION
17
17
 
18
18
 
19
19
  def _get_empty_canvas_template(canvas_name: str) -> Dict[str, Any]:
@@ -144,11 +144,13 @@ def load_canvas_json(
144
144
 
145
145
  # Verify data hashes if requested
146
146
  if verify_data_hashes and canvas_json.get("data_files"):
147
- from .data import verify_all_data_hashes
147
+ from ._data import verify_all_data_hashes
148
+
148
149
  hash_results = verify_all_data_hashes(project_dir, canvas_name)
149
150
  invalid_files = [f for f, valid in hash_results.items() if not valid]
150
151
  if invalid_files:
151
- from .data import HashMismatchError
152
+ from ._data import HashMismatchError
153
+
152
154
  raise HashMismatchError(
153
155
  f"Data file hash mismatch for: {', '.join(invalid_files)}"
154
156
  )
@@ -217,7 +219,9 @@ def get_canvas_schema_version(
217
219
  Schema version string or None if not found
218
220
  """
219
221
  try:
220
- canvas_json = load_canvas_json(project_dir, canvas_name, verify_data_hashes=False)
222
+ canvas_json = load_canvas_json(
223
+ project_dir, canvas_name, verify_data_hashes=False
224
+ )
221
225
  return canvas_json.get("schema_version")
222
226
  except FileNotFoundError:
223
227
  return None
@@ -15,6 +15,7 @@ import hashlib
15
15
 
16
16
  class HashMismatchError(Exception):
17
17
  """Raised when a data file hash doesn't match expected value."""
18
+
18
19
  pass
19
20
 
20
21
 
@@ -92,8 +93,8 @@ def verify_all_data_hashes(
92
93
  Dict[str, bool]
93
94
  Dictionary mapping file paths to validation results
94
95
  """
95
- from .directory import get_canvas_directory_path
96
- from .canvas import load_canvas_json
96
+ from ._directory import get_canvas_directory_path
97
+ from ._canvas import load_canvas_json
97
98
 
98
99
  canvas_dir = get_canvas_directory_path(project_dir, canvas_name)
99
100
 
@@ -103,6 +104,7 @@ def verify_all_data_hashes(
103
104
  return {}
104
105
 
105
106
  import json
107
+
106
108
  with open(json_path, "r") as f:
107
109
  canvas_json = json.load(f)
108
110
 
@@ -140,8 +142,8 @@ def update_data_hash(
140
142
  str
141
143
  New hash value
142
144
  """
143
- from .directory import get_canvas_directory_path
144
- from .canvas import load_canvas_json, save_canvas_json
145
+ from ._directory import get_canvas_directory_path
146
+ from ._canvas import load_canvas_json, save_canvas_json
145
147
 
146
148
  canvas_dir = get_canvas_directory_path(project_dir, canvas_name)
147
149
  filepath = canvas_dir / rel_path
@@ -161,10 +163,12 @@ def update_data_hash(
161
163
  if not found:
162
164
  if "data_files" not in canvas_json:
163
165
  canvas_json["data_files"] = []
164
- canvas_json["data_files"].append({
165
- "path": rel_path,
166
- "hash": new_hash,
167
- })
166
+ canvas_json["data_files"].append(
167
+ {
168
+ "path": rel_path,
169
+ "hash": new_hash,
170
+ }
171
+ )
168
172
 
169
173
  save_canvas_json(project_dir, canvas_name, canvas_json)
170
174
 
@@ -190,7 +194,7 @@ def list_data_files(
190
194
  Dict[str, str]
191
195
  Dictionary mapping file paths to hash values
192
196
  """
193
- from .canvas import load_canvas_json
197
+ from ._canvas import load_canvas_json
194
198
 
195
199
  canvas_json = load_canvas_json(project_dir, canvas_name, verify_data_hashes=False)
196
200
 
@@ -36,7 +36,7 @@ def _normalize_canvas_name(canvas_name: str) -> str:
36
36
  def _strip_canvas_extension(canvas_name: str) -> str:
37
37
  """Remove .canvas extension from canvas_name."""
38
38
  if canvas_name.endswith(CANVAS_EXTENSION):
39
- return canvas_name[:-len(CANVAS_EXTENSION)]
39
+ return canvas_name[: -len(CANVAS_EXTENSION)]
40
40
  return canvas_name
41
41
 
42
42
 
@@ -75,8 +75,9 @@ def ensure_canvas_directory(
75
75
  # Create empty canvas.json if not exists
76
76
  json_path = canvas_dir / "canvas.json"
77
77
  if not json_path.exists():
78
- from .canvas import _get_empty_canvas_template
78
+ from ._canvas import _get_empty_canvas_template
79
79
  import json
80
+
80
81
  # Use the name without extension for canvas_name in JSON
81
82
  base_name = _strip_canvas_extension(canvas_name)
82
83
  template = _get_empty_canvas_template(base_name)
@@ -137,9 +138,11 @@ def list_canvas_directories(
137
138
  # Find .canvas directories that contain canvas.json
138
139
  canvas_names = []
139
140
  for item in sorted(parent_dir.iterdir()):
140
- if (item.is_dir()
141
+ if (
142
+ item.is_dir()
141
143
  and item.name.endswith(CANVAS_EXTENSION)
142
- and (item / "canvas.json").exists()):
144
+ and (item / "canvas.json").exists()
145
+ ):
143
146
  if include_extension:
144
147
  canvas_names.append(item.name)
145
148
  else:
@@ -42,8 +42,8 @@ def export_canvas_to_file(
42
42
  Path
43
43
  Path to exported file in exports/ directory
44
44
  """
45
- from .directory import get_canvas_directory_path
46
- from .canvas import load_canvas_json
45
+ from ._directory import get_canvas_directory_path
46
+ from ._canvas import load_canvas_json
47
47
 
48
48
  canvas_dir = get_canvas_directory_path(project_dir, canvas_name)
49
49
  canvas_json = load_canvas_json(project_dir, canvas_name, verify_data_hashes=False)
@@ -130,7 +130,7 @@ def list_canvas_exports(
130
130
  List[Path]
131
131
  List of paths in exports/ directory
132
132
  """
133
- from .directory import get_canvas_directory_path
133
+ from ._directory import get_canvas_directory_path
134
134
 
135
135
  canvas_dir = get_canvas_directory_path(project_dir, canvas_name)
136
136
  exports_dir = canvas_dir / "exports"
@@ -179,10 +179,7 @@ def _compose_and_export(
179
179
  fig.patch.set_facecolor(bg_color)
180
180
 
181
181
  # Sort panels by z_index
182
- panels = sorted(
183
- canvas_json.get("panels", []),
184
- key=lambda p: p.get("z_index", 0)
185
- )
182
+ panels = sorted(canvas_json.get("panels", []), key=lambda p: p.get("z_index", 0))
186
183
 
187
184
  # Place each panel
188
185
  for panel in panels:
@@ -361,11 +358,14 @@ def _add_panel_label(ax, label: Dict[str, Any]) -> None:
361
358
  x, y, ha, va = pos_map.get(position, pos_map["top-left"])
362
359
 
363
360
  ax.text(
364
- x, y, text,
361
+ x,
362
+ y,
363
+ text,
365
364
  transform=ax.transAxes,
366
365
  fontsize=fontsize,
367
366
  fontweight=fontweight,
368
- ha=ha, va=va,
367
+ ha=ha,
368
+ va=va,
369
369
  )
370
370
 
371
371
 
@@ -385,7 +385,8 @@ def _add_annotations(
385
385
  y = 1 - pos.get("y_mm", 0) / canvas_height_mm
386
386
 
387
387
  fig.text(
388
- x, y,
388
+ x,
389
+ y,
389
390
  ann.get("content", ""),
390
391
  fontsize=ann.get("fontsize", 10),
391
392
  color=ann.get("color", "#000000"),
@@ -406,7 +407,8 @@ def _add_title(
406
407
  y = 1 - pos.get("y_mm", 5) / canvas_height_mm
407
408
 
408
409
  fig.text(
409
- x, y,
410
+ x,
411
+ y,
410
412
  title_config.get("text", ""),
411
413
  fontsize=title_config.get("fontsize", 14),
412
414
  ha="center",
@@ -448,7 +450,8 @@ def _add_caption(
448
450
  wrapped_text = textwrap.fill(text, width=wrap_width)
449
451
 
450
452
  fig.text(
451
- x, y_norm,
453
+ x,
454
+ y_norm,
452
455
  wrapped_text,
453
456
  fontsize=fontsize,
454
457
  ha="left",
@@ -47,7 +47,7 @@ def load_figure_json(
47
47
 
48
48
  # Validate if requested
49
49
  if validate:
50
- from ..backend.parser import validate_figure_json
50
+ from ..backend._parser import validate_figure_json
51
51
 
52
52
  validate_figure_json(fig_json)
53
53
 
@@ -13,9 +13,9 @@ from pathlib import Path
13
13
  from typing import Dict, Any, Union, List, Optional
14
14
  import shutil
15
15
 
16
- from .directory import get_canvas_directory_path
17
- from .canvas import load_canvas_json, save_canvas_json
18
- from .data import compute_file_hash
16
+ from ._directory import get_canvas_directory_path
17
+ from ._canvas import load_canvas_json, save_canvas_json
18
+ from ._data import compute_file_hash
19
19
 
20
20
 
21
21
  def _symlink_or_copy(source: Path, dest: Path, bundle: bool = False) -> None:
@@ -142,7 +142,9 @@ def add_panel_from_scitex(
142
142
  canvas_json = load_canvas_json(project_dir, canvas_name, verify_data_hashes=False)
143
143
 
144
144
  # Remove existing panel with same name
145
- canvas_json["panels"] = [p for p in canvas_json["panels"] if p.get("name") != panel_name]
145
+ canvas_json["panels"] = [
146
+ p for p in canvas_json["panels"] if p.get("name") != panel_name
147
+ ]
146
148
 
147
149
  # Add new panel
148
150
  canvas_json["panels"].append(panel_entry)
@@ -153,13 +155,14 @@ def add_panel_from_scitex(
153
155
  csv_hash = compute_file_hash(panel_dir / "panel.csv")
154
156
  # Remove existing reference
155
157
  canvas_json["data_files"] = [
156
- d for d in canvas_json.get("data_files", [])
157
- if d.get("path") != csv_path
158
+ d for d in canvas_json.get("data_files", []) if d.get("path") != csv_path
158
159
  ]
159
- canvas_json["data_files"].append({
160
- "path": csv_path,
161
- "hash": csv_hash,
162
- })
160
+ canvas_json["data_files"].append(
161
+ {
162
+ "path": csv_path,
163
+ "hash": csv_hash,
164
+ }
165
+ )
163
166
 
164
167
  save_canvas_json(project_dir, canvas_name, canvas_json)
165
168
 
@@ -222,7 +225,9 @@ def add_panel_from_image(
222
225
  canvas_json = load_canvas_json(project_dir, canvas_name, verify_data_hashes=False)
223
226
 
224
227
  # Remove existing panel with same name
225
- canvas_json["panels"] = [p for p in canvas_json["panels"] if p.get("name") != panel_name]
228
+ canvas_json["panels"] = [
229
+ p for p in canvas_json["panels"] if p.get("name") != panel_name
230
+ ]
226
231
 
227
232
  # Add new panel
228
233
  canvas_json["panels"].append(panel_entry)
@@ -261,11 +266,14 @@ def remove_panel(
261
266
  canvas_json = load_canvas_json(project_dir, canvas_name, verify_data_hashes=False)
262
267
 
263
268
  original_count = len(canvas_json["panels"])
264
- canvas_json["panels"] = [p for p in canvas_json["panels"] if p.get("name") != panel_name]
269
+ canvas_json["panels"] = [
270
+ p for p in canvas_json["panels"] if p.get("name") != panel_name
271
+ ]
265
272
 
266
273
  # Remove data file references for this panel
267
274
  canvas_json["data_files"] = [
268
- d for d in canvas_json.get("data_files", [])
275
+ d
276
+ for d in canvas_json.get("data_files", [])
269
277
  if not d.get("path", "").startswith(f"panels/{panel_name}/")
270
278
  ]
271
279
 
File without changes
@@ -8,12 +8,12 @@ This module provides dataclass-based models for representing
8
8
  publication-quality figures as JSON structures.
9
9
  """
10
10
 
11
- from .figure import FigureModel
12
- from .axes import AxesModel
13
- from .plot import PlotModel
14
- from .guides import GuideModel
15
- from .annotations import AnnotationModel
16
- from .styles import (
11
+ from ._figure import FigureModel
12
+ from ._axes import AxesModel
13
+ from ._plot import PlotModel
14
+ from ._guides import GuideModel
15
+ from ._annotations import AnnotationModel
16
+ from ._styles import (
17
17
  PlotStyle,
18
18
  AxesStyle,
19
19
  GuideStyle,
@@ -24,7 +24,7 @@ from .styles import (
24
24
  copy_text_style,
25
25
  apply_style_to_plots,
26
26
  )
27
- from .plot_types import (
27
+ from ._plot_types import (
28
28
  # Registry
29
29
  PLOT_TYPE_CONFIGS,
30
30
  get_plot_config_class,
@@ -6,7 +6,7 @@
6
6
  from typing import Optional, Dict, Any, Tuple
7
7
  from dataclasses import dataclass, field, asdict
8
8
 
9
- from .styles import TextStyle
9
+ from ._styles import TextStyle
10
10
 
11
11
 
12
12
  @dataclass
@@ -94,9 +94,7 @@ class AnnotationModel:
94
94
  # Type-specific validation
95
95
  if self.annotation_type in ["text", "annotate"]:
96
96
  if not self.text:
97
- raise ValueError(
98
- f"{self.annotation_type} requires 'text' parameter"
99
- )
97
+ raise ValueError(f"{self.annotation_type} requires 'text' parameter")
100
98
 
101
99
  if self.annotation_type == "annotate":
102
100
  if self.xytext is None:
@@ -6,7 +6,7 @@
6
6
  from typing import Optional, List, Dict, Any
7
7
  from dataclasses import dataclass, field, asdict
8
8
 
9
- from .styles import AxesStyle
9
+ from ._styles import AxesStyle
10
10
 
11
11
 
12
12
  @dataclass
File without changes
@@ -6,7 +6,7 @@
6
6
  from typing import Optional, List, Dict, Any
7
7
  from dataclasses import dataclass, field, asdict
8
8
 
9
- from .styles import GuideStyle
9
+ from ._styles import GuideStyle
10
10
 
11
11
 
12
12
  @dataclass
@@ -6,7 +6,7 @@
6
6
  from typing import Optional, List, Dict, Any
7
7
  from dataclasses import dataclass, field, asdict
8
8
 
9
- from .styles import PlotStyle
9
+ from ._styles import PlotStyle
10
10
 
11
11
 
12
12
  @dataclass
@@ -104,9 +104,7 @@ class PlotModel:
104
104
  # Type-specific validation
105
105
  if self.plot_type in ["heatmap", "imshow"]:
106
106
  if "z" not in self.data and "img" not in self.data:
107
- raise ValueError(
108
- f"{self.plot_type} requires 'z' or 'img' in data"
109
- )
107
+ raise ValueError(f"{self.plot_type} requires 'z' or 'img' in data")
110
108
 
111
109
  elif self.plot_type in ["line", "scatter", "errorbar"]:
112
110
  if "x" not in self.data or "y" not in self.data:
File without changes
File without changes
@@ -8,7 +8,7 @@ Includes validation functions and default templates for
8
8
  common publication formats.
9
9
  """
10
10
 
11
- from .validate import (
11
+ from ._validate import (
12
12
  validate_json_structure,
13
13
  validate_plot_data,
14
14
  check_schema_version,
@@ -16,7 +16,7 @@ from .validate import (
16
16
  validate_axes_layout,
17
17
  )
18
18
 
19
- from .defaults import (
19
+ from ._defaults import (
20
20
  # Constants
21
21
  NATURE_SINGLE_COLUMN_MM,
22
22
  NATURE_DOUBLE_COLUMN_MM,
@@ -313,8 +313,7 @@ def get_template(name: str, **kwargs) -> Dict[str, Any]:
313
313
  """
314
314
  if name not in TEMPLATES:
315
315
  raise ValueError(
316
- f"Unknown template: {name}. "
317
- f"Available: {list(TEMPLATES.keys())}"
316
+ f"Unknown template: {name}. Available: {list(TEMPLATES.keys())}"
318
317
  )
319
318
 
320
319
  return TEMPLATES[name](**kwargs)