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.
- scitex/__init__.py +19 -8
- scitex/__main__.py +2 -1
- scitex/__version__.py +1 -1
- scitex/_optional_deps.py +13 -20
- scitex/ai/__init__.py +5 -0
- scitex/ai/_gen_ai/_Anthropic.py +3 -1
- scitex/ai/_gen_ai/_BaseGenAI.py +3 -2
- scitex/ai/_gen_ai/_DeepSeek.py +1 -1
- scitex/ai/_gen_ai/_Google.py +3 -2
- scitex/ai/_gen_ai/_Llama.py +4 -2
- scitex/ai/_gen_ai/_OpenAI.py +3 -1
- scitex/ai/_gen_ai/_PARAMS.py +1 -0
- scitex/ai/_gen_ai/_Perplexity.py +3 -1
- scitex/ai/_gen_ai/__init__.py +1 -0
- scitex/ai/_gen_ai/_format_output_func.py +3 -1
- scitex/ai/classification/CrossValidationExperiment.py +8 -14
- scitex/ai/classification/examples/timeseries_cv_demo.py +128 -112
- scitex/ai/classification/reporters/_BaseClassificationReporter.py +2 -0
- scitex/ai/classification/reporters/_ClassificationReporter.py +30 -45
- scitex/ai/classification/reporters/_MultiClassificationReporter.py +8 -11
- scitex/ai/classification/reporters/_SingleClassificationReporter.py +126 -182
- scitex/ai/classification/reporters/__init__.py +1 -1
- scitex/ai/classification/reporters/reporter_utils/_Plotter.py +213 -119
- scitex/ai/classification/reporters/reporter_utils/__init__.py +28 -36
- scitex/ai/classification/reporters/reporter_utils/aggregation.py +125 -143
- scitex/ai/classification/reporters/reporter_utils/data_models.py +128 -120
- scitex/ai/classification/reporters/reporter_utils/reporting.py +507 -340
- scitex/ai/classification/reporters/reporter_utils/storage.py +4 -1
- scitex/ai/classification/reporters/reporter_utils/validation.py +141 -154
- scitex/ai/classification/timeseries/_TimeSeriesBlockingSplit.py +204 -129
- scitex/ai/classification/timeseries/_TimeSeriesCalendarSplit.py +215 -171
- scitex/ai/classification/timeseries/_TimeSeriesMetadata.py +17 -17
- scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +67 -143
- scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit_v01-not-using-n_splits.py +67 -143
- scitex/ai/classification/timeseries/_TimeSeriesStrategy.py +12 -13
- scitex/ai/classification/timeseries/_TimeSeriesStratifiedSplit.py +231 -144
- scitex/ai/classification/timeseries/__init__.py +2 -4
- scitex/ai/classification/timeseries/_normalize_timestamp.py +3 -0
- scitex/ai/clustering/_pca.py +0 -1
- scitex/ai/clustering/_umap.py +1 -2
- scitex/ai/feature_extraction/__init__.py +10 -8
- scitex/ai/feature_extraction/vit.py +0 -1
- scitex/ai/feature_selection/feature_selection.py +3 -8
- scitex/ai/metrics/_calc_conf_mat.py +2 -0
- scitex/ai/metrics/_calc_feature_importance.py +3 -7
- scitex/ai/metrics/_calc_pre_rec_auc.py +5 -5
- scitex/ai/metrics/_calc_roc_auc.py +4 -2
- scitex/ai/metrics/_calc_seizure_prediction_metrics.py +35 -20
- scitex/ai/metrics/_calc_silhouette_score.py +1 -3
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger.py +0 -3
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger2020.py +0 -3
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger913A.py +0 -3
- scitex/ai/optim/_optimizers.py +1 -1
- scitex/ai/plt/__init__.py +6 -1
- scitex/ai/plt/_plot_feature_importance.py +1 -3
- scitex/ai/plt/_plot_learning_curve.py +9 -24
- scitex/ai/plt/_plot_optuna_study.py +4 -3
- scitex/ai/plt/_plot_pre_rec_curve.py +9 -15
- scitex/ai/plt/_plot_roc_curve.py +6 -8
- scitex/ai/plt/_stx_conf_mat.py +121 -122
- scitex/ai/sampling/undersample.py +3 -2
- scitex/ai/sklearn/__init__.py +2 -2
- scitex/ai/training/_LearningCurveLogger.py +23 -10
- scitex/ai/utils/_check_params.py +0 -1
- scitex/benchmark/__init__.py +15 -25
- scitex/benchmark/benchmark.py +124 -117
- scitex/benchmark/monitor.py +117 -107
- scitex/benchmark/profiler.py +61 -58
- scitex/bridge/__init__.py +110 -0
- scitex/bridge/_helpers.py +149 -0
- scitex/bridge/_plt_vis.py +529 -0
- scitex/bridge/_protocol.py +283 -0
- scitex/bridge/_stats_plt.py +261 -0
- scitex/bridge/_stats_vis.py +265 -0
- scitex/browser/__init__.py +0 -2
- scitex/browser/auth/__init__.py +0 -0
- scitex/browser/auth/google.py +16 -11
- scitex/browser/automation/CookieHandler.py +2 -3
- scitex/browser/collaboration/__init__.py +3 -0
- scitex/browser/collaboration/auth_helpers.py +3 -1
- scitex/browser/collaboration/collaborative_agent.py +2 -0
- scitex/browser/collaboration/interactive_panel.py +2 -2
- scitex/browser/collaboration/shared_session.py +20 -11
- scitex/browser/collaboration/standard_interactions.py +1 -0
- scitex/browser/core/BrowserMixin.py +12 -30
- scitex/browser/core/ChromeProfileManager.py +9 -24
- scitex/browser/debugging/_browser_logger.py +15 -25
- scitex/browser/debugging/_failure_capture.py +9 -2
- scitex/browser/debugging/_highlight_element.py +15 -6
- scitex/browser/debugging/_show_grid.py +5 -6
- scitex/browser/debugging/_sync_session.py +4 -3
- scitex/browser/debugging/_test_monitor.py +14 -5
- scitex/browser/debugging/_visual_cursor.py +46 -35
- scitex/browser/interaction/click_center.py +4 -3
- scitex/browser/interaction/click_with_fallbacks.py +7 -10
- scitex/browser/interaction/close_popups.py +79 -66
- scitex/browser/interaction/fill_with_fallbacks.py +8 -8
- scitex/browser/pdf/__init__.py +3 -1
- scitex/browser/pdf/click_download_for_chrome_pdf_viewer.py +11 -10
- scitex/browser/pdf/detect_chrome_pdf_viewer.py +3 -6
- scitex/browser/remote/CaptchaHandler.py +109 -96
- scitex/browser/remote/ZenRowsAPIClient.py +91 -97
- scitex/browser/remote/ZenRowsBrowserManager.py +138 -112
- scitex/browser/stealth/HumanBehavior.py +4 -9
- scitex/browser/stealth/StealthManager.py +11 -26
- scitex/capture/__init__.py +17 -17
- scitex/capture/__main__.py +2 -3
- scitex/capture/capture.py +23 -51
- scitex/capture/cli.py +14 -39
- scitex/capture/gif.py +5 -9
- scitex/capture/mcp_server.py +7 -20
- scitex/capture/session.py +4 -3
- scitex/capture/utils.py +18 -53
- scitex/cli/__init__.py +1 -1
- scitex/cli/cloud.py +158 -116
- scitex/cli/config.py +224 -0
- scitex/cli/main.py +41 -40
- scitex/cli/scholar.py +60 -27
- scitex/cli/security.py +14 -20
- scitex/cli/web.py +87 -90
- scitex/cli/writer.py +51 -45
- scitex/cloud/__init__.py +14 -11
- scitex/cloud/_matplotlib_hook.py +6 -6
- scitex/config/README.md +313 -0
- scitex/config/{PriorityConfig.py → _PriorityConfig.py} +114 -17
- scitex/config/_ScitexConfig.py +319 -0
- scitex/config/__init__.py +41 -9
- scitex/config/_paths.py +325 -0
- scitex/config/default.yaml +81 -0
- scitex/context/_suppress_output.py +2 -3
- scitex/db/_BaseMixins/_BaseBackupMixin.py +3 -1
- scitex/db/_BaseMixins/_BaseBatchMixin.py +3 -1
- scitex/db/_BaseMixins/_BaseBlobMixin.py +3 -1
- scitex/db/_BaseMixins/_BaseImportExportMixin.py +1 -3
- scitex/db/_BaseMixins/_BaseIndexMixin.py +3 -1
- scitex/db/_BaseMixins/_BaseMaintenanceMixin.py +1 -3
- scitex/db/_BaseMixins/_BaseQueryMixin.py +3 -1
- scitex/db/_BaseMixins/_BaseRowMixin.py +3 -1
- scitex/db/_BaseMixins/_BaseTableMixin.py +3 -1
- scitex/db/_BaseMixins/_BaseTransactionMixin.py +1 -3
- scitex/db/_BaseMixins/__init__.py +1 -1
- scitex/db/__init__.py +9 -1
- scitex/db/__main__.py +8 -21
- scitex/db/_check_health.py +15 -31
- scitex/db/_delete_duplicates.py +7 -4
- scitex/db/_inspect.py +22 -38
- scitex/db/_inspect_optimized.py +89 -85
- scitex/db/_postgresql/_PostgreSQL.py +0 -1
- scitex/db/_postgresql/_PostgreSQLMixins/_BlobMixin.py +3 -1
- scitex/db/_postgresql/_PostgreSQLMixins/_ConnectionMixin.py +1 -3
- scitex/db/_postgresql/_PostgreSQLMixins/_ImportExportMixin.py +1 -3
- scitex/db/_postgresql/_PostgreSQLMixins/_MaintenanceMixin.py +1 -4
- scitex/db/_postgresql/_PostgreSQLMixins/_QueryMixin.py +3 -3
- scitex/db/_postgresql/_PostgreSQLMixins/_RowMixin.py +3 -1
- scitex/db/_postgresql/_PostgreSQLMixins/_TransactionMixin.py +1 -3
- scitex/db/_postgresql/__init__.py +1 -1
- scitex/db/_sqlite3/_SQLite3.py +2 -4
- scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin.py +11 -12
- scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin_v01-need-_hash-col.py +19 -14
- scitex/db/_sqlite3/_SQLite3Mixins/_BatchMixin.py +3 -1
- scitex/db/_sqlite3/_SQLite3Mixins/_BlobMixin.py +7 -7
- scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin.py +118 -111
- scitex/db/_sqlite3/_SQLite3Mixins/_ConnectionMixin.py +8 -10
- scitex/db/_sqlite3/_SQLite3Mixins/_GitMixin.py +17 -45
- scitex/db/_sqlite3/_SQLite3Mixins/_ImportExportMixin.py +1 -3
- scitex/db/_sqlite3/_SQLite3Mixins/_IndexMixin.py +3 -1
- scitex/db/_sqlite3/_SQLite3Mixins/_QueryMixin.py +3 -4
- scitex/db/_sqlite3/_SQLite3Mixins/_RowMixin.py +9 -9
- scitex/db/_sqlite3/_SQLite3Mixins/_TableMixin.py +18 -11
- scitex/db/_sqlite3/_SQLite3Mixins/__init__.py +1 -0
- scitex/db/_sqlite3/__init__.py +1 -1
- scitex/db/_sqlite3/_delete_duplicates.py +13 -11
- scitex/decorators/__init__.py +29 -4
- scitex/decorators/_auto_order.py +43 -43
- scitex/decorators/_batch_fn.py +12 -6
- scitex/decorators/_cache_disk.py +8 -9
- scitex/decorators/_cache_disk_async.py +8 -7
- scitex/decorators/_combined.py +19 -13
- scitex/decorators/_converters.py +16 -3
- scitex/decorators/_deprecated.py +32 -22
- scitex/decorators/_numpy_fn.py +18 -4
- scitex/decorators/_pandas_fn.py +17 -5
- scitex/decorators/_signal_fn.py +17 -3
- scitex/decorators/_torch_fn.py +32 -15
- scitex/decorators/_xarray_fn.py +23 -9
- scitex/dev/_analyze_code_flow.py +0 -2
- scitex/dict/_DotDict.py +15 -19
- scitex/dict/_flatten.py +1 -0
- scitex/dict/_listed_dict.py +1 -0
- scitex/dict/_pop_keys.py +1 -0
- scitex/dict/_replace.py +1 -0
- scitex/dict/_safe_merge.py +1 -0
- scitex/dict/_to_str.py +2 -3
- scitex/dsp/__init__.py +13 -4
- scitex/dsp/_crop.py +3 -1
- scitex/dsp/_detect_ripples.py +3 -1
- scitex/dsp/_modulation_index.py +3 -1
- scitex/dsp/_time.py +3 -1
- scitex/dsp/_wavelet.py +0 -1
- scitex/dsp/example.py +0 -5
- scitex/dsp/filt.py +4 -0
- scitex/dsp/utils/__init__.py +4 -1
- scitex/dsp/utils/pac.py +3 -3
- scitex/dt/_normalize_timestamp.py +4 -1
- scitex/errors.py +3 -6
- scitex/etc/__init__.py +1 -1
- scitex/gen/_DimHandler.py +6 -6
- scitex/gen/__init__.py +5 -1
- scitex/gen/_deprecated_close.py +1 -0
- scitex/gen/_deprecated_start.py +5 -3
- scitex/gen/_detect_environment.py +44 -41
- scitex/gen/_detect_notebook_path.py +51 -47
- scitex/gen/_embed.py +1 -1
- scitex/gen/_get_notebook_path.py +81 -62
- scitex/gen/_inspect_module.py +0 -1
- scitex/gen/_norm.py +16 -7
- scitex/gen/_norm_cache.py +78 -65
- scitex/gen/_print_config.py +0 -3
- scitex/gen/_src.py +2 -3
- scitex/gen/_title_case.py +3 -2
- scitex/gen/_to_even.py +8 -8
- scitex/gen/_transpose.py +3 -3
- scitex/gen/misc.py +0 -3
- scitex/gists/_SigMacro_processFigure_S.py +2 -2
- scitex/gists/_SigMacro_toBlue.py +2 -2
- scitex/gists/__init__.py +4 -1
- scitex/git/_branch.py +19 -11
- scitex/git/_clone.py +23 -15
- scitex/git/_commit.py +10 -12
- scitex/git/_init.py +15 -38
- scitex/git/_remote.py +9 -3
- scitex/git/_result.py +3 -0
- scitex/git/_retry.py +2 -5
- scitex/git/_types.py +4 -0
- scitex/git/_validation.py +8 -8
- scitex/git/_workflow.py +4 -4
- scitex/io/__init__.py +2 -1
- scitex/io/_glob.py +2 -2
- scitex/io/_json2md.py +3 -3
- scitex/io/_load.py +6 -8
- scitex/io/_load_cache.py +71 -71
- scitex/io/_load_configs.py +2 -3
- scitex/io/_load_modules/_H5Explorer.py +6 -12
- scitex/io/_load_modules/_ZarrExplorer.py +3 -3
- scitex/io/_load_modules/_bibtex.py +62 -63
- scitex/io/_load_modules/_canvas.py +4 -9
- scitex/io/_load_modules/_catboost.py +7 -2
- scitex/io/_load_modules/_hdf5.py +2 -0
- scitex/io/_load_modules/_image.py +5 -1
- scitex/io/_load_modules/_matlab.py +3 -1
- scitex/io/_load_modules/_optuna.py +0 -1
- scitex/io/_load_modules/_pdf.py +38 -29
- scitex/io/_load_modules/_sqlite3.py +1 -0
- scitex/io/_load_modules/_txt.py +2 -0
- scitex/io/_load_modules/_xml.py +9 -9
- scitex/io/_load_modules/_zarr.py +12 -10
- scitex/io/_metadata.py +76 -37
- scitex/io/_qr_utils.py +18 -13
- scitex/io/_save.py +220 -63
- scitex/io/_save_modules/__init__.py +7 -2
- scitex/io/_save_modules/_bibtex.py +66 -61
- scitex/io/_save_modules/_canvas.py +5 -6
- scitex/io/_save_modules/_catboost.py +2 -2
- scitex/io/_save_modules/_csv.py +4 -4
- scitex/io/_save_modules/_excel.py +5 -9
- scitex/io/_save_modules/_hdf5.py +9 -21
- scitex/io/_save_modules/_html.py +5 -5
- scitex/io/_save_modules/_image.py +105 -8
- scitex/io/_save_modules/_joblib.py +2 -2
- scitex/io/_save_modules/_json.py +51 -6
- scitex/io/_save_modules/_listed_dfs_as_csv.py +2 -1
- scitex/io/_save_modules/_listed_scalars_as_csv.py +2 -1
- scitex/io/_save_modules/_matlab.py +2 -2
- scitex/io/_save_modules/_numpy.py +6 -8
- scitex/io/_save_modules/_pickle.py +4 -4
- scitex/io/_save_modules/_plotly.py +3 -3
- scitex/io/_save_modules/_tex.py +23 -25
- scitex/io/_save_modules/_text.py +2 -2
- scitex/io/_save_modules/_yaml.py +9 -9
- scitex/io/_save_modules/_zarr.py +15 -15
- scitex/io/utils/__init__.py +2 -1
- scitex/io/utils/h5_to_zarr.py +173 -155
- scitex/linalg/__init__.py +1 -1
- scitex/linalg/_geometric_median.py +4 -3
- scitex/logging/_Tee.py +5 -7
- scitex/logging/__init__.py +18 -19
- scitex/logging/_config.py +4 -1
- scitex/logging/_context.py +6 -5
- scitex/logging/_formatters.py +2 -3
- scitex/logging/_handlers.py +19 -20
- scitex/logging/_levels.py +9 -17
- scitex/logging/_logger.py +74 -15
- scitex/logging/_print_capture.py +17 -17
- scitex/nn/_BNet.py +1 -3
- scitex/nn/_Filters.py +6 -2
- scitex/nn/_ModulationIndex.py +3 -1
- scitex/nn/_PAC.py +3 -2
- scitex/nn/_PSD.py +0 -1
- scitex/nn/__init__.py +16 -3
- scitex/path/_clean.py +10 -8
- scitex/path/_find.py +1 -1
- scitex/path/_get_spath.py +1 -2
- scitex/path/_mk_spath.py +1 -1
- scitex/path/_symlink.py +5 -10
- scitex/pd/__init__.py +4 -1
- scitex/pd/_force_df.py +24 -24
- scitex/pd/_get_unique.py +1 -0
- scitex/pd/_merge_columns.py +1 -1
- scitex/pd/_round.py +11 -7
- scitex/pd/_to_xy.py +0 -1
- scitex/plt/REQUESTS.md +191 -0
- scitex/plt/__init__.py +185 -87
- scitex/plt/_subplots/_AxesWrapper.py +22 -6
- scitex/plt/_subplots/_AxisWrapper.py +100 -39
- scitex/plt/_subplots/_AxisWrapperMixins/_AdjustmentMixin.py +74 -52
- scitex/plt/_subplots/_AxisWrapperMixins/_MatplotlibPlotMixin.py +183 -73
- scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin.py +61 -45
- scitex/plt/_subplots/_AxisWrapperMixins/_TrackingMixin.py +26 -14
- scitex/plt/_subplots/_AxisWrapperMixins/_UnitAwareMixin.py +80 -73
- scitex/plt/_subplots/_FigWrapper.py +93 -60
- scitex/plt/_subplots/_SubplotsWrapper.py +135 -68
- scitex/plt/_subplots/__init__.py +10 -0
- scitex/plt/_subplots/_export_as_csv.py +89 -47
- scitex/plt/_subplots/_export_as_csv_formatters/__init__.py +1 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_annotate.py +6 -4
- scitex/plt/_subplots/_export_as_csv_formatters/_format_bar.py +88 -38
- scitex/plt/_subplots/_export_as_csv_formatters/_format_barh.py +25 -31
- scitex/plt/_subplots/_export_as_csv_formatters/_format_boxplot.py +53 -23
- scitex/plt/_subplots/_export_as_csv_formatters/_format_contour.py +38 -25
- scitex/plt/_subplots/_export_as_csv_formatters/_format_contourf.py +17 -9
- scitex/plt/_subplots/_export_as_csv_formatters/_format_errorbar.py +70 -124
- scitex/plt/_subplots/_export_as_csv_formatters/_format_eventplot.py +12 -10
- scitex/plt/_subplots/_export_as_csv_formatters/_format_fill.py +31 -17
- scitex/plt/_subplots/_export_as_csv_formatters/_format_fill_between.py +33 -21
- scitex/plt/_subplots/_export_as_csv_formatters/_format_hexbin.py +14 -4
- scitex/plt/_subplots/_export_as_csv_formatters/_format_hist.py +43 -29
- scitex/plt/_subplots/_export_as_csv_formatters/_format_hist2d.py +14 -4
- scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow.py +27 -11
- scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow2d.py +7 -5
- scitex/plt/_subplots/_export_as_csv_formatters/_format_matshow.py +9 -7
- scitex/plt/_subplots/_export_as_csv_formatters/_format_pie.py +15 -6
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot.py +85 -46
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_box.py +52 -27
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_imshow.py +1 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_kde.py +16 -17
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_scatter.py +7 -5
- scitex/plt/_subplots/_export_as_csv_formatters/_format_quiver.py +10 -8
- scitex/plt/_subplots/_export_as_csv_formatters/_format_scatter.py +17 -6
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_barplot.py +43 -26
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_boxplot.py +68 -47
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_heatmap.py +52 -64
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_histplot.py +55 -50
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_jointplot.py +9 -11
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_kdeplot.py +63 -29
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_lineplot.py +4 -4
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_pairplot.py +6 -4
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_scatterplot.py +44 -40
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_stripplot.py +46 -39
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_swarmplot.py +46 -39
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_violinplot.py +75 -94
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stem.py +12 -3
- scitex/plt/_subplots/_export_as_csv_formatters/_format_step.py +12 -3
- scitex/plt/_subplots/_export_as_csv_formatters/_format_streamplot.py +10 -8
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_conf_mat.py +17 -15
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_ecdf.py +10 -9
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_fillv.py +35 -31
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_heatmap.py +18 -18
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_image.py +24 -18
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_joyplot.py +9 -7
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_line.py +34 -23
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_mean_ci.py +15 -13
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_mean_std.py +12 -10
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_median_iqr.py +15 -13
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_raster.py +11 -9
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_rectangle.py +84 -56
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_scatter_hist.py +35 -32
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_shaded_line.py +46 -30
- scitex/plt/_subplots/_export_as_csv_formatters/_format_stx_violin.py +51 -51
- scitex/plt/_subplots/_export_as_csv_formatters/_format_text.py +32 -31
- scitex/plt/_subplots/_export_as_csv_formatters/_format_violin.py +34 -31
- scitex/plt/_subplots/_export_as_csv_formatters/_format_violinplot.py +44 -37
- scitex/plt/_subplots/_export_as_csv_formatters/verify_formatters.py +91 -74
- scitex/plt/_tpl.py +6 -5
- scitex/plt/ax/_plot/__init__.py +24 -0
- scitex/plt/ax/_plot/_add_fitted_line.py +12 -11
- scitex/plt/ax/_plot/_plot_circular_hist.py +3 -1
- scitex/plt/ax/_plot/_plot_statistical_shaded_line.py +25 -19
- scitex/plt/ax/_plot/_stx_conf_mat.py +6 -3
- scitex/plt/ax/_plot/_stx_ecdf.py +5 -3
- scitex/plt/ax/_plot/_stx_fillv.py +4 -2
- scitex/plt/ax/_plot/_stx_heatmap.py +7 -4
- scitex/plt/ax/_plot/_stx_image.py +7 -5
- scitex/plt/ax/_plot/_stx_joyplot.py +32 -10
- scitex/plt/ax/_plot/_stx_raster.py +26 -11
- scitex/plt/ax/_plot/_stx_rectangle.py +2 -2
- scitex/plt/ax/_plot/_stx_shaded_line.py +15 -11
- scitex/plt/ax/_plot/_stx_violin.py +3 -1
- scitex/plt/ax/_style/_add_marginal_ax.py +6 -4
- scitex/plt/ax/_style/_auto_scale_axis.py +14 -10
- scitex/plt/ax/_style/_extend.py +3 -1
- scitex/plt/ax/_style/_force_aspect.py +5 -3
- scitex/plt/ax/_style/_format_units.py +2 -2
- scitex/plt/ax/_style/_hide_spines.py +5 -1
- scitex/plt/ax/_style/_map_ticks.py +5 -3
- scitex/plt/ax/_style/_rotate_labels.py +5 -4
- scitex/plt/ax/_style/_rotate_labels_v01.py +73 -63
- scitex/plt/ax/_style/_set_log_scale.py +120 -85
- scitex/plt/ax/_style/_set_meta.py +99 -76
- scitex/plt/ax/_style/_set_supxyt.py +33 -16
- scitex/plt/ax/_style/_set_xyt.py +27 -18
- scitex/plt/ax/_style/_share_axes.py +15 -5
- scitex/plt/ax/_style/_show_spines.py +58 -57
- scitex/plt/ax/_style/_style_barplot.py +1 -1
- scitex/plt/ax/_style/_style_boxplot.py +25 -14
- scitex/plt/ax/_style/_style_errorbar.py +0 -0
- scitex/plt/ax/_style/_style_scatter.py +1 -1
- scitex/plt/ax/_style/_style_suptitles.py +3 -3
- scitex/plt/ax/_style/_style_violinplot.py +8 -2
- scitex/plt/color/__init__.py +34 -2
- scitex/plt/color/_add_hue_col.py +1 -0
- scitex/plt/color/_colors.py +0 -1
- scitex/plt/color/_get_colors_from_conf_matap.py +3 -1
- scitex/plt/color/_vizualize_colors.py +0 -1
- scitex/plt/docs/FIGURE_ARCHITECTURE.md +155 -97
- scitex/plt/gallery/README.md +75 -0
- scitex/plt/gallery/__init__.py +29 -0
- scitex/plt/gallery/_generate.py +153 -0
- scitex/plt/gallery/_plots.py +594 -0
- scitex/plt/gallery/_registry.py +153 -0
- scitex/plt/styles/__init__.py +9 -9
- scitex/plt/styles/_plot_defaults.py +62 -61
- scitex/plt/styles/_plot_postprocess.py +126 -77
- scitex/plt/styles/_style_loader.py +0 -0
- scitex/plt/styles/presets.py +43 -18
- scitex/plt/templates/research-master/scitex/vis/gallery/area/fill_between.json +110 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/area/fill_betweenx.json +88 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/area/stx_fill_between.json +103 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/area/stx_fillv.json +106 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/bar.json +92 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/barh.json +92 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/boxplot.json +92 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/stx_bar.json +84 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/stx_barh.json +84 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/stx_box.json +83 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/stx_boxplot.json +93 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/stx_violin.json +91 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/stx_violinplot.json +91 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/categorical/violinplot.json +91 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/contour/contour.json +97 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/contour/contourf.json +98 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/contour/stx_contour.json +84 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/distribution/hist.json +101 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/distribution/hist2d.json +96 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/distribution/stx_ecdf.json +95 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/distribution/stx_joyplot.json +95 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/distribution/stx_kde.json +93 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/grid/imshow.json +95 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/grid/matshow.json +95 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/grid/stx_conf_mat.json +83 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/grid/stx_heatmap.json +92 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/grid/stx_image.json +121 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/grid/stx_imshow.json +84 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/line/plot.json +110 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/line/step.json +92 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/line/stx_line.json +95 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/line/stx_shaded_line.json +96 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/scatter/hexbin.json +95 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/scatter/scatter.json +95 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/scatter/stem.json +92 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/scatter/stx_scatter.json +84 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/special/pie.json +94 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/special/stx_raster.json +109 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/special/stx_rectangle.json +108 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/statistical/errorbar.json +93 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/statistical/stx_errorbar.json +84 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/statistical/stx_mean_ci.json +96 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/statistical/stx_mean_std.json +96 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/statistical/stx_median_iqr.json +96 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/vector/quiver.json +99 -0
- scitex/plt/templates/research-master/scitex/vis/gallery/vector/streamplot.json +100 -0
- scitex/plt/utils/__init__.py +29 -2
- scitex/plt/utils/_close.py +8 -3
- scitex/plt/utils/_collect_figure_metadata.py +3031 -265
- scitex/plt/utils/_colorbar.py +15 -17
- scitex/plt/utils/_configure_mpl.py +22 -14
- scitex/plt/utils/_crop.py +60 -27
- scitex/plt/utils/_csv_column_naming.py +123 -72
- scitex/plt/utils/_dimension_viewer.py +7 -19
- scitex/plt/utils/_figure_from_axes_mm.py +70 -16
- scitex/plt/utils/_figure_mm.py +3 -2
- scitex/plt/utils/_get_actual_font.py +5 -4
- scitex/plt/utils/_histogram_utils.py +52 -48
- scitex/plt/utils/_is_valid_axis.py +19 -13
- scitex/plt/utils/_mk_colorbar.py +3 -3
- scitex/plt/utils/_scientific_captions.py +202 -139
- scitex/plt/utils/_scitex_config.py +98 -98
- scitex/plt/utils/_units.py +0 -0
- scitex/plt/utils/metadata/__init__.py +36 -0
- scitex/plt/utils/metadata/_artist_extraction.py +119 -0
- scitex/plt/utils/metadata/_axes_metadata.py +93 -0
- scitex/plt/utils/metadata/_collection_artists.py +292 -0
- scitex/plt/utils/metadata/_core.py +208 -0
- scitex/plt/utils/metadata/_csv_column_extraction.py +186 -0
- scitex/plt/utils/metadata/_csv_hash.py +115 -0
- scitex/plt/utils/metadata/_csv_verification.py +95 -0
- scitex/plt/utils/metadata/_data_linkage.py +263 -0
- scitex/plt/utils/metadata/_dimensions.py +239 -0
- scitex/plt/utils/metadata/_figure_metadata.py +58 -0
- scitex/plt/utils/metadata/_image_text_artists.py +168 -0
- scitex/plt/utils/metadata/_label_parsing.py +82 -0
- scitex/plt/utils/metadata/_legend_extraction.py +120 -0
- scitex/plt/utils/metadata/_line_artists.py +367 -0
- scitex/plt/utils/metadata/_line_semantic_handling.py +173 -0
- scitex/plt/utils/metadata/_patch_artists.py +211 -0
- scitex/plt/utils/metadata/_plot_content.py +26 -0
- scitex/plt/utils/metadata/_plot_type_detection.py +184 -0
- scitex/plt/utils/metadata/_precision.py +134 -0
- scitex/plt/utils/metadata/_precision_config.py +68 -0
- scitex/plt/utils/metadata/_precision_sections.py +211 -0
- scitex/plt/utils/metadata/_recipe_extraction.py +267 -0
- scitex/plt/utils/metadata/_style_parsing.py +174 -0
- scitex/repro/_RandomStateManager.py +33 -38
- scitex/repro/__init__.py +16 -7
- scitex/repro/_gen_ID.py +7 -9
- scitex/repro/_gen_timestamp.py +7 -6
- scitex/repro/_hash_array.py +8 -12
- scitex/reproduce/__init__.py +1 -1
- scitex/resource/_get_processor_usages.py +3 -1
- scitex/resource/_log_processor_usages.py +3 -1
- scitex/rng/__init__.py +1 -1
- scitex/schema/README.md +178 -0
- scitex/schema/__init__.py +144 -0
- scitex/schema/_canvas.py +444 -0
- scitex/schema/_stats.py +762 -0
- scitex/schema/_validation.py +590 -0
- scitex/scholar/.legacy/Scholar.py +5 -12
- scitex/scholar/.legacy/_Scholar.py +66 -99
- scitex/scholar/.legacy/_ScholarAPI.py +75 -66
- scitex/scholar/.legacy/_tmp/search_engine/_BaseSearchEngine.py +3 -3
- scitex/scholar/.legacy/_tmp/search_engine/_UnifiedSearcher.py +4 -9
- scitex/scholar/.legacy/_tmp/search_engine/__init__.py +14 -21
- scitex/scholar/.legacy/_tmp/search_engine/local/_LocalSearchEngine.py +40 -37
- scitex/scholar/.legacy/_tmp/search_engine/local/_VectorSearchEngine.py +31 -28
- scitex/scholar/.legacy/_tmp/search_engine/web/_ArxivSearchEngine.py +74 -65
- scitex/scholar/.legacy/_tmp/search_engine/web/_CrossRefSearchEngine.py +122 -116
- scitex/scholar/.legacy/_tmp/search_engine/web/_GoogleScholarSearchEngine.py +65 -59
- scitex/scholar/.legacy/_tmp/search_engine/web/_PubMedSearchEngine.py +121 -107
- scitex/scholar/.legacy/_tmp/search_engine/web/_SemanticScholarSearchEngine.py +5 -12
- scitex/scholar/.legacy/database/_DatabaseEntry.py +49 -45
- scitex/scholar/.legacy/database/_DatabaseIndex.py +131 -94
- scitex/scholar/.legacy/database/_LibraryManager.py +65 -63
- scitex/scholar/.legacy/database/_PaperDatabase.py +138 -124
- scitex/scholar/.legacy/database/_ScholarDatabaseIntegration.py +14 -36
- scitex/scholar/.legacy/database/_StorageIntegratedDB.py +192 -156
- scitex/scholar/.legacy/database/_ZoteroCompatibleDB.py +300 -237
- scitex/scholar/.legacy/database/__init__.py +2 -1
- scitex/scholar/.legacy/database/manage.py +92 -84
- scitex/scholar/.legacy/lookup/_LookupIndex.py +157 -101
- scitex/scholar/.legacy/lookup/__init__.py +2 -1
- scitex/scholar/.legacy/metadata/doi/batch/_MetadataHandlerForBatchDOIResolution.py +4 -9
- scitex/scholar/.legacy/metadata/doi/batch/_ProgressManagerForBatchDOIResolution.py +10 -23
- scitex/scholar/.legacy/metadata/doi/batch/_SourceStatsManagerForBatchDOIResolution.py +4 -9
- scitex/scholar/.legacy/metadata/doi/batch/__init__.py +3 -1
- scitex/scholar/.legacy/metadata/doi/resolvers/_BatchDOIResolver.py +10 -25
- scitex/scholar/.legacy/metadata/doi/resolvers/_BibTeXDOIResolver.py +19 -49
- scitex/scholar/.legacy/metadata/doi/resolvers/_DOIResolver.py +1 -0
- scitex/scholar/.legacy/metadata/doi/resolvers/_SingleDOIResolver.py +8 -20
- scitex/scholar/.legacy/metadata/doi/sources/.combined-SemanticScholarSource/_SemanticScholarSource.py +37 -35
- scitex/scholar/.legacy/metadata/doi/sources/.combined-SemanticScholarSource/_SemanticScholarSourceEnhanced.py +49 -37
- scitex/scholar/.legacy/metadata/doi/sources/_ArXivSource.py +11 -30
- scitex/scholar/.legacy/metadata/doi/sources/_BaseDOISource.py +19 -47
- scitex/scholar/.legacy/metadata/doi/sources/_CrossRefLocalSource.py +1 -0
- scitex/scholar/.legacy/metadata/doi/sources/_CrossRefSource.py +12 -33
- scitex/scholar/.legacy/metadata/doi/sources/_OpenAlexSource.py +8 -20
- scitex/scholar/.legacy/metadata/doi/sources/_PubMedSource.py +10 -27
- scitex/scholar/.legacy/metadata/doi/sources/_SemanticScholarSource.py +11 -29
- scitex/scholar/.legacy/metadata/doi/sources/_SourceManager.py +8 -21
- scitex/scholar/.legacy/metadata/doi/sources/_SourceResolutionStrategy.py +24 -55
- scitex/scholar/.legacy/metadata/doi/sources/_SourceRotationManager.py +8 -21
- scitex/scholar/.legacy/metadata/doi/sources/_URLDOISource.py +9 -16
- scitex/scholar/.legacy/metadata/doi/sources/_UnifiedSource.py +8 -22
- scitex/scholar/.legacy/metadata/doi/sources/__init__.py +1 -0
- scitex/scholar/.legacy/metadata/doi/utils/_PubMedConverter.py +4 -8
- scitex/scholar/.legacy/metadata/doi/utils/_RateLimitHandler.py +17 -43
- scitex/scholar/.legacy/metadata/doi/utils/_TextNormalizer.py +8 -18
- scitex/scholar/.legacy/metadata/doi/utils/_URLDOIExtractor.py +4 -8
- scitex/scholar/.legacy/metadata/doi/utils/__init__.py +1 -0
- scitex/scholar/.legacy/metadata/doi/utils/_to_complete_metadata_structure.py +1 -0
- scitex/scholar/.legacy/metadata/enrichment/_LibraryEnricher.py +2 -3
- scitex/scholar/.legacy/metadata/enrichment/enrichers/_ImpactFactorEnricher.py +6 -12
- scitex/scholar/.legacy/metadata/enrichment/enrichers/_SmartEnricher.py +5 -10
- scitex/scholar/.legacy/metadata/enrichment/sources/_UnifiedMetadataSource.py +4 -5
- scitex/scholar/.legacy/metadata/query_to_full_meta_json.py +8 -12
- scitex/scholar/.legacy/metadata/urls/_URLMetadataHandler.py +3 -3
- scitex/scholar/.legacy/metadata/urls/_ZoteroTranslatorRunner.py +15 -21
- scitex/scholar/.legacy/metadata/urls/__init__.py +3 -3
- scitex/scholar/.legacy/metadata/urls/_finder.py +4 -6
- scitex/scholar/.legacy/metadata/urls/_handler.py +7 -15
- scitex/scholar/.legacy/metadata/urls/_resolver.py +6 -12
- scitex/scholar/.legacy/search/_Embedder.py +74 -69
- scitex/scholar/.legacy/search/_SemanticSearch.py +91 -90
- scitex/scholar/.legacy/search/_SemanticSearchEngine.py +104 -109
- scitex/scholar/.legacy/search/_UnifiedSearcher.py +530 -471
- scitex/scholar/.legacy/search/_VectorDatabase.py +111 -92
- scitex/scholar/.legacy/search/__init__.py +1 -0
- scitex/scholar/.legacy/storage/_EnhancedStorageManager.py +182 -154
- scitex/scholar/.legacy/storage/__init__.py +2 -1
- scitex/scholar/__init__.py +0 -2
- scitex/scholar/__main__.py +1 -3
- scitex/scholar/auth/ScholarAuthManager.py +13 -36
- scitex/scholar/auth/core/AuthenticationGateway.py +15 -29
- scitex/scholar/auth/core/BrowserAuthenticator.py +22 -57
- scitex/scholar/auth/core/StrategyResolver.py +10 -27
- scitex/scholar/auth/core/__init__.py +5 -1
- scitex/scholar/auth/gateway/_OpenURLLinkFinder.py +11 -21
- scitex/scholar/auth/gateway/_OpenURLResolver.py +10 -18
- scitex/scholar/auth/gateway/_resolve_functions.py +3 -3
- scitex/scholar/auth/providers/BaseAuthenticator.py +1 -0
- scitex/scholar/auth/providers/EZProxyAuthenticator.py +7 -14
- scitex/scholar/auth/providers/OpenAthensAuthenticator.py +29 -57
- scitex/scholar/auth/providers/ShibbolethAuthenticator.py +87 -73
- scitex/scholar/auth/session/AuthCacheManager.py +12 -22
- scitex/scholar/auth/session/SessionManager.py +4 -6
- scitex/scholar/auth/sso/BaseSSOAutomator.py +13 -19
- scitex/scholar/auth/sso/OpenAthensSSOAutomator.py +16 -45
- scitex/scholar/auth/sso/SSOAutomator.py +8 -15
- scitex/scholar/auth/sso/UniversityOfMelbourneSSOAutomator.py +13 -23
- scitex/scholar/browser/ScholarBrowserManager.py +31 -56
- scitex/scholar/browser/__init__.py +1 -0
- scitex/scholar/browser/utils/click_and_wait.py +3 -4
- scitex/scholar/browser/utils/close_unwanted_pages.py +4 -7
- scitex/scholar/browser/utils/wait_redirects.py +15 -40
- scitex/scholar/citation_graph/__init__.py +0 -0
- scitex/scholar/citation_graph/builder.py +3 -7
- scitex/scholar/citation_graph/database.py +4 -11
- scitex/scholar/citation_graph/example.py +5 -10
- scitex/scholar/citation_graph/models.py +0 -0
- scitex/scholar/cli/_url_utils.py +1 -1
- scitex/scholar/cli/chrome.py +5 -3
- scitex/scholar/cli/download_pdf.py +13 -14
- scitex/scholar/cli/handlers/bibtex_handler.py +4 -12
- scitex/scholar/cli/handlers/doi_handler.py +1 -3
- scitex/scholar/cli/handlers/project_handler.py +6 -20
- scitex/scholar/cli/open_browser.py +41 -39
- scitex/scholar/cli/open_browser_auto.py +31 -39
- scitex/scholar/cli/open_browser_monitored.py +27 -24
- scitex/scholar/config/ScholarConfig.py +5 -8
- scitex/scholar/config/__init__.py +1 -0
- scitex/scholar/config/core/_CascadeConfig.py +3 -3
- scitex/scholar/config/core/_PathManager.py +16 -28
- scitex/scholar/core/Paper.py +79 -78
- scitex/scholar/core/Papers.py +16 -27
- scitex/scholar/core/Scholar.py +98 -229
- scitex/scholar/core/journal_normalizer.py +52 -49
- scitex/scholar/core/oa_cache.py +27 -23
- scitex/scholar/core/open_access.py +17 -8
- scitex/scholar/docs/template.py +4 -3
- scitex/scholar/docs/to_claude/examples/example-python-project-scitex/scripts/mnist/clf_svm.py +0 -0
- scitex/scholar/docs/to_claude/examples/example-python-project-scitex/scripts/mnist/download.py +0 -0
- scitex/scholar/docs/to_claude/examples/example-python-project-scitex/scripts/mnist/plot_conf_mat.py +0 -0
- scitex/scholar/docs/to_claude/examples/example-python-project-scitex/scripts/mnist/plot_digits.py +0 -0
- scitex/scholar/docs/to_claude/examples/example-python-project-scitex/scripts/mnist/plot_umap_space.py +0 -0
- scitex/scholar/examples/00_config.py +10 -9
- scitex/scholar/examples/01_auth.py +3 -0
- scitex/scholar/examples/02_browser.py +14 -10
- scitex/scholar/examples/03_01-engine.py +3 -0
- scitex/scholar/examples/03_02-engine-for-bibtex.py +4 -3
- scitex/scholar/examples/04_01-url.py +9 -9
- scitex/scholar/examples/04_02-url-for-bibtex.py +7 -3
- scitex/scholar/examples/04_02-url-for-dois.py +87 -97
- scitex/scholar/examples/05_download_pdf.py +10 -4
- scitex/scholar/examples/06_find_and_download.py +6 -6
- scitex/scholar/examples/06_parse_bibtex.py +17 -17
- scitex/scholar/examples/07_storage_integration.py +6 -9
- scitex/scholar/examples/99_fullpipeline-for-bibtex.py +14 -15
- scitex/scholar/examples/99_fullpipeline-for-one-entry.py +31 -23
- scitex/scholar/examples/99_maintenance.py +3 -0
- scitex/scholar/examples/dev.py +2 -3
- scitex/scholar/examples/zotero_integration.py +11 -18
- scitex/scholar/impact_factor/ImpactFactorEngine.py +7 -9
- scitex/scholar/impact_factor/estimation/__init__.py +4 -4
- scitex/scholar/impact_factor/estimation/core/__init__.py +3 -7
- scitex/scholar/impact_factor/estimation/core/cache_manager.py +223 -211
- scitex/scholar/impact_factor/estimation/core/calculator.py +165 -131
- scitex/scholar/impact_factor/estimation/core/journal_matcher.py +217 -172
- scitex/scholar/impact_factor/jcr/ImpactFactorJCREngine.py +6 -14
- scitex/scholar/impact_factor/jcr/build_database.py +4 -3
- scitex/scholar/integration/base.py +9 -17
- scitex/scholar/integration/mendeley/exporter.py +2 -4
- scitex/scholar/integration/mendeley/importer.py +3 -3
- scitex/scholar/integration/mendeley/linker.py +3 -3
- scitex/scholar/integration/mendeley/mapper.py +9 -6
- scitex/scholar/integration/zotero/__main__.py +26 -43
- scitex/scholar/integration/zotero/exporter.py +15 -11
- scitex/scholar/integration/zotero/importer.py +12 -10
- scitex/scholar/integration/zotero/linker.py +8 -12
- scitex/scholar/integration/zotero/mapper.py +17 -12
- scitex/scholar/metadata_engines/.combined-SemanticScholarSource/_SemanticScholarSource.py +37 -35
- scitex/scholar/metadata_engines/.combined-SemanticScholarSource/_SemanticScholarSourceEnhanced.py +47 -35
- scitex/scholar/metadata_engines/ScholarEngine.py +21 -43
- scitex/scholar/metadata_engines/__init__.py +1 -0
- scitex/scholar/metadata_engines/individual/ArXivEngine.py +15 -37
- scitex/scholar/metadata_engines/individual/CrossRefEngine.py +15 -42
- scitex/scholar/metadata_engines/individual/CrossRefLocalEngine.py +24 -45
- scitex/scholar/metadata_engines/individual/OpenAlexEngine.py +11 -21
- scitex/scholar/metadata_engines/individual/PubMedEngine.py +10 -27
- scitex/scholar/metadata_engines/individual/SemanticScholarEngine.py +28 -35
- scitex/scholar/metadata_engines/individual/URLDOIEngine.py +11 -22
- scitex/scholar/metadata_engines/individual/_BaseDOIEngine.py +20 -49
- scitex/scholar/metadata_engines/utils/_PubMedConverter.py +4 -8
- scitex/scholar/metadata_engines/utils/_URLDOIExtractor.py +5 -10
- scitex/scholar/metadata_engines/utils/__init__.py +2 -0
- scitex/scholar/metadata_engines/utils/_metadata2bibtex.py +3 -0
- scitex/scholar/metadata_engines/utils/_standardize_metadata.py +2 -3
- scitex/scholar/pdf_download/ScholarPDFDownloader.py +25 -37
- scitex/scholar/pdf_download/strategies/chrome_pdf_viewer.py +11 -19
- scitex/scholar/pdf_download/strategies/direct_download.py +5 -9
- scitex/scholar/pdf_download/strategies/manual_download_fallback.py +3 -3
- scitex/scholar/pdf_download/strategies/manual_download_utils.py +6 -13
- scitex/scholar/pdf_download/strategies/open_access_download.py +49 -31
- scitex/scholar/pdf_download/strategies/response_body.py +8 -19
- scitex/scholar/pipelines/ScholarPipelineBibTeX.py +9 -18
- scitex/scholar/pipelines/ScholarPipelineMetadataParallel.py +25 -26
- scitex/scholar/pipelines/ScholarPipelineMetadataSingle.py +62 -23
- scitex/scholar/pipelines/ScholarPipelineParallel.py +13 -30
- scitex/scholar/pipelines/ScholarPipelineSearchParallel.py +299 -220
- scitex/scholar/pipelines/ScholarPipelineSearchSingle.py +202 -165
- scitex/scholar/pipelines/ScholarPipelineSingle.py +25 -51
- scitex/scholar/pipelines/SearchQueryParser.py +55 -55
- scitex/scholar/search_engines/ScholarSearchEngine.py +31 -27
- scitex/scholar/search_engines/_BaseSearchEngine.py +20 -23
- scitex/scholar/search_engines/individual/ArXivSearchEngine.py +53 -35
- scitex/scholar/search_engines/individual/CrossRefSearchEngine.py +47 -40
- scitex/scholar/search_engines/individual/OpenAlexSearchEngine.py +55 -50
- scitex/scholar/search_engines/individual/PubMedSearchEngine.py +8 -10
- scitex/scholar/search_engines/individual/SemanticScholarSearchEngine.py +55 -49
- scitex/scholar/storage/BibTeXHandler.py +150 -95
- scitex/scholar/storage/PaperIO.py +3 -6
- scitex/scholar/storage/ScholarLibrary.py +70 -49
- scitex/scholar/storage/_DeduplicationManager.py +52 -25
- scitex/scholar/storage/_LibraryCacheManager.py +19 -46
- scitex/scholar/storage/_LibraryManager.py +65 -175
- scitex/scholar/url_finder/ScholarURLFinder.py +9 -25
- scitex/scholar/url_finder/strategies/find_pdf_urls_by_direct_links.py +1 -1
- scitex/scholar/url_finder/strategies/find_pdf_urls_by_href.py +6 -10
- scitex/scholar/url_finder/strategies/find_pdf_urls_by_navigation.py +4 -6
- scitex/scholar/url_finder/strategies/find_pdf_urls_by_publisher_patterns.py +8 -15
- scitex/scholar/url_finder/strategies/find_pdf_urls_by_zotero_translators.py +3 -3
- scitex/scholar/url_finder/strategies/find_supplementary_urls_by_href.py +3 -3
- scitex/scholar/url_finder/translators/core/patterns.py +6 -4
- scitex/scholar/url_finder/translators/core/registry.py +6 -9
- scitex/scholar/url_finder/translators/individual/BOFiP_Impots.py +60 -52
- scitex/scholar/url_finder/translators/individual/Baidu_Scholar.py +54 -62
- scitex/scholar/url_finder/translators/individual/Bangkok_Post.py +38 -44
- scitex/scholar/url_finder/translators/individual/Baruch_Foundation.py +43 -47
- scitex/scholar/url_finder/translators/individual/Beobachter.py +46 -50
- scitex/scholar/url_finder/translators/individual/Bezneng_Gajit.py +37 -41
- scitex/scholar/url_finder/translators/individual/BibLaTeX.py +59 -52
- scitex/scholar/url_finder/translators/individual/BibTeX.py +83 -79
- scitex/scholar/url_finder/translators/individual/Biblio_com.py +48 -51
- scitex/scholar/url_finder/translators/individual/Bibliontology_RDF.py +58 -56
- scitex/scholar/url_finder/translators/individual/Camara_Brasileira_do_Livro_ISBN.py +102 -99
- scitex/scholar/url_finder/translators/individual/CanLII.py +49 -43
- scitex/scholar/url_finder/translators/individual/Canada_com.py +36 -40
- scitex/scholar/url_finder/translators/individual/Canadian_Letters_and_Images.py +43 -43
- scitex/scholar/url_finder/translators/individual/Canadiana_ca.py +77 -66
- scitex/scholar/url_finder/translators/individual/Cascadilla_Proceedings_Project.py +68 -62
- scitex/scholar/url_finder/translators/individual/Central_and_Eastern_European_Online_Library_Journals.py +60 -60
- scitex/scholar/url_finder/translators/individual/Champlain_Society_Collection.py +63 -61
- scitex/scholar/url_finder/translators/individual/Chicago_Journal_of_Theoretical_Computer_Science.py +74 -58
- scitex/scholar/url_finder/translators/individual/Christian_Science_Monitor.py +32 -38
- scitex/scholar/url_finder/translators/individual/Columbia_University_Press.py +51 -47
- scitex/scholar/url_finder/translators/individual/Common_Place.py +66 -57
- scitex/scholar/url_finder/translators/individual/Cornell_LII.py +66 -62
- scitex/scholar/url_finder/translators/individual/Cornell_University_Press.py +38 -45
- scitex/scholar/url_finder/translators/individual/CourtListener.py +52 -56
- scitex/scholar/url_finder/translators/individual/DAI_Zenon.py +53 -54
- scitex/scholar/url_finder/translators/individual/access_medicine.py +27 -33
- scitex/scholar/url_finder/translators/individual/acm.py +1 -1
- scitex/scholar/url_finder/translators/individual/acm_digital_library.py +93 -63
- scitex/scholar/url_finder/translators/individual/airiti.py +3 -1
- scitex/scholar/url_finder/translators/individual/aosic.py +3 -1
- scitex/scholar/url_finder/translators/individual/archive_ouverte_aosic.py +3 -1
- scitex/scholar/url_finder/translators/individual/archive_ouverte_en_sciences_de_l_information_et_de_la_communication___aosic_.py +6 -2
- scitex/scholar/url_finder/translators/individual/artforum.py +35 -27
- scitex/scholar/url_finder/translators/individual/arxiv.py +1 -1
- scitex/scholar/url_finder/translators/individual/arxiv_org.py +8 -4
- scitex/scholar/url_finder/translators/individual/atlanta_journal_constitution.py +22 -18
- scitex/scholar/url_finder/translators/individual/atypon_journals.py +19 -11
- scitex/scholar/url_finder/translators/individual/austlii_and_nzlii.py +48 -44
- scitex/scholar/url_finder/translators/individual/australian_dictionary_of_biography.py +21 -17
- scitex/scholar/url_finder/translators/individual/bailii.py +22 -19
- scitex/scholar/url_finder/translators/individual/bbc.py +46 -42
- scitex/scholar/url_finder/translators/individual/bbc_genome.py +37 -25
- scitex/scholar/url_finder/translators/individual/biblioteca_nacional_de_maestros.py +24 -20
- scitex/scholar/url_finder/translators/individual/bibliotheque_archives_nationale_quebec_pistard.py +42 -43
- scitex/scholar/url_finder/translators/individual/bibliotheque_archives_nationales_quebec.py +87 -81
- scitex/scholar/url_finder/translators/individual/bibliotheque_nationale_france.py +39 -37
- scitex/scholar/url_finder/translators/individual/bibsys.py +32 -28
- scitex/scholar/url_finder/translators/individual/bioconductor.py +58 -52
- scitex/scholar/url_finder/translators/individual/biomed_central.py +23 -15
- scitex/scholar/url_finder/translators/individual/biorxiv.py +26 -13
- scitex/scholar/url_finder/translators/individual/blogger.py +39 -43
- scitex/scholar/url_finder/translators/individual/bloomberg.py +48 -52
- scitex/scholar/url_finder/translators/individual/bloomsbury_food_library.py +37 -37
- scitex/scholar/url_finder/translators/individual/bluesky.py +30 -28
- scitex/scholar/url_finder/translators/individual/bnf_isbn.py +1 -1
- scitex/scholar/url_finder/translators/individual/bocc.py +66 -60
- scitex/scholar/url_finder/translators/individual/boe.py +52 -52
- scitex/scholar/url_finder/translators/individual/brill.py +3 -1
- scitex/scholar/url_finder/translators/individual/business_standard.py +36 -38
- scitex/scholar/url_finder/translators/individual/cabi_cab_abstracts.py +39 -41
- scitex/scholar/url_finder/translators/individual/cambridge.py +3 -1
- scitex/scholar/url_finder/translators/individual/cambridge_core.py +30 -24
- scitex/scholar/url_finder/translators/individual/caod.py +50 -46
- scitex/scholar/url_finder/translators/individual/cbc.py +91 -67
- scitex/scholar/url_finder/translators/individual/ccfr_bnf.py +49 -53
- scitex/scholar/url_finder/translators/individual/cia_world_factbook.py +43 -33
- scitex/scholar/url_finder/translators/individual/crossref_rest.py +208 -174
- scitex/scholar/url_finder/translators/individual/current_affairs.py +29 -35
- scitex/scholar/url_finder/translators/individual/dabi.py +70 -66
- scitex/scholar/url_finder/translators/individual/dagens_nyheter.py +3 -1
- scitex/scholar/url_finder/translators/individual/dagstuhl.py +10 -15
- scitex/scholar/url_finder/translators/individual/dar_almandumah.py +13 -9
- scitex/scholar/url_finder/translators/individual/dart_europe.py +19 -22
- scitex/scholar/url_finder/translators/individual/data_gov.py +2 -2
- scitex/scholar/url_finder/translators/individual/databrary.py +27 -28
- scitex/scholar/url_finder/translators/individual/datacite_json.py +152 -137
- scitex/scholar/url_finder/translators/individual/dataverse.py +68 -64
- scitex/scholar/url_finder/translators/individual/daum_news.py +38 -38
- scitex/scholar/url_finder/translators/individual/dblp.py +4 -8
- scitex/scholar/url_finder/translators/individual/dblp_computer_science_bibliography.py +8 -3
- scitex/scholar/url_finder/translators/individual/dbpia.py +5 -3
- scitex/scholar/url_finder/translators/individual/defense_technical_information_center.py +30 -28
- scitex/scholar/url_finder/translators/individual/delpher.py +102 -79
- scitex/scholar/url_finder/translators/individual/demographic_research.py +35 -31
- scitex/scholar/url_finder/translators/individual/denik_cz.py +58 -54
- scitex/scholar/url_finder/translators/individual/depatisnet.py +7 -10
- scitex/scholar/url_finder/translators/individual/der_freitag.py +81 -66
- scitex/scholar/url_finder/translators/individual/der_spiegel.py +56 -54
- scitex/scholar/url_finder/translators/individual/digibib_net.py +3 -1
- scitex/scholar/url_finder/translators/individual/digizeitschriften.py +3 -1
- scitex/scholar/url_finder/translators/individual/dpla.py +13 -14
- scitex/scholar/url_finder/translators/individual/dspace.py +2 -2
- scitex/scholar/url_finder/translators/individual/ebrary.py +3 -1
- scitex/scholar/url_finder/translators/individual/ebscohost.py +3 -1
- scitex/scholar/url_finder/translators/individual/electronic_colloquium_on_computational_complexity.py +3 -1
- scitex/scholar/url_finder/translators/individual/elife.py +3 -1
- scitex/scholar/url_finder/translators/individual/elsevier_health_journals.py +3 -1
- scitex/scholar/url_finder/translators/individual/emerald.py +3 -1
- scitex/scholar/url_finder/translators/individual/emerald_insight.py +3 -1
- scitex/scholar/url_finder/translators/individual/epicurious.py +3 -1
- scitex/scholar/url_finder/translators/individual/eurogamerusgamer.py +3 -1
- scitex/scholar/url_finder/translators/individual/fachportal_padagogik.py +3 -1
- scitex/scholar/url_finder/translators/individual/frontiers.py +1 -1
- scitex/scholar/url_finder/translators/individual/gale_databases.py +3 -1
- scitex/scholar/url_finder/translators/individual/gms_german_medical_science.py +6 -2
- scitex/scholar/url_finder/translators/individual/ieee_computer_society.py +6 -2
- scitex/scholar/url_finder/translators/individual/ieee_xplore.py +41 -35
- scitex/scholar/url_finder/translators/individual/inter_research_science_center.py +6 -2
- scitex/scholar/url_finder/translators/individual/jisc_historical_texts.py +3 -1
- scitex/scholar/url_finder/translators/individual/jstor.py +14 -12
- scitex/scholar/url_finder/translators/individual/korean_national_library.py +3 -1
- scitex/scholar/url_finder/translators/individual/la_times.py +3 -1
- scitex/scholar/url_finder/translators/individual/landesbibliographie_baden_wurttemberg.py +3 -1
- scitex/scholar/url_finder/translators/individual/legislative_insight.py +3 -1
- scitex/scholar/url_finder/translators/individual/libraries_tasmania.py +3 -1
- scitex/scholar/url_finder/translators/individual/library_catalog__koha_.py +3 -1
- scitex/scholar/url_finder/translators/individual/lingbuzz.py +2 -2
- scitex/scholar/url_finder/translators/individual/max_planck_institute_for_the_history_of_science_virtual_laboratory_library.py +3 -1
- scitex/scholar/url_finder/translators/individual/mdpi.py +12 -6
- scitex/scholar/url_finder/translators/individual/microbiology_society_journals.py +3 -1
- scitex/scholar/url_finder/translators/individual/midas_journals.py +3 -1
- scitex/scholar/url_finder/translators/individual/nagoya_university_opac.py +3 -1
- scitex/scholar/url_finder/translators/individual/nature_publishing_group.py +32 -19
- scitex/scholar/url_finder/translators/individual/ntsb_accident_reports.py +3 -1
- scitex/scholar/url_finder/translators/individual/openedition_journals.py +8 -4
- scitex/scholar/url_finder/translators/individual/orcid.py +16 -15
- scitex/scholar/url_finder/translators/individual/oxford.py +25 -19
- scitex/scholar/url_finder/translators/individual/oxford_dictionaries_premium.py +3 -1
- scitex/scholar/url_finder/translators/individual/ozon_ru.py +3 -1
- scitex/scholar/url_finder/translators/individual/plos.py +9 -12
- scitex/scholar/url_finder/translators/individual/polygon.py +3 -1
- scitex/scholar/url_finder/translators/individual/primo.py +3 -1
- scitex/scholar/url_finder/translators/individual/project_muse.py +3 -1
- scitex/scholar/url_finder/translators/individual/pubfactory_journals.py +3 -1
- scitex/scholar/url_finder/translators/individual/pubmed.py +71 -65
- scitex/scholar/url_finder/translators/individual/pubmed_central.py +8 -6
- scitex/scholar/url_finder/translators/individual/rechtspraak_nl.py +3 -1
- scitex/scholar/url_finder/translators/individual/sage_journals.py +25 -17
- scitex/scholar/url_finder/translators/individual/sciencedirect.py +36 -17
- scitex/scholar/url_finder/translators/individual/semantics_visual_library.py +3 -1
- scitex/scholar/url_finder/translators/individual/silverchair.py +70 -52
- scitex/scholar/url_finder/translators/individual/sora.py +3 -1
- scitex/scholar/url_finder/translators/individual/springer.py +15 -11
- scitex/scholar/url_finder/translators/individual/ssrn.py +3 -3
- scitex/scholar/url_finder/translators/individual/stanford_encyclopedia_of_philosophy.py +3 -1
- scitex/scholar/url_finder/translators/individual/superlib.py +3 -1
- scitex/scholar/url_finder/translators/individual/treesearch.py +3 -1
- scitex/scholar/url_finder/translators/individual/university_of_chicago_press_books.py +3 -1
- scitex/scholar/url_finder/translators/individual/vlex.py +3 -1
- scitex/scholar/url_finder/translators/individual/web_of_science.py +3 -1
- scitex/scholar/url_finder/translators/individual/web_of_science_nextgen.py +3 -1
- scitex/scholar/url_finder/translators/individual/wiley.py +31 -25
- scitex/scholar/url_finder/translators/individual/wilson_center_digital_archive.py +3 -1
- scitex/scholar/utils/bibtex/_parse_bibtex.py +3 -3
- scitex/scholar/utils/cleanup/_cleanup_scholar_processes.py +5 -9
- scitex/scholar/utils/text/_TextNormalizer.py +249 -176
- scitex/scholar/utils/validation/DOIValidator.py +31 -28
- scitex/scholar/utils/validation/__init__.py +0 -0
- scitex/scholar/utils/validation/validate_library_dois.py +61 -57
- scitex/scholar/zotero/__init__.py +1 -1
- scitex/security/cli.py +7 -20
- scitex/security/github.py +45 -32
- scitex/session/__init__.py +8 -9
- scitex/session/_decorator.py +49 -42
- scitex/session/_lifecycle.py +39 -39
- scitex/session/_manager.py +24 -20
- scitex/sh/__init__.py +4 -3
- scitex/sh/_execute.py +10 -7
- scitex/sh/_security.py +3 -3
- scitex/sh/_types.py +2 -3
- scitex/stats/__init__.py +57 -6
- scitex/stats/_schema.py +42 -569
- scitex/stats/auto/__init__.py +188 -0
- scitex/stats/auto/_context.py +331 -0
- scitex/stats/auto/_formatting.py +679 -0
- scitex/stats/auto/_rules.py +901 -0
- scitex/stats/auto/_selector.py +554 -0
- scitex/stats/auto/_styles.py +721 -0
- scitex/stats/correct/__init__.py +4 -4
- scitex/stats/correct/_correct_bonferroni.py +43 -34
- scitex/stats/correct/_correct_fdr.py +14 -40
- scitex/stats/correct/_correct_fdr_.py +39 -46
- scitex/stats/correct/_correct_holm.py +14 -32
- scitex/stats/correct/_correct_sidak.py +36 -21
- scitex/stats/descriptive/_circular.py +20 -21
- scitex/stats/descriptive/_describe.py +19 -5
- scitex/stats/descriptive/_nan.py +5 -7
- scitex/stats/descriptive/_real.py +4 -3
- scitex/stats/effect_sizes/__init__.py +10 -11
- scitex/stats/effect_sizes/_cliffs_delta.py +35 -32
- scitex/stats/effect_sizes/_cohens_d.py +30 -31
- scitex/stats/effect_sizes/_epsilon_squared.py +19 -22
- scitex/stats/effect_sizes/_eta_squared.py +23 -27
- scitex/stats/effect_sizes/_prob_superiority.py +18 -21
- scitex/stats/posthoc/__init__.py +3 -3
- scitex/stats/posthoc/_dunnett.py +75 -55
- scitex/stats/posthoc/_games_howell.py +61 -43
- scitex/stats/posthoc/_tukey_hsd.py +42 -34
- scitex/stats/power/__init__.py +2 -2
- scitex/stats/power/_power.py +56 -56
- scitex/stats/tests/__init__.py +1 -1
- scitex/stats/tests/correlation/__init__.py +1 -1
- scitex/stats/tests/correlation/_test_pearson.py +28 -38
- scitex/stats/utils/__init__.py +14 -17
- scitex/stats/utils/_effect_size.py +85 -78
- scitex/stats/utils/_formatters.py +49 -43
- scitex/stats/utils/_normalizers.py +7 -14
- scitex/stats/utils/_power.py +56 -56
- scitex/str/__init__.py +1 -0
- scitex/str/_clean_path.py +3 -3
- scitex/str/_factor_out_digits.py +86 -58
- scitex/str/_format_plot_text.py +180 -111
- scitex/str/_latex.py +19 -19
- scitex/str/_latex_fallback.py +9 -10
- scitex/str/_parse.py +3 -6
- scitex/str/_print_debug.py +13 -13
- scitex/str/_printc.py +2 -0
- scitex/str/_search.py +3 -3
- scitex/template/.legacy/_clone_project.py +9 -13
- scitex/template/__init__.py +10 -2
- scitex/template/_clone_project.py +7 -2
- scitex/template/_copy.py +1 -0
- scitex/template/_customize.py +3 -6
- scitex/template/_git_strategy.py +2 -3
- scitex/template/_rename.py +1 -0
- scitex/template/clone_pip_project.py +6 -7
- scitex/template/clone_research.py +7 -10
- scitex/template/clone_singularity.py +6 -7
- scitex/template/clone_writer_directory.py +6 -7
- scitex/tex/_preview.py +26 -11
- scitex/tex/_to_vec.py +10 -7
- scitex/torch/__init__.py +11 -1
- scitex/types/_ArrayLike.py +2 -0
- scitex/types/_is_listed_X.py +3 -3
- scitex/units.py +110 -77
- scitex/utils/_compress_hdf5.py +3 -3
- scitex/utils/_email.py +8 -4
- scitex/utils/_notify.py +14 -8
- scitex/utils/_search.py +6 -6
- scitex/utils/_verify_scitex_format.py +17 -42
- scitex/utils/_verify_scitex_format_v01.py +12 -34
- scitex/utils/template.py +4 -3
- scitex/vis/__init__.py +0 -0
- scitex/vis/backend/__init__.py +3 -3
- scitex/vis/backend/{export.py → _export.py} +1 -1
- scitex/vis/backend/{parser.py → _parser.py} +1 -3
- scitex/vis/backend/{render.py → _render.py} +1 -1
- scitex/vis/canvas.py +15 -3
- scitex/vis/editor/__init__.py +0 -0
- scitex/vis/editor/_dearpygui_editor.py +450 -304
- scitex/vis/editor/_defaults.py +114 -123
- scitex/vis/editor/_edit.py +38 -26
- scitex/vis/editor/_flask_editor.py +8 -8
- scitex/vis/editor/_mpl_editor.py +63 -48
- scitex/vis/editor/_qt_editor.py +210 -159
- scitex/vis/editor/_tkinter_editor.py +146 -89
- scitex/vis/editor/flask_editor/__init__.py +10 -10
- scitex/vis/editor/flask_editor/_bbox.py +529 -0
- scitex/vis/editor/flask_editor/{core.py → _core.py} +45 -29
- scitex/vis/editor/flask_editor/_plotter.py +567 -0
- scitex/vis/editor/flask_editor/_renderer.py +393 -0
- scitex/vis/editor/flask_editor/{utils.py → _utils.py} +13 -14
- scitex/vis/editor/flask_editor/templates/__init__.py +5 -5
- scitex/vis/editor/flask_editor/templates/{html.py → _html.py} +234 -16
- scitex/vis/editor/flask_editor/templates/_scripts.py +1261 -0
- scitex/vis/editor/flask_editor/templates/{styles.py → _styles.py} +192 -2
- scitex/vis/io/__init__.py +5 -5
- scitex/vis/io/{canvas.py → _canvas.py} +8 -4
- scitex/vis/io/{data.py → _data.py} +13 -9
- scitex/vis/io/{directory.py → _directory.py} +7 -4
- scitex/vis/io/{export.py → _export.py} +15 -12
- scitex/vis/io/{load.py → _load.py} +1 -1
- scitex/vis/io/{panel.py → _panel.py} +21 -13
- scitex/vis/io/{save.py → _save.py} +0 -0
- scitex/vis/model/__init__.py +7 -7
- scitex/vis/model/{annotations.py → _annotations.py} +2 -4
- scitex/vis/model/{axes.py → _axes.py} +1 -1
- scitex/vis/model/{figure.py → _figure.py} +0 -0
- scitex/vis/model/{guides.py → _guides.py} +1 -1
- scitex/vis/model/{plot.py → _plot.py} +2 -4
- scitex/vis/model/{plot_types.py → _plot_types.py} +0 -0
- scitex/vis/model/{styles.py → _styles.py} +0 -0
- scitex/vis/utils/__init__.py +2 -2
- scitex/vis/utils/{defaults.py → _defaults.py} +1 -2
- scitex/vis/utils/{validate.py → _validate.py} +3 -9
- scitex/web/__init__.py +7 -1
- scitex/web/_scraping.py +54 -38
- scitex/web/_search_pubmed.py +30 -14
- scitex/writer/.legacy/Writer_v01-refactored.py +4 -4
- scitex/writer/.legacy/_compile.py +18 -28
- scitex/writer/Writer.py +8 -21
- scitex/writer/__init__.py +11 -11
- scitex/writer/_clone_writer_project.py +2 -6
- scitex/writer/_compile/__init__.py +1 -0
- scitex/writer/_compile/_parser.py +1 -0
- scitex/writer/_compile/_runner.py +35 -38
- scitex/writer/_compile/_validator.py +1 -0
- scitex/writer/_compile/manuscript.py +1 -0
- scitex/writer/_compile/revision.py +1 -0
- scitex/writer/_compile/supplementary.py +1 -0
- scitex/writer/_compile_async.py +5 -12
- scitex/writer/_project/__init__.py +1 -0
- scitex/writer/_project/_create.py +10 -25
- scitex/writer/_project/_trees.py +4 -9
- scitex/writer/_project/_validate.py +2 -3
- scitex/writer/_validate_tree_structures.py +7 -18
- scitex/writer/dataclasses/__init__.py +8 -10
- scitex/writer/dataclasses/config/_CONSTANTS.py +2 -3
- scitex/writer/dataclasses/config/_WriterConfig.py +4 -9
- scitex/writer/dataclasses/contents/_ManuscriptContents.py +14 -25
- scitex/writer/dataclasses/contents/_RevisionContents.py +21 -16
- scitex/writer/dataclasses/contents/_SupplementaryContents.py +21 -24
- scitex/writer/dataclasses/core/_Document.py +2 -3
- scitex/writer/dataclasses/core/_DocumentSection.py +8 -23
- scitex/writer/dataclasses/results/_CompilationResult.py +2 -3
- scitex/writer/dataclasses/results/_LaTeXIssue.py +3 -6
- scitex/writer/dataclasses/results/_SaveSectionsResponse.py +20 -9
- scitex/writer/dataclasses/results/_SectionReadResponse.py +24 -10
- scitex/writer/dataclasses/tree/_ConfigTree.py +7 -4
- scitex/writer/dataclasses/tree/_ManuscriptTree.py +10 -13
- scitex/writer/dataclasses/tree/_RevisionTree.py +16 -17
- scitex/writer/dataclasses/tree/_ScriptsTree.py +10 -5
- scitex/writer/dataclasses/tree/_SharedTree.py +10 -13
- scitex/writer/dataclasses/tree/_SupplementaryTree.py +15 -14
- scitex/writer/utils/.legacy_git_retry.py +3 -8
- scitex/writer/utils/_parse_latex_logs.py +2 -3
- scitex/writer/utils/_parse_script_args.py +20 -23
- scitex/writer/utils/_watch.py +5 -5
- {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/METADATA +4 -10
- {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/RECORD +1071 -975
- scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin_v01-indentation-issues.py +0 -583
- scitex/plt/_subplots/_export_as_csv_formatters.py +0 -112
- scitex/vis/editor/flask_editor/bbox.py +0 -216
- scitex/vis/editor/flask_editor/plotter.py +0 -130
- scitex/vis/editor/flask_editor/renderer.py +0 -184
- scitex/vis/editor/flask_editor/templates/scripts.py +0 -614
- {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/WHEEL +0 -0
- {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/entry_points.txt +0 -0
- {scitex-2.5.0.dist-info → scitex-2.7.0.dist-info}/licenses/LICENSE +0 -0
|
@@ -52,16 +52,16 @@ logger = logging.getLogger(__name__)
|
|
|
52
52
|
class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
53
53
|
"""
|
|
54
54
|
Calendar-based time series cross-validation splitter.
|
|
55
|
-
|
|
55
|
+
|
|
56
56
|
Splits data based on calendar intervals (e.g., months, weeks, days).
|
|
57
57
|
Ensures temporal order is preserved and no data leakage occurs.
|
|
58
|
-
|
|
58
|
+
|
|
59
59
|
Parameters
|
|
60
60
|
----------
|
|
61
61
|
interval : str
|
|
62
62
|
Time interval for splitting. Options:
|
|
63
63
|
- 'D': Daily
|
|
64
|
-
- 'W': Weekly
|
|
64
|
+
- 'W': Weekly
|
|
65
65
|
- 'M': Monthly
|
|
66
66
|
- 'Q': Quarterly
|
|
67
67
|
- 'Y': Yearly
|
|
@@ -74,28 +74,28 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
74
74
|
Number of intervals to skip between train and test (default: 0)
|
|
75
75
|
step_intervals : int
|
|
76
76
|
Number of intervals to step forward for next fold (default: 1)
|
|
77
|
-
|
|
77
|
+
|
|
78
78
|
Examples
|
|
79
79
|
--------
|
|
80
80
|
>>> from scitex.ai.classification import TimeSeriesCalendarSplit
|
|
81
81
|
>>> import pandas as pd
|
|
82
82
|
>>> import numpy as np
|
|
83
|
-
>>>
|
|
83
|
+
>>>
|
|
84
84
|
>>> # Create sample data with daily timestamps
|
|
85
85
|
>>> dates = pd.date_range('2023-01-01', '2023-12-31', freq='D')
|
|
86
86
|
>>> X = np.random.randn(len(dates), 10)
|
|
87
87
|
>>> y = np.random.randint(0, 2, len(dates))
|
|
88
|
-
>>>
|
|
88
|
+
>>>
|
|
89
89
|
>>> # Monthly splits: 6 months train, 1 month test
|
|
90
90
|
>>> tscal = TimeSeriesCalendarSplit(interval='M', n_train_intervals=6)
|
|
91
91
|
>>> for train_idx, test_idx in tscal.split(X, y, timestamps=dates):
|
|
92
92
|
... print(f"Train: {dates[train_idx[0]]:%Y-%m} to {dates[train_idx[-1]]:%Y-%m}")
|
|
93
93
|
... print(f"Test: {dates[test_idx[0]]:%Y-%m} to {dates[test_idx[-1]]:%Y-%m}")
|
|
94
94
|
"""
|
|
95
|
-
|
|
95
|
+
|
|
96
96
|
def __init__(
|
|
97
97
|
self,
|
|
98
|
-
interval: str =
|
|
98
|
+
interval: str = "M",
|
|
99
99
|
n_train_intervals: int = 12,
|
|
100
100
|
n_test_intervals: int = 1,
|
|
101
101
|
n_val_intervals: int = 0,
|
|
@@ -111,7 +111,7 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
111
111
|
self.step_intervals = step_intervals
|
|
112
112
|
self.random_state = random_state
|
|
113
113
|
self.rng_manager = np.random.default_rng(random_state)
|
|
114
|
-
|
|
114
|
+
|
|
115
115
|
def split(
|
|
116
116
|
self,
|
|
117
117
|
X: np.ndarray,
|
|
@@ -121,7 +121,7 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
121
121
|
) -> Iterator[Tuple[np.ndarray, np.ndarray]]:
|
|
122
122
|
"""
|
|
123
123
|
Generate calendar-based train/test splits.
|
|
124
|
-
|
|
124
|
+
|
|
125
125
|
Parameters
|
|
126
126
|
----------
|
|
127
127
|
X : array-like, shape (n_samples, n_features)
|
|
@@ -132,7 +132,7 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
132
132
|
Timestamps for each sample (required)
|
|
133
133
|
groups : array-like, shape (n_samples,), optional
|
|
134
134
|
Group labels (not used in this splitter)
|
|
135
|
-
|
|
135
|
+
|
|
136
136
|
Yields
|
|
137
137
|
------
|
|
138
138
|
train : ndarray
|
|
@@ -142,10 +142,10 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
142
142
|
"""
|
|
143
143
|
if timestamps is None:
|
|
144
144
|
raise ValueError("timestamps must be provided for calendar-based splitting")
|
|
145
|
-
|
|
145
|
+
|
|
146
146
|
n_samples = _num_samples(X)
|
|
147
147
|
indices = np.arange(n_samples)
|
|
148
|
-
|
|
148
|
+
|
|
149
149
|
# Convert timestamps to pandas datetime if needed
|
|
150
150
|
if not isinstance(timestamps, pd.DatetimeIndex):
|
|
151
151
|
# Use normalizer to handle various formats
|
|
@@ -158,57 +158,52 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
158
158
|
dt = dt.replace(tzinfo=None)
|
|
159
159
|
datetime_list.append(dt)
|
|
160
160
|
timestamps = pd.DatetimeIndex(datetime_list)
|
|
161
|
-
|
|
161
|
+
|
|
162
162
|
# Create DataFrame for easier manipulation
|
|
163
|
-
df = pd.DataFrame({
|
|
164
|
-
|
|
165
|
-
'timestamp': timestamps
|
|
166
|
-
})
|
|
167
|
-
|
|
163
|
+
df = pd.DataFrame({"index": indices, "timestamp": timestamps})
|
|
164
|
+
|
|
168
165
|
# Sort by timestamp
|
|
169
|
-
df = df.sort_values(
|
|
170
|
-
|
|
166
|
+
df = df.sort_values("timestamp")
|
|
167
|
+
|
|
171
168
|
# Group by the specified interval
|
|
172
|
-
df[
|
|
173
|
-
unique_intervals = df[
|
|
174
|
-
|
|
169
|
+
df["interval"] = df["timestamp"].dt.to_period(self.interval)
|
|
170
|
+
unique_intervals = df["interval"].unique()
|
|
171
|
+
|
|
175
172
|
# Calculate total intervals needed per fold
|
|
176
173
|
intervals_per_fold = (
|
|
177
|
-
self.n_train_intervals +
|
|
178
|
-
self.gap_intervals +
|
|
179
|
-
self.n_test_intervals
|
|
174
|
+
self.n_train_intervals + self.gap_intervals + self.n_test_intervals
|
|
180
175
|
)
|
|
181
|
-
|
|
176
|
+
|
|
182
177
|
# Generate splits
|
|
183
178
|
n_intervals = len(unique_intervals)
|
|
184
179
|
start_idx = 0
|
|
185
|
-
|
|
180
|
+
|
|
186
181
|
while start_idx + intervals_per_fold <= n_intervals:
|
|
187
182
|
# Define train intervals
|
|
188
183
|
train_end = start_idx + self.n_train_intervals
|
|
189
184
|
train_intervals = unique_intervals[start_idx:train_end]
|
|
190
|
-
|
|
185
|
+
|
|
191
186
|
# Define test intervals (after gap)
|
|
192
187
|
test_start = train_end + self.gap_intervals
|
|
193
188
|
test_end = test_start + self.n_test_intervals
|
|
194
|
-
|
|
189
|
+
|
|
195
190
|
if test_end > n_intervals:
|
|
196
191
|
break
|
|
197
|
-
|
|
192
|
+
|
|
198
193
|
test_intervals = unique_intervals[test_start:test_end]
|
|
199
|
-
|
|
194
|
+
|
|
200
195
|
# Get indices for train and test
|
|
201
|
-
train_mask = df[
|
|
202
|
-
test_mask = df[
|
|
203
|
-
|
|
204
|
-
train_indices = df.loc[train_mask,
|
|
205
|
-
test_indices = df.loc[test_mask,
|
|
206
|
-
|
|
196
|
+
train_mask = df["interval"].isin(train_intervals)
|
|
197
|
+
test_mask = df["interval"].isin(test_intervals)
|
|
198
|
+
|
|
199
|
+
train_indices = df.loc[train_mask, "index"].values
|
|
200
|
+
test_indices = df.loc[test_mask, "index"].values
|
|
201
|
+
|
|
207
202
|
yield train_indices, test_indices
|
|
208
|
-
|
|
203
|
+
|
|
209
204
|
# Move to next fold
|
|
210
205
|
start_idx += self.step_intervals
|
|
211
|
-
|
|
206
|
+
|
|
212
207
|
def split_with_val(
|
|
213
208
|
self,
|
|
214
209
|
X: np.ndarray,
|
|
@@ -218,10 +213,10 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
218
213
|
) -> Iterator[Tuple[np.ndarray, np.ndarray, np.ndarray]]:
|
|
219
214
|
"""
|
|
220
215
|
Generate calendar-based train/validation/test splits.
|
|
221
|
-
|
|
216
|
+
|
|
222
217
|
The validation set comes after training but before test, maintaining
|
|
223
218
|
temporal order: train < val < test.
|
|
224
|
-
|
|
219
|
+
|
|
225
220
|
Parameters
|
|
226
221
|
----------
|
|
227
222
|
X : array-like, shape (n_samples, n_features)
|
|
@@ -232,7 +227,7 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
232
227
|
Timestamps for each sample (required)
|
|
233
228
|
groups : array-like, shape (n_samples,), optional
|
|
234
229
|
Group labels (not used in this splitter)
|
|
235
|
-
|
|
230
|
+
|
|
236
231
|
Yields
|
|
237
232
|
------
|
|
238
233
|
train : ndarray
|
|
@@ -244,10 +239,10 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
244
239
|
"""
|
|
245
240
|
if timestamps is None:
|
|
246
241
|
raise ValueError("timestamps must be provided for calendar-based splitting")
|
|
247
|
-
|
|
242
|
+
|
|
248
243
|
n_samples = _num_samples(X)
|
|
249
244
|
indices = np.arange(n_samples)
|
|
250
|
-
|
|
245
|
+
|
|
251
246
|
# Convert timestamps to pandas datetime if needed
|
|
252
247
|
if not isinstance(timestamps, pd.DatetimeIndex):
|
|
253
248
|
# Use normalizer to handle various formats
|
|
@@ -259,69 +254,80 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
259
254
|
dt = dt.replace(tzinfo=None)
|
|
260
255
|
datetime_list.append(dt)
|
|
261
256
|
timestamps = pd.DatetimeIndex(datetime_list)
|
|
262
|
-
|
|
257
|
+
|
|
263
258
|
# Create DataFrame for easier manipulation
|
|
264
|
-
df = pd.DataFrame({
|
|
265
|
-
|
|
266
|
-
'timestamp': timestamps
|
|
267
|
-
})
|
|
268
|
-
|
|
259
|
+
df = pd.DataFrame({"index": indices, "timestamp": timestamps})
|
|
260
|
+
|
|
269
261
|
# Sort by timestamp
|
|
270
|
-
df = df.sort_values(
|
|
271
|
-
|
|
262
|
+
df = df.sort_values("timestamp")
|
|
263
|
+
|
|
272
264
|
# Group by the specified interval
|
|
273
|
-
df[
|
|
274
|
-
unique_intervals = df[
|
|
275
|
-
|
|
265
|
+
df["interval"] = df["timestamp"].dt.to_period(self.interval)
|
|
266
|
+
unique_intervals = df["interval"].unique()
|
|
267
|
+
|
|
276
268
|
# Calculate total intervals needed per fold including validation
|
|
277
269
|
intervals_per_fold = (
|
|
278
|
-
self.n_train_intervals
|
|
279
|
-
self.n_val_intervals
|
|
280
|
-
self.gap_intervals
|
|
281
|
-
self.n_test_intervals
|
|
270
|
+
self.n_train_intervals
|
|
271
|
+
+ self.n_val_intervals
|
|
272
|
+
+ self.gap_intervals
|
|
273
|
+
+ self.n_test_intervals
|
|
282
274
|
)
|
|
283
|
-
|
|
275
|
+
|
|
284
276
|
# Generate splits
|
|
285
277
|
n_intervals = len(unique_intervals)
|
|
286
278
|
start_idx = 0
|
|
287
|
-
|
|
279
|
+
|
|
288
280
|
while start_idx + intervals_per_fold <= n_intervals:
|
|
289
281
|
# Define train intervals
|
|
290
282
|
train_end = start_idx + self.n_train_intervals
|
|
291
283
|
train_intervals = unique_intervals[start_idx:train_end]
|
|
292
|
-
|
|
284
|
+
|
|
293
285
|
# Define validation intervals (after train)
|
|
294
286
|
val_start = train_end
|
|
295
287
|
val_end = val_start + self.n_val_intervals
|
|
296
|
-
val_intervals =
|
|
297
|
-
|
|
288
|
+
val_intervals = (
|
|
289
|
+
unique_intervals[val_start:val_end] if self.n_val_intervals > 0 else []
|
|
290
|
+
)
|
|
291
|
+
|
|
298
292
|
# Define test intervals (after validation and gap)
|
|
299
|
-
test_start =
|
|
293
|
+
test_start = (
|
|
294
|
+
val_end + self.gap_intervals
|
|
295
|
+
if self.n_val_intervals > 0
|
|
296
|
+
else train_end + self.gap_intervals
|
|
297
|
+
)
|
|
300
298
|
test_end = test_start + self.n_test_intervals
|
|
301
|
-
|
|
299
|
+
|
|
302
300
|
if test_end > n_intervals:
|
|
303
301
|
break
|
|
304
|
-
|
|
302
|
+
|
|
305
303
|
test_intervals = unique_intervals[test_start:test_end]
|
|
306
|
-
|
|
304
|
+
|
|
307
305
|
# Get indices for train, validation, and test
|
|
308
|
-
train_mask = df[
|
|
309
|
-
val_mask =
|
|
310
|
-
|
|
311
|
-
|
|
312
|
-
|
|
313
|
-
|
|
314
|
-
|
|
315
|
-
|
|
306
|
+
train_mask = df["interval"].isin(train_intervals)
|
|
307
|
+
val_mask = (
|
|
308
|
+
df["interval"].isin(val_intervals)
|
|
309
|
+
if len(val_intervals) > 0
|
|
310
|
+
else pd.Series([False] * len(df))
|
|
311
|
+
)
|
|
312
|
+
test_mask = df["interval"].isin(test_intervals)
|
|
313
|
+
|
|
314
|
+
train_indices = df.loc[train_mask, "index"].values
|
|
315
|
+
val_indices = (
|
|
316
|
+
df.loc[val_mask, "index"].values
|
|
317
|
+
if self.n_val_intervals > 0
|
|
318
|
+
else np.array([])
|
|
319
|
+
)
|
|
320
|
+
test_indices = df.loc[test_mask, "index"].values
|
|
321
|
+
|
|
316
322
|
yield train_indices, val_indices, test_indices
|
|
317
|
-
|
|
323
|
+
|
|
318
324
|
# Move to next fold
|
|
319
325
|
start_idx += self.step_intervals
|
|
320
|
-
|
|
326
|
+
|
|
321
327
|
def get_n_splits(self, X=None, y=None, timestamps=None):
|
|
322
328
|
"""
|
|
323
329
|
Calculate number of splits.
|
|
324
|
-
|
|
330
|
+
|
|
325
331
|
Parameters
|
|
326
332
|
----------
|
|
327
333
|
X : array-like, optional
|
|
@@ -330,7 +336,7 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
330
336
|
Not used
|
|
331
337
|
timestamps : array-like or pd.DatetimeIndex, optional
|
|
332
338
|
Timestamps to determine number of possible splits
|
|
333
|
-
|
|
339
|
+
|
|
334
340
|
Returns
|
|
335
341
|
-------
|
|
336
342
|
n_splits : int
|
|
@@ -338,7 +344,7 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
338
344
|
"""
|
|
339
345
|
if timestamps is None:
|
|
340
346
|
return -1 # Can't determine without timestamps
|
|
341
|
-
|
|
347
|
+
|
|
342
348
|
# Convert timestamps to pandas datetime if needed
|
|
343
349
|
if not isinstance(timestamps, pd.DatetimeIndex):
|
|
344
350
|
# Use normalizer to handle various formats
|
|
@@ -351,29 +357,27 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
351
357
|
dt = dt.replace(tzinfo=None)
|
|
352
358
|
datetime_list.append(dt)
|
|
353
359
|
timestamps = pd.DatetimeIndex(datetime_list)
|
|
354
|
-
|
|
360
|
+
|
|
355
361
|
# Count unique intervals
|
|
356
362
|
intervals = timestamps.to_period(self.interval).unique()
|
|
357
363
|
n_intervals = len(intervals)
|
|
358
|
-
|
|
364
|
+
|
|
359
365
|
# Calculate how many complete folds we can create
|
|
360
366
|
intervals_per_fold = (
|
|
361
|
-
self.n_train_intervals +
|
|
362
|
-
self.gap_intervals +
|
|
363
|
-
self.n_test_intervals
|
|
367
|
+
self.n_train_intervals + self.gap_intervals + self.n_test_intervals
|
|
364
368
|
)
|
|
365
|
-
|
|
369
|
+
|
|
366
370
|
if n_intervals < intervals_per_fold:
|
|
367
371
|
return 0
|
|
368
|
-
|
|
372
|
+
|
|
369
373
|
# Calculate number of possible splits with stepping
|
|
370
374
|
n_splits = (n_intervals - intervals_per_fold) // self.step_intervals + 1
|
|
371
375
|
return max(0, n_splits)
|
|
372
|
-
|
|
376
|
+
|
|
373
377
|
def plot_splits(self, X, y=None, timestamps=None, figsize=(12, 6), save_path=None):
|
|
374
378
|
"""
|
|
375
379
|
Visualize the train/test splits as timeline rectangles with scatter plots.
|
|
376
|
-
|
|
380
|
+
|
|
377
381
|
Parameters
|
|
378
382
|
----------
|
|
379
383
|
X : array-like
|
|
@@ -386,12 +390,12 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
386
390
|
Figure size (width, height)
|
|
387
391
|
save_path : str, optional
|
|
388
392
|
Path to save the plot
|
|
389
|
-
|
|
393
|
+
|
|
390
394
|
Returns
|
|
391
395
|
-------
|
|
392
396
|
fig : matplotlib.figure.Figure
|
|
393
397
|
The created figure
|
|
394
|
-
|
|
398
|
+
|
|
395
399
|
Examples
|
|
396
400
|
--------
|
|
397
401
|
>>> splitter = TimeSeriesCalendarSplit(interval='M', n_train_intervals=6)
|
|
@@ -399,15 +403,19 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
399
403
|
>>> fig.savefig('calendar_splits.png')
|
|
400
404
|
"""
|
|
401
405
|
# matplotlib is always available in SciTeX
|
|
402
|
-
|
|
406
|
+
|
|
403
407
|
if timestamps is None:
|
|
404
|
-
raise ValueError(
|
|
405
|
-
|
|
408
|
+
raise ValueError(
|
|
409
|
+
"timestamps must be provided for calendar split visualization"
|
|
410
|
+
)
|
|
411
|
+
|
|
406
412
|
# Get all splits
|
|
407
413
|
splits = list(self.split(X, y, timestamps))
|
|
408
414
|
if not splits:
|
|
409
|
-
raise ValueError(
|
|
410
|
-
|
|
415
|
+
raise ValueError(
|
|
416
|
+
"No splits generated. Check data size and splitter parameters."
|
|
417
|
+
)
|
|
418
|
+
|
|
411
419
|
# Convert timestamps for plotting
|
|
412
420
|
if not isinstance(timestamps, pd.DatetimeIndex):
|
|
413
421
|
datetime_list = []
|
|
@@ -417,173 +425,209 @@ class TimeSeriesCalendarSplit(BaseCrossValidator):
|
|
|
417
425
|
dt = dt.replace(tzinfo=None)
|
|
418
426
|
datetime_list.append(dt)
|
|
419
427
|
timestamps = pd.DatetimeIndex(datetime_list)
|
|
420
|
-
|
|
428
|
+
|
|
421
429
|
# Create figure
|
|
422
430
|
fig, ax = plt.subplots(figsize=figsize)
|
|
423
|
-
|
|
431
|
+
|
|
424
432
|
# Jitter strength for scatter plots
|
|
425
433
|
jitter_strength = 0.15
|
|
426
|
-
|
|
434
|
+
|
|
427
435
|
# Plot each fold
|
|
428
436
|
for fold, (train_idx, test_idx) in enumerate(splits):
|
|
429
437
|
y_pos = fold
|
|
430
|
-
|
|
438
|
+
|
|
431
439
|
# Train period rectangle
|
|
432
440
|
train_start = timestamps[train_idx[0]]
|
|
433
441
|
train_end = timestamps[train_idx[-1]]
|
|
434
|
-
train_width = (
|
|
435
|
-
|
|
442
|
+
train_width = (
|
|
443
|
+
train_end - train_start
|
|
444
|
+
).total_seconds() / 86400 # Convert to days
|
|
445
|
+
|
|
436
446
|
train_rect = patches.Rectangle(
|
|
437
|
-
(train_start, y_pos - 0.3),
|
|
438
|
-
pd.Timedelta(days=train_width),
|
|
439
|
-
|
|
440
|
-
|
|
447
|
+
(train_start, y_pos - 0.3),
|
|
448
|
+
pd.Timedelta(days=train_width),
|
|
449
|
+
0.6,
|
|
450
|
+
linewidth=1,
|
|
451
|
+
edgecolor="blue",
|
|
452
|
+
facecolor="lightblue",
|
|
453
|
+
alpha=0.3,
|
|
454
|
+
label="Train Set (range)" if fold == 0 else "",
|
|
441
455
|
)
|
|
442
456
|
ax.add_patch(train_rect)
|
|
443
|
-
|
|
457
|
+
|
|
444
458
|
# Add scatter plot for training data points
|
|
445
459
|
train_times = timestamps[train_idx]
|
|
446
460
|
train_jitter = np.random.normal(0, jitter_strength, len(train_idx))
|
|
447
|
-
|
|
461
|
+
|
|
448
462
|
# Color by class if y is provided
|
|
449
463
|
if y is not None:
|
|
450
|
-
train_colors = [
|
|
464
|
+
train_colors = [
|
|
465
|
+
"darkblue" if yi == 0 else "navy" for yi in y[train_idx]
|
|
466
|
+
]
|
|
451
467
|
else:
|
|
452
|
-
train_colors =
|
|
453
|
-
|
|
454
|
-
ax.scatter(
|
|
455
|
-
|
|
456
|
-
|
|
457
|
-
|
|
468
|
+
train_colors = "darkblue"
|
|
469
|
+
|
|
470
|
+
ax.scatter(
|
|
471
|
+
train_times,
|
|
472
|
+
y_pos + train_jitter,
|
|
473
|
+
c=train_colors,
|
|
474
|
+
s=20,
|
|
475
|
+
alpha=0.6,
|
|
476
|
+
marker="o",
|
|
477
|
+
label="Train data points" if fold == 0 else "",
|
|
478
|
+
zorder=10,
|
|
479
|
+
)
|
|
480
|
+
|
|
458
481
|
# Test period rectangle
|
|
459
482
|
test_start = timestamps[test_idx[0]]
|
|
460
483
|
test_end = timestamps[test_idx[-1]]
|
|
461
484
|
test_width = (test_end - test_start).total_seconds() / 86400
|
|
462
|
-
|
|
485
|
+
|
|
463
486
|
test_rect = patches.Rectangle(
|
|
464
487
|
(test_start, y_pos - 0.3),
|
|
465
|
-
pd.Timedelta(days=test_width),
|
|
466
|
-
|
|
467
|
-
|
|
488
|
+
pd.Timedelta(days=test_width),
|
|
489
|
+
0.6,
|
|
490
|
+
linewidth=1,
|
|
491
|
+
edgecolor="red",
|
|
492
|
+
facecolor="lightcoral",
|
|
493
|
+
alpha=0.3,
|
|
494
|
+
label="Test Set (range)" if fold == 0 else "",
|
|
468
495
|
)
|
|
469
496
|
ax.add_patch(test_rect)
|
|
470
|
-
|
|
497
|
+
|
|
471
498
|
# Add scatter plot for test data points
|
|
472
499
|
test_times = timestamps[test_idx]
|
|
473
500
|
test_jitter = np.random.normal(0, jitter_strength, len(test_idx))
|
|
474
|
-
|
|
501
|
+
|
|
475
502
|
# Color by class if y is provided
|
|
476
503
|
if y is not None:
|
|
477
|
-
test_colors = [
|
|
504
|
+
test_colors = [
|
|
505
|
+
"darkred" if yi == 0 else "firebrick" for yi in y[test_idx]
|
|
506
|
+
]
|
|
478
507
|
else:
|
|
479
|
-
test_colors =
|
|
480
|
-
|
|
481
|
-
ax.scatter(
|
|
482
|
-
|
|
483
|
-
|
|
484
|
-
|
|
508
|
+
test_colors = "darkred"
|
|
509
|
+
|
|
510
|
+
ax.scatter(
|
|
511
|
+
test_times,
|
|
512
|
+
y_pos + test_jitter,
|
|
513
|
+
c=test_colors,
|
|
514
|
+
s=20,
|
|
515
|
+
alpha=0.6,
|
|
516
|
+
marker="^",
|
|
517
|
+
label="Test data points" if fold == 0 else "",
|
|
518
|
+
zorder=10,
|
|
519
|
+
)
|
|
520
|
+
|
|
485
521
|
# Format plot
|
|
486
522
|
ax.set_ylim(-0.5, len(splits) - 0.5)
|
|
487
523
|
ax.set_xlim(timestamps.min(), timestamps.max())
|
|
488
|
-
ax.set_xlabel(
|
|
489
|
-
ax.set_ylabel(
|
|
490
|
-
ax.set_title(
|
|
491
|
-
|
|
492
|
-
|
|
493
|
-
|
|
524
|
+
ax.set_xlabel("Time")
|
|
525
|
+
ax.set_ylabel("Fold")
|
|
526
|
+
ax.set_title(
|
|
527
|
+
f"Time Series Calendar Split Visualization\\n"
|
|
528
|
+
f"Interval: {self.interval}, Train: {self.n_train_intervals}, "
|
|
529
|
+
f"Test: {self.n_test_intervals}"
|
|
530
|
+
)
|
|
531
|
+
|
|
494
532
|
# Set y-ticks
|
|
495
533
|
ax.set_yticks(range(len(splits)))
|
|
496
|
-
ax.set_yticklabels([f
|
|
497
|
-
|
|
534
|
+
ax.set_yticklabels([f"Fold {i}" for i in range(len(splits))])
|
|
535
|
+
|
|
498
536
|
# Add legend
|
|
499
|
-
ax.legend(loc=
|
|
500
|
-
|
|
537
|
+
ax.legend(loc="upper right")
|
|
538
|
+
|
|
501
539
|
# Format x-axis
|
|
502
|
-
ax.tick_params(axis=
|
|
503
|
-
|
|
540
|
+
ax.tick_params(axis="x", rotation=45)
|
|
541
|
+
|
|
504
542
|
plt.tight_layout()
|
|
505
|
-
|
|
543
|
+
|
|
506
544
|
if save_path:
|
|
507
|
-
fig.savefig(save_path, dpi=150, bbox_inches=
|
|
508
|
-
|
|
545
|
+
fig.savefig(save_path, dpi=150, bbox_inches="tight")
|
|
546
|
+
|
|
509
547
|
return fig
|
|
510
548
|
|
|
511
549
|
|
|
512
550
|
"""Functions & Classes"""
|
|
551
|
+
|
|
552
|
+
|
|
513
553
|
def main(args) -> int:
|
|
514
554
|
"""Demonstrate TimeSeriesCalendarSplit functionality.
|
|
515
|
-
|
|
555
|
+
|
|
516
556
|
Args:
|
|
517
557
|
args: Command line arguments
|
|
518
|
-
|
|
558
|
+
|
|
519
559
|
Returns:
|
|
520
560
|
int: Exit status
|
|
521
561
|
"""
|
|
522
562
|
logger.info("Demonstrating TimeSeriesCalendarSplit functionality")
|
|
523
|
-
|
|
563
|
+
|
|
524
564
|
# Generate test data with calendar-based timestamps
|
|
525
565
|
np.random.seed(42)
|
|
526
566
|
n_samples = args.n_samples
|
|
527
|
-
|
|
567
|
+
|
|
528
568
|
# Create daily timestamps over several months
|
|
529
569
|
start_date = pd.Timestamp(args.start_date)
|
|
530
570
|
timestamps = pd.date_range(start=start_date, periods=n_samples, freq=args.data_freq)
|
|
531
|
-
|
|
571
|
+
|
|
532
572
|
# Generate features and target
|
|
533
573
|
X = np.random.randn(n_samples, 5)
|
|
534
574
|
y = np.random.randint(0, 2, n_samples)
|
|
535
|
-
|
|
575
|
+
|
|
536
576
|
logger.info(f"Generated test data: {n_samples} samples")
|
|
537
|
-
logger.info(
|
|
577
|
+
logger.info(
|
|
578
|
+
f"Date range: {timestamps[0].strftime('%Y-%m-%d')} to {timestamps[-1].strftime('%Y-%m-%d')}"
|
|
579
|
+
)
|
|
538
580
|
logger.info(f"Data frequency: {args.data_freq}")
|
|
539
|
-
|
|
581
|
+
|
|
540
582
|
# Create calendar splitter
|
|
541
583
|
splitter = TimeSeriesCalendarSplit(
|
|
542
584
|
interval=args.interval,
|
|
543
585
|
n_train_intervals=args.n_train_intervals,
|
|
544
586
|
n_test_intervals=args.n_test_intervals,
|
|
545
587
|
gap_intervals=args.gap_intervals,
|
|
546
|
-
step_intervals=args.step_intervals
|
|
588
|
+
step_intervals=args.step_intervals,
|
|
547
589
|
)
|
|
548
|
-
|
|
590
|
+
|
|
549
591
|
logger.info(f"Calendar split configuration:")
|
|
550
592
|
logger.info(f" Interval: {args.interval}")
|
|
551
593
|
logger.info(f" Train intervals: {args.n_train_intervals}")
|
|
552
594
|
logger.info(f" Test intervals: {args.n_test_intervals}")
|
|
553
595
|
logger.info(f" Gap intervals: {args.gap_intervals}")
|
|
554
596
|
logger.info(f" Step intervals: {args.step_intervals}")
|
|
555
|
-
|
|
597
|
+
|
|
556
598
|
# Test splits
|
|
557
599
|
splits = []
|
|
558
|
-
for fold, (train_idx, test_idx) in enumerate(
|
|
600
|
+
for fold, (train_idx, test_idx) in enumerate(
|
|
601
|
+
splitter.split(X, y, timestamps=timestamps)
|
|
602
|
+
):
|
|
559
603
|
if fold >= args.max_folds:
|
|
560
604
|
break
|
|
561
605
|
splits.append((train_idx, test_idx))
|
|
562
|
-
|
|
563
|
-
train_start = timestamps[train_idx[0]].strftime(
|
|
564
|
-
train_end = timestamps[train_idx[-1]].strftime(
|
|
565
|
-
test_start = timestamps[test_idx[0]].strftime(
|
|
566
|
-
test_end = timestamps[test_idx[-1]].strftime(
|
|
567
|
-
|
|
606
|
+
|
|
607
|
+
train_start = timestamps[train_idx[0]].strftime("%Y-%m-%d")
|
|
608
|
+
train_end = timestamps[train_idx[-1]].strftime("%Y-%m-%d")
|
|
609
|
+
test_start = timestamps[test_idx[0]].strftime("%Y-%m-%d")
|
|
610
|
+
test_end = timestamps[test_idx[-1]].strftime("%Y-%m-%d")
|
|
611
|
+
|
|
568
612
|
logger.info(f"Fold {fold}:")
|
|
569
613
|
logger.info(f" Train: {train_start} to {train_end} ({len(train_idx)} samples)")
|
|
570
614
|
logger.info(f" Test: {test_start} to {test_end} ({len(test_idx)} samples)")
|
|
571
|
-
|
|
615
|
+
|
|
572
616
|
# Verify temporal order
|
|
573
617
|
train_times = timestamps[train_idx]
|
|
574
618
|
test_times = timestamps[test_idx]
|
|
575
619
|
temporal_ok = train_times.max() < test_times.min()
|
|
576
620
|
status = "✓" if temporal_ok else "✗"
|
|
577
621
|
logger.info(f" Temporal order: {status}")
|
|
578
|
-
|
|
622
|
+
|
|
579
623
|
# Generate visualization
|
|
580
624
|
logger.info("Generating calendar split visualization")
|
|
581
625
|
fig = splitter.plot_splits(X, y, timestamps)
|
|
582
|
-
|
|
626
|
+
|
|
583
627
|
# Save using SciTeX framework
|
|
584
628
|
stx.io.save(fig, "./calendar_splits_demo.png", symlink_from_cwd=True)
|
|
585
629
|
plt.close(fig)
|
|
586
|
-
|
|
630
|
+
|
|
587
631
|
logger.info("TimeSeriesCalendarSplit demonstration completed successfully")
|
|
588
632
|
return 0
|
|
589
633
|
|
|
@@ -591,7 +635,7 @@ def main(args) -> int:
|
|
|
591
635
|
def parse_args() -> argparse.Namespace:
|
|
592
636
|
"""Parse command line arguments."""
|
|
593
637
|
parser = argparse.ArgumentParser(
|
|
594
|
-
description=
|
|
638
|
+
description="Demonstrate TimeSeriesCalendarSplit with calendar-based intervals"
|
|
595
639
|
)
|
|
596
640
|
parser.add_argument(
|
|
597
641
|
"--n-samples",
|
|
@@ -682,7 +726,7 @@ def run_main() -> None:
|
|
|
682
726
|
)
|
|
683
727
|
|
|
684
728
|
|
|
685
|
-
if __name__ ==
|
|
729
|
+
if __name__ == "__main__":
|
|
686
730
|
run_main()
|
|
687
731
|
|
|
688
|
-
# EOF
|
|
732
|
+
# EOF
|