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
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- 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
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#!/usr/bin/env python3
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# -*- coding: utf-8 -*-
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# File: ./src/scitex/vis/editor/flask_editor/bbox.py
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"""Bounding box extraction for figure elements."""
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from typing import Dict, Any
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def extract_bboxes(
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fig, ax, renderer, img_width: int, img_height: int
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) -> Dict[str, Any]:
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"""Extract bounding boxes for all figure elements (single-axis)."""
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from matplotlib.transforms import Bbox
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# Get figure tight bbox in inches
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fig_bbox = fig.get_tightbbox(renderer)
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tight_x0 = fig_bbox.x0
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tight_y0 = fig_bbox.y0
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tight_width = fig_bbox.width
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tight_height = fig_bbox.height
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# bbox_inches='tight' adds pad_inches (default 0.1) around the tight bbox
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pad_inches = 0.1
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saved_width_inches = tight_width + 2 * pad_inches
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saved_height_inches = tight_height + 2 * pad_inches
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# Scale factors for converting inches to pixels
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scale_x = img_width / saved_width_inches
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scale_y = img_height / saved_height_inches
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bboxes = {}
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def get_element_bbox(element, name):
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"""Get element bbox in image pixel coordinates."""
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try:
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bbox = element.get_window_extent(renderer)
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elem_x0_inches = bbox.x0 / fig.dpi
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elem_x1_inches = bbox.x1 / fig.dpi
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elem_y0_inches = bbox.y0 / fig.dpi
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elem_y1_inches = bbox.y1 / fig.dpi
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x0_rel = elem_x0_inches - tight_x0 + pad_inches
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x1_rel = elem_x1_inches - tight_x0 + pad_inches
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y0_rel = saved_height_inches - (elem_y1_inches - tight_y0 + pad_inches)
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y1_rel = saved_height_inches - (elem_y0_inches - tight_y0 + pad_inches)
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bboxes[name] = {
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"x0": max(0, int(x0_rel * scale_x)),
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"y0": max(0, int(y0_rel * scale_y)),
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"x1": min(img_width, int(x1_rel * scale_x)),
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"y1": min(img_height, int(y1_rel * scale_y)),
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"label": name.replace("_", " ").title(),
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}
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except Exception as e:
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print(f"Error getting bbox for {name}: {e}")
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def bbox_to_img_coords(bbox):
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"""Convert matplotlib bbox to image pixel coordinates."""
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x0_inches = bbox.x0 / fig.dpi
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y0_inches = bbox.y0 / fig.dpi
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x1_inches = bbox.x1 / fig.dpi
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y1_inches = bbox.y1 / fig.dpi
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x0_rel = x0_inches - tight_x0 + pad_inches
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y0_rel = y0_inches - tight_y0 + pad_inches
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x1_rel = x1_inches - tight_x0 + pad_inches
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y1_rel = y1_inches - tight_y0 + pad_inches
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return {
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"x0": int(x0_rel * scale_x),
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"y0": int((saved_height_inches - y1_rel) * scale_y),
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"x1": int(x1_rel * scale_x),
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"y1": int((saved_height_inches - y0_rel) * scale_y),
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}
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# Get bboxes for title, labels
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if ax.title.get_text():
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get_element_bbox(ax.title, "title")
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if ax.xaxis.label.get_text():
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get_element_bbox(ax.xaxis.label, "xlabel")
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if ax.yaxis.label.get_text():
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get_element_bbox(ax.yaxis.label, "ylabel")
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# Get axis bboxes
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_extract_axis_bboxes(ax, renderer, bboxes, bbox_to_img_coords, Bbox)
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# Get legend bbox
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legend = ax.get_legend()
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if legend:
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get_element_bbox(legend, "legend")
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# Get trace (line) bboxes
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_extract_trace_bboxes(
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ax,
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fig,
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renderer,
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bboxes,
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get_element_bbox,
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tight_x0,
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tight_y0,
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saved_height_inches,
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scale_x,
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scale_y,
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pad_inches,
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)
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return bboxes
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def extract_bboxes_multi(
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fig, axes_map: Dict[str, Any], renderer, img_width: int, img_height: int
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) -> Dict[str, Any]:
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"""Extract bounding boxes for all elements in a multi-axis figure.
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Args:
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fig: Matplotlib figure
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axes_map: Dict mapping axis IDs (e.g., 'ax_00') to matplotlib Axes objects
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renderer: Matplotlib renderer
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img_width: Image width in pixels
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img_height: Image height in pixels
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Returns:
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Dict with bboxes keyed by "{ax_id}_{element_type}" (e.g., "ax_00_xlabel")
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"""
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from matplotlib.transforms import Bbox
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# Get figure tight bbox in inches
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fig_bbox = fig.get_tightbbox(renderer)
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tight_x0 = fig_bbox.x0
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tight_y0 = fig_bbox.y0
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tight_width = fig_bbox.width
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tight_height = fig_bbox.height
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# bbox_inches='tight' adds pad_inches (default 0.1) around the tight bbox
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pad_inches = 0.1
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saved_width_inches = tight_width + 2 * pad_inches
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saved_height_inches = tight_height + 2 * pad_inches
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# Scale factors for converting inches to pixels
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scale_x = img_width / saved_width_inches
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scale_y = img_height / saved_height_inches
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bboxes = {}
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def get_element_bbox(element, name, ax_id, current_ax=None):
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"""Get element bbox in image pixel coordinates."""
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import numpy as np
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full_name = f"{ax_id}_{name}"
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try:
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bbox = element.get_window_extent(renderer)
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# Check for invalid bbox (infinity or NaN)
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if not (np.isfinite(bbox.x0) and np.isfinite(bbox.x1) and
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np.isfinite(bbox.y0) and np.isfinite(bbox.y1)):
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# Try to get bbox from data for scatter/collection elements
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if hasattr(element, 'get_offsets') and current_ax is not None:
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offsets = element.get_offsets()
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if len(offsets) > 0 and np.isfinite(offsets).all():
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# Use axis transform to get display coordinates
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display_coords = current_ax.transData.transform(offsets)
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x0 = display_coords[:, 0].min()
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x1 = display_coords[:, 0].max()
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y0 = display_coords[:, 1].min()
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y1 = display_coords[:, 1].max()
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if np.isfinite([x0, x1, y0, y1]).all():
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from matplotlib.transforms import Bbox
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bbox = Bbox.from_extents(x0, y0, x1, y1)
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else:
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return # Skip this element
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else:
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return # Skip this element
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else:
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return # Skip this element
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elem_x0_inches = bbox.x0 / fig.dpi
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elem_x1_inches = bbox.x1 / fig.dpi
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elem_y0_inches = bbox.y0 / fig.dpi
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elem_y1_inches = bbox.y1 / fig.dpi
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x0_rel = elem_x0_inches - tight_x0 + pad_inches
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x1_rel = elem_x1_inches - tight_x0 + pad_inches
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y0_rel = saved_height_inches - (elem_y1_inches - tight_y0 + pad_inches)
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y1_rel = saved_height_inches - (elem_y0_inches - tight_y0 + pad_inches)
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# Clamp values to avoid overflow
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x0_px = max(0, min(img_width, int(x0_rel * scale_x)))
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y0_px = max(0, min(img_height, int(y0_rel * scale_y)))
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x1_px = max(0, min(img_width, int(x1_rel * scale_x)))
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y1_px = max(0, min(img_height, int(y1_rel * scale_y)))
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bboxes[full_name] = {
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"x0": x0_px,
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"y0": y0_px,
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"x1": x1_px,
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"y1": y1_px,
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"label": f"{ax_id}: {name.replace('_', ' ').title()}",
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"ax_id": ax_id,
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}
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except Exception as e:
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print(f"Error getting bbox for {full_name}: {e}")
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def bbox_to_img_coords(bbox):
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"""Convert matplotlib bbox to image pixel coordinates."""
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x0_inches = bbox.x0 / fig.dpi
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204
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+
y0_inches = bbox.y0 / fig.dpi
|
|
205
|
+
x1_inches = bbox.x1 / fig.dpi
|
|
206
|
+
y1_inches = bbox.y1 / fig.dpi
|
|
207
|
+
x0_rel = x0_inches - tight_x0 + pad_inches
|
|
208
|
+
y0_rel = y0_inches - tight_y0 + pad_inches
|
|
209
|
+
x1_rel = x1_inches - tight_x0 + pad_inches
|
|
210
|
+
y1_rel = y1_inches - tight_y0 + pad_inches
|
|
211
|
+
return {
|
|
212
|
+
"x0": int(x0_rel * scale_x),
|
|
213
|
+
"y0": int((saved_height_inches - y1_rel) * scale_y),
|
|
214
|
+
"x1": int(x1_rel * scale_x),
|
|
215
|
+
"y1": int((saved_height_inches - y0_rel) * scale_y),
|
|
216
|
+
}
|
|
217
|
+
|
|
218
|
+
# Extract bboxes for each axis
|
|
219
|
+
for ax_id, ax in axes_map.items():
|
|
220
|
+
# Get axes bounding box (the entire panel area)
|
|
221
|
+
try:
|
|
222
|
+
ax_bbox = ax.get_window_extent(renderer)
|
|
223
|
+
coords = bbox_to_img_coords(ax_bbox)
|
|
224
|
+
bboxes[f"{ax_id}_panel"] = {
|
|
225
|
+
**coords,
|
|
226
|
+
"label": f"Panel {ax_id}",
|
|
227
|
+
"ax_id": ax_id,
|
|
228
|
+
"is_panel": True,
|
|
229
|
+
}
|
|
230
|
+
except Exception as e:
|
|
231
|
+
print(f"Error getting panel bbox for {ax_id}: {e}")
|
|
232
|
+
|
|
233
|
+
# Get bboxes for title, labels
|
|
234
|
+
if ax.title.get_text():
|
|
235
|
+
get_element_bbox(ax.title, "title", ax_id, ax)
|
|
236
|
+
if ax.xaxis.label.get_text():
|
|
237
|
+
get_element_bbox(ax.xaxis.label, "xlabel", ax_id, ax)
|
|
238
|
+
if ax.yaxis.label.get_text():
|
|
239
|
+
get_element_bbox(ax.yaxis.label, "ylabel", ax_id, ax)
|
|
240
|
+
|
|
241
|
+
# Get legend bbox
|
|
242
|
+
legend = ax.get_legend()
|
|
243
|
+
if legend:
|
|
244
|
+
get_element_bbox(legend, "legend", ax_id, ax)
|
|
245
|
+
|
|
246
|
+
# Get trace (line) bboxes
|
|
247
|
+
_extract_trace_bboxes_for_axis(
|
|
248
|
+
ax,
|
|
249
|
+
ax_id,
|
|
250
|
+
fig,
|
|
251
|
+
renderer,
|
|
252
|
+
bboxes,
|
|
253
|
+
get_element_bbox,
|
|
254
|
+
tight_x0,
|
|
255
|
+
tight_y0,
|
|
256
|
+
saved_height_inches,
|
|
257
|
+
scale_x,
|
|
258
|
+
scale_y,
|
|
259
|
+
pad_inches,
|
|
260
|
+
)
|
|
261
|
+
|
|
262
|
+
return bboxes
|
|
263
|
+
|
|
264
|
+
|
|
265
|
+
def _extract_trace_bboxes_for_axis(
|
|
266
|
+
ax,
|
|
267
|
+
ax_id,
|
|
268
|
+
fig,
|
|
269
|
+
renderer,
|
|
270
|
+
bboxes,
|
|
271
|
+
get_element_bbox,
|
|
272
|
+
tight_x0,
|
|
273
|
+
tight_y0,
|
|
274
|
+
saved_height_inches,
|
|
275
|
+
scale_x,
|
|
276
|
+
scale_y,
|
|
277
|
+
pad_inches,
|
|
278
|
+
):
|
|
279
|
+
"""Extract bboxes for all data elements in a specific axis.
|
|
280
|
+
|
|
281
|
+
Handles:
|
|
282
|
+
- Lines (plot, errorbar lines)
|
|
283
|
+
- Scatter points (PathCollection)
|
|
284
|
+
- Fill areas (PolyCollection from fill_between)
|
|
285
|
+
- Bars (Rectangle patches)
|
|
286
|
+
"""
|
|
287
|
+
import numpy as np
|
|
288
|
+
|
|
289
|
+
def coords_to_img_points(data_coords):
|
|
290
|
+
"""Convert data coordinates to image pixel coordinates."""
|
|
291
|
+
if len(data_coords) == 0:
|
|
292
|
+
return []
|
|
293
|
+
transform = ax.transData
|
|
294
|
+
points_display = transform.transform(data_coords)
|
|
295
|
+
points_img = []
|
|
296
|
+
for px, py in points_display:
|
|
297
|
+
# Skip invalid points (NaN, infinity)
|
|
298
|
+
if not np.isfinite(px) or not np.isfinite(py):
|
|
299
|
+
continue
|
|
300
|
+
px_inches = px / fig.dpi
|
|
301
|
+
py_inches = py / fig.dpi
|
|
302
|
+
x_rel = px_inches - tight_x0 + pad_inches
|
|
303
|
+
y_rel = saved_height_inches - (py_inches - tight_y0 + pad_inches)
|
|
304
|
+
# Clamp to reasonable bounds to avoid overflow
|
|
305
|
+
x_img = max(-10000, min(10000, int(x_rel * scale_x)))
|
|
306
|
+
y_img = max(-10000, min(10000, int(y_rel * scale_y)))
|
|
307
|
+
points_img.append([x_img, y_img])
|
|
308
|
+
# Downsample if too many
|
|
309
|
+
if len(points_img) > 100:
|
|
310
|
+
step = len(points_img) // 100
|
|
311
|
+
points_img = points_img[::step]
|
|
312
|
+
return points_img
|
|
313
|
+
|
|
314
|
+
# 1. Extract lines (plot, errorbar lines, etc.)
|
|
315
|
+
line_idx = 0
|
|
316
|
+
for line in ax.get_lines():
|
|
317
|
+
try:
|
|
318
|
+
label = line.get_label()
|
|
319
|
+
if label.startswith("_"):
|
|
320
|
+
continue
|
|
321
|
+
|
|
322
|
+
trace_name = f"trace_{line_idx}"
|
|
323
|
+
full_name = f"{ax_id}_{trace_name}"
|
|
324
|
+
get_element_bbox(line, trace_name, ax_id, ax)
|
|
325
|
+
|
|
326
|
+
if full_name in bboxes:
|
|
327
|
+
bboxes[full_name]["label"] = f"{ax_id}: {label or f'Line {line_idx}'}"
|
|
328
|
+
bboxes[full_name]["trace_idx"] = line_idx
|
|
329
|
+
bboxes[full_name]["element_type"] = "line"
|
|
330
|
+
|
|
331
|
+
xdata, ydata = line.get_xdata(), line.get_ydata()
|
|
332
|
+
if len(xdata) > 0:
|
|
333
|
+
bboxes[full_name]["points"] = coords_to_img_points(
|
|
334
|
+
list(zip(xdata, ydata))
|
|
335
|
+
)
|
|
336
|
+
line_idx += 1
|
|
337
|
+
except Exception as e:
|
|
338
|
+
print(f"Error getting line bbox for {ax_id}: {e}")
|
|
339
|
+
|
|
340
|
+
# 2. Extract collections (scatter, fill_between, etc.)
|
|
341
|
+
coll_idx = 0
|
|
342
|
+
for coll in ax.collections:
|
|
343
|
+
try:
|
|
344
|
+
label = coll.get_label()
|
|
345
|
+
if label.startswith("_"):
|
|
346
|
+
# Still extract unlabeled collections but with generic name
|
|
347
|
+
label = None
|
|
348
|
+
|
|
349
|
+
coll_type = type(coll).__name__
|
|
350
|
+
if coll_type == "PathCollection":
|
|
351
|
+
# Scatter points
|
|
352
|
+
element_name = f"scatter_{coll_idx}"
|
|
353
|
+
full_name = f"{ax_id}_{element_name}"
|
|
354
|
+
get_element_bbox(coll, element_name, ax_id, ax)
|
|
355
|
+
|
|
356
|
+
if full_name in bboxes:
|
|
357
|
+
bboxes[full_name]["label"] = f"{ax_id}: {label or f'Scatter {coll_idx}'}"
|
|
358
|
+
bboxes[full_name]["element_type"] = "scatter"
|
|
359
|
+
|
|
360
|
+
# Get scatter point positions
|
|
361
|
+
offsets = coll.get_offsets()
|
|
362
|
+
if len(offsets) > 0:
|
|
363
|
+
bboxes[full_name]["points"] = coords_to_img_points(offsets)
|
|
364
|
+
|
|
365
|
+
elif coll_type == "PolyCollection":
|
|
366
|
+
# Fill areas (fill_between, etc.)
|
|
367
|
+
element_name = f"fill_{coll_idx}"
|
|
368
|
+
full_name = f"{ax_id}_{element_name}"
|
|
369
|
+
get_element_bbox(coll, element_name, ax_id, ax)
|
|
370
|
+
|
|
371
|
+
if full_name in bboxes:
|
|
372
|
+
bboxes[full_name]["label"] = f"{ax_id}: {label or f'Fill {coll_idx}'}"
|
|
373
|
+
bboxes[full_name]["element_type"] = "fill"
|
|
374
|
+
|
|
375
|
+
coll_idx += 1
|
|
376
|
+
except Exception as e:
|
|
377
|
+
print(f"Error getting collection bbox for {ax_id}: {e}")
|
|
378
|
+
|
|
379
|
+
# 3. Extract patches (bars, rectangles, etc.)
|
|
380
|
+
patch_idx = 0
|
|
381
|
+
for patch in ax.patches:
|
|
382
|
+
try:
|
|
383
|
+
label = patch.get_label()
|
|
384
|
+
patch_type = type(patch).__name__
|
|
385
|
+
|
|
386
|
+
if patch_type == "Rectangle":
|
|
387
|
+
# Bar chart bars
|
|
388
|
+
element_name = f"bar_{patch_idx}"
|
|
389
|
+
full_name = f"{ax_id}_{element_name}"
|
|
390
|
+
get_element_bbox(patch, element_name, ax_id, ax)
|
|
391
|
+
|
|
392
|
+
if full_name in bboxes:
|
|
393
|
+
bboxes[full_name]["label"] = f"{ax_id}: {label or f'Bar {patch_idx}'}"
|
|
394
|
+
bboxes[full_name]["element_type"] = "bar"
|
|
395
|
+
|
|
396
|
+
patch_idx += 1
|
|
397
|
+
except Exception as e:
|
|
398
|
+
print(f"Error getting patch bbox for {ax_id}: {e}")
|
|
399
|
+
|
|
400
|
+
|
|
401
|
+
def _extract_axis_bboxes(ax, renderer, bboxes, bbox_to_img_coords, Bbox):
|
|
402
|
+
"""Extract bboxes for X and Y axis elements."""
|
|
403
|
+
try:
|
|
404
|
+
# X-axis: combine spine and tick labels into one bbox
|
|
405
|
+
x_axis_bboxes = []
|
|
406
|
+
for ticklabel in ax.xaxis.get_ticklabels():
|
|
407
|
+
if ticklabel.get_visible():
|
|
408
|
+
try:
|
|
409
|
+
tb = ticklabel.get_window_extent(renderer)
|
|
410
|
+
if tb.width > 0:
|
|
411
|
+
x_axis_bboxes.append(tb)
|
|
412
|
+
except Exception:
|
|
413
|
+
pass
|
|
414
|
+
for tick in ax.xaxis.get_major_ticks():
|
|
415
|
+
if tick.tick1line.get_visible():
|
|
416
|
+
try:
|
|
417
|
+
tb = tick.tick1line.get_window_extent(renderer)
|
|
418
|
+
if tb.width > 0 or tb.height > 0:
|
|
419
|
+
x_axis_bboxes.append(tb)
|
|
420
|
+
except Exception:
|
|
421
|
+
pass
|
|
422
|
+
spine_bbox = ax.spines["bottom"].get_window_extent(renderer)
|
|
423
|
+
if spine_bbox.width > 0:
|
|
424
|
+
if x_axis_bboxes:
|
|
425
|
+
tick_union = Bbox.union(x_axis_bboxes)
|
|
426
|
+
constrained_spine = Bbox.from_extents(
|
|
427
|
+
tick_union.x0, spine_bbox.y0, tick_union.x1, spine_bbox.y1
|
|
428
|
+
)
|
|
429
|
+
x_axis_bboxes.append(constrained_spine)
|
|
430
|
+
else:
|
|
431
|
+
x_axis_bboxes.append(spine_bbox)
|
|
432
|
+
if x_axis_bboxes:
|
|
433
|
+
combined = Bbox.union(x_axis_bboxes)
|
|
434
|
+
bboxes["xaxis_ticks"] = bbox_to_img_coords(combined)
|
|
435
|
+
bboxes["xaxis_ticks"]["label"] = "X Spine & Ticks"
|
|
436
|
+
|
|
437
|
+
# Y-axis: combine spine and tick labels into one bbox
|
|
438
|
+
y_axis_bboxes = []
|
|
439
|
+
for ticklabel in ax.yaxis.get_ticklabels():
|
|
440
|
+
if ticklabel.get_visible():
|
|
441
|
+
try:
|
|
442
|
+
tb = ticklabel.get_window_extent(renderer)
|
|
443
|
+
if tb.width > 0:
|
|
444
|
+
y_axis_bboxes.append(tb)
|
|
445
|
+
except Exception:
|
|
446
|
+
pass
|
|
447
|
+
for tick in ax.yaxis.get_major_ticks():
|
|
448
|
+
if tick.tick1line.get_visible():
|
|
449
|
+
try:
|
|
450
|
+
tb = tick.tick1line.get_window_extent(renderer)
|
|
451
|
+
if tb.width > 0 or tb.height > 0:
|
|
452
|
+
y_axis_bboxes.append(tb)
|
|
453
|
+
except Exception:
|
|
454
|
+
pass
|
|
455
|
+
spine_bbox = ax.spines["left"].get_window_extent(renderer)
|
|
456
|
+
if spine_bbox.height > 0:
|
|
457
|
+
if y_axis_bboxes:
|
|
458
|
+
tick_union = Bbox.union(y_axis_bboxes)
|
|
459
|
+
constrained_spine = Bbox.from_extents(
|
|
460
|
+
spine_bbox.x0, tick_union.y0, spine_bbox.x1, tick_union.y1
|
|
461
|
+
)
|
|
462
|
+
y_axis_bboxes.append(constrained_spine)
|
|
463
|
+
else:
|
|
464
|
+
y_axis_bboxes.append(spine_bbox)
|
|
465
|
+
if y_axis_bboxes:
|
|
466
|
+
combined = Bbox.union(y_axis_bboxes)
|
|
467
|
+
padded = Bbox.from_extents(
|
|
468
|
+
combined.x0 - 10, combined.y0 - 5, combined.x1 + 5, combined.y1 + 5
|
|
469
|
+
)
|
|
470
|
+
bboxes["yaxis_ticks"] = bbox_to_img_coords(padded)
|
|
471
|
+
bboxes["yaxis_ticks"]["label"] = "Y Spine & Ticks"
|
|
472
|
+
|
|
473
|
+
except Exception as e:
|
|
474
|
+
print(f"Error getting axis bboxes: {e}")
|
|
475
|
+
|
|
476
|
+
|
|
477
|
+
def _extract_trace_bboxes(
|
|
478
|
+
ax,
|
|
479
|
+
fig,
|
|
480
|
+
renderer,
|
|
481
|
+
bboxes,
|
|
482
|
+
get_element_bbox,
|
|
483
|
+
tight_x0,
|
|
484
|
+
tight_y0,
|
|
485
|
+
saved_height_inches,
|
|
486
|
+
scale_x,
|
|
487
|
+
scale_y,
|
|
488
|
+
pad_inches,
|
|
489
|
+
):
|
|
490
|
+
"""Extract bboxes for trace (line) elements with proximity detection points."""
|
|
491
|
+
for idx, line in enumerate(ax.get_lines()):
|
|
492
|
+
try:
|
|
493
|
+
label = line.get_label()
|
|
494
|
+
if label.startswith("_"):
|
|
495
|
+
continue
|
|
496
|
+
get_element_bbox(line, f"trace_{idx}")
|
|
497
|
+
if f"trace_{idx}" in bboxes:
|
|
498
|
+
bboxes[f"trace_{idx}"]["label"] = label or f"Trace {idx}"
|
|
499
|
+
bboxes[f"trace_{idx}"]["trace_idx"] = idx
|
|
500
|
+
|
|
501
|
+
# Get line data points in pixel coordinates for proximity detection
|
|
502
|
+
xdata, ydata = line.get_xdata(), line.get_ydata()
|
|
503
|
+
if len(xdata) > 0:
|
|
504
|
+
transform = ax.transData
|
|
505
|
+
points_display = transform.transform(list(zip(xdata, ydata)))
|
|
506
|
+
|
|
507
|
+
points_img = []
|
|
508
|
+
for px, py in points_display:
|
|
509
|
+
px_inches = px / fig.dpi
|
|
510
|
+
py_inches = py / fig.dpi
|
|
511
|
+
x_rel = px_inches - tight_x0 + pad_inches
|
|
512
|
+
y_rel = saved_height_inches - (
|
|
513
|
+
py_inches - tight_y0 + pad_inches
|
|
514
|
+
)
|
|
515
|
+
x_img = int(x_rel * scale_x)
|
|
516
|
+
y_img = int(y_rel * scale_y)
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517
|
+
points_img.append([x_img, y_img])
|
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518
|
+
|
|
519
|
+
# Downsample points if too many
|
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520
|
+
if len(points_img) > 100:
|
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521
|
+
step = len(points_img) // 100
|
|
522
|
+
points_img = points_img[::step]
|
|
523
|
+
|
|
524
|
+
bboxes[f"trace_{idx}"]["points"] = points_img
|
|
525
|
+
except Exception as e:
|
|
526
|
+
print(f"Error getting trace bbox: {e}")
|
|
527
|
+
|
|
528
|
+
|
|
529
|
+
# EOF
|
|
@@ -10,8 +10,8 @@ import json
|
|
|
10
10
|
import threading
|
|
11
11
|
import webbrowser
|
|
12
12
|
|
|
13
|
-
from .
|
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14
|
-
from .
|
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13
|
+
from ._utils import find_available_port, kill_process_on_port, check_port_available
|
|
14
|
+
from ._renderer import render_preview_with_bboxes
|
|
15
15
|
from .templates import build_html_template
|
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16
16
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|
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17
17
|
|
|
@@ -47,6 +47,7 @@ class WebEditor:
|
|
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47
47
|
|
|
48
48
|
# Get SciTeX defaults and merge with metadata
|
|
49
49
|
from .._defaults import get_scitex_defaults, extract_defaults_from_metadata
|
|
50
|
+
|
|
50
51
|
self.scitex_defaults = get_scitex_defaults()
|
|
51
52
|
self.metadata_defaults = extract_defaults_from_metadata(metadata)
|
|
52
53
|
|
|
@@ -64,13 +65,16 @@ class WebEditor:
|
|
|
64
65
|
try:
|
|
65
66
|
from flask import Flask, render_template_string, request, jsonify
|
|
66
67
|
except ImportError:
|
|
67
|
-
raise ImportError(
|
|
68
|
+
raise ImportError(
|
|
69
|
+
"Flask is required for web editor. Install: pip install flask"
|
|
70
|
+
)
|
|
68
71
|
|
|
69
72
|
# Handle port conflicts
|
|
70
73
|
if not check_port_available(self._requested_port):
|
|
71
74
|
print(f"Port {self._requested_port} is in use. Attempting to free it...")
|
|
72
75
|
if kill_process_on_port(self._requested_port):
|
|
73
76
|
import time
|
|
77
|
+
|
|
74
78
|
time.sleep(0.5)
|
|
75
79
|
self.port = self._requested_port
|
|
76
80
|
print(f"Successfully freed port {self.port}")
|
|
@@ -82,71 +86,83 @@ class WebEditor:
|
|
|
82
86
|
|
|
83
87
|
app = Flask(__name__)
|
|
84
88
|
editor = self
|
|
85
|
-
html_template = build_html_template()
|
|
86
89
|
|
|
87
|
-
@app.route(
|
|
90
|
+
@app.route("/")
|
|
88
91
|
def index():
|
|
92
|
+
# Rebuild template each time for hot reload support
|
|
93
|
+
html_template = build_html_template()
|
|
89
94
|
return render_template_string(
|
|
90
95
|
html_template,
|
|
91
96
|
filename=str(editor.json_path.resolve()),
|
|
92
|
-
overrides=json.dumps(editor.current_overrides)
|
|
97
|
+
overrides=json.dumps(editor.current_overrides),
|
|
93
98
|
)
|
|
94
99
|
|
|
95
|
-
@app.route(
|
|
100
|
+
@app.route("/preview")
|
|
96
101
|
def preview():
|
|
97
102
|
"""Generate figure preview as base64 PNG with element bboxes."""
|
|
98
103
|
img_data, bboxes, img_size = render_preview_with_bboxes(
|
|
99
|
-
editor.csv_data, editor.current_overrides
|
|
104
|
+
editor.csv_data, editor.current_overrides,
|
|
105
|
+
metadata=editor.metadata
|
|
100
106
|
)
|
|
101
|
-
return jsonify({
|
|
107
|
+
return jsonify({"image": img_data, "bboxes": bboxes, "img_size": img_size})
|
|
102
108
|
|
|
103
|
-
@app.route(
|
|
109
|
+
@app.route("/update", methods=["POST"])
|
|
104
110
|
def update():
|
|
105
111
|
"""Update overrides and return new preview."""
|
|
106
112
|
data = request.json
|
|
107
|
-
editor.current_overrides.update(data.get(
|
|
113
|
+
editor.current_overrides.update(data.get("overrides", {}))
|
|
108
114
|
editor._user_modified = True
|
|
109
115
|
img_data, bboxes, img_size = render_preview_with_bboxes(
|
|
110
|
-
editor.csv_data, editor.current_overrides
|
|
116
|
+
editor.csv_data, editor.current_overrides,
|
|
117
|
+
metadata=editor.metadata
|
|
118
|
+
)
|
|
119
|
+
return jsonify(
|
|
120
|
+
{
|
|
121
|
+
"image": img_data,
|
|
122
|
+
"bboxes": bboxes,
|
|
123
|
+
"img_size": img_size,
|
|
124
|
+
"status": "updated",
|
|
125
|
+
}
|
|
111
126
|
)
|
|
112
|
-
|
|
113
|
-
|
|
114
|
-
'bboxes': bboxes,
|
|
115
|
-
'img_size': img_size,
|
|
116
|
-
'status': 'updated'
|
|
117
|
-
})
|
|
118
|
-
|
|
119
|
-
@app.route('/save', methods=['POST'])
|
|
127
|
+
|
|
128
|
+
@app.route("/save", methods=["POST"])
|
|
120
129
|
def save():
|
|
121
130
|
"""Save to .manual.json."""
|
|
122
131
|
from .._edit import save_manual_overrides
|
|
132
|
+
|
|
123
133
|
try:
|
|
124
|
-
manual_path = save_manual_overrides(
|
|
125
|
-
|
|
134
|
+
manual_path = save_manual_overrides(
|
|
135
|
+
editor.json_path, editor.current_overrides
|
|
136
|
+
)
|
|
137
|
+
return jsonify({"status": "saved", "path": str(manual_path)})
|
|
126
138
|
except Exception as e:
|
|
127
|
-
return jsonify({
|
|
139
|
+
return jsonify({"status": "error", "message": str(e)}), 500
|
|
128
140
|
|
|
129
|
-
@app.route(
|
|
141
|
+
@app.route("/shutdown", methods=["POST"])
|
|
130
142
|
def shutdown():
|
|
131
143
|
"""Shutdown the server."""
|
|
132
|
-
func = request.environ.get(
|
|
144
|
+
func = request.environ.get("werkzeug.server.shutdown")
|
|
133
145
|
if func is None:
|
|
134
|
-
raise RuntimeError(
|
|
146
|
+
raise RuntimeError("Not running with Werkzeug Server")
|
|
135
147
|
func()
|
|
136
|
-
return jsonify({
|
|
148
|
+
return jsonify({"status": "shutdown"})
|
|
137
149
|
|
|
138
150
|
# Open browser after short delay
|
|
139
151
|
def open_browser():
|
|
140
152
|
import time
|
|
153
|
+
|
|
141
154
|
time.sleep(0.5)
|
|
142
|
-
webbrowser.open(f
|
|
155
|
+
webbrowser.open(f"http://127.0.0.1:{self.port}")
|
|
143
156
|
|
|
144
157
|
threading.Thread(target=open_browser, daemon=True).start()
|
|
145
158
|
|
|
146
159
|
print(f"Starting SciTeX Editor at http://127.0.0.1:{self.port}")
|
|
147
160
|
print("Press Ctrl+C to stop")
|
|
148
161
|
|
|
149
|
-
|
|
162
|
+
# Note: use_reloader=False because the reloader re-runs the entire script
|
|
163
|
+
# which causes infinite loops when the demo generates figures
|
|
164
|
+
# Templates are rebuilt on each page refresh anyway
|
|
165
|
+
app.run(host="127.0.0.1", port=self.port, debug=False, use_reloader=False)
|
|
150
166
|
|
|
151
167
|
|
|
152
168
|
# EOF
|