scitex 2.4.3__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 +11 -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 +166 -0
- 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 +228 -63
- scitex/io/_save_modules/__init__.py +7 -2
- scitex/io/_save_modules/_bibtex.py +66 -61
- scitex/io/_save_modules/_canvas.py +355 -0
- 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 +128 -34
- 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/README.md +246 -615
- scitex/vis/__init__.py +138 -78
- 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 +435 -0
- scitex/vis/docs/CANVAS_ARCHITECTURE.md +307 -0
- scitex/vis/editor/__init__.py +1 -1
- scitex/vis/editor/_dearpygui_editor.py +1976 -0
- scitex/vis/editor/_defaults.py +140 -110
- scitex/vis/editor/_edit.py +90 -42
- scitex/vis/editor/_flask_editor.py +37 -0
- scitex/vis/editor/_mpl_editor.py +63 -48
- scitex/vis/editor/_qt_editor.py +916 -0
- scitex/vis/editor/_tkinter_editor.py +146 -89
- scitex/vis/editor/flask_editor/__init__.py +21 -0
- scitex/vis/editor/flask_editor/_bbox.py +529 -0
- scitex/vis/editor/flask_editor/_core.py +168 -0
- 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 +80 -0
- scitex/vis/editor/flask_editor/templates/__init__.py +33 -0
- scitex/vis/editor/flask_editor/templates/_html.py +513 -0
- scitex/vis/editor/flask_editor/templates/_scripts.py +1261 -0
- scitex/vis/editor/flask_editor/templates/_styles.py +739 -0
- scitex/vis/io/__init__.py +84 -21
- scitex/vis/io/_canvas.py +230 -0
- scitex/vis/io/_data.py +208 -0
- scitex/vis/io/_directory.py +205 -0
- scitex/vis/io/_export.py +463 -0
- scitex/vis/io/{load.py → _load.py} +1 -1
- scitex/vis/io/_panel.py +432 -0
- 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-2.4.3.dist-info → scitex-2.7.0.dist-info}/METADATA +12 -11
- {scitex-2.4.3.dist-info → scitex-2.7.0.dist-info}/RECORD +1075 -958
- scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin_v01-indentation-issues.py +0 -583
- scitex/plt/_subplots/_export_as_csv_formatters.py +0 -112
- scitex/vis/DJANGO_INTEGRATION.md +0 -677
- scitex/vis/editor/_web_editor.py +0 -1440
- scitex/vis/tmp.txt +0 -239
- {scitex-2.4.3.dist-info → scitex-2.7.0.dist-info}/WHEEL +0 -0
- {scitex-2.4.3.dist-info → scitex-2.7.0.dist-info}/entry_points.txt +0 -0
- {scitex-2.4.3.dist-info → scitex-2.7.0.dist-info}/licenses/LICENSE +0 -0
scitex/vis/canvas.py
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#!/usr/bin/env python3
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# -*- coding: utf-8 -*-
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# Timestamp: 2025-12-08
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# File: ./src/scitex/vis/canvas.py
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"""
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Canvas class for scitex.vis.
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Provides object-oriented interface to canvas operations.
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"""
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from pathlib import Path
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from typing import Dict, Any, Union, List, Optional
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from datetime import datetime
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class Canvas:
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"""
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Canvas for composing publication-quality figures.
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A Canvas represents a paper figure workspace containing multiple panels.
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It can be saved to a .canvas directory bundle for portability.
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Parameters
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----------
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name : str
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Canvas name (e.g., "fig1_neural_results")
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width_mm : float
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Canvas width in millimeters (default: 180)
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height_mm : float
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Canvas height in millimeters (default: 240)
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Examples
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--------
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>>> import scitex as stx
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>>> # Create canvas
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>>> canvas = stx.vis.Canvas("fig1", width_mm=180, height_mm=120)
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>>> # Add panels
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>>> canvas.add_panel("panel_a", "plot.png", position=(10, 10), size=(80, 50), label="A")
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>>> canvas.add_panel("panel_b", "chart.png", position=(100, 10), size=(80, 50), label="B")
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>>> # Save (auto-exports PNG/PDF/SVG)
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>>> stx.io.save(canvas, "/output/fig1.canvas")
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"""
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def __init__(
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self,
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name: str,
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width_mm: float = 180,
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height_mm: float = 240,
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):
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self._name = name
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self._width_mm = width_mm
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self._height_mm = height_mm
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self._panels: List[Dict[str, Any]] = []
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self._annotations: List[Dict[str, Any]] = []
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self._title: Dict[str, Any] = {"text": "", "position": {}, "fontsize": 14}
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self._background: Dict[str, Any] = {"color": "#ffffff", "grid": False}
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self._metadata: Dict[str, Any] = {
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"created_at": datetime.now().isoformat(),
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"updated_at": datetime.now().isoformat(),
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"author": "",
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"description": "",
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}
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self._caption: Dict[str, Any] = {
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"text": "",
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"render": False,
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"fontsize": 10,
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"width_mm": None,
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}
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self._source_files: Dict[str, Path] = {} # panel_name -> source_path
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@property
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def name(self) -> str:
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"""Canvas name."""
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return self._name
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@property
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def panels(self) -> List[Dict[str, Any]]:
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"""List of panel configurations."""
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return self._panels
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def add_panel(
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self,
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panel_name: str,
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source: Union[str, Path],
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position: tuple = (0, 0),
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size: tuple = (50, 50),
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label: str = "",
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**kwargs,
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) -> "Canvas":
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"""
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Add a panel to the canvas.
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Parameters
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----------
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panel_name : str
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Name for the panel
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source : str or Path
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Path to source file (PNG, JPG, SVG)
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position : tuple
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(x_mm, y_mm) position on canvas
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size : tuple
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(width_mm, height_mm) panel size
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label : str
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Panel label (A, B, C...)
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**kwargs
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Additional panel properties (rotation_deg, opacity, flip_h, etc.)
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Returns
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-------
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Canvas
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Self for method chaining
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"""
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source = Path(source)
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# Determine panel type
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json_sibling = source.parent / f"{source.stem}.json"
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panel_type = "scitex" if json_sibling.exists() else "image"
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# Build panel entry
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panel_entry = {
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"name": panel_name,
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"type": panel_type,
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"position": {"x_mm": position[0], "y_mm": position[1]},
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"size": {"width_mm": size[0], "height_mm": size[1]},
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"z_index": len(self._panels),
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"rotation_deg": kwargs.get("rotation_deg", 0),
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"opacity": kwargs.get("opacity", 1.0),
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"flip_h": kwargs.get("flip_h", False),
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"flip_v": kwargs.get("flip_v", False),
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"visible": kwargs.get("visible", True),
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"clip": {
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"enabled": False,
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"x_mm": 0,
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"y_mm": 0,
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"width_mm": None,
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"height_mm": None,
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},
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"label": {
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"text": label,
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"position": "top-left",
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"fontsize": 12,
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"fontweight": "bold",
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},
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"border": {
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"visible": False,
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"color": "#000000",
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"width_mm": 0.2,
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},
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}
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if panel_type == "image":
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panel_entry["source"] = f"panel{source.suffix}"
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# Apply any additional kwargs to nested dicts
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for key, value in kwargs.items():
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if (
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key in panel_entry
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and isinstance(panel_entry[key], dict)
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and isinstance(value, dict)
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):
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panel_entry[key].update(value)
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elif key not in ["rotation_deg", "opacity", "flip_h", "flip_v", "visible"]:
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panel_entry[key] = value
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# Remove existing panel with same name
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self._panels = [p for p in self._panels if p.get("name") != panel_name]
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self._panels.append(panel_entry)
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# Store source file path for later
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self._source_files[panel_name] = source.resolve()
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return self
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def update_panel(self, panel_name: str, updates: Dict[str, Any]) -> "Canvas":
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"""
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Update panel properties.
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Parameters
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----------
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panel_name : str
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Name of panel to update
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updates : Dict[str, Any]
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Properties to update
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Returns
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-------
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Canvas
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Self for method chaining
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"""
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for panel in self._panels:
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if panel.get("name") == panel_name:
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_deep_merge(panel, updates)
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break
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return self
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def remove_panel(self, panel_name: str) -> "Canvas":
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"""
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Remove a panel from the canvas.
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Parameters
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----------
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panel_name : str
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Name of panel to remove
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Returns
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-------
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Canvas
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Self for method chaining
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"""
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self._panels = [p for p in self._panels if p.get("name") != panel_name]
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self._source_files.pop(panel_name, None)
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return self
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def add_annotation(
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self,
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ann_type: str,
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**kwargs,
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) -> "Canvas":
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"""
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Add an annotation to the canvas.
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Parameters
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----------
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ann_type : str
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Annotation type: "text", "arrow", "bracket", "line", "rectangle", "legend"
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**kwargs
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Type-specific properties
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Returns
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-------
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Canvas
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Self for method chaining
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"""
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annotation = {"type": ann_type, **kwargs}
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self._annotations.append(annotation)
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return self
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def set_caption(
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self,
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text: str,
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render: bool = False,
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position: tuple = None,
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fontsize: int = 10,
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244
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+
width_mm: float = None,
|
|
245
|
+
) -> "Canvas":
|
|
246
|
+
"""
|
|
247
|
+
Set figure caption (legend in scientific sense).
|
|
248
|
+
|
|
249
|
+
Caption is stored as metadata by default. Use render=True to
|
|
250
|
+
include it in the exported image. "Figure X." numbering should
|
|
251
|
+
be handled by LaTeX/document side, not included in caption text.
|
|
252
|
+
|
|
253
|
+
Parameters
|
|
254
|
+
----------
|
|
255
|
+
text : str
|
|
256
|
+
Caption text describing the figure, e.g.,
|
|
257
|
+
"Neural activity across conditions. (A) Control. (B) Treatment."
|
|
258
|
+
Do NOT include "Figure X." - that's handled by LaTeX.
|
|
259
|
+
render : bool
|
|
260
|
+
If True, render caption in exported image.
|
|
261
|
+
If False (default), store as metadata only.
|
|
262
|
+
position : tuple, optional
|
|
263
|
+
(x_mm, y_mm) position when render=True. Default: below canvas
|
|
264
|
+
fontsize : int
|
|
265
|
+
Font size when rendered (default: 10)
|
|
266
|
+
width_mm : float, optional
|
|
267
|
+
Text wrap width in mm. Default: canvas width - 20mm margins
|
|
268
|
+
|
|
269
|
+
Returns
|
|
270
|
+
-------
|
|
271
|
+
Canvas
|
|
272
|
+
Self for method chaining
|
|
273
|
+
|
|
274
|
+
Examples
|
|
275
|
+
--------
|
|
276
|
+
>>> # Caption as metadata only (for LaTeX)
|
|
277
|
+
>>> canvas.set_caption(
|
|
278
|
+
... "Neural responses to visual stimuli. "
|
|
279
|
+
... "(A) Raw signals. (B) Filtered signals."
|
|
280
|
+
... )
|
|
281
|
+
>>>
|
|
282
|
+
>>> # Caption rendered in image
|
|
283
|
+
>>> canvas.set_caption(
|
|
284
|
+
... "Neural responses to visual stimuli.",
|
|
285
|
+
... render=True
|
|
286
|
+
... )
|
|
287
|
+
"""
|
|
288
|
+
self._caption = {
|
|
289
|
+
"text": text,
|
|
290
|
+
"render": render,
|
|
291
|
+
"fontsize": fontsize,
|
|
292
|
+
"width_mm": width_mm,
|
|
293
|
+
}
|
|
294
|
+
if position:
|
|
295
|
+
self._caption["position"] = {"x_mm": position[0], "y_mm": position[1]}
|
|
296
|
+
|
|
297
|
+
return self
|
|
298
|
+
|
|
299
|
+
def set_title(
|
|
300
|
+
self, text: str, position: tuple = None, fontsize: int = 14
|
|
301
|
+
) -> "Canvas":
|
|
302
|
+
"""
|
|
303
|
+
Set canvas title.
|
|
304
|
+
|
|
305
|
+
Parameters
|
|
306
|
+
----------
|
|
307
|
+
text : str
|
|
308
|
+
Title text
|
|
309
|
+
position : tuple, optional
|
|
310
|
+
(x_mm, y_mm) position
|
|
311
|
+
fontsize : int
|
|
312
|
+
Font size
|
|
313
|
+
|
|
314
|
+
Returns
|
|
315
|
+
-------
|
|
316
|
+
Canvas
|
|
317
|
+
Self for method chaining
|
|
318
|
+
"""
|
|
319
|
+
self._title["text"] = text
|
|
320
|
+
if position:
|
|
321
|
+
self._title["position"] = {"x_mm": position[0], "y_mm": position[1]}
|
|
322
|
+
self._title["fontsize"] = fontsize
|
|
323
|
+
return self
|
|
324
|
+
|
|
325
|
+
def to_dict(self) -> Dict[str, Any]:
|
|
326
|
+
"""
|
|
327
|
+
Convert canvas to dictionary representation.
|
|
328
|
+
|
|
329
|
+
Returns
|
|
330
|
+
-------
|
|
331
|
+
Dict[str, Any]
|
|
332
|
+
Canvas as dictionary (canvas.json structure)
|
|
333
|
+
"""
|
|
334
|
+
return {
|
|
335
|
+
"schema_version": "2.0.0",
|
|
336
|
+
"canvas_name": self._name,
|
|
337
|
+
"size": {
|
|
338
|
+
"width_mm": self._width_mm,
|
|
339
|
+
"height_mm": self._height_mm,
|
|
340
|
+
},
|
|
341
|
+
"background": self._background,
|
|
342
|
+
"panels": self._panels,
|
|
343
|
+
"annotations": self._annotations,
|
|
344
|
+
"title": self._title,
|
|
345
|
+
"caption": self._caption,
|
|
346
|
+
"data_files": [],
|
|
347
|
+
"metadata": self._metadata,
|
|
348
|
+
"manual_overrides": {},
|
|
349
|
+
"_source_files": {k: str(v) for k, v in self._source_files.items()},
|
|
350
|
+
}
|
|
351
|
+
|
|
352
|
+
@classmethod
|
|
353
|
+
def from_dict(cls, data: Dict[str, Any]) -> "Canvas":
|
|
354
|
+
"""
|
|
355
|
+
Create canvas from dictionary.
|
|
356
|
+
|
|
357
|
+
Parameters
|
|
358
|
+
----------
|
|
359
|
+
data : Dict[str, Any]
|
|
360
|
+
Canvas dictionary (from canvas.json or to_dict())
|
|
361
|
+
|
|
362
|
+
Returns
|
|
363
|
+
-------
|
|
364
|
+
Canvas
|
|
365
|
+
New Canvas instance
|
|
366
|
+
"""
|
|
367
|
+
size = data.get("size", {})
|
|
368
|
+
canvas = cls(
|
|
369
|
+
name=data.get("canvas_name", "untitled"),
|
|
370
|
+
width_mm=size.get("width_mm", 180),
|
|
371
|
+
height_mm=size.get("height_mm", 240),
|
|
372
|
+
)
|
|
373
|
+
canvas._panels = data.get("panels", [])
|
|
374
|
+
canvas._annotations = data.get("annotations", [])
|
|
375
|
+
canvas._title = data.get("title", canvas._title)
|
|
376
|
+
canvas._caption = data.get("caption", canvas._caption)
|
|
377
|
+
canvas._background = data.get("background", canvas._background)
|
|
378
|
+
canvas._metadata = data.get("metadata", canvas._metadata)
|
|
379
|
+
|
|
380
|
+
# Restore source files if present
|
|
381
|
+
source_files = data.get("_source_files", {})
|
|
382
|
+
for panel_name, path_str in source_files.items():
|
|
383
|
+
canvas._source_files[panel_name] = Path(path_str)
|
|
384
|
+
|
|
385
|
+
return canvas
|
|
386
|
+
|
|
387
|
+
def save(
|
|
388
|
+
self,
|
|
389
|
+
path: Union[str, Path],
|
|
390
|
+
bundle: bool = False,
|
|
391
|
+
**kwargs,
|
|
392
|
+
) -> Path:
|
|
393
|
+
"""
|
|
394
|
+
Save canvas to a .canvas directory.
|
|
395
|
+
|
|
396
|
+
Parameters
|
|
397
|
+
----------
|
|
398
|
+
path : str or Path
|
|
399
|
+
Path where the .canvas directory should be created.
|
|
400
|
+
Must end with .canvas extension.
|
|
401
|
+
bundle : bool
|
|
402
|
+
If True, copy source files. If False (default), use symlinks.
|
|
403
|
+
**kwargs
|
|
404
|
+
Additional arguments passed to stx.io.save
|
|
405
|
+
|
|
406
|
+
Returns
|
|
407
|
+
-------
|
|
408
|
+
Path
|
|
409
|
+
Path to the created .canvas directory.
|
|
410
|
+
|
|
411
|
+
Examples
|
|
412
|
+
--------
|
|
413
|
+
>>> canvas = stx.vis.Canvas("fig1")
|
|
414
|
+
>>> canvas.add_panel("panel_a", "plot.png", ...)
|
|
415
|
+
>>> canvas.save("/output/fig1.canvas") # Uses symlinks
|
|
416
|
+
>>> canvas.save("/output/fig1.canvas", bundle=True) # Copies files
|
|
417
|
+
"""
|
|
418
|
+
import scitex as stx
|
|
419
|
+
|
|
420
|
+
return stx.io.save(self, path, bundle=bundle, **kwargs)
|
|
421
|
+
|
|
422
|
+
def __repr__(self) -> str:
|
|
423
|
+
return f"Canvas(name='{self._name}', panels={len(self._panels)})"
|
|
424
|
+
|
|
425
|
+
|
|
426
|
+
def _deep_merge(base: Dict, updates: Dict) -> None:
|
|
427
|
+
"""Deep merge updates into base dictionary (in-place)."""
|
|
428
|
+
for key, value in updates.items():
|
|
429
|
+
if key in base and isinstance(base[key], dict) and isinstance(value, dict):
|
|
430
|
+
_deep_merge(base[key], value)
|
|
431
|
+
else:
|
|
432
|
+
base[key] = value
|
|
433
|
+
|
|
434
|
+
|
|
435
|
+
# EOF
|