scitex 2.5.0__py3-none-any.whl → 2.7.3__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 +25 -10
- 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/audio/README.md +52 -0
- scitex/audio/__init__.py +384 -0
- scitex/audio/__main__.py +129 -0
- scitex/audio/_tts.py +334 -0
- scitex/audio/engines/__init__.py +44 -0
- scitex/audio/engines/base.py +275 -0
- scitex/audio/engines/elevenlabs_engine.py +143 -0
- scitex/audio/engines/gtts_engine.py +162 -0
- scitex/audio/engines/pyttsx3_engine.py +131 -0
- scitex/audio/mcp_server.py +757 -0
- 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/dev/plt/__init__.py +272 -0
- scitex/dev/plt/plot_mpl_axhline.py +28 -0
- scitex/dev/plt/plot_mpl_axhspan.py +28 -0
- scitex/dev/plt/plot_mpl_axvline.py +28 -0
- scitex/dev/plt/plot_mpl_axvspan.py +28 -0
- scitex/dev/plt/plot_mpl_bar.py +29 -0
- scitex/dev/plt/plot_mpl_barh.py +29 -0
- scitex/dev/plt/plot_mpl_boxplot.py +28 -0
- scitex/dev/plt/plot_mpl_contour.py +31 -0
- scitex/dev/plt/plot_mpl_contourf.py +31 -0
- scitex/dev/plt/plot_mpl_errorbar.py +30 -0
- scitex/dev/plt/plot_mpl_eventplot.py +28 -0
- scitex/dev/plt/plot_mpl_fill.py +30 -0
- scitex/dev/plt/plot_mpl_fill_between.py +31 -0
- scitex/dev/plt/plot_mpl_hexbin.py +28 -0
- scitex/dev/plt/plot_mpl_hist.py +28 -0
- scitex/dev/plt/plot_mpl_hist2d.py +28 -0
- scitex/dev/plt/plot_mpl_imshow.py +29 -0
- scitex/dev/plt/plot_mpl_pcolormesh.py +31 -0
- scitex/dev/plt/plot_mpl_pie.py +29 -0
- scitex/dev/plt/plot_mpl_plot.py +29 -0
- scitex/dev/plt/plot_mpl_quiver.py +31 -0
- scitex/dev/plt/plot_mpl_scatter.py +28 -0
- scitex/dev/plt/plot_mpl_stackplot.py +31 -0
- scitex/dev/plt/plot_mpl_stem.py +29 -0
- scitex/dev/plt/plot_mpl_step.py +29 -0
- scitex/dev/plt/plot_mpl_violinplot.py +28 -0
- scitex/dev/plt/plot_sns_barplot.py +29 -0
- scitex/dev/plt/plot_sns_boxplot.py +29 -0
- scitex/dev/plt/plot_sns_heatmap.py +28 -0
- scitex/dev/plt/plot_sns_histplot.py +29 -0
- scitex/dev/plt/plot_sns_kdeplot.py +29 -0
- scitex/dev/plt/plot_sns_lineplot.py +31 -0
- scitex/dev/plt/plot_sns_scatterplot.py +29 -0
- scitex/dev/plt/plot_sns_stripplot.py +29 -0
- scitex/dev/plt/plot_sns_swarmplot.py +29 -0
- scitex/dev/plt/plot_sns_violinplot.py +29 -0
- scitex/dev/plt/plot_stx_bar.py +29 -0
- scitex/dev/plt/plot_stx_barh.py +29 -0
- scitex/dev/plt/plot_stx_box.py +28 -0
- scitex/dev/plt/plot_stx_boxplot.py +28 -0
- scitex/dev/plt/plot_stx_conf_mat.py +28 -0
- scitex/dev/plt/plot_stx_contour.py +31 -0
- scitex/dev/plt/plot_stx_ecdf.py +28 -0
- scitex/dev/plt/plot_stx_errorbar.py +30 -0
- scitex/dev/plt/plot_stx_fill_between.py +31 -0
- scitex/dev/plt/plot_stx_fillv.py +28 -0
- scitex/dev/plt/plot_stx_heatmap.py +28 -0
- scitex/dev/plt/plot_stx_image.py +28 -0
- scitex/dev/plt/plot_stx_imshow.py +28 -0
- scitex/dev/plt/plot_stx_joyplot.py +28 -0
- scitex/dev/plt/plot_stx_kde.py +28 -0
- scitex/dev/plt/plot_stx_line.py +28 -0
- scitex/dev/plt/plot_stx_mean_ci.py +28 -0
- scitex/dev/plt/plot_stx_mean_std.py +28 -0
- scitex/dev/plt/plot_stx_median_iqr.py +28 -0
- scitex/dev/plt/plot_stx_raster.py +28 -0
- scitex/dev/plt/plot_stx_rectangle.py +28 -0
- scitex/dev/plt/plot_stx_scatter.py +29 -0
- scitex/dev/plt/plot_stx_shaded_line.py +29 -0
- scitex/dev/plt/plot_stx_violin.py +28 -0
- scitex/dev/plt/plot_stx_violinplot.py +28 -0
- 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/fig/__init__.py +352 -0
- scitex/{vis → fig}/backend/__init__.py +3 -3
- scitex/{vis/backend/export.py → fig/backend/_export.py} +1 -1
- scitex/{vis/backend/parser.py → fig/backend/_parser.py} +2 -4
- scitex/{vis/backend/render.py → fig/backend/_render.py} +1 -1
- scitex/{vis → fig}/canvas.py +16 -4
- scitex/{vis → fig}/editor/__init__.py +0 -0
- scitex/{vis → fig}/editor/_dearpygui_editor.py +450 -304
- scitex/fig/editor/_defaults.py +300 -0
- scitex/fig/editor/_edit.py +751 -0
- scitex/{vis → fig}/editor/_flask_editor.py +8 -8
- scitex/{vis → fig}/editor/_mpl_editor.py +63 -48
- scitex/{vis → fig}/editor/_qt_editor.py +391 -160
- scitex/{vis → fig}/editor/_tkinter_editor.py +146 -89
- scitex/fig/editor/flask_editor/__init__.py +21 -0
- scitex/fig/editor/flask_editor/_bbox.py +1276 -0
- scitex/fig/editor/flask_editor/_core.py +624 -0
- scitex/fig/editor/flask_editor/_plotter.py +601 -0
- scitex/fig/editor/flask_editor/_renderer.py +739 -0
- scitex/{vis/editor/flask_editor/utils.py → fig/editor/flask_editor/_utils.py} +13 -14
- scitex/{vis → fig}/editor/flask_editor/templates/__init__.py +6 -6
- scitex/fig/editor/flask_editor/templates/_html.py +834 -0
- scitex/fig/editor/flask_editor/templates/_scripts.py +3136 -0
- scitex/fig/editor/flask_editor/templates/_styles.py +1346 -0
- scitex/{vis → fig}/io/__init__.py +18 -6
- scitex/fig/io/_bundle.py +973 -0
- scitex/{vis/io/canvas.py → fig/io/_canvas.py} +9 -5
- scitex/{vis/io/data.py → fig/io/_data.py} +14 -10
- scitex/{vis/io/directory.py → fig/io/_directory.py} +7 -4
- scitex/{vis/io/export.py → fig/io/_export.py} +16 -13
- scitex/{vis/io/load.py → fig/io/_load.py} +2 -2
- scitex/{vis/io/panel.py → fig/io/_panel.py} +22 -14
- scitex/{vis/io/save.py → fig/io/_save.py} +1 -1
- scitex/{vis → fig}/model/__init__.py +8 -8
- scitex/{vis/model/annotations.py → fig/model/_annotations.py} +3 -5
- scitex/{vis/model/axes.py → fig/model/_axes.py} +2 -2
- scitex/{vis/model/figure.py → fig/model/_figure.py} +1 -1
- scitex/{vis/model/guides.py → fig/model/_guides.py} +2 -2
- scitex/{vis/model/plot.py → fig/model/_plot.py} +3 -5
- scitex/{vis/model/plot_types.py → fig/model/_plot_types.py} +0 -0
- scitex/{vis/model/styles.py → fig/model/_styles.py} +1 -1
- scitex/{vis → fig}/utils/__init__.py +3 -3
- scitex/{vis/utils/defaults.py → fig/utils/_defaults.py} +1 -2
- scitex/{vis/utils/validate.py → fig/utils/_validate.py} +3 -9
- 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 +12 -27
- scitex/io/_bundle.py +434 -0
- scitex/io/_flush.py +5 -2
- scitex/io/_glob.py +2 -2
- scitex/io/_json2md.py +3 -3
- scitex/io/_load.py +104 -8
- scitex/io/_load_cache.py +71 -71
- scitex/io/_load_configs.py +2 -3
- scitex/io/_load_modules/_H5Explorer.py +11 -14
- scitex/io/_load_modules/_ZarrExplorer.py +3 -3
- scitex/io/_load_modules/_bibtex.py +62 -63
- scitex/io/_load_modules/_canvas.py +6 -11
- scitex/io/_load_modules/_catboost.py +7 -2
- scitex/io/_load_modules/_hdf5.py +2 -0
- scitex/io/_load_modules/_image.py +7 -4
- scitex/io/_load_modules/_matlab.py +3 -1
- scitex/io/_load_modules/_optuna.py +0 -1
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- scitex/scholar/url_finder/translators/individual/oxford.py +25 -19
- scitex/scholar/url_finder/translators/individual/oxford_dictionaries_premium.py +3 -1
- scitex/scholar/url_finder/translators/individual/ozon_ru.py +3 -1
- scitex/scholar/url_finder/translators/individual/plos.py +9 -12
- scitex/scholar/url_finder/translators/individual/polygon.py +3 -1
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- scitex/scholar/url_finder/translators/individual/project_muse.py +3 -1
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- scitex/scholar/url_finder/translators/individual/pubmed.py +71 -65
- scitex/scholar/url_finder/translators/individual/pubmed_central.py +8 -6
- scitex/scholar/url_finder/translators/individual/rechtspraak_nl.py +3 -1
- scitex/scholar/url_finder/translators/individual/sage_journals.py +25 -17
- scitex/scholar/url_finder/translators/individual/sciencedirect.py +36 -17
- scitex/scholar/url_finder/translators/individual/semantics_visual_library.py +3 -1
- scitex/scholar/url_finder/translators/individual/silverchair.py +70 -52
- scitex/scholar/url_finder/translators/individual/sora.py +3 -1
- scitex/scholar/url_finder/translators/individual/springer.py +15 -11
- scitex/scholar/url_finder/translators/individual/ssrn.py +3 -3
- scitex/scholar/url_finder/translators/individual/stanford_encyclopedia_of_philosophy.py +3 -1
- scitex/scholar/url_finder/translators/individual/superlib.py +3 -1
- scitex/scholar/url_finder/translators/individual/treesearch.py +3 -1
- scitex/scholar/url_finder/translators/individual/university_of_chicago_press_books.py +3 -1
- scitex/scholar/url_finder/translators/individual/vlex.py +3 -1
- scitex/scholar/url_finder/translators/individual/web_of_science.py +3 -1
- scitex/scholar/url_finder/translators/individual/web_of_science_nextgen.py +3 -1
- scitex/scholar/url_finder/translators/individual/wiley.py +31 -25
- scitex/scholar/url_finder/translators/individual/wilson_center_digital_archive.py +3 -1
- scitex/scholar/utils/bibtex/_parse_bibtex.py +3 -3
- scitex/scholar/utils/cleanup/_cleanup_scholar_processes.py +5 -9
- scitex/scholar/utils/text/_TextNormalizer.py +249 -176
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- scitex/scholar/utils/validation/__init__.py +0 -0
- scitex/scholar/utils/validation/validate_library_dois.py +61 -57
- scitex/scholar/zotero/__init__.py +1 -1
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- scitex/security/github.py +45 -32
- scitex/session/__init__.py +8 -9
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- scitex/stats/auto/__init__.py +188 -0
- scitex/stats/auto/_context.py +331 -0
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- scitex/stats/correct/_correct_sidak.py +36 -21
- scitex/stats/descriptive/_circular.py +20 -21
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- scitex/stats/effect_sizes/__init__.py +10 -11
- scitex/stats/effect_sizes/_cliffs_delta.py +35 -32
- scitex/stats/effect_sizes/_cohens_d.py +30 -31
- scitex/stats/effect_sizes/_epsilon_squared.py +19 -22
- scitex/stats/effect_sizes/_eta_squared.py +23 -27
- scitex/stats/effect_sizes/_prob_superiority.py +18 -21
- scitex/stats/io/__init__.py +29 -0
- scitex/stats/io/_bundle.py +156 -0
- scitex/stats/posthoc/__init__.py +3 -3
- scitex/stats/posthoc/_dunnett.py +75 -55
- scitex/stats/posthoc/_games_howell.py +61 -43
- scitex/stats/posthoc/_tukey_hsd.py +42 -34
- scitex/stats/power/__init__.py +2 -2
- scitex/stats/power/_power.py +56 -56
- scitex/stats/tests/__init__.py +1 -1
- scitex/stats/tests/correlation/__init__.py +1 -1
- scitex/stats/tests/correlation/_test_pearson.py +28 -38
- scitex/stats/utils/__init__.py +14 -17
- scitex/stats/utils/_effect_size.py +85 -78
- scitex/stats/utils/_formatters.py +49 -43
- scitex/stats/utils/_normalizers.py +7 -14
- scitex/stats/utils/_power.py +56 -56
- scitex/str/__init__.py +1 -0
- scitex/str/_clean_path.py +3 -3
- scitex/str/_factor_out_digits.py +86 -58
- scitex/str/_format_plot_text.py +180 -111
- scitex/str/_latex.py +19 -19
- scitex/str/_latex_fallback.py +9 -10
- scitex/str/_parse.py +3 -6
- scitex/str/_print_debug.py +13 -13
- scitex/str/_printc.py +2 -0
- scitex/str/_search.py +3 -3
- scitex/template/.legacy/_clone_project.py +9 -13
- scitex/template/__init__.py +10 -2
- scitex/template/_clone_project.py +7 -2
- scitex/template/_copy.py +1 -0
- scitex/template/_customize.py +3 -6
- scitex/template/_git_strategy.py +2 -3
- scitex/template/_rename.py +1 -0
- scitex/template/clone_pip_project.py +6 -7
- scitex/template/clone_research.py +7 -10
- scitex/template/clone_singularity.py +6 -7
- scitex/template/clone_writer_directory.py +6 -7
- scitex/tex/__init__.py +4 -0
- scitex/tex/_export.py +890 -0
- 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/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-2.7.3.dist-info}/METADATA +14 -10
- {scitex-2.5.0.dist-info → scitex-2.7.3.dist-info}/RECORD +1149 -985
- scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin_v01-indentation-issues.py +0 -583
- scitex/io/memo.md +0 -2827
- scitex/plt/_subplots/TODO.md +0 -53
- scitex/plt/_subplots/_AxisWrapperMixins/_AdjustmentMixin.py +0 -537
- scitex/plt/_subplots/_AxisWrapperMixins/_MatplotlibPlotMixin.py +0 -1499
- scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin.py +0 -431
- scitex/plt/_subplots/_export_as_csv_formatters.py +0 -112
- scitex/vis/__init__.py +0 -177
- scitex/vis/editor/_defaults.py +0 -244
- scitex/vis/editor/_edit.py +0 -378
- scitex/vis/editor/flask_editor/__init__.py +0 -21
- scitex/vis/editor/flask_editor/bbox.py +0 -216
- scitex/vis/editor/flask_editor/core.py +0 -152
- scitex/vis/editor/flask_editor/plotter.py +0 -130
- scitex/vis/editor/flask_editor/renderer.py +0 -184
- scitex/vis/editor/flask_editor/templates/html.py +0 -295
- scitex/vis/editor/flask_editor/templates/scripts.py +0 -614
- scitex/vis/editor/flask_editor/templates/styles.py +0 -549
- /scitex/{vis → fig}/README.md +0 -0
- /scitex/{vis → fig}/docs/CANVAS_ARCHITECTURE.md +0 -0
- {scitex-2.5.0.dist-info → scitex-2.7.3.dist-info}/WHEEL +0 -0
- {scitex-2.5.0.dist-info → scitex-2.7.3.dist-info}/entry_points.txt +0 -0
- {scitex-2.5.0.dist-info → scitex-2.7.3.dist-info}/licenses/LICENSE +0 -0
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continue
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# Handle asymmetric error bars if needed from kwargs
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result[col_yerr_neg] = yerr[0]
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col_xerr_neg = get_csv_column_name("xerr-neg", ax_row, ax_col, trace_id=trace_id)
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col_xerr_pos = get_csv_column_name("xerr-pos", ax_row, ax_col, trace_id=trace_id)
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result[col_xerr_neg] = xerr[0]
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return result
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# Fallback to args if errorbar_df not found
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args = tracked_dict.get("args", [])
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if len(args) >= 2:
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col_x = get_csv_column_name("x", ax_row, ax_col, trace_id=trace_id)
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col_y = get_csv_column_name("y", ax_row, ax_col, trace_id=trace_id)
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data = {col_x: args[0], col_y: args[1]}
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"""
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@@ -4,6 +4,7 @@
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# File: /data/gpfs/projects/punim2354/ywatanabe/scitex_repo/src/scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_heatmap.py
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# ----------------------------------------
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import os
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# ----------------------------------------
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import numpy as np
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from scitex.plt.utils._csv_column_naming import get_csv_column_name
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def _format_plot_heatmap(id, tracked_dict, kwargs):
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"""Format data from a stx_heatmap call.
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Exports heatmap data in xyz format (x, y, value) for better compatibility.
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Args:
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id (str): Identifier for the plot
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tracked_dict (dict): Dictionary containing tracked data
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kwargs (dict): Keyword arguments passed to stx_heatmap
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Returns:
|
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pd.DataFrame: Formatted heatmap data in xyz format
|
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"""
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if not tracked_dict or not isinstance(tracked_dict, dict):
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return pd.DataFrame()
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# Extract data from tracked_dict
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data = tracked_dict.get(
|
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x_labels = tracked_dict.get(
|
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y_labels = tracked_dict.get(
|
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data = tracked_dict.get("data")
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x_labels = tracked_dict.get("x_labels")
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y_labels = tracked_dict.get("y_labels")
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if data is not None and hasattr(data, "shape") and len(data.shape) == 2:
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rows, cols = data.shape
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row_indices, col_indices = np.meshgrid(
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row_indices, col_indices = np.meshgrid(range(rows), range(cols), indexing="ij")
|
|
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+
|
|
45
|
+
# Parse the tracking ID to get axes position and trace ID
|
|
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|
+
ax_row, ax_col, trace_id = _parse_tracking_id(id)
|
|
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|
+
|
|
48
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+
# Format data in xyz format (x, y, value) using single source of truth
|
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49
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df = pd.DataFrame(
|
|
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|
{
|
|
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-
|
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46
|
-
|
|
47
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-
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+
get_csv_column_name("x", ax_row, ax_col, trace_id=trace_id): col_indices.flatten(), # x is column
|
|
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|
+
get_csv_column_name("y", ax_row, ax_col, trace_id=trace_id): row_indices.flatten(), # y is row
|
|
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|
+
get_csv_column_name("value", ax_row, ax_col, trace_id=trace_id): data.flatten(), # z is intensity/value
|
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54
|
}
|
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55
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)
|
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-
|
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|
|
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57
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# Add label information if available
|
|
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58
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if x_labels is not None and len(x_labels) == cols:
|
|
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59
|
# Map column indices to x labels (columns are x)
|
|
54
60
|
x_label_map = {i: label for i, label in enumerate(x_labels)}
|
|
55
|
-
|
|
56
|
-
|
|
61
|
+
x_col_name = get_csv_column_name("x", ax_row, ax_col, trace_id=trace_id)
|
|
62
|
+
x_label_col_name = get_csv_column_name("x_label", ax_row, ax_col, trace_id=trace_id)
|
|
63
|
+
df[x_label_col_name] = df[x_col_name].map(x_label_map)
|
|
64
|
+
|
|
57
65
|
if y_labels is not None and len(y_labels) == rows:
|
|
58
66
|
# Map row indices to y labels (rows are y)
|
|
59
67
|
y_label_map = {i: label for i, label in enumerate(y_labels)}
|
|
60
|
-
|
|
61
|
-
|
|
68
|
+
y_col_name = get_csv_column_name("y", ax_row, ax_col, trace_id=trace_id)
|
|
69
|
+
y_label_col_name = get_csv_column_name("y_label", ax_row, ax_col, trace_id=trace_id)
|
|
70
|
+
df[y_label_col_name] = df[y_col_name].map(y_label_map)
|
|
71
|
+
|
|
62
72
|
return df
|
|
63
|
-
|
|
64
|
-
return pd.DataFrame()
|
|
73
|
+
|
|
74
|
+
return pd.DataFrame()
|
|
@@ -7,28 +7,35 @@ import os
|
|
|
7
7
|
import numpy as np
|
|
8
8
|
import pandas as pd
|
|
9
9
|
|
|
10
|
+
from scitex.plt.utils._csv_column_naming import get_csv_column_name
|
|
11
|
+
from ._format_plot import _parse_tracking_id
|
|
12
|
+
|
|
10
13
|
__FILE__ = __file__
|
|
11
14
|
__DIR__ = os.path.dirname(__FILE__)
|
|
12
15
|
# ----------------------------------------
|
|
13
16
|
|
|
17
|
+
|
|
14
18
|
def _format_plot_image(id, tracked_dict, kwargs):
|
|
15
19
|
"""Format data from a stx_image call.
|
|
16
|
-
|
|
20
|
+
|
|
17
21
|
Exports image data in long-format xyz format for better compatibility.
|
|
18
22
|
Also saves channel data for RGB/RGBA images.
|
|
19
|
-
|
|
23
|
+
|
|
20
24
|
Args:
|
|
21
25
|
id (str or int): Identifier for the plot
|
|
22
26
|
tracked_dict (dict): Dictionary containing tracked data
|
|
23
27
|
kwargs (dict): Keyword arguments passed to stx_image
|
|
24
|
-
|
|
28
|
+
|
|
25
29
|
Returns:
|
|
26
30
|
pd.DataFrame: Formatted image data in xyz format
|
|
27
31
|
"""
|
|
28
32
|
# Check if tracked_dict is not a dictionary or is empty
|
|
29
33
|
if not tracked_dict or not isinstance(tracked_dict, dict):
|
|
30
34
|
return pd.DataFrame()
|
|
31
|
-
|
|
35
|
+
|
|
36
|
+
# Parse the tracking ID to get axes position and trace ID
|
|
37
|
+
ax_row, ax_col, trace_id = _parse_tracking_id(id)
|
|
38
|
+
|
|
32
39
|
# Check if image_df is available and use it if present
|
|
33
40
|
if "image_df" in tracked_dict:
|
|
34
41
|
image_df = tracked_dict.get("image_df")
|
|
@@ -36,17 +43,21 @@ def _format_plot_image(id, tracked_dict, kwargs):
|
|
|
36
43
|
# Add prefix if ID is provided
|
|
37
44
|
if id is not None:
|
|
38
45
|
image_df = image_df.copy()
|
|
39
|
-
|
|
40
|
-
|
|
41
|
-
|
|
42
|
-
|
|
46
|
+
# Rename columns using single source of truth
|
|
47
|
+
renamed = {}
|
|
48
|
+
for col in image_df.columns:
|
|
49
|
+
# Convert to string to handle integer column names
|
|
50
|
+
col_str = str(col)
|
|
51
|
+
renamed[col] = get_csv_column_name(
|
|
52
|
+
col_str, ax_row, ax_col, trace_id=trace_id
|
|
53
|
+
)
|
|
54
|
+
image_df = image_df.rename(columns=renamed)
|
|
43
55
|
return image_df
|
|
44
|
-
|
|
56
|
+
|
|
45
57
|
# If we have image data
|
|
46
58
|
if "image" in tracked_dict:
|
|
47
59
|
img = tracked_dict["image"]
|
|
48
|
-
|
|
49
|
-
|
|
60
|
+
|
|
50
61
|
# Handle 2D grayscale images - create xyz format (x, y, value)
|
|
51
62
|
if isinstance(img, np.ndarray) and img.ndim == 2:
|
|
52
63
|
rows, cols = img.shape
|
|
@@ -54,12 +65,12 @@ def _format_plot_image(id, tracked_dict, kwargs):
|
|
|
54
65
|
range(rows), range(cols), indexing="ij"
|
|
55
66
|
)
|
|
56
67
|
|
|
57
|
-
# Create xyz format
|
|
68
|
+
# Create xyz format using single source of truth
|
|
58
69
|
df = pd.DataFrame(
|
|
59
70
|
{
|
|
60
|
-
|
|
61
|
-
|
|
62
|
-
|
|
71
|
+
get_csv_column_name("x", ax_row, ax_col, trace_id=trace_id): col_indices.flatten(), # x is column
|
|
72
|
+
get_csv_column_name("y", ax_row, ax_col, trace_id=trace_id): row_indices.flatten(), # y is row
|
|
73
|
+
get_csv_column_name("value", ax_row, ax_col, trace_id=trace_id): img.flatten(), # z is intensity
|
|
63
74
|
}
|
|
64
75
|
)
|
|
65
76
|
return df
|
|
@@ -67,27 +78,32 @@ def _format_plot_image(id, tracked_dict, kwargs):
|
|
|
67
78
|
# Handle RGB/RGBA images - create xyz format with additional channel information
|
|
68
79
|
elif isinstance(img, np.ndarray) and img.ndim == 3:
|
|
69
80
|
rows, cols, channels = img.shape
|
|
70
|
-
row_indices, col_indices = np.meshgrid(
|
|
71
|
-
range(rows), range(cols), indexing="ij"
|
|
72
|
-
)
|
|
73
81
|
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# Create a list to hold rows for a long-format DataFrame
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data_rows = []
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channel_names = ["r", "g", "b", "a"]
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# Get column names using single source of truth
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x_col = get_csv_column_name("x", ax_row, ax_col, trace_id=trace_id)
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y_col = get_csv_column_name("y", ax_row, ax_col, trace_id=trace_id)
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channel_col = get_csv_column_name("channel", ax_row, ax_col, trace_id=trace_id)
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value_col = get_csv_column_name("value", ax_row, ax_col, trace_id=trace_id)
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+
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# Create long-format data (x, y, channel, value)
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for r in range(rows):
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for c in range(cols):
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for ch in range(min(channels, len(channel_names))):
|
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data_rows.append(
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data_rows.append(
|
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{
|
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+
x_col: c, # x is column
|
|
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|
+
y_col: r, # y is row
|
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+
channel_col: channel_names[ch], # channel name
|
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+
value_col: img[r, c, ch], # channel value
|
|
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+
}
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)
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|
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|
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|
# Return long-format DataFrame
|
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106
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return pd.DataFrame(data_rows)
|
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-
|
|
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|
+
|
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|
# Skip CSV export if no suitable data format found
|
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|
-
return pd.DataFrame()
|
|
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return pd.DataFrame()
|
|
@@ -0,0 +1,63 @@
|
|
|
1
|
+
#!/usr/bin/env python3
|
|
2
|
+
# -*- coding: utf-8 -*-
|
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3
|
+
"""CSV formatter for stx_imshow() calls."""
|
|
4
|
+
|
|
5
|
+
import numpy as np
|
|
6
|
+
import pandas as pd
|
|
7
|
+
from scitex.plt.utils._csv_column_naming import get_csv_column_name
|
|
8
|
+
from ._format_plot import _parse_tracking_id
|
|
9
|
+
|
|
10
|
+
|
|
11
|
+
def _format_stx_imshow(id, tracked_dict, kwargs):
|
|
12
|
+
"""Format data from stx_imshow call for CSV export.
|
|
13
|
+
|
|
14
|
+
Parameters
|
|
15
|
+
----------
|
|
16
|
+
id : str
|
|
17
|
+
Identifier for the plot
|
|
18
|
+
tracked_dict : dict
|
|
19
|
+
Dictionary containing tracked data with 'imshow_df'
|
|
20
|
+
kwargs : dict
|
|
21
|
+
Keyword arguments passed to stx_imshow
|
|
22
|
+
|
|
23
|
+
Returns
|
|
24
|
+
-------
|
|
25
|
+
pd.DataFrame
|
|
26
|
+
Formatted imshow data in row, col, value format (or row, col, R, G, B for RGB)
|
|
27
|
+
"""
|
|
28
|
+
if not tracked_dict or not isinstance(tracked_dict, dict):
|
|
29
|
+
return pd.DataFrame()
|
|
30
|
+
|
|
31
|
+
ax_row, ax_col, trace_id = _parse_tracking_id(id)
|
|
32
|
+
|
|
33
|
+
# Get imshow_df from tracked_dict
|
|
34
|
+
imshow_df = tracked_dict.get("imshow_df")
|
|
35
|
+
if imshow_df is not None and isinstance(imshow_df, pd.DataFrame):
|
|
36
|
+
# Convert from 2D DataFrame format (with col_0, col_1, ... columns)
|
|
37
|
+
# to row, col, value format for easier analysis
|
|
38
|
+
n_rows, n_cols = imshow_df.shape
|
|
39
|
+
|
|
40
|
+
# Create row and column indices
|
|
41
|
+
row_indices = np.repeat(np.arange(n_rows), n_cols)
|
|
42
|
+
col_indices = np.tile(np.arange(n_cols), n_rows)
|
|
43
|
+
|
|
44
|
+
# Get column names from single source of truth
|
|
45
|
+
col_row = get_csv_column_name("row", ax_row, ax_col, trace_id=trace_id)
|
|
46
|
+
col_col = get_csv_column_name("col", ax_row, ax_col, trace_id=trace_id)
|
|
47
|
+
col_value = get_csv_column_name("value", ax_row, ax_col, trace_id=trace_id)
|
|
48
|
+
|
|
49
|
+
# Flatten the DataFrame values
|
|
50
|
+
values = imshow_df.values.flatten()
|
|
51
|
+
|
|
52
|
+
result = pd.DataFrame({
|
|
53
|
+
col_row: row_indices,
|
|
54
|
+
col_col: col_indices,
|
|
55
|
+
col_value: values
|
|
56
|
+
})
|
|
57
|
+
|
|
58
|
+
return result
|
|
59
|
+
|
|
60
|
+
return pd.DataFrame()
|
|
61
|
+
|
|
62
|
+
|
|
63
|
+
# EOF
|
|
@@ -4,6 +4,7 @@
|
|
|
4
4
|
# File: /data/gpfs/projects/punim2354/ywatanabe/scitex_repo/src/scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_joyplot.py
|
|
5
5
|
# ----------------------------------------
|
|
6
6
|
import os
|
|
7
|
+
|
|
7
8
|
__FILE__ = __file__
|
|
8
9
|
__DIR__ = os.path.dirname(__FILE__)
|
|
9
10
|
# ----------------------------------------
|
|
@@ -11,25 +12,31 @@ __DIR__ = os.path.dirname(__FILE__)
|
|
|
11
12
|
import numpy as np
|
|
12
13
|
import pandas as pd
|
|
13
14
|
from scitex.pd import force_df
|
|
15
|
+
from scitex.plt.utils._csv_column_naming import get_csv_column_name
|
|
16
|
+
from ._format_plot import _parse_tracking_id
|
|
17
|
+
|
|
14
18
|
|
|
15
19
|
def _format_plot_joyplot(id, tracked_dict, kwargs):
|
|
16
20
|
"""Format data from a stx_joyplot call.
|
|
17
|
-
|
|
21
|
+
|
|
18
22
|
Args:
|
|
19
23
|
id (str): Identifier for the plot
|
|
20
24
|
tracked_dict (dict): Dictionary containing 'joyplot_data' key with joyplot data
|
|
21
25
|
kwargs (dict): Keyword arguments passed to stx_joyplot
|
|
22
|
-
|
|
26
|
+
|
|
23
27
|
Returns:
|
|
24
28
|
pd.DataFrame: Formatted joyplot data
|
|
25
29
|
"""
|
|
26
30
|
# Check if tracked_dict is empty or not a dictionary
|
|
27
31
|
if not tracked_dict or not isinstance(tracked_dict, dict):
|
|
28
32
|
return pd.DataFrame()
|
|
29
|
-
|
|
33
|
+
|
|
34
|
+
# Parse tracking ID to get axes position and trace ID
|
|
35
|
+
ax_row, ax_col, trace_id = _parse_tracking_id(id)
|
|
36
|
+
|
|
30
37
|
# Get joyplot_data from tracked_dict
|
|
31
|
-
data = tracked_dict.get(
|
|
32
|
-
|
|
38
|
+
data = tracked_dict.get("joyplot_data")
|
|
39
|
+
|
|
33
40
|
if data is None:
|
|
34
41
|
return pd.DataFrame()
|
|
35
42
|
|
|
@@ -37,16 +44,22 @@ def _format_plot_joyplot(id, tracked_dict, kwargs):
|
|
|
37
44
|
if isinstance(data, pd.DataFrame):
|
|
38
45
|
# Make a copy to avoid modifying original
|
|
39
46
|
result = data.copy()
|
|
40
|
-
# Add prefix to column names
|
|
47
|
+
# Add prefix to column names using single source of truth
|
|
41
48
|
if id is not None:
|
|
42
|
-
result.columns = [
|
|
49
|
+
result.columns = [
|
|
50
|
+
get_csv_column_name(f"joyplot-{col}", ax_row, ax_col, trace_id=trace_id)
|
|
51
|
+
for col in result.columns
|
|
52
|
+
]
|
|
43
53
|
return result
|
|
44
54
|
|
|
45
55
|
elif isinstance(data, dict):
|
|
46
56
|
# Convert dictionary to DataFrame
|
|
47
57
|
result = pd.DataFrame()
|
|
48
58
|
for group, values in data.items():
|
|
49
|
-
|
|
59
|
+
col_name = get_csv_column_name(
|
|
60
|
+
f"joyplot-{group}", ax_row, ax_col, trace_id=trace_id
|
|
61
|
+
)
|
|
62
|
+
result[col_name] = pd.Series(values)
|
|
50
63
|
return result
|
|
51
64
|
|
|
52
65
|
elif isinstance(data, (list, tuple)) and all(
|
|
@@ -55,11 +68,17 @@ def _format_plot_joyplot(id, tracked_dict, kwargs):
|
|
|
55
68
|
# Convert list of arrays to DataFrame
|
|
56
69
|
result = pd.DataFrame()
|
|
57
70
|
for i, values in enumerate(data):
|
|
58
|
-
|
|
71
|
+
col_name = get_csv_column_name(
|
|
72
|
+
f"joyplot-group{i:02d}", ax_row, ax_col, trace_id=trace_id
|
|
73
|
+
)
|
|
74
|
+
result[col_name] = pd.Series(values)
|
|
59
75
|
return result
|
|
60
|
-
|
|
76
|
+
|
|
61
77
|
# Try to force to DataFrame as a last resort
|
|
62
78
|
try:
|
|
63
|
-
|
|
79
|
+
col_name = get_csv_column_name(
|
|
80
|
+
"joyplot-data", ax_row, ax_col, trace_id=trace_id
|
|
81
|
+
)
|
|
82
|
+
return force_df({col_name: data})
|
|
64
83
|
except:
|
|
65
|
-
return pd.DataFrame()
|
|
84
|
+
return pd.DataFrame()
|