scitex 2.0.0__py2.py3-none-any.whl → 2.1.0__py2.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 +53 -15
- scitex/__main__.py +72 -26
- scitex/__version__.py +1 -1
- scitex/_sh.py +145 -23
- scitex/ai/__init__.py +30 -16
- scitex/ai/_gen_ai/_Anthropic.py +5 -7
- scitex/ai/_gen_ai/_BaseGenAI.py +2 -2
- scitex/ai/_gen_ai/_DeepSeek.py +10 -2
- scitex/ai/_gen_ai/_Google.py +2 -2
- scitex/ai/_gen_ai/_Llama.py +2 -2
- scitex/ai/_gen_ai/_OpenAI.py +2 -2
- scitex/ai/_gen_ai/_PARAMS.py +51 -65
- scitex/ai/_gen_ai/_Perplexity.py +2 -2
- scitex/ai/_gen_ai/__init__.py +25 -14
- scitex/ai/_gen_ai/_format_output_func.py +4 -4
- scitex/ai/classification/{classifier_server.py → Classifier.py} +5 -5
- scitex/ai/classification/CrossValidationExperiment.py +374 -0
- scitex/ai/classification/__init__.py +43 -4
- scitex/ai/classification/reporters/_BaseClassificationReporter.py +281 -0
- scitex/ai/classification/reporters/_ClassificationReporter.py +773 -0
- scitex/ai/classification/reporters/_MultiClassificationReporter.py +406 -0
- scitex/ai/classification/reporters/_SingleClassificationReporter.py +1834 -0
- scitex/ai/classification/reporters/__init__.py +11 -0
- scitex/ai/classification/reporters/reporter_utils/_Plotter.py +1028 -0
- scitex/ai/classification/reporters/reporter_utils/__init__.py +80 -0
- scitex/ai/classification/reporters/reporter_utils/aggregation.py +457 -0
- scitex/ai/classification/reporters/reporter_utils/data_models.py +313 -0
- scitex/ai/classification/reporters/reporter_utils/reporting.py +1056 -0
- scitex/ai/classification/reporters/reporter_utils/storage.py +221 -0
- scitex/ai/classification/reporters/reporter_utils/validation.py +395 -0
- scitex/ai/classification/timeseries/_TimeSeriesBlockingSplit.py +568 -0
- scitex/ai/classification/timeseries/_TimeSeriesCalendarSplit.py +688 -0
- scitex/ai/classification/timeseries/_TimeSeriesMetadata.py +139 -0
- scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +1716 -0
- scitex/ai/classification/timeseries/_TimeSeriesSlidingWindowSplit_v01-not-using-n_splits.py +1685 -0
- scitex/ai/classification/timeseries/_TimeSeriesStrategy.py +84 -0
- scitex/ai/classification/timeseries/_TimeSeriesStratifiedSplit.py +610 -0
- scitex/ai/classification/timeseries/__init__.py +39 -0
- scitex/ai/classification/timeseries/_normalize_timestamp.py +436 -0
- scitex/ai/clustering/_umap.py +2 -2
- scitex/ai/feature_extraction/vit.py +1 -0
- scitex/ai/feature_selection/__init__.py +30 -0
- scitex/ai/feature_selection/feature_selection.py +364 -0
- scitex/ai/loss/multi_task_loss.py +1 -1
- scitex/ai/metrics/__init__.py +51 -4
- scitex/ai/metrics/_calc_bacc.py +61 -0
- scitex/ai/metrics/_calc_bacc_from_conf_mat.py +38 -0
- scitex/ai/metrics/_calc_clf_report.py +78 -0
- scitex/ai/metrics/_calc_conf_mat.py +93 -0
- scitex/ai/metrics/_calc_feature_importance.py +183 -0
- scitex/ai/metrics/_calc_mcc.py +61 -0
- scitex/ai/metrics/_calc_pre_rec_auc.py +116 -0
- scitex/ai/metrics/_calc_roc_auc.py +110 -0
- scitex/ai/metrics/_calc_seizure_prediction_metrics.py +490 -0
- scitex/ai/metrics/{silhoute_score_block.py → _calc_silhouette_score.py} +15 -8
- scitex/ai/metrics/_normalize_labels.py +83 -0
- scitex/ai/plt/__init__.py +47 -8
- scitex/ai/plt/{_conf_mat.py → _plot_conf_mat.py} +158 -87
- scitex/ai/plt/_plot_feature_importance.py +323 -0
- scitex/ai/plt/_plot_learning_curve.py +345 -0
- scitex/ai/plt/_plot_optuna_study.py +225 -0
- scitex/ai/plt/_plot_pre_rec_curve.py +290 -0
- scitex/ai/plt/_plot_roc_curve.py +255 -0
- scitex/ai/training/{learning_curve_logger.py → _LearningCurveLogger.py} +197 -213
- scitex/ai/training/__init__.py +2 -2
- scitex/ai/utils/grid_search.py +3 -3
- scitex/benchmark/__init__.py +52 -0
- scitex/benchmark/benchmark.py +400 -0
- scitex/benchmark/monitor.py +370 -0
- scitex/benchmark/profiler.py +297 -0
- scitex/browser/__init__.py +48 -0
- scitex/browser/automation/CookieHandler.py +216 -0
- scitex/browser/automation/__init__.py +7 -0
- scitex/browser/collaboration/__init__.py +55 -0
- scitex/browser/collaboration/auth_helpers.py +94 -0
- scitex/browser/collaboration/collaborative_agent.py +136 -0
- scitex/browser/collaboration/credential_manager.py +188 -0
- scitex/browser/collaboration/interactive_panel.py +400 -0
- scitex/browser/collaboration/persistent_browser.py +170 -0
- scitex/browser/collaboration/shared_session.py +383 -0
- scitex/browser/collaboration/standard_interactions.py +246 -0
- scitex/browser/collaboration/visual_feedback.py +181 -0
- scitex/browser/core/BrowserMixin.py +326 -0
- scitex/browser/core/ChromeProfileManager.py +446 -0
- scitex/browser/core/__init__.py +9 -0
- scitex/browser/debugging/__init__.py +18 -0
- scitex/browser/debugging/_browser_logger.py +657 -0
- scitex/browser/debugging/_highlight_element.py +143 -0
- scitex/browser/debugging/_show_grid.py +154 -0
- scitex/browser/interaction/__init__.py +24 -0
- scitex/browser/interaction/click_center.py +149 -0
- scitex/browser/interaction/click_with_fallbacks.py +206 -0
- scitex/browser/interaction/close_popups.py +498 -0
- scitex/browser/interaction/fill_with_fallbacks.py +209 -0
- scitex/browser/pdf/__init__.py +14 -0
- scitex/browser/pdf/click_download_for_chrome_pdf_viewer.py +200 -0
- scitex/browser/pdf/detect_chrome_pdf_viewer.py +198 -0
- scitex/browser/remote/CaptchaHandler.py +434 -0
- scitex/browser/remote/ZenRowsAPIClient.py +347 -0
- scitex/browser/remote/ZenRowsBrowserManager.py +570 -0
- scitex/browser/remote/__init__.py +11 -0
- scitex/browser/stealth/HumanBehavior.py +344 -0
- scitex/browser/stealth/StealthManager.py +1008 -0
- scitex/browser/stealth/__init__.py +9 -0
- scitex/browser/template.py +122 -0
- scitex/capture/__init__.py +110 -0
- scitex/capture/__main__.py +25 -0
- scitex/capture/capture.py +848 -0
- scitex/capture/cli.py +233 -0
- scitex/capture/gif.py +344 -0
- scitex/capture/mcp_server.py +961 -0
- scitex/capture/session.py +70 -0
- scitex/capture/utils.py +705 -0
- scitex/cli/__init__.py +17 -0
- scitex/cli/cloud.py +447 -0
- scitex/cli/main.py +42 -0
- scitex/cli/scholar.py +280 -0
- scitex/context/_suppress_output.py +5 -3
- scitex/db/__init__.py +30 -3
- scitex/db/__main__.py +75 -0
- scitex/db/_check_health.py +381 -0
- scitex/db/_delete_duplicates.py +25 -386
- scitex/db/_inspect.py +335 -114
- scitex/db/_inspect_optimized.py +301 -0
- scitex/db/{_PostgreSQL.py → _postgresql/_PostgreSQL.py} +3 -3
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_BackupMixin.py +1 -1
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_BatchMixin.py +1 -1
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_BlobMixin.py +1 -1
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_ConnectionMixin.py +1 -1
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_MaintenanceMixin.py +1 -1
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_QueryMixin.py +1 -1
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_SchemaMixin.py +1 -1
- scitex/db/{_PostgreSQLMixins → _postgresql/_PostgreSQLMixins}/_TransactionMixin.py +1 -1
- scitex/db/_postgresql/__init__.py +6 -0
- scitex/db/_sqlite3/_SQLite3.py +210 -0
- scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin.py +581 -0
- scitex/db/_sqlite3/_SQLite3Mixins/_ArrayMixin_v01-need-_hash-col.py +517 -0
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_BatchMixin.py +1 -1
- scitex/db/_sqlite3/_SQLite3Mixins/_BlobMixin.py +281 -0
- scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin.py +548 -0
- scitex/db/_sqlite3/_SQLite3Mixins/_ColumnMixin_v01-indentation-issues.py +583 -0
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_ConnectionMixin.py +29 -13
- scitex/db/_sqlite3/_SQLite3Mixins/_GitMixin.py +583 -0
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_ImportExportMixin.py +1 -1
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_IndexMixin.py +1 -1
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_MaintenanceMixin.py +2 -1
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_QueryMixin.py +37 -10
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_RowMixin.py +46 -6
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_TableMixin.py +56 -10
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/_TransactionMixin.py +1 -1
- scitex/db/{_SQLite3Mixins → _sqlite3/_SQLite3Mixins}/__init__.py +14 -2
- scitex/db/_sqlite3/__init__.py +7 -0
- scitex/db/_sqlite3/_delete_duplicates.py +274 -0
- scitex/decorators/__init__.py +2 -0
- scitex/decorators/_cache_disk.py +13 -5
- scitex/decorators/_cache_disk_async.py +49 -0
- scitex/decorators/_deprecated.py +175 -10
- scitex/decorators/_timeout.py +1 -1
- scitex/dev/_analyze_code_flow.py +2 -2
- scitex/dict/_DotDict.py +73 -15
- scitex/dict/_DotDict_v01-not-handling-recursive-instantiations.py +442 -0
- scitex/dict/_DotDict_v02-not-serializing-Path-object.py +446 -0
- scitex/dict/__init__.py +2 -0
- scitex/dict/_flatten.py +27 -0
- scitex/dsp/_crop.py +2 -2
- scitex/dsp/_demo_sig.py +2 -2
- scitex/dsp/_detect_ripples.py +2 -2
- scitex/dsp/_hilbert.py +2 -2
- scitex/dsp/_listen.py +6 -6
- scitex/dsp/_modulation_index.py +2 -2
- scitex/dsp/_pac.py +1 -1
- scitex/dsp/_psd.py +2 -2
- scitex/dsp/_resample.py +2 -1
- scitex/dsp/_time.py +3 -2
- scitex/dsp/_wavelet.py +3 -2
- scitex/dsp/add_noise.py +2 -2
- scitex/dsp/example.py +1 -0
- scitex/dsp/filt.py +10 -9
- scitex/dsp/template.py +3 -2
- scitex/dsp/utils/_differential_bandpass_filters.py +1 -1
- scitex/dsp/utils/pac.py +2 -2
- scitex/dt/_normalize_timestamp.py +432 -0
- scitex/errors.py +572 -0
- scitex/gen/_DimHandler.py +2 -2
- scitex/gen/__init__.py +37 -7
- scitex/gen/_deprecated_close.py +80 -0
- scitex/gen/_deprecated_start.py +26 -0
- scitex/gen/_detect_environment.py +152 -0
- scitex/gen/_detect_notebook_path.py +169 -0
- scitex/gen/_embed.py +6 -2
- scitex/gen/_get_notebook_path.py +257 -0
- scitex/gen/_less.py +1 -1
- scitex/gen/_list_packages.py +2 -2
- scitex/gen/_norm.py +44 -9
- scitex/gen/_norm_cache.py +269 -0
- scitex/gen/_src.py +3 -5
- scitex/gen/_title_case.py +3 -3
- scitex/io/__init__.py +28 -6
- scitex/io/_glob.py +13 -7
- scitex/io/_load.py +108 -21
- scitex/io/_load_cache.py +303 -0
- scitex/io/_load_configs.py +40 -15
- scitex/io/{_H5Explorer.py → _load_modules/_H5Explorer.py} +80 -17
- scitex/io/_load_modules/_ZarrExplorer.py +114 -0
- scitex/io/_load_modules/_bibtex.py +207 -0
- scitex/io/_load_modules/_hdf5.py +53 -178
- scitex/io/_load_modules/_json.py +5 -3
- scitex/io/_load_modules/_pdf.py +871 -16
- scitex/io/_load_modules/_sqlite3.py +15 -0
- scitex/io/_load_modules/_txt.py +41 -12
- scitex/io/_load_modules/_yaml.py +4 -3
- scitex/io/_load_modules/_zarr.py +126 -0
- scitex/io/_save.py +429 -171
- scitex/io/_save_modules/__init__.py +6 -0
- scitex/io/_save_modules/_bibtex.py +194 -0
- scitex/io/_save_modules/_csv.py +8 -4
- scitex/io/_save_modules/_excel.py +174 -15
- scitex/io/_save_modules/_hdf5.py +251 -226
- scitex/io/_save_modules/_image.py +1 -3
- scitex/io/_save_modules/_json.py +49 -4
- scitex/io/_save_modules/_listed_dfs_as_csv.py +1 -3
- scitex/io/_save_modules/_listed_scalars_as_csv.py +1 -3
- scitex/io/_save_modules/_tex.py +277 -0
- scitex/io/_save_modules/_yaml.py +42 -3
- scitex/io/_save_modules/_zarr.py +160 -0
- scitex/io/utils/__init__.py +20 -0
- scitex/io/utils/h5_to_zarr.py +616 -0
- scitex/linalg/_geometric_median.py +6 -2
- scitex/{gen/_tee.py → logging/_Tee.py} +43 -84
- scitex/logging/__init__.py +122 -0
- scitex/logging/_config.py +158 -0
- scitex/logging/_context.py +103 -0
- scitex/logging/_formatters.py +128 -0
- scitex/logging/_handlers.py +64 -0
- scitex/logging/_levels.py +35 -0
- scitex/logging/_logger.py +163 -0
- scitex/logging/_print_capture.py +95 -0
- scitex/ml/__init__.py +69 -0
- scitex/{ai/genai/anthropic.py → ml/_gen_ai/_Anthropic.py} +13 -19
- scitex/{ai/genai/base_genai.py → ml/_gen_ai/_BaseGenAI.py} +5 -5
- scitex/{ai/genai/deepseek.py → ml/_gen_ai/_DeepSeek.py} +11 -16
- scitex/{ai/genai/google.py → ml/_gen_ai/_Google.py} +7 -15
- scitex/{ai/genai/groq.py → ml/_gen_ai/_Groq.py} +1 -8
- scitex/{ai/genai/llama.py → ml/_gen_ai/_Llama.py} +3 -16
- scitex/{ai/genai/openai.py → ml/_gen_ai/_OpenAI.py} +3 -3
- scitex/{ai/genai/params.py → ml/_gen_ai/_PARAMS.py} +51 -65
- scitex/{ai/genai/perplexity.py → ml/_gen_ai/_Perplexity.py} +3 -14
- scitex/ml/_gen_ai/__init__.py +43 -0
- scitex/{ai/genai/calc_cost.py → ml/_gen_ai/_calc_cost.py} +1 -1
- scitex/{ai/genai/format_output_func.py → ml/_gen_ai/_format_output_func.py} +4 -4
- scitex/{ai/genai/genai_factory.py → ml/_gen_ai/_genai_factory.py} +8 -8
- scitex/ml/activation/__init__.py +8 -0
- scitex/ml/activation/_define.py +11 -0
- scitex/{ai/classifier_server.py → ml/classification/Classifier.py} +5 -5
- scitex/ml/classification/CrossValidationExperiment.py +374 -0
- scitex/ml/classification/__init__.py +46 -0
- scitex/ml/classification/reporters/_BaseClassificationReporter.py +281 -0
- scitex/ml/classification/reporters/_ClassificationReporter.py +773 -0
- scitex/ml/classification/reporters/_MultiClassificationReporter.py +406 -0
- scitex/ml/classification/reporters/_SingleClassificationReporter.py +1834 -0
- scitex/ml/classification/reporters/__init__.py +11 -0
- scitex/ml/classification/reporters/reporter_utils/_Plotter.py +1028 -0
- scitex/ml/classification/reporters/reporter_utils/__init__.py +80 -0
- scitex/ml/classification/reporters/reporter_utils/aggregation.py +457 -0
- scitex/ml/classification/reporters/reporter_utils/data_models.py +313 -0
- scitex/ml/classification/reporters/reporter_utils/reporting.py +1056 -0
- scitex/ml/classification/reporters/reporter_utils/storage.py +221 -0
- scitex/ml/classification/reporters/reporter_utils/validation.py +395 -0
- scitex/ml/classification/timeseries/_TimeSeriesBlockingSplit.py +568 -0
- scitex/ml/classification/timeseries/_TimeSeriesCalendarSplit.py +688 -0
- scitex/ml/classification/timeseries/_TimeSeriesMetadata.py +139 -0
- scitex/ml/classification/timeseries/_TimeSeriesSlidingWindowSplit.py +1716 -0
- scitex/ml/classification/timeseries/_TimeSeriesSlidingWindowSplit_v01-not-using-n_splits.py +1685 -0
- scitex/ml/classification/timeseries/_TimeSeriesStrategy.py +84 -0
- scitex/ml/classification/timeseries/_TimeSeriesStratifiedSplit.py +610 -0
- scitex/ml/classification/timeseries/__init__.py +39 -0
- scitex/ml/classification/timeseries/_normalize_timestamp.py +436 -0
- scitex/ml/clustering/__init__.py +11 -0
- scitex/ml/clustering/_pca.py +115 -0
- scitex/ml/clustering/_umap.py +376 -0
- scitex/ml/feature_extraction/__init__.py +56 -0
- scitex/ml/feature_extraction/vit.py +149 -0
- scitex/ml/feature_selection/__init__.py +30 -0
- scitex/ml/feature_selection/feature_selection.py +364 -0
- scitex/ml/loss/_L1L2Losses.py +34 -0
- scitex/ml/loss/__init__.py +12 -0
- scitex/ml/loss/multi_task_loss.py +47 -0
- scitex/ml/metrics/__init__.py +56 -0
- scitex/ml/metrics/_calc_bacc.py +61 -0
- scitex/ml/metrics/_calc_bacc_from_conf_mat.py +38 -0
- scitex/ml/metrics/_calc_clf_report.py +78 -0
- scitex/ml/metrics/_calc_conf_mat.py +93 -0
- scitex/ml/metrics/_calc_feature_importance.py +183 -0
- scitex/ml/metrics/_calc_mcc.py +61 -0
- scitex/ml/metrics/_calc_pre_rec_auc.py +116 -0
- scitex/ml/metrics/_calc_roc_auc.py +110 -0
- scitex/ml/metrics/_calc_seizure_prediction_metrics.py +490 -0
- scitex/ml/metrics/_calc_silhouette_score.py +503 -0
- scitex/ml/metrics/_normalize_labels.py +83 -0
- scitex/ml/optim/Ranger_Deep_Learning_Optimizer/__init__.py +0 -0
- scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/__init__.py +3 -0
- scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger.py +207 -0
- scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger2020.py +238 -0
- scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger913A.py +215 -0
- scitex/ml/optim/Ranger_Deep_Learning_Optimizer/ranger/rangerqh.py +184 -0
- scitex/ml/optim/Ranger_Deep_Learning_Optimizer/setup.py +24 -0
- scitex/ml/optim/__init__.py +13 -0
- scitex/ml/optim/_get_set.py +31 -0
- scitex/ml/optim/_optimizers.py +71 -0
- scitex/ml/plt/__init__.py +60 -0
- scitex/ml/plt/_plot_conf_mat.py +663 -0
- scitex/ml/plt/_plot_feature_importance.py +323 -0
- scitex/ml/plt/_plot_learning_curve.py +345 -0
- scitex/ml/plt/_plot_optuna_study.py +225 -0
- scitex/ml/plt/_plot_pre_rec_curve.py +290 -0
- scitex/ml/plt/_plot_roc_curve.py +255 -0
- scitex/ml/sk/__init__.py +11 -0
- scitex/ml/sk/_clf.py +58 -0
- scitex/ml/sk/_to_sktime.py +100 -0
- scitex/ml/sklearn/__init__.py +26 -0
- scitex/ml/sklearn/clf.py +58 -0
- scitex/ml/sklearn/to_sktime.py +100 -0
- scitex/{ai/training/early_stopping.py → ml/training/_EarlyStopping.py} +1 -2
- scitex/{ai → ml/training}/_LearningCurveLogger.py +198 -242
- scitex/ml/training/__init__.py +7 -0
- scitex/ml/utils/__init__.py +22 -0
- scitex/ml/utils/_check_params.py +50 -0
- scitex/ml/utils/_default_dataset.py +46 -0
- scitex/ml/utils/_format_samples_for_sktime.py +26 -0
- scitex/ml/utils/_label_encoder.py +134 -0
- scitex/ml/utils/_merge_labels.py +22 -0
- scitex/ml/utils/_sliding_window_data_augmentation.py +11 -0
- scitex/ml/utils/_under_sample.py +51 -0
- scitex/ml/utils/_verify_n_gpus.py +16 -0
- scitex/ml/utils/grid_search.py +148 -0
- scitex/nn/_BNet.py +15 -9
- scitex/nn/_Filters.py +2 -2
- scitex/nn/_ModulationIndex.py +2 -2
- scitex/nn/_PAC.py +1 -1
- scitex/nn/_Spectrogram.py +12 -3
- scitex/nn/__init__.py +9 -10
- scitex/path/__init__.py +18 -0
- scitex/path/_clean.py +4 -0
- scitex/path/_find.py +9 -4
- scitex/path/_symlink.py +348 -0
- scitex/path/_version.py +4 -3
- scitex/pd/__init__.py +2 -0
- scitex/pd/_get_unique.py +99 -0
- scitex/plt/__init__.py +114 -5
- scitex/plt/_subplots/_AxesWrapper.py +1 -3
- scitex/plt/_subplots/_AxisWrapper.py +7 -3
- scitex/plt/_subplots/_AxisWrapperMixins/_AdjustmentMixin.py +47 -13
- scitex/plt/_subplots/_AxisWrapperMixins/_MatplotlibPlotMixin.py +160 -2
- scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin.py +26 -4
- scitex/plt/_subplots/_AxisWrapperMixins/_UnitAwareMixin.py +322 -0
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- /scitex/{stats → stats_v01}/_multiple_corrections.py +0 -0
- /scitex/{stats → stats_v01}/_nan_stats.py +0 -0
- /scitex/{stats → stats_v01}/_p2stars_wrapper.py +0 -0
- /scitex/{stats → stats_v01}/_statistical_tests.py +0 -0
- /scitex/{stats/desc/_describe.py → stats_v01/desc/_describe_v01-20250920_145731.py} +0 -0
- /scitex/{stats/desc/_real.py → stats_v01/desc/_real_v01-20250920_145731.py} +0 -0
- /scitex/{stats → stats_v01}/multiple/__init__.py +0 -0
- /scitex/{stats → stats_v01}/multiple/_bonferroni_correction.py +0 -0
- /scitex/{stats → stats_v01}/multiple/_fdr_correction.py +0 -0
- /scitex/{stats → stats_v01}/multiple/_multicompair.py +0 -0
- /scitex/{stats → stats_v01}/tests/__corr_test.py +0 -0
- /scitex/{stats → stats_v01}/tests/__corr_test_multi.py +0 -0
- /scitex/{stats → stats_v01}/tests/__corr_test_single.py +0 -0
- /scitex/{stats → stats_v01}/tests/__init__.py +0 -0
- /scitex/{stats → stats_v01}/tests/_brunner_munzel_test.py +0 -0
- /scitex/{stats → stats_v01}/tests/_nocorrelation_test.py +0 -0
- /scitex/{stats → stats_v01}/tests/_smirnov_grubbs.py +0 -0
- {scitex-2.0.0.dist-info → scitex-2.1.0.dist-info}/top_level.txt +0 -0
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#!/usr/bin/env python3
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# -*- coding: utf-8 -*-
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# Time-stamp: "2024-11-25 12:00:00"
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# Author: Yusuke Watanabe (ywatanabe@alumni.u-tokyo.ac.jp)
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# scitex/src/scitex/ai/genai/deepseek_provider.py
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"""
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DeepSeek provider implementation for GenAI.
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Provides access to DeepSeek's API for code generation and chat.
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Uses OpenAI-compatible API endpoint.
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"""
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from typing import List, Dict, Any, Optional, Generator
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import logging
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import os
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from .base_provider import BaseProvider, CompletionResponse, Provider
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from .provider_factory import register_provider
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logger = logging.getLogger(__name__)
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class DeepSeekProvider(BaseProvider):
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"""
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DeepSeek provider implementation.
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Supports DeepSeek Chat and DeepSeek Coder models.
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"""
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SUPPORTED_MODELS = [
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"deepseek-chat",
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"deepseek-coder",
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]
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DEFAULT_MODEL = "deepseek-chat"
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def __init__(self, config):
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"""Initialize DeepSeek provider."""
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self.config = config
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self.api_key = config.api_key or os.getenv("DEEPSEEK_API_KEY")
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self.model = config.model or self.DEFAULT_MODEL
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self.kwargs = config.kwargs or {}
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if not self.api_key:
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raise ValueError(
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"DEEPSEEK_API_KEY not provided and not found in environment"
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)
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# Import OpenAI client (DeepSeek uses OpenAI-compatible API)
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try:
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from openai import OpenAI as OpenAIClient
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# DeepSeek uses a custom base URL
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self.client = OpenAIClient(
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api_key=self.api_key, base_url="https://api.deepseek.com/beta"
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)
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except ImportError:
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raise ImportError(
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"OpenAI package not installed. Install with: pip install openai"
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)
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def complete(self, messages: List[Dict[str, Any]], **kwargs) -> CompletionResponse:
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"""
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Generate completion using DeepSeek API.
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Args:
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messages: List of message dictionaries
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**kwargs: Additional parameters (temperature, max_tokens, etc.)
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Returns:
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CompletionResponse with generated text and usage info
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"""
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# Validate messages
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if not self.validate_messages(messages):
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raise ValueError("Invalid message format")
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# Format messages for DeepSeek (same as OpenAI format)
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formatted_messages = self.format_messages(messages)
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# Prepare API parameters
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api_params = {
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"model": self.model,
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"messages": formatted_messages,
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}
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# Add optional parameters
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for param in ["temperature", "max_tokens", "top_p", "stop", "seed", "n"]:
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if param in kwargs:
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api_params[param] = kwargs[param]
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try:
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# Make API call
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response = self.client.chat.completions.create(**api_params)
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# Extract content and usage
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content = response.choices[0].message.content
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usage = response.usage
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return CompletionResponse(
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content=content,
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input_tokens=usage.prompt_tokens,
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output_tokens=usage.completion_tokens,
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finish_reason=response.choices[0].finish_reason,
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provider_response=response,
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)
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except Exception as e:
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logger.error(f"DeepSeek API error: {str(e)}")
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raise
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def format_messages(self, messages: List[Dict[str, Any]]) -> List[Dict[str, Any]]:
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"""
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Format messages for DeepSeek API.
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DeepSeek uses the same message format as OpenAI.
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"""
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formatted_messages = []
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for msg in messages:
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formatted_msg = {"role": msg["role"], "content": msg["content"]}
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formatted_messages.append(formatted_msg)
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return formatted_messages
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def validate_messages(self, messages: List[Dict[str, Any]]) -> bool:
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"""Validate message format."""
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if not messages:
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return False
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for msg in messages:
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if not isinstance(msg, dict):
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return False
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if "role" not in msg or "content" not in msg:
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return False
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if msg["role"] not in ["system", "user", "assistant"]:
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return False
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return True
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def stream(
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self, messages: List[Dict[str, Any]], **kwargs
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) -> Generator[str, None, CompletionResponse]:
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"""Generate a streaming completion.
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Args:
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messages: List of messages in standard format
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**kwargs: Additional parameters
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Yields:
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Text chunks during streaming
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Returns:
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Final CompletionResponse when complete
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"""
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# Validate messages
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if not self.validate_messages(messages):
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raise ValueError("Invalid message format")
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# Format messages for DeepSeek
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formatted_messages = self.format_messages(messages)
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# Prepare API parameters
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api_params = {
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"model": self.model,
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"messages": formatted_messages,
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"stream": True,
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}
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# Add optional parameters
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for param in ["temperature", "max_tokens", "top_p", "stop", "seed", "n"]:
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if param in kwargs:
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api_params[param] = kwargs[param]
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try:
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# Make streaming API call
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stream = self.client.chat.completions.create(**api_params)
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# Track content and usage
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full_content = ""
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prompt_tokens = 0
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completion_tokens = 0
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for chunk in stream:
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if chunk.choices[0].delta.content:
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content = chunk.choices[0].delta.content
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full_content += content
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yield content
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# Try to get usage info from chunks (if available)
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if hasattr(chunk, "usage") and chunk.usage:
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if hasattr(chunk.usage, "prompt_tokens"):
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prompt_tokens = chunk.usage.prompt_tokens
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if hasattr(chunk.usage, "completion_tokens"):
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completion_tokens = chunk.usage.completion_tokens
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# If no usage info from stream, estimate
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if prompt_tokens == 0:
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prompt_tokens = self.count_tokens(str(formatted_messages))
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if completion_tokens == 0:
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completion_tokens = self.count_tokens(full_content)
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# Return final response
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return CompletionResponse(
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content=full_content,
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input_tokens=prompt_tokens,
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output_tokens=completion_tokens,
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finish_reason="stop",
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)
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except Exception as e:
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logger.error(f"DeepSeek streaming error: {str(e)}")
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raise
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def count_tokens(self, text: str) -> int:
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"""Count tokens in the given text.
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Args:
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text: Text to count tokens for
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Returns:
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Number of tokens (estimated)
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"""
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# DeepSeek uses similar tokenization to GPT models
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# Rough estimate: 1 token ≈ 4 characters or 0.75 words
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return len(text.split()) * 4 // 3
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@property
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def supports_images(self) -> bool:
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"""Check if this provider/model supports image inputs."""
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# DeepSeek currently doesn't support multimodal inputs
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return False
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@property
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def supports_streaming(self) -> bool:
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"""Check if this provider/model supports streaming."""
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return True
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@property
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def max_context_length(self) -> int:
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"""Get maximum context length for this model."""
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# DeepSeek models typically support 4K-16K context
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context_lengths = {
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"deepseek-chat": 4096,
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"deepseek-coder": 16384,
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}
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return context_lengths.get(self.model, 4096)
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# Auto-register when module is imported
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register_provider(Provider.DEEPSEEK.value, DeepSeekProvider)
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#!/usr/bin/env python3
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# -*- coding: utf-8 -*-
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# Time-stamp: "2024-11-13 20:25:55 (ywatanabe)"
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# File: ./scitex_repo/src/scitex/ai/genai/google_provider.py
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"""Google Generative AI (Gemini) provider implementation using the new component-based architecture.
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This module provides integration with Google's Gemini models through the google.generativeai API.
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"""
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import os
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from typing import Dict, List, Iterator, Optional, Any
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try:
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from google import genai
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except ImportError:
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raise ImportError(
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"google-generativeai package is required for Google provider. "
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"Install with: pip install google-generativeai"
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)
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from .base_provider import BaseProvider, ProviderConfig
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class GoogleProvider(BaseProvider):
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"""Google Generative AI (Gemini) provider implementation."""
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SUPPORTED_MODELS = [
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"gemini-1.5-pro-latest",
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"gemini-1.5-flash-latest",
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"gemini-2.0-flash-exp",
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"gemini-2.0-flash",
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"gemini-2.0-flash-thinking-exp-01-21",
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"gemini-2.0-pro-exp-02-05",
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"gemini-2.0-flash-lite-preview-02-05",
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]
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DEFAULT_MODEL = "gemini-1.5-pro-latest"
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def __init__(self, config: ProviderConfig):
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"""Initialize Google provider.
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Args:
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config: Provider configuration
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"""
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self.config = config
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self.api_key = config.api_key or os.getenv("GOOGLE_API_KEY")
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if not self.api_key:
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raise ValueError(
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"Google API key not provided. Set GOOGLE_API_KEY environment variable or pass api_key."
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)
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# Initialize Google Generative AI client
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self.client = genai.Client(api_key=self.api_key)
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# Set default max_tokens if not provided
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if self.config.max_tokens is None:
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self.config.max_tokens = 32_768
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def validate_messages(self, messages: List[Dict[str, Any]]) -> None:
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"""Validate message format.
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Args:
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messages: List of message dictionaries
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Raises:
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ValueError: If messages are invalid
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"""
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if not messages:
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raise ValueError("Messages cannot be empty")
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for msg in messages:
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if "role" not in msg:
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raise ValueError(f"Missing role in message: {msg}")
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if "content" not in msg:
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raise ValueError(f"Missing content in message: {msg}")
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78
|
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if msg["role"] not in ["system", "user", "assistant", "model"]:
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79
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raise ValueError(f"Invalid role: {msg['role']}")
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80
|
-
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81
|
-
def format_messages(self, messages: List[Dict[str, Any]]) -> List[Dict[str, Any]]:
|
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82
|
-
"""Format messages for Google Generative AI API.
|
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83
|
-
|
|
84
|
-
Google expects a specific format with 'parts' and 'model' role instead of 'assistant'.
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85
|
-
|
|
86
|
-
Args:
|
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87
|
-
messages: List of message dictionaries
|
|
88
|
-
|
|
89
|
-
Returns:
|
|
90
|
-
Formatted messages for Google API
|
|
91
|
-
"""
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|
92
|
-
formatted = []
|
|
93
|
-
|
|
94
|
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# Add system prompt if configured
|
|
95
|
-
if self.config.system_prompt:
|
|
96
|
-
formatted.append(
|
|
97
|
-
{"role": "user", "parts": [{"text": self.config.system_prompt}]}
|
|
98
|
-
)
|
|
99
|
-
formatted.append(
|
|
100
|
-
{
|
|
101
|
-
"role": "model",
|
|
102
|
-
"parts": [
|
|
103
|
-
{"text": "I understand. I will follow these instructions."}
|
|
104
|
-
],
|
|
105
|
-
}
|
|
106
|
-
)
|
|
107
|
-
|
|
108
|
-
# Format user messages
|
|
109
|
-
for msg in messages:
|
|
110
|
-
role = msg["role"]
|
|
111
|
-
# Convert assistant to model for Google API
|
|
112
|
-
if role == "assistant":
|
|
113
|
-
role = "model"
|
|
114
|
-
elif role == "system":
|
|
115
|
-
# System messages are handled as user messages in Google API
|
|
116
|
-
role = "user"
|
|
117
|
-
|
|
118
|
-
# Check if already formatted with parts
|
|
119
|
-
if isinstance(msg.get("parts"), list):
|
|
120
|
-
formatted.append({"role": role, "parts": msg["parts"]})
|
|
121
|
-
else:
|
|
122
|
-
formatted.append({"role": role, "parts": [{"text": msg["content"]}]})
|
|
123
|
-
|
|
124
|
-
return formatted
|
|
125
|
-
|
|
126
|
-
def complete(self, messages: List[Dict[str, Any]], **kwargs) -> Dict[str, Any]:
|
|
127
|
-
"""Generate a completion.
|
|
128
|
-
|
|
129
|
-
Args:
|
|
130
|
-
messages: List of message dictionaries
|
|
131
|
-
**kwargs: Additional parameters for the API
|
|
132
|
-
|
|
133
|
-
Returns:
|
|
134
|
-
Completion response dictionary
|
|
135
|
-
"""
|
|
136
|
-
self.validate_messages(messages)
|
|
137
|
-
formatted_messages = self.format_messages(messages)
|
|
138
|
-
|
|
139
|
-
# Merge config parameters with kwargs
|
|
140
|
-
model = self.config.model or self.DEFAULT_MODEL
|
|
141
|
-
|
|
142
|
-
try:
|
|
143
|
-
response = self.client.models.generate_content(
|
|
144
|
-
model=model,
|
|
145
|
-
contents=formatted_messages,
|
|
146
|
-
# Google API doesn't support all OpenAI parameters directly
|
|
147
|
-
# Temperature and other settings would need to be set via generation_config
|
|
148
|
-
)
|
|
149
|
-
|
|
150
|
-
# Extract token usage if available
|
|
151
|
-
usage = {}
|
|
152
|
-
if hasattr(response, "usage_metadata"):
|
|
153
|
-
usage = {
|
|
154
|
-
"prompt_tokens": response.usage_metadata.prompt_token_count,
|
|
155
|
-
"completion_tokens": response.usage_metadata.candidates_token_count,
|
|
156
|
-
"total_tokens": (
|
|
157
|
-
response.usage_metadata.prompt_token_count
|
|
158
|
-
+ response.usage_metadata.candidates_token_count
|
|
159
|
-
),
|
|
160
|
-
}
|
|
161
|
-
|
|
162
|
-
return {
|
|
163
|
-
"content": response.text,
|
|
164
|
-
"model": model,
|
|
165
|
-
"usage": usage,
|
|
166
|
-
"finish_reason": "stop",
|
|
167
|
-
}
|
|
168
|
-
except Exception as e:
|
|
169
|
-
raise RuntimeError(f"Google Generative AI error: {str(e)}")
|
|
170
|
-
|
|
171
|
-
def stream(
|
|
172
|
-
self, messages: List[Dict[str, Any]], **kwargs
|
|
173
|
-
) -> Iterator[Dict[str, Any]]:
|
|
174
|
-
"""Stream a completion.
|
|
175
|
-
|
|
176
|
-
Args:
|
|
177
|
-
messages: List of message dictionaries
|
|
178
|
-
**kwargs: Additional parameters for the API
|
|
179
|
-
|
|
180
|
-
Yields:
|
|
181
|
-
Chunks of the completion
|
|
182
|
-
"""
|
|
183
|
-
self.validate_messages(messages)
|
|
184
|
-
formatted_messages = self.format_messages(messages)
|
|
185
|
-
|
|
186
|
-
model = self.config.model or self.DEFAULT_MODEL
|
|
187
|
-
|
|
188
|
-
try:
|
|
189
|
-
stream = self.client.models.generate_content_stream(
|
|
190
|
-
model=model,
|
|
191
|
-
contents=formatted_messages,
|
|
192
|
-
)
|
|
193
|
-
|
|
194
|
-
total_prompt_tokens = 0
|
|
195
|
-
total_completion_tokens = 0
|
|
196
|
-
|
|
197
|
-
for chunk in stream:
|
|
198
|
-
if chunk and hasattr(chunk, "text") and chunk.text:
|
|
199
|
-
# Track token usage if available
|
|
200
|
-
if hasattr(chunk, "usage_metadata"):
|
|
201
|
-
if hasattr(chunk.usage_metadata, "prompt_token_count"):
|
|
202
|
-
total_prompt_tokens += (
|
|
203
|
-
chunk.usage_metadata.prompt_token_count
|
|
204
|
-
)
|
|
205
|
-
if hasattr(chunk.usage_metadata, "candidates_token_count"):
|
|
206
|
-
total_completion_tokens += (
|
|
207
|
-
chunk.usage_metadata.candidates_token_count
|
|
208
|
-
)
|
|
209
|
-
|
|
210
|
-
yield {
|
|
211
|
-
"content": chunk.text,
|
|
212
|
-
"model": model,
|
|
213
|
-
}
|
|
214
|
-
|
|
215
|
-
# Yield final chunk with usage info if we collected any
|
|
216
|
-
if total_prompt_tokens > 0 or total_completion_tokens > 0:
|
|
217
|
-
yield {
|
|
218
|
-
"content": "",
|
|
219
|
-
"usage": {
|
|
220
|
-
"prompt_tokens": total_prompt_tokens,
|
|
221
|
-
"completion_tokens": total_completion_tokens,
|
|
222
|
-
"total_tokens": total_prompt_tokens + total_completion_tokens,
|
|
223
|
-
},
|
|
224
|
-
"finish_reason": "stop",
|
|
225
|
-
}
|
|
226
|
-
|
|
227
|
-
except Exception as e:
|
|
228
|
-
raise RuntimeError(f"Google Generative AI error: {str(e)}")
|