scitex 2.0.0__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 +73 -0
- scitex/__main__.py +89 -0
- scitex/__version__.py +14 -0
- scitex/_sh.py +59 -0
- scitex/ai/_LearningCurveLogger.py +583 -0
- scitex/ai/__Classifiers.py +101 -0
- scitex/ai/__init__.py +55 -0
- scitex/ai/_gen_ai/_Anthropic.py +173 -0
- scitex/ai/_gen_ai/_BaseGenAI.py +336 -0
- scitex/ai/_gen_ai/_DeepSeek.py +175 -0
- scitex/ai/_gen_ai/_Google.py +161 -0
- scitex/ai/_gen_ai/_Groq.py +97 -0
- scitex/ai/_gen_ai/_Llama.py +142 -0
- scitex/ai/_gen_ai/_OpenAI.py +230 -0
- scitex/ai/_gen_ai/_PARAMS.py +565 -0
- scitex/ai/_gen_ai/_Perplexity.py +191 -0
- scitex/ai/_gen_ai/__init__.py +32 -0
- scitex/ai/_gen_ai/_calc_cost.py +78 -0
- scitex/ai/_gen_ai/_format_output_func.py +183 -0
- scitex/ai/_gen_ai/_genai_factory.py +71 -0
- scitex/ai/act/__init__.py +8 -0
- scitex/ai/act/_define.py +11 -0
- scitex/ai/classification/__init__.py +7 -0
- scitex/ai/classification/classification_reporter.py +1137 -0
- scitex/ai/classification/classifier_server.py +131 -0
- scitex/ai/classification/classifiers.py +101 -0
- scitex/ai/classification_reporter.py +1161 -0
- scitex/ai/classifier_server.py +131 -0
- scitex/ai/clustering/__init__.py +11 -0
- scitex/ai/clustering/_pca.py +115 -0
- scitex/ai/clustering/_umap.py +376 -0
- scitex/ai/early_stopping.py +149 -0
- scitex/ai/feature_extraction/__init__.py +56 -0
- scitex/ai/feature_extraction/vit.py +148 -0
- scitex/ai/genai/__init__.py +277 -0
- scitex/ai/genai/anthropic.py +177 -0
- scitex/ai/genai/anthropic_provider.py +320 -0
- scitex/ai/genai/anthropic_refactored.py +109 -0
- scitex/ai/genai/auth_manager.py +200 -0
- scitex/ai/genai/base_genai.py +336 -0
- scitex/ai/genai/base_provider.py +291 -0
- scitex/ai/genai/calc_cost.py +78 -0
- scitex/ai/genai/chat_history.py +307 -0
- scitex/ai/genai/cost_tracker.py +276 -0
- scitex/ai/genai/deepseek.py +188 -0
- scitex/ai/genai/deepseek_provider.py +251 -0
- scitex/ai/genai/format_output_func.py +183 -0
- scitex/ai/genai/genai_factory.py +71 -0
- scitex/ai/genai/google.py +169 -0
- scitex/ai/genai/google_provider.py +228 -0
- scitex/ai/genai/groq.py +104 -0
- scitex/ai/genai/groq_provider.py +248 -0
- scitex/ai/genai/image_processor.py +250 -0
- scitex/ai/genai/llama.py +155 -0
- scitex/ai/genai/llama_provider.py +214 -0
- scitex/ai/genai/mock_provider.py +127 -0
- scitex/ai/genai/model_registry.py +304 -0
- scitex/ai/genai/openai.py +230 -0
- scitex/ai/genai/openai_provider.py +293 -0
- scitex/ai/genai/params.py +565 -0
- scitex/ai/genai/perplexity.py +202 -0
- scitex/ai/genai/perplexity_provider.py +205 -0
- scitex/ai/genai/provider_base.py +302 -0
- scitex/ai/genai/provider_factory.py +370 -0
- scitex/ai/genai/response_handler.py +235 -0
- scitex/ai/layer/_Pass.py +21 -0
- scitex/ai/layer/__init__.py +10 -0
- scitex/ai/layer/_switch.py +8 -0
- scitex/ai/loss/_L1L2Losses.py +34 -0
- scitex/ai/loss/__init__.py +12 -0
- scitex/ai/loss/multi_task_loss.py +47 -0
- scitex/ai/metrics/__init__.py +9 -0
- scitex/ai/metrics/_bACC.py +51 -0
- scitex/ai/metrics/silhoute_score_block.py +496 -0
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/__init__.py +0 -0
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/__init__.py +3 -0
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger.py +207 -0
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger2020.py +238 -0
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/ranger913A.py +215 -0
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/ranger/rangerqh.py +184 -0
- scitex/ai/optim/Ranger_Deep_Learning_Optimizer/setup.py +24 -0
- scitex/ai/optim/__init__.py +13 -0
- scitex/ai/optim/_get_set.py +31 -0
- scitex/ai/optim/_optimizers.py +71 -0
- scitex/ai/plt/__init__.py +21 -0
- scitex/ai/plt/_conf_mat.py +592 -0
- scitex/ai/plt/_learning_curve.py +194 -0
- scitex/ai/plt/_optuna_study.py +111 -0
- scitex/ai/plt/aucs/__init__.py +2 -0
- scitex/ai/plt/aucs/example.py +60 -0
- scitex/ai/plt/aucs/pre_rec_auc.py +223 -0
- scitex/ai/plt/aucs/roc_auc.py +246 -0
- scitex/ai/sampling/undersample.py +29 -0
- scitex/ai/sk/__init__.py +11 -0
- scitex/ai/sk/_clf.py +58 -0
- scitex/ai/sk/_to_sktime.py +100 -0
- scitex/ai/sklearn/__init__.py +26 -0
- scitex/ai/sklearn/clf.py +58 -0
- scitex/ai/sklearn/to_sktime.py +100 -0
- scitex/ai/training/__init__.py +7 -0
- scitex/ai/training/early_stopping.py +150 -0
- scitex/ai/training/learning_curve_logger.py +555 -0
- scitex/ai/utils/__init__.py +22 -0
- scitex/ai/utils/_check_params.py +50 -0
- scitex/ai/utils/_default_dataset.py +46 -0
- scitex/ai/utils/_format_samples_for_sktime.py +26 -0
- scitex/ai/utils/_label_encoder.py +134 -0
- scitex/ai/utils/_merge_labels.py +22 -0
- scitex/ai/utils/_sliding_window_data_augmentation.py +11 -0
- scitex/ai/utils/_under_sample.py +51 -0
- scitex/ai/utils/_verify_n_gpus.py +16 -0
- scitex/ai/utils/grid_search.py +148 -0
- scitex/context/__init__.py +9 -0
- scitex/context/_suppress_output.py +38 -0
- scitex/db/_BaseMixins/_BaseBackupMixin.py +30 -0
- scitex/db/_BaseMixins/_BaseBatchMixin.py +31 -0
- scitex/db/_BaseMixins/_BaseBlobMixin.py +81 -0
- scitex/db/_BaseMixins/_BaseConnectionMixin.py +43 -0
- scitex/db/_BaseMixins/_BaseImportExportMixin.py +39 -0
- scitex/db/_BaseMixins/_BaseIndexMixin.py +29 -0
- scitex/db/_BaseMixins/_BaseMaintenanceMixin.py +33 -0
- scitex/db/_BaseMixins/_BaseQueryMixin.py +52 -0
- scitex/db/_BaseMixins/_BaseRowMixin.py +32 -0
- scitex/db/_BaseMixins/_BaseSchemaMixin.py +44 -0
- scitex/db/_BaseMixins/_BaseTableMixin.py +66 -0
- scitex/db/_BaseMixins/_BaseTransactionMixin.py +52 -0
- scitex/db/_BaseMixins/__init__.py +30 -0
- scitex/db/_PostgreSQL.py +126 -0
- scitex/db/_PostgreSQLMixins/_BackupMixin.py +166 -0
- scitex/db/_PostgreSQLMixins/_BatchMixin.py +82 -0
- scitex/db/_PostgreSQLMixins/_BlobMixin.py +231 -0
- scitex/db/_PostgreSQLMixins/_ConnectionMixin.py +92 -0
- scitex/db/_PostgreSQLMixins/_ImportExportMixin.py +59 -0
- scitex/db/_PostgreSQLMixins/_IndexMixin.py +64 -0
- scitex/db/_PostgreSQLMixins/_MaintenanceMixin.py +175 -0
- scitex/db/_PostgreSQLMixins/_QueryMixin.py +108 -0
- scitex/db/_PostgreSQLMixins/_RowMixin.py +75 -0
- scitex/db/_PostgreSQLMixins/_SchemaMixin.py +126 -0
- scitex/db/_PostgreSQLMixins/_TableMixin.py +176 -0
- scitex/db/_PostgreSQLMixins/_TransactionMixin.py +57 -0
- scitex/db/_PostgreSQLMixins/__init__.py +34 -0
- scitex/db/_SQLite3.py +2136 -0
- scitex/db/_SQLite3Mixins/_BatchMixin.py +243 -0
- scitex/db/_SQLite3Mixins/_BlobMixin.py +229 -0
- scitex/db/_SQLite3Mixins/_ConnectionMixin.py +108 -0
- scitex/db/_SQLite3Mixins/_ImportExportMixin.py +80 -0
- scitex/db/_SQLite3Mixins/_IndexMixin.py +32 -0
- scitex/db/_SQLite3Mixins/_MaintenanceMixin.py +176 -0
- scitex/db/_SQLite3Mixins/_QueryMixin.py +83 -0
- scitex/db/_SQLite3Mixins/_RowMixin.py +75 -0
- scitex/db/_SQLite3Mixins/_TableMixin.py +183 -0
- scitex/db/_SQLite3Mixins/_TransactionMixin.py +71 -0
- scitex/db/_SQLite3Mixins/__init__.py +30 -0
- scitex/db/__init__.py +14 -0
- scitex/db/_delete_duplicates.py +397 -0
- scitex/db/_inspect.py +163 -0
- scitex/decorators/__init__.py +54 -0
- scitex/decorators/_auto_order.py +172 -0
- scitex/decorators/_batch_fn.py +127 -0
- scitex/decorators/_cache_disk.py +32 -0
- scitex/decorators/_cache_mem.py +12 -0
- scitex/decorators/_combined.py +98 -0
- scitex/decorators/_converters.py +282 -0
- scitex/decorators/_deprecated.py +26 -0
- scitex/decorators/_not_implemented.py +30 -0
- scitex/decorators/_numpy_fn.py +86 -0
- scitex/decorators/_pandas_fn.py +121 -0
- scitex/decorators/_preserve_doc.py +19 -0
- scitex/decorators/_signal_fn.py +95 -0
- scitex/decorators/_timeout.py +55 -0
- scitex/decorators/_torch_fn.py +136 -0
- scitex/decorators/_wrap.py +39 -0
- scitex/decorators/_xarray_fn.py +88 -0
- scitex/dev/__init__.py +15 -0
- scitex/dev/_analyze_code_flow.py +284 -0
- scitex/dev/_reload.py +59 -0
- scitex/dict/_DotDict.py +442 -0
- scitex/dict/__init__.py +18 -0
- scitex/dict/_listed_dict.py +42 -0
- scitex/dict/_pop_keys.py +36 -0
- scitex/dict/_replace.py +13 -0
- scitex/dict/_safe_merge.py +62 -0
- scitex/dict/_to_str.py +32 -0
- scitex/dsp/__init__.py +72 -0
- scitex/dsp/_crop.py +122 -0
- scitex/dsp/_demo_sig.py +331 -0
- scitex/dsp/_detect_ripples.py +212 -0
- scitex/dsp/_ensure_3d.py +18 -0
- scitex/dsp/_hilbert.py +78 -0
- scitex/dsp/_listen.py +702 -0
- scitex/dsp/_misc.py +30 -0
- scitex/dsp/_mne.py +32 -0
- scitex/dsp/_modulation_index.py +79 -0
- scitex/dsp/_pac.py +319 -0
- scitex/dsp/_psd.py +102 -0
- scitex/dsp/_resample.py +65 -0
- scitex/dsp/_time.py +36 -0
- scitex/dsp/_transform.py +68 -0
- scitex/dsp/_wavelet.py +212 -0
- scitex/dsp/add_noise.py +111 -0
- scitex/dsp/example.py +253 -0
- scitex/dsp/filt.py +155 -0
- scitex/dsp/norm.py +18 -0
- scitex/dsp/params.py +51 -0
- scitex/dsp/reference.py +43 -0
- scitex/dsp/template.py +25 -0
- scitex/dsp/utils/__init__.py +15 -0
- scitex/dsp/utils/_differential_bandpass_filters.py +120 -0
- scitex/dsp/utils/_ensure_3d.py +18 -0
- scitex/dsp/utils/_ensure_even_len.py +10 -0
- scitex/dsp/utils/_zero_pad.py +48 -0
- scitex/dsp/utils/filter.py +408 -0
- scitex/dsp/utils/pac.py +177 -0
- scitex/dt/__init__.py +8 -0
- scitex/dt/_linspace.py +130 -0
- scitex/etc/__init__.py +15 -0
- scitex/etc/wait_key.py +34 -0
- scitex/gen/_DimHandler.py +196 -0
- scitex/gen/_TimeStamper.py +244 -0
- scitex/gen/__init__.py +95 -0
- scitex/gen/_alternate_kwarg.py +13 -0
- scitex/gen/_cache.py +11 -0
- scitex/gen/_check_host.py +34 -0
- scitex/gen/_ci.py +12 -0
- scitex/gen/_close.py +222 -0
- scitex/gen/_embed.py +78 -0
- scitex/gen/_inspect_module.py +257 -0
- scitex/gen/_is_ipython.py +12 -0
- scitex/gen/_less.py +48 -0
- scitex/gen/_list_packages.py +139 -0
- scitex/gen/_mat2py.py +88 -0
- scitex/gen/_norm.py +170 -0
- scitex/gen/_paste.py +18 -0
- scitex/gen/_print_config.py +84 -0
- scitex/gen/_shell.py +48 -0
- scitex/gen/_src.py +111 -0
- scitex/gen/_start.py +451 -0
- scitex/gen/_symlink.py +55 -0
- scitex/gen/_symlog.py +27 -0
- scitex/gen/_tee.py +238 -0
- scitex/gen/_title2path.py +60 -0
- scitex/gen/_title_case.py +88 -0
- scitex/gen/_to_even.py +84 -0
- scitex/gen/_to_odd.py +34 -0
- scitex/gen/_to_rank.py +39 -0
- scitex/gen/_transpose.py +37 -0
- scitex/gen/_type.py +78 -0
- scitex/gen/_var_info.py +73 -0
- scitex/gen/_wrap.py +17 -0
- scitex/gen/_xml2dict.py +76 -0
- scitex/gen/misc.py +730 -0
- scitex/gen/path.py +0 -0
- scitex/general/__init__.py +5 -0
- scitex/gists/_SigMacro_processFigure_S.py +128 -0
- scitex/gists/_SigMacro_toBlue.py +172 -0
- scitex/gists/__init__.py +12 -0
- scitex/io/_H5Explorer.py +292 -0
- scitex/io/__init__.py +82 -0
- scitex/io/_cache.py +101 -0
- scitex/io/_flush.py +24 -0
- scitex/io/_glob.py +103 -0
- scitex/io/_json2md.py +113 -0
- scitex/io/_load.py +168 -0
- scitex/io/_load_configs.py +146 -0
- scitex/io/_load_modules/__init__.py +38 -0
- scitex/io/_load_modules/_catboost.py +66 -0
- scitex/io/_load_modules/_con.py +20 -0
- scitex/io/_load_modules/_db.py +24 -0
- scitex/io/_load_modules/_docx.py +42 -0
- scitex/io/_load_modules/_eeg.py +110 -0
- scitex/io/_load_modules/_hdf5.py +196 -0
- scitex/io/_load_modules/_image.py +19 -0
- scitex/io/_load_modules/_joblib.py +19 -0
- scitex/io/_load_modules/_json.py +18 -0
- scitex/io/_load_modules/_markdown.py +103 -0
- scitex/io/_load_modules/_matlab.py +37 -0
- scitex/io/_load_modules/_numpy.py +39 -0
- scitex/io/_load_modules/_optuna.py +155 -0
- scitex/io/_load_modules/_pandas.py +69 -0
- scitex/io/_load_modules/_pdf.py +31 -0
- scitex/io/_load_modules/_pickle.py +24 -0
- scitex/io/_load_modules/_torch.py +16 -0
- scitex/io/_load_modules/_txt.py +126 -0
- scitex/io/_load_modules/_xml.py +49 -0
- scitex/io/_load_modules/_yaml.py +23 -0
- scitex/io/_mv_to_tmp.py +19 -0
- scitex/io/_path.py +286 -0
- scitex/io/_reload.py +78 -0
- scitex/io/_save.py +539 -0
- scitex/io/_save_modules/__init__.py +66 -0
- scitex/io/_save_modules/_catboost.py +22 -0
- scitex/io/_save_modules/_csv.py +89 -0
- scitex/io/_save_modules/_excel.py +49 -0
- scitex/io/_save_modules/_hdf5.py +249 -0
- scitex/io/_save_modules/_html.py +48 -0
- scitex/io/_save_modules/_image.py +140 -0
- scitex/io/_save_modules/_joblib.py +25 -0
- scitex/io/_save_modules/_json.py +25 -0
- scitex/io/_save_modules/_listed_dfs_as_csv.py +57 -0
- scitex/io/_save_modules/_listed_scalars_as_csv.py +42 -0
- scitex/io/_save_modules/_matlab.py +24 -0
- scitex/io/_save_modules/_mp4.py +29 -0
- scitex/io/_save_modules/_numpy.py +57 -0
- scitex/io/_save_modules/_optuna_study_as_csv_and_pngs.py +38 -0
- scitex/io/_save_modules/_pickle.py +45 -0
- scitex/io/_save_modules/_plotly.py +27 -0
- scitex/io/_save_modules/_text.py +23 -0
- scitex/io/_save_modules/_torch.py +26 -0
- scitex/io/_save_modules/_yaml.py +29 -0
- scitex/life/__init__.py +10 -0
- scitex/life/_monitor_rain.py +49 -0
- scitex/linalg/__init__.py +17 -0
- scitex/linalg/_distance.py +63 -0
- scitex/linalg/_geometric_median.py +64 -0
- scitex/linalg/_misc.py +73 -0
- scitex/nn/_AxiswiseDropout.py +27 -0
- scitex/nn/_BNet.py +126 -0
- scitex/nn/_BNet_Res.py +164 -0
- scitex/nn/_ChannelGainChanger.py +44 -0
- scitex/nn/_DropoutChannels.py +50 -0
- scitex/nn/_Filters.py +489 -0
- scitex/nn/_FreqGainChanger.py +110 -0
- scitex/nn/_GaussianFilter.py +48 -0
- scitex/nn/_Hilbert.py +111 -0
- scitex/nn/_MNet_1000.py +157 -0
- scitex/nn/_ModulationIndex.py +221 -0
- scitex/nn/_PAC.py +414 -0
- scitex/nn/_PSD.py +40 -0
- scitex/nn/_ResNet1D.py +120 -0
- scitex/nn/_SpatialAttention.py +25 -0
- scitex/nn/_Spectrogram.py +161 -0
- scitex/nn/_SwapChannels.py +50 -0
- scitex/nn/_TransposeLayer.py +19 -0
- scitex/nn/_Wavelet.py +183 -0
- scitex/nn/__init__.py +63 -0
- scitex/os/__init__.py +8 -0
- scitex/os/_mv.py +50 -0
- scitex/parallel/__init__.py +8 -0
- scitex/parallel/_run.py +151 -0
- scitex/path/__init__.py +33 -0
- scitex/path/_clean.py +52 -0
- scitex/path/_find.py +108 -0
- scitex/path/_get_module_path.py +51 -0
- scitex/path/_get_spath.py +35 -0
- scitex/path/_getsize.py +18 -0
- scitex/path/_increment_version.py +87 -0
- scitex/path/_mk_spath.py +51 -0
- scitex/path/_path.py +19 -0
- scitex/path/_split.py +23 -0
- scitex/path/_this_path.py +19 -0
- scitex/path/_version.py +101 -0
- scitex/pd/__init__.py +41 -0
- scitex/pd/_find_indi.py +126 -0
- scitex/pd/_find_pval.py +113 -0
- scitex/pd/_force_df.py +154 -0
- scitex/pd/_from_xyz.py +71 -0
- scitex/pd/_ignore_SettingWithCopyWarning.py +34 -0
- scitex/pd/_melt_cols.py +81 -0
- scitex/pd/_merge_columns.py +221 -0
- scitex/pd/_mv.py +63 -0
- scitex/pd/_replace.py +62 -0
- scitex/pd/_round.py +93 -0
- scitex/pd/_slice.py +63 -0
- scitex/pd/_sort.py +91 -0
- scitex/pd/_to_numeric.py +53 -0
- scitex/pd/_to_xy.py +59 -0
- scitex/pd/_to_xyz.py +110 -0
- scitex/plt/__init__.py +36 -0
- scitex/plt/_subplots/_AxesWrapper.py +182 -0
- scitex/plt/_subplots/_AxisWrapper.py +249 -0
- scitex/plt/_subplots/_AxisWrapperMixins/_AdjustmentMixin.py +414 -0
- scitex/plt/_subplots/_AxisWrapperMixins/_MatplotlibPlotMixin.py +896 -0
- scitex/plt/_subplots/_AxisWrapperMixins/_SeabornMixin.py +368 -0
- scitex/plt/_subplots/_AxisWrapperMixins/_TrackingMixin.py +185 -0
- scitex/plt/_subplots/_AxisWrapperMixins/__init__.py +16 -0
- scitex/plt/_subplots/_FigWrapper.py +226 -0
- scitex/plt/_subplots/_SubplotsWrapper.py +171 -0
- scitex/plt/_subplots/__init__.py +111 -0
- scitex/plt/_subplots/_export_as_csv.py +232 -0
- scitex/plt/_subplots/_export_as_csv_formatters/__init__.py +61 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_bar.py +90 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_barh.py +49 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_boxplot.py +46 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_contour.py +39 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_errorbar.py +125 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_eventplot.py +72 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_fill.py +34 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_fill_between.py +36 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_hist.py +79 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow.py +59 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_imshow2d.py +32 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot.py +79 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_box.py +75 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_conf_mat.py +64 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_ecdf.py +44 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_fillv.py +70 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_heatmap.py +66 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_image.py +95 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_joyplot.py +67 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_kde.py +52 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_line.py +46 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_mean_ci.py +46 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_mean_std.py +46 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_median_iqr.py +46 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_raster.py +44 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_rectangle.py +103 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_scatter_hist.py +82 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_shaded_line.py +58 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_plot_violin.py +117 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_scatter.py +30 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_barplot.py +51 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_boxplot.py +93 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_heatmap.py +94 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_histplot.py +92 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_jointplot.py +65 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_kdeplot.py +59 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_lineplot.py +58 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_pairplot.py +45 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_scatterplot.py +70 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_stripplot.py +75 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_swarmplot.py +75 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_sns_violinplot.py +155 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_violin.py +64 -0
- scitex/plt/_subplots/_export_as_csv_formatters/_format_violinplot.py +77 -0
- scitex/plt/_subplots/_export_as_csv_formatters/test_formatters.py +210 -0
- scitex/plt/_subplots/_export_as_csv_formatters/verify_formatters.py +342 -0
- scitex/plt/_subplots/_export_as_csv_formatters.py +115 -0
- scitex/plt/_tpl.py +28 -0
- scitex/plt/ax/__init__.py +114 -0
- scitex/plt/ax/_plot/__init__.py +53 -0
- scitex/plt/ax/_plot/_plot_circular_hist.py +124 -0
- scitex/plt/ax/_plot/_plot_conf_mat.py +136 -0
- scitex/plt/ax/_plot/_plot_cube.py +57 -0
- scitex/plt/ax/_plot/_plot_ecdf.py +84 -0
- scitex/plt/ax/_plot/_plot_fillv.py +55 -0
- scitex/plt/ax/_plot/_plot_heatmap.py +266 -0
- scitex/plt/ax/_plot/_plot_image.py +94 -0
- scitex/plt/ax/_plot/_plot_joyplot.py +76 -0
- scitex/plt/ax/_plot/_plot_raster.py +172 -0
- scitex/plt/ax/_plot/_plot_rectangle.py +69 -0
- scitex/plt/ax/_plot/_plot_scatter_hist.py +133 -0
- scitex/plt/ax/_plot/_plot_shaded_line.py +142 -0
- scitex/plt/ax/_plot/_plot_statistical_shaded_line.py +221 -0
- scitex/plt/ax/_plot/_plot_violin.py +343 -0
- scitex/plt/ax/_style/__init__.py +38 -0
- scitex/plt/ax/_style/_add_marginal_ax.py +44 -0
- scitex/plt/ax/_style/_add_panel.py +92 -0
- scitex/plt/ax/_style/_extend.py +64 -0
- scitex/plt/ax/_style/_force_aspect.py +37 -0
- scitex/plt/ax/_style/_format_label.py +23 -0
- scitex/plt/ax/_style/_hide_spines.py +84 -0
- scitex/plt/ax/_style/_map_ticks.py +182 -0
- scitex/plt/ax/_style/_rotate_labels.py +215 -0
- scitex/plt/ax/_style/_sci_note.py +279 -0
- scitex/plt/ax/_style/_set_log_scale.py +299 -0
- scitex/plt/ax/_style/_set_meta.py +261 -0
- scitex/plt/ax/_style/_set_n_ticks.py +37 -0
- scitex/plt/ax/_style/_set_size.py +16 -0
- scitex/plt/ax/_style/_set_supxyt.py +116 -0
- scitex/plt/ax/_style/_set_ticks.py +276 -0
- scitex/plt/ax/_style/_set_xyt.py +121 -0
- scitex/plt/ax/_style/_share_axes.py +264 -0
- scitex/plt/ax/_style/_shift.py +139 -0
- scitex/plt/ax/_style/_show_spines.py +333 -0
- scitex/plt/color/_PARAMS.py +70 -0
- scitex/plt/color/__init__.py +52 -0
- scitex/plt/color/_add_hue_col.py +41 -0
- scitex/plt/color/_colors.py +205 -0
- scitex/plt/color/_get_colors_from_cmap.py +134 -0
- scitex/plt/color/_interpolate.py +29 -0
- scitex/plt/color/_vizualize_colors.py +54 -0
- scitex/plt/utils/__init__.py +44 -0
- scitex/plt/utils/_calc_bacc_from_conf_mat.py +46 -0
- scitex/plt/utils/_calc_nice_ticks.py +101 -0
- scitex/plt/utils/_close.py +68 -0
- scitex/plt/utils/_colorbar.py +96 -0
- scitex/plt/utils/_configure_mpl.py +295 -0
- scitex/plt/utils/_histogram_utils.py +132 -0
- scitex/plt/utils/_im2grid.py +70 -0
- scitex/plt/utils/_is_valid_axis.py +78 -0
- scitex/plt/utils/_mk_colorbar.py +65 -0
- scitex/plt/utils/_mk_patches.py +26 -0
- scitex/plt/utils/_scientific_captions.py +638 -0
- scitex/plt/utils/_scitex_config.py +223 -0
- scitex/reproduce/__init__.py +14 -0
- scitex/reproduce/_fix_seeds.py +45 -0
- scitex/reproduce/_gen_ID.py +55 -0
- scitex/reproduce/_gen_timestamp.py +35 -0
- scitex/res/__init__.py +5 -0
- scitex/resource/__init__.py +13 -0
- scitex/resource/_get_processor_usages.py +281 -0
- scitex/resource/_get_specs.py +280 -0
- scitex/resource/_log_processor_usages.py +190 -0
- scitex/resource/_utils/__init__.py +31 -0
- scitex/resource/_utils/_get_env_info.py +481 -0
- scitex/resource/limit_ram.py +33 -0
- scitex/scholar/__init__.py +24 -0
- scitex/scholar/_local_search.py +454 -0
- scitex/scholar/_paper.py +244 -0
- scitex/scholar/_pdf_downloader.py +325 -0
- scitex/scholar/_search.py +393 -0
- scitex/scholar/_vector_search.py +370 -0
- scitex/scholar/_web_sources.py +457 -0
- scitex/stats/__init__.py +31 -0
- scitex/stats/_calc_partial_corr.py +17 -0
- scitex/stats/_corr_test_multi.py +94 -0
- scitex/stats/_corr_test_wrapper.py +115 -0
- scitex/stats/_describe_wrapper.py +90 -0
- scitex/stats/_multiple_corrections.py +63 -0
- scitex/stats/_nan_stats.py +93 -0
- scitex/stats/_p2stars.py +116 -0
- scitex/stats/_p2stars_wrapper.py +56 -0
- scitex/stats/_statistical_tests.py +73 -0
- scitex/stats/desc/__init__.py +40 -0
- scitex/stats/desc/_describe.py +189 -0
- scitex/stats/desc/_nan.py +289 -0
- scitex/stats/desc/_real.py +94 -0
- scitex/stats/multiple/__init__.py +14 -0
- scitex/stats/multiple/_bonferroni_correction.py +72 -0
- scitex/stats/multiple/_fdr_correction.py +400 -0
- scitex/stats/multiple/_multicompair.py +28 -0
- scitex/stats/tests/__corr_test.py +277 -0
- scitex/stats/tests/__corr_test_multi.py +343 -0
- scitex/stats/tests/__corr_test_single.py +277 -0
- scitex/stats/tests/__init__.py +22 -0
- scitex/stats/tests/_brunner_munzel_test.py +192 -0
- scitex/stats/tests/_nocorrelation_test.py +28 -0
- scitex/stats/tests/_smirnov_grubbs.py +98 -0
- scitex/str/__init__.py +113 -0
- scitex/str/_clean_path.py +75 -0
- scitex/str/_color_text.py +52 -0
- scitex/str/_decapitalize.py +58 -0
- scitex/str/_factor_out_digits.py +281 -0
- scitex/str/_format_plot_text.py +498 -0
- scitex/str/_grep.py +48 -0
- scitex/str/_latex.py +155 -0
- scitex/str/_latex_fallback.py +471 -0
- scitex/str/_mask_api.py +39 -0
- scitex/str/_mask_api_key.py +8 -0
- scitex/str/_parse.py +158 -0
- scitex/str/_print_block.py +47 -0
- scitex/str/_print_debug.py +68 -0
- scitex/str/_printc.py +62 -0
- scitex/str/_readable_bytes.py +38 -0
- scitex/str/_remove_ansi.py +23 -0
- scitex/str/_replace.py +134 -0
- scitex/str/_search.py +125 -0
- scitex/str/_squeeze_space.py +36 -0
- scitex/tex/__init__.py +10 -0
- scitex/tex/_preview.py +103 -0
- scitex/tex/_to_vec.py +116 -0
- scitex/torch/__init__.py +18 -0
- scitex/torch/_apply_to.py +34 -0
- scitex/torch/_nan_funcs.py +77 -0
- scitex/types/_ArrayLike.py +44 -0
- scitex/types/_ColorLike.py +21 -0
- scitex/types/__init__.py +14 -0
- scitex/types/_is_listed_X.py +70 -0
- scitex/utils/__init__.py +22 -0
- scitex/utils/_compress_hdf5.py +116 -0
- scitex/utils/_email.py +120 -0
- scitex/utils/_grid.py +148 -0
- scitex/utils/_notify.py +247 -0
- scitex/utils/_search.py +121 -0
- scitex/web/__init__.py +38 -0
- scitex/web/_search_pubmed.py +438 -0
- scitex/web/_summarize_url.py +158 -0
- scitex-2.0.0.dist-info/METADATA +307 -0
- scitex-2.0.0.dist-info/RECORD +572 -0
- scitex-2.0.0.dist-info/WHEEL +6 -0
- scitex-2.0.0.dist-info/licenses/LICENSE +7 -0
- scitex-2.0.0.dist-info/top_level.txt +1 -0
scitex/__init__.py
ADDED
|
@@ -0,0 +1,73 @@
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1
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+
#!/usr/bin/env python3
|
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2
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+
"""
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3
|
+
Minimal scitex initialization.
|
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4
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+
Modules are imported on-demand to avoid circular dependencies.
|
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5
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+
"""
|
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6
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+
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7
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+
import os
|
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8
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import warnings
|
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9
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+
|
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10
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+
# Configure warnings
|
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11
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+
warnings.filterwarnings("ignore", category=DeprecationWarning)
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12
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+
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13
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+
# Version
|
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14
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try:
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15
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from .__version__ import __version__
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except ImportError:
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17
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__version__ = "unknown"
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18
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+
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19
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+
# Lazy loading for all modules
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20
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class _LazyModule:
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21
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def __init__(self, name):
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22
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self._name = name
|
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23
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+
self._module = None
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24
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25
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def __getattr__(self, attr):
|
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26
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+
if self._module is None:
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27
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+
import importlib
|
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28
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+
self._module = importlib.import_module(f".{self._name}", package="scitex")
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29
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return getattr(self._module, attr)
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30
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+
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31
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+
# Create lazy modules
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32
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+
io = _LazyModule("io")
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33
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+
gen = _LazyModule("gen")
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34
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+
plt = _LazyModule("plt")
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35
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+
ai = _LazyModule("ai")
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36
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+
pd = _LazyModule("pd")
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37
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+
str = _LazyModule("str")
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38
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+
stats = _LazyModule("stats")
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39
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+
path = _LazyModule("path")
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40
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+
dict = _LazyModule("dict")
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41
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+
decorators = _LazyModule("decorators")
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42
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+
dsp = _LazyModule("dsp")
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43
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+
nn = _LazyModule("nn")
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44
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+
torch = _LazyModule("torch")
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45
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+
web = _LazyModule("web")
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46
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+
db = _LazyModule("db")
|
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47
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+
reproduce = _LazyModule("reproduce")
|
|
48
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+
scholar = _LazyModule("scholar")
|
|
49
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+
resource = _LazyModule("resource")
|
|
50
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+
tex = _LazyModule("tex")
|
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51
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+
linalg = _LazyModule("linalg")
|
|
52
|
+
parallel = _LazyModule("parallel")
|
|
53
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+
dt = _LazyModule("dt")
|
|
54
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+
types = _LazyModule("types")
|
|
55
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+
utils = _LazyModule("utils")
|
|
56
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+
etc = _LazyModule("etc")
|
|
57
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+
context = _LazyModule("context")
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58
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+
dev = _LazyModule("dev")
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59
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+
gists = _LazyModule("gists")
|
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60
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+
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61
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+
# Import sh function directly as it's commonly used
|
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62
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try:
|
|
63
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+
from ._sh import sh
|
|
64
|
+
except ImportError:
|
|
65
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+
sh = None
|
|
66
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+
|
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67
|
+
# Common function that's often needed
|
|
68
|
+
def start(*args, **kwargs):
|
|
69
|
+
"""Convenience function to access gen.start"""
|
|
70
|
+
return gen.start(*args, **kwargs)
|
|
71
|
+
|
|
72
|
+
__all__ = ["io", "gen", "plt", "ai", "pd", "str", "stats", "path",
|
|
73
|
+
"dict", "decorators", "start", "__version__", "sh"]
|
scitex/__main__.py
ADDED
|
@@ -0,0 +1,89 @@
|
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1
|
+
#!/usr/bin/env python3
|
|
2
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+
# -*- coding: utf-8 -*-
|
|
3
|
+
# Time-stamp: "2024-10-13 18:56:15 (ywatanabe)"
|
|
4
|
+
# /home/yusukew/proj/scitex_repo/src/scitex/__main__.py
|
|
5
|
+
|
|
6
|
+
"""
|
|
7
|
+
1. Functionality:
|
|
8
|
+
- Serves as the entry point for the scitex package
|
|
9
|
+
- Handles command-line arguments and directs to appropriate submodules
|
|
10
|
+
2. Input:
|
|
11
|
+
- Command-line arguments
|
|
12
|
+
3. Output:
|
|
13
|
+
- Execution of specified submodule or usage instructions
|
|
14
|
+
4. Prerequisites:
|
|
15
|
+
- scitex package and its submodules
|
|
16
|
+
"""
|
|
17
|
+
|
|
18
|
+
import warnings
|
|
19
|
+
|
|
20
|
+
warnings.filterwarnings("ignore")
|
|
21
|
+
|
|
22
|
+
import sys
|
|
23
|
+
from typing import List
|
|
24
|
+
from .gen._print_config import print_config_main
|
|
25
|
+
|
|
26
|
+
|
|
27
|
+
def main(args: List[str] = None) -> None:
|
|
28
|
+
"""
|
|
29
|
+
Main function to handle command-line arguments and execute appropriate submodules.
|
|
30
|
+
|
|
31
|
+
Parameters
|
|
32
|
+
----------
|
|
33
|
+
args : List[str], optional
|
|
34
|
+
Command-line arguments. If None, sys.argv[1:] will be used.
|
|
35
|
+
|
|
36
|
+
Returns
|
|
37
|
+
-------
|
|
38
|
+
None
|
|
39
|
+
|
|
40
|
+
Example
|
|
41
|
+
-------
|
|
42
|
+
>>> import scitex.__main__ as main_module
|
|
43
|
+
>>> main_module.main(['print_config', 'SOME_KEY'])
|
|
44
|
+
"""
|
|
45
|
+
|
|
46
|
+
|
|
47
|
+
from .gen._print_config import print_config_main
|
|
48
|
+
|
|
49
|
+
|
|
50
|
+
def main():
|
|
51
|
+
"""Main entry point for SciTeX command-line interface.
|
|
52
|
+
|
|
53
|
+
Provides command-line access to various SciTeX utilities. Currently
|
|
54
|
+
supports configuration printing functionality.
|
|
55
|
+
|
|
56
|
+
Commands
|
|
57
|
+
--------
|
|
58
|
+
print_config : Print configuration values
|
|
59
|
+
Usage: python -m scitex print_config [key]
|
|
60
|
+
|
|
61
|
+
Examples
|
|
62
|
+
--------
|
|
63
|
+
>>> # Print all configuration
|
|
64
|
+
>>> python -m scitex print_config
|
|
65
|
+
|
|
66
|
+
>>> # Print specific configuration key
|
|
67
|
+
>>> python -m scitex print_config DATABASE_URL
|
|
68
|
+
|
|
69
|
+
Raises
|
|
70
|
+
------
|
|
71
|
+
SystemExit
|
|
72
|
+
If no command provided or unknown command specified.
|
|
73
|
+
"""
|
|
74
|
+
if len(sys.argv) < 2:
|
|
75
|
+
print("Usage: python -m scitex <command> [args]")
|
|
76
|
+
sys.exit(1)
|
|
77
|
+
|
|
78
|
+
command = sys.argv[1]
|
|
79
|
+
args = sys.argv[2:]
|
|
80
|
+
|
|
81
|
+
if command == "print_config":
|
|
82
|
+
print_config_main(args)
|
|
83
|
+
else:
|
|
84
|
+
print(f"Unknown command: {command}")
|
|
85
|
+
sys.exit(1)
|
|
86
|
+
|
|
87
|
+
|
|
88
|
+
if __name__ == "__main__":
|
|
89
|
+
main()
|
scitex/__version__.py
ADDED
|
@@ -0,0 +1,14 @@
|
|
|
1
|
+
#!/usr/bin/env python3
|
|
2
|
+
# -*- coding: utf-8 -*-
|
|
3
|
+
# Timestamp: "2025-05-31 00:20:14 (ywatanabe)"
|
|
4
|
+
# File: /ssh:ywatanabe@sp:/home/ywatanabe/proj/.claude-worktree/scitex_repo/src/scitex/__version__.py
|
|
5
|
+
# ----------------------------------------
|
|
6
|
+
import os
|
|
7
|
+
|
|
8
|
+
__FILE__ = "./src/scitex/__version__.py"
|
|
9
|
+
__DIR__ = os.path.dirname(__FILE__)
|
|
10
|
+
# ----------------------------------------
|
|
11
|
+
|
|
12
|
+
__version__ = "2.0.0"
|
|
13
|
+
|
|
14
|
+
# EOF
|
scitex/_sh.py
ADDED
|
@@ -0,0 +1,59 @@
|
|
|
1
|
+
#!/usr/bin/env python3
|
|
2
|
+
# -*- coding: utf-8 -*-
|
|
3
|
+
# Timestamp: "2025-06-13 22:51:08 (ywatanabe)"
|
|
4
|
+
# File: /ssh:sp:/home/ywatanabe/proj/SciTeX-Code/src/scitex/_sh.py
|
|
5
|
+
# ----------------------------------------
|
|
6
|
+
import os
|
|
7
|
+
__FILE__ = (
|
|
8
|
+
"./src/scitex/_sh.py"
|
|
9
|
+
)
|
|
10
|
+
__DIR__ = os.path.dirname(__FILE__)
|
|
11
|
+
# ----------------------------------------
|
|
12
|
+
# Time-stamp: "2024-11-03 02:23:16 (ywatanabe)"
|
|
13
|
+
|
|
14
|
+
import subprocess
|
|
15
|
+
|
|
16
|
+
import scitex
|
|
17
|
+
|
|
18
|
+
|
|
19
|
+
def sh(command_str, verbose=True):
|
|
20
|
+
"""
|
|
21
|
+
Executes a shell command from Python.
|
|
22
|
+
|
|
23
|
+
Parameters:
|
|
24
|
+
- command_str (str): The command string to execute.
|
|
25
|
+
|
|
26
|
+
Returns:
|
|
27
|
+
- output (str): The standard output from the executed command.
|
|
28
|
+
"""
|
|
29
|
+
if verbose:
|
|
30
|
+
print(scitex.str.color_text(f"{command_str}", "yellow"))
|
|
31
|
+
|
|
32
|
+
process = subprocess.Popen(
|
|
33
|
+
command_str, shell=True, stdout=subprocess.PIPE, stderr=subprocess.PIPE
|
|
34
|
+
)
|
|
35
|
+
output, error = process.communicate()
|
|
36
|
+
if process.returncode == 0:
|
|
37
|
+
out = output.decode("utf-8").strip()
|
|
38
|
+
else:
|
|
39
|
+
out = error.decode("utf-8").strip()
|
|
40
|
+
|
|
41
|
+
if verbose:
|
|
42
|
+
print(out)
|
|
43
|
+
|
|
44
|
+
return out
|
|
45
|
+
|
|
46
|
+
|
|
47
|
+
if __name__ == "__main__":
|
|
48
|
+
import sys
|
|
49
|
+
|
|
50
|
+
import matplotlib.pyplot as plt
|
|
51
|
+
import scitex
|
|
52
|
+
|
|
53
|
+
CONFIG, sys.stdout, sys.stderr, plt, CC = scitex.gen.start(
|
|
54
|
+
sys, plt, verbose=False
|
|
55
|
+
)
|
|
56
|
+
sh("ls")
|
|
57
|
+
scitex.gen.close(CONFIG, verbose=False, notify=False)
|
|
58
|
+
|
|
59
|
+
# EOF
|