Fix API documentation index and enable successful Sphinx build

Co-authored-by: HernandoMV <6049065+HernandoMV@users.noreply.github.com>
LearningCircuitsLab · HernandoMV · Aug 21, 2025 · Aug 21, 2025 · Aug 21, 2025 · Aug 21, 2025
commit a937817a0c6de123b18f2f0c303a27db2a733756
diff --git a/...erated/lecilab_behavior_analysis.df_transforms.add_auditory_real_statistics.rst b/...erated/lecilab_behavior_analysis.df_transforms.add_auditory_real_statistics.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_auditory\_real\_statistics
+==========================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_auditory_real_statistics
diff --git a/.../api_generated/lecilab_behavior_analysis.df_transforms.add_day_column_to_df.rst b/.../api_generated/lecilab_behavior_analysis.df_transforms.add_day_column_to_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_day\_column\_to\_df
+===================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_day_column_to_df
diff --git a/...cilab_behavior_analysis.df_transforms.add_inter_trial_interval_column_to_df.rst b/...cilab_behavior_analysis.df_transforms.add_inter_trial_interval_column_to_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_inter\_trial\_interval\_column\_to\_df
+======================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_inter_trial_interval_column_to_df
diff --git a/...pi_generated/lecilab_behavior_analysis.df_transforms.add_mouse_first_choice.rst b/...pi_generated/lecilab_behavior_analysis.df_transforms.add_mouse_first_choice.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_mouse\_first\_choice
+====================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_mouse_first_choice
diff --git a/...api_generated/lecilab_behavior_analysis.df_transforms.add_mouse_last_choice.rst b/...api_generated/lecilab_behavior_analysis.df_transforms.add_mouse_last_choice.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_mouse\_last\_choice
+===================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_mouse_last_choice
diff --git a/...ed/lecilab_behavior_analysis.df_transforms.add_port_where_animal_comes_from.rst b/...ed/lecilab_behavior_analysis.df_transforms.add_port_where_animal_comes_from.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_port\_where\_animal\_comes\_from
+================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_port_where_animal_comes_from
diff --git a/...ted/lecilab_behavior_analysis.df_transforms.add_trial_duration_column_to_df.rst b/...ted/lecilab_behavior_analysis.df_transforms.add_trial_duration_column_to_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_trial\_duration\_column\_to\_df
+===============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_trial_duration_column_to_df
diff --git a/...urce/api_generated/lecilab_behavior_analysis.df_transforms.add_trial_misses.rst b/...urce/api_generated/lecilab_behavior_analysis.df_transforms.add_trial_misses.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_trial\_misses
+=============================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_trial_misses
diff --git a/...rated/lecilab_behavior_analysis.df_transforms.add_trial_of_day_column_to_df.rst b/...rated/lecilab_behavior_analysis.df_transforms.add_trial_of_day_column_to_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_trial\_of\_day\_column\_to\_df
+==============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_trial_of_day_column_to_df
diff --git a/...ated/lecilab_behavior_analysis.df_transforms.add_visual_stimulus_difference.rst b/...ated/lecilab_behavior_analysis.df_transforms.add_visual_stimulus_difference.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.add\_visual\_stimulus\_difference
+============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: add_visual_stimulus_difference
diff --git a/docs/source/api_generated/lecilab_behavior_analysis.df_transforms.analyze_df.rst b/docs/source/api_generated/lecilab_behavior_analysis.df_transforms.analyze_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.analyze\_df
+======================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: analyze_df
diff --git a/...vior_analysis.df_transforms.calculate_time_between_trials_and_reaction_time.rst b/...vior_analysis.df_transforms.calculate_time_between_trials_and_reaction_time.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.calculate\_time\_between\_trials\_and\_reaction\_time
+================================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: calculate_time_between_trials_and_reaction_time
diff --git a/..._generated/lecilab_behavior_analysis.df_transforms.create_transition_matrix.rst b/..._generated/lecilab_behavior_analysis.df_transforms.create_transition_matrix.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.create\_transition\_matrix
+=====================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: create_transition_matrix
diff --git a/...rce/api_generated/lecilab_behavior_analysis.df_transforms.fill_missing_data.rst b/...rce/api_generated/lecilab_behavior_analysis.df_transforms.fill_missing_data.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.fill\_missing\_data
+==============================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: fill_missing_data
diff --git a/...api_generated/lecilab_behavior_analysis.df_transforms.get_bias_evolution_df.rst b/...api_generated/lecilab_behavior_analysis.df_transforms.get_bias_evolution_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_bias\_evolution\_df
+===================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_bias_evolution_df
diff --git a/...ce/api_generated/lecilab_behavior_analysis.df_transforms.get_center_hold_df.rst b/...ce/api_generated/lecilab_behavior_analysis.df_transforms.get_center_hold_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_center\_hold\_df
+================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_center_hold_df
diff --git a/...rce/api_generated/lecilab_behavior_analysis.df_transforms.get_choice_before.rst b/...rce/api_generated/lecilab_behavior_analysis.df_transforms.get_choice_before.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_choice\_before
+==============================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_choice_before
diff --git a/...ted/lecilab_behavior_analysis.df_transforms.get_daily_occupancy_percentages.rst b/...ted/lecilab_behavior_analysis.df_transforms.get_daily_occupancy_percentages.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_daily\_occupancy\_percentages
+=============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_daily_occupancy_percentages
diff --git a/docs/source/api_generated/lecilab_behavior_analysis.df_transforms.get_dates_df.rst b/docs/source/api_generated/lecilab_behavior_analysis.df_transforms.get_dates_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_dates\_df
+=========================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_dates_df
diff --git a/...ce/api_generated/lecilab_behavior_analysis.df_transforms.get_evidence_ratio.rst b/...ce/api_generated/lecilab_behavior_analysis.df_transforms.get_evidence_ratio.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_evidence\_ratio
+===============================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_evidence_ratio
diff --git a/...pi_generated/lecilab_behavior_analysis.df_transforms.get_left_auditory_stim.rst b/...pi_generated/lecilab_behavior_analysis.df_transforms.get_left_auditory_stim.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_left\_auditory\_stim
+====================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_left_auditory_stim
diff --git a/...ource/api_generated/lecilab_behavior_analysis.df_transforms.get_left_choice.rst b/...ource/api_generated/lecilab_behavior_analysis.df_transforms.get_left_choice.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_left\_choice
+============================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_left_choice
diff --git a/...api_generated/lecilab_behavior_analysis.df_transforms.get_occupancy_heatmap.rst b/...api_generated/lecilab_behavior_analysis.df_transforms.get_occupancy_heatmap.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_occupancy\_heatmap
+==================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_occupancy_heatmap
diff --git a/.../api_generated/lecilab_behavior_analysis.df_transforms.get_occupancy_matrix.rst b/.../api_generated/lecilab_behavior_analysis.df_transforms.get_occupancy_matrix.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_occupancy\_matrix
+=================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_occupancy_matrix
diff --git a/...ated/lecilab_behavior_analysis.df_transforms.get_performance_by_decision_df.rst b/...ated/lecilab_behavior_analysis.df_transforms.get_performance_by_decision_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_performance\_by\_decision\_df
+=============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_performance_by_decision_df
diff --git a/...rated/lecilab_behavior_analysis.df_transforms.get_performance_by_difficulty.rst b/...rated/lecilab_behavior_analysis.df_transforms.get_performance_by_difficulty.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_performance\_by\_difficulty
+===========================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_performance_by_difficulty
diff --git a/.../lecilab_behavior_analysis.df_transforms.get_performance_by_difficulty_diff.rst b/.../lecilab_behavior_analysis.df_transforms.get_performance_by_difficulty_diff.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_performance\_by\_difficulty\_diff
+=================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_performance_by_difficulty_diff
diff --git a/...lecilab_behavior_analysis.df_transforms.get_performance_by_difficulty_ratio.rst b/...lecilab_behavior_analysis.df_transforms.get_performance_by_difficulty_ratio.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_performance\_by\_difficulty\_ratio
+==================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_performance_by_difficulty_ratio
diff --git a/...ated/lecilab_behavior_analysis.df_transforms.get_performance_through_trials.rst b/...ated/lecilab_behavior_analysis.df_transforms.get_performance_through_trials.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_performance\_through\_trials
+============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_performance_through_trials
diff --git a/...rated/lecilab_behavior_analysis.df_transforms.get_reaction_times_by_date_df.rst b/...rated/lecilab_behavior_analysis.df_transforms.get_reaction_times_by_date_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_reaction\_times\_by\_date\_df
+=============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_reaction_times_by_date_df
diff --git a/...lecilab_behavior_analysis.df_transforms.get_repeat_or_alternate_performance.rst b/...lecilab_behavior_analysis.df_transforms.get_repeat_or_alternate_performance.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_repeat\_or\_alternate\_performance
+==================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_repeat_or_alternate_performance
diff --git a/...ated/lecilab_behavior_analysis.df_transforms.get_repeat_or_alternate_series.rst b/...ated/lecilab_behavior_analysis.df_transforms.get_repeat_or_alternate_series.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_repeat\_or\_alternate\_series
+=============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_repeat_or_alternate_series
diff --git a/...ed/lecilab_behavior_analysis.df_transforms.get_start_and_end_of_sessions_df.rst b/...ed/lecilab_behavior_analysis.df_transforms.get_start_and_end_of_sessions_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_start\_and\_end\_of\_sessions\_df
+=================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_start_and_end_of_sessions_df
diff --git a/...pi_generated/lecilab_behavior_analysis.df_transforms.get_time_kernel_impact.rst b/...pi_generated/lecilab_behavior_analysis.df_transforms.get_time_kernel_impact.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_time\_kernel\_impact
+====================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_time_kernel_impact
diff --git a/...nerated/lecilab_behavior_analysis.df_transforms.get_training_summary_matrix.rst b/...nerated/lecilab_behavior_analysis.df_transforms.get_training_summary_matrix.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_training\_summary\_matrix
+=========================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_training_summary_matrix
diff --git a/...enerated/lecilab_behavior_analysis.df_transforms.get_triangle_polar_plot_df.rst b/...enerated/lecilab_behavior_analysis.df_transforms.get_triangle_polar_plot_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_triangle\_polar\_plot\_df
+=========================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_triangle_polar_plot_df
diff --git a/docs/source/api_generated/lecilab_behavior_analysis.df_transforms.get_water_df.rst b/docs/source/api_generated/lecilab_behavior_analysis.df_transforms.get_water_df.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.get\_water\_df
+=========================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: get_water_df
diff --git a/...ce/api_generated/lecilab_behavior_analysis.df_transforms.parameters_for_fit.rst b/...ce/api_generated/lecilab_behavior_analysis.df_transforms.parameters_for_fit.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.parameters\_for\_fit
+===============================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: parameters_for_fit
diff --git a/.../lecilab_behavior_analysis.df_transforms.points_to_lines_for_bias_evolution.rst b/.../lecilab_behavior_analysis.df_transforms.points_to_lines_for_bias_evolution.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.points\_to\_lines\_for\_bias\_evolution
+==================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: points_to_lines_for_bias_evolution
diff --git a/...e/api_generated/lecilab_behavior_analysis.df_transforms.reformat_df_columns.rst b/...e/api_generated/lecilab_behavior_analysis.df_transforms.reformat_df_columns.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.reformat\_df\_columns
+================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: reformat_df_columns
diff --git a/...cilab_behavior_analysis.df_transforms.repeat_or_alternate_series_comparison.rst b/...cilab_behavior_analysis.df_transforms.repeat_or_alternate_series_comparison.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.repeat\_or\_alternate\_series\_comparison
+====================================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: repeat_or_alternate_series_comparison
diff --git a/...ated/lecilab_behavior_analysis.df_transforms.side_and_difficulty_to_numeric.rst b/...ated/lecilab_behavior_analysis.df_transforms.side_and_difficulty_to_numeric.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.df\_transforms.side\_and\_difficulty\_to\_numeric
+=============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.df_transforms
+
+.. autofunction:: side_and_difficulty_to_numeric
diff --git a/...api_generated/lecilab_behavior_analysis.figure_maker.session_summary_figure.rst b/...api_generated/lecilab_behavior_analysis.figure_maker.session_summary_figure.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.figure\_maker.session\_summary\_figure
+==================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.figure_maker
+
+.. autofunction:: session_summary_figure
diff --git a/...pi_generated/lecilab_behavior_analysis.figure_maker.subject_progress_figure.rst b/...pi_generated/lecilab_behavior_analysis.figure_maker.subject_progress_figure.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.figure\_maker.subject\_progress\_figure
+===================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.figure_maker
+
+.. autofunction:: subject_progress_figure
diff --git a/...rated/lecilab_behavior_analysis.generate_fake_dataset.generate_fake_dataset.rst b/...rated/lecilab_behavior_analysis.generate_fake_dataset.generate_fake_dataset.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.generate\_fake\_dataset.generate\_fake\_dataset
+===========================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.generate_fake_dataset
+
+.. autofunction:: generate_fake_dataset
diff --git a/docs/source/api_generated/lecilab_behavior_analysis.plots.bias_vs_trials_plot.rst b/docs/source/api_generated/lecilab_behavior_analysis.plots.bias_vs_trials_plot.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.plots.bias\_vs\_trials\_plot
+========================================================
+
+.. currentmodule:: lecilab_behavior_analysis.plots
+
+.. autofunction:: bias_vs_trials_plot
diff --git a/...e/api_generated/lecilab_behavior_analysis.plots.correct_left_and_right_plot.rst b/...e/api_generated/lecilab_behavior_analysis.plots.correct_left_and_right_plot.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.plots.correct\_left\_and\_right\_plot
+=================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.plots
+
+.. autofunction:: correct_left_and_right_plot
diff --git a/...ed/lecilab_behavior_analysis.plots.correct_left_and_right_plot_multisensory.rst b/...ed/lecilab_behavior_analysis.plots.correct_left_and_right_plot_multisensory.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.plots.correct\_left\_and\_right\_plot\_multisensory
+===============================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.plots
+
+.. autofunction:: correct_left_and_right_plot_multisensory
diff --git a/..._generated/lecilab_behavior_analysis.plots.number_of_correct_responses_plot.rst b/..._generated/lecilab_behavior_analysis.plots.number_of_correct_responses_plot.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.plots.number\_of\_correct\_responses\_plot
+======================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.plots
+
+.. autofunction:: number_of_correct_responses_plot
diff --git a/.../api_generated/lecilab_behavior_analysis.plots.performance_by_decision_plot.rst b/.../api_generated/lecilab_behavior_analysis.plots.performance_by_decision_plot.rst
@@ -0,0 +1,6 @@
+lecilab\_behavior\_analysis.plots.performance\_by\_decision\_plot
+=================================================================
+
+.. currentmodule:: lecilab_behavior_analysis.plots
+
+.. autofunction:: performance_by_decision_plot