├── .env.example ├── .github └── workflows │ ├── auto_test.yml │ └── docs.yml ├── .gitignore ├── .pre-commit-config.yaml ├── CHANGELOG.md ├── docs ├── README.md ├── build_docs.sh ├── clean_examples.py ├── docs │ ├── acknowledgements.md │ ├── contribute.md │ ├── custom.css │ ├── examples │ │ ├── 01_flyvision_connectome.md │ │ ├── 01_flyvision_connectome_files │ │ │ ├── 01_flyvision_connectome_10_0.png │ │ │ ├── 01_flyvision_connectome_11_0.png │ │ │ ├── 01_flyvision_connectome_12_0.png │ │ │ ├── 01_flyvision_connectome_13_0.png │ │ │ ├── 01_flyvision_connectome_15_0.png │ │ │ ├── 01_flyvision_connectome_18_0.png │ │ │ └── 01_flyvision_connectome_8_0.png │ │ ├── 02_flyvision_optic_flow_task.md │ │ ├── 02_flyvision_optic_flow_task_files │ │ │ ├── 02_flyvision_optic_flow_task_101_0.png │ │ │ ├── 02_flyvision_optic_flow_task_103_1.png │ │ │ ├── 02_flyvision_optic_flow_task_105_1.png │ │ │ ├── 02_flyvision_optic_flow_task_108_1.png │ │ │ ├── 02_flyvision_optic_flow_task_11_0.png │ │ │ ├── 02_flyvision_optic_flow_task_13_0.png │ │ │ ├── 02_flyvision_optic_flow_task_14_0.png │ │ │ ├── 02_flyvision_optic_flow_task_16_0.png │ │ │ ├── 02_flyvision_optic_flow_task_17_0.png │ │ │ ├── 02_flyvision_optic_flow_task_20_0.png │ │ │ ├── 02_flyvision_optic_flow_task_27_0.png │ │ │ ├── 02_flyvision_optic_flow_task_28_0.png │ │ │ ├── 02_flyvision_optic_flow_task_29_0.png │ │ │ ├── 02_flyvision_optic_flow_task_30_0.png │ │ │ ├── 02_flyvision_optic_flow_task_33_0.png │ │ │ ├── 02_flyvision_optic_flow_task_34_0.png │ │ │ ├── 02_flyvision_optic_flow_task_35_0.png │ │ │ ├── 02_flyvision_optic_flow_task_38_0.png │ │ │ ├── 02_flyvision_optic_flow_task_39_0.png │ │ │ ├── 02_flyvision_optic_flow_task_40_0.png │ │ │ ├── 02_flyvision_optic_flow_task_41_0.png │ │ │ ├── 02_flyvision_optic_flow_task_43_0.png │ │ │ ├── 02_flyvision_optic_flow_task_44_0.png │ │ │ ├── 02_flyvision_optic_flow_task_46_0.png │ │ │ ├── 02_flyvision_optic_flow_task_47_0.png │ │ │ ├── 02_flyvision_optic_flow_task_48_0.png │ │ │ ├── 02_flyvision_optic_flow_task_51_0.png │ │ │ ├── 02_flyvision_optic_flow_task_52_0.png │ │ │ ├── 02_flyvision_optic_flow_task_53_0.png │ │ │ ├── 02_flyvision_optic_flow_task_57_0.png │ │ │ ├── 02_flyvision_optic_flow_task_59_1.png │ │ │ ├── 02_flyvision_optic_flow_task_61_1.png │ │ │ ├── 02_flyvision_optic_flow_task_65_1.png │ │ │ ├── 02_flyvision_optic_flow_task_68_0.png │ │ │ ├── 02_flyvision_optic_flow_task_70_0.png │ │ │ ├── 02_flyvision_optic_flow_task_74_0.png │ │ │ ├── 02_flyvision_optic_flow_task_80_1.png │ │ │ ├── 02_flyvision_optic_flow_task_82_1.png │ │ │ ├── 02_flyvision_optic_flow_task_84_0.png │ │ │ ├── 02_flyvision_optic_flow_task_86_0.png │ │ │ ├── 02_flyvision_optic_flow_task_86_1.png │ │ │ ├── 02_flyvision_optic_flow_task_90_0.png │ │ │ ├── 02_flyvision_optic_flow_task_96_0.png │ │ │ └── 02_flyvision_optic_flow_task_98_0.png │ │ ├── 03_flyvision_flash_responses.md │ │ ├── 03_flyvision_flash_responses_files │ │ │ ├── 03_flyvision_flash_responses_12_0.png │ │ │ ├── 03_flyvision_flash_responses_12_1.png │ │ │ ├── 03_flyvision_flash_responses_16_1.png │ │ │ ├── 03_flyvision_flash_responses_18_0.png │ │ │ ├── 03_flyvision_flash_responses_21_0.png │ │ │ ├── 03_flyvision_flash_responses_25_0.png │ │ │ ├── 03_flyvision_flash_responses_25_1.png │ │ │ ├── 03_flyvision_flash_responses_28_1.png │ │ │ ├── 03_flyvision_flash_responses_30_0.png │ │ │ ├── 03_flyvision_flash_responses_30_1.png │ │ │ ├── 03_flyvision_flash_responses_32_1.png │ │ │ ├── 03_flyvision_flash_responses_33_0.png │ │ │ ├── 03_flyvision_flash_responses_34_0.png │ │ │ ├── 03_flyvision_flash_responses_37_0.png │ │ │ ├── 03_flyvision_flash_responses_37_10.png │ │ │ ├── 03_flyvision_flash_responses_41_0.png │ │ │ ├── 03_flyvision_flash_responses_5_0.png │ │ │ ├── 03_flyvision_flash_responses_8_0.png │ │ │ └── 03_flyvision_flash_responses_9_1.png │ │ ├── 04_flyvision_moving_edge_responses.md │ │ ├── 04_flyvision_moving_edge_responses_files │ │ │ ├── 04_flyvision_moving_edge_responses_11_0.png │ │ │ ├── 04_flyvision_moving_edge_responses_11_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_13_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_17_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_21_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_23_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_27_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_41_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_43_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_45_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_47_0.png │ │ │ ├── 04_flyvision_moving_edge_responses_47_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_49_0.png │ │ │ ├── 04_flyvision_moving_edge_responses_51_1.png │ │ │ ├── 04_flyvision_moving_edge_responses_53_0.png │ │ │ ├── 04_flyvision_moving_edge_responses_55_0.png │ │ │ ├── 04_flyvision_moving_edge_responses_59_0.png │ │ │ ├── 04_flyvision_moving_edge_responses_5_0.png │ │ │ └── 04_flyvision_moving_edge_responses_7_0.png │ │ ├── 05_flyvision_umap_and_clustering_models.md │ │ ├── 05_flyvision_umap_and_clustering_models_files │ │ │ ├── 05_flyvision_umap_and_clustering_models_13_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_13_1.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_15_1.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_21_1.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_22_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_24_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_26_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_28_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_30_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_32_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_34_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_38_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_40_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_41_1.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_42_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_43_1.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_44_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_48_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_49_1.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_50_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_56_0.png │ │ │ ├── 05_flyvision_umap_and_clustering_models_7_0.png │ │ │ └── 05_flyvision_umap_and_clustering_models_9_0.png │ │ ├── 06_flyvision_maximally_excitatory_stimuli.md │ │ ├── 06_flyvision_maximally_excitatory_stimuli_files │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_10_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_11_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_13_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_13_1.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_14_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_15_1.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_17_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_18_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_19_1.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_20_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_20_1.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_22_1.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_24_0.png │ │ │ ├── 06_flyvision_maximally_excitatory_stimuli_26_1.png │ │ │ └── 06_flyvision_maximally_excitatory_stimuli_8_0.png │ │ ├── 07_flyvision_providing_custom_stimuli.md │ │ ├── 07_flyvision_providing_custom_stimuli_files │ │ │ ├── 07_flyvision_providing_custom_stimuli_101_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_101_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_101_2.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_102_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_105_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_13_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_17_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_21_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_22_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_25_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_28_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_30_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_34_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_37_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_39_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_43_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_46_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_5_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_62_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_65_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_66_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_69_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_69_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_72_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_84_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_86_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_88_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_90_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_91_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_91_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_93_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_94_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_94_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_94_2.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_95_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_98_0.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_98_1.png │ │ │ ├── 07_flyvision_providing_custom_stimuli_98_2.png │ │ │ └── 07_flyvision_providing_custom_stimuli_9_0.png │ │ ├── __main__.md │ │ ├── __main___files │ │ │ ├── __main___10_0.png │ │ │ ├── __main___12_0.png │ │ │ ├── __main___13_0.png │ │ │ ├── __main___14_0.png │ │ │ ├── __main___16_1.png │ │ │ ├── __main___16_50.png │ │ │ ├── __main___19_0.png │ │ │ ├── __main___19_1.png │ │ │ ├── __main___21_1.png │ │ │ ├── __main___24_0.png │ │ │ ├── __main___24_1.png │ │ │ ├── __main___26_2.png │ │ │ ├── __main___26_3.png │ │ │ ├── __main___29_1.png │ │ │ ├── __main___29_2.png │ │ │ ├── __main___33_0.png │ │ │ ├── __main___8_0.png │ │ │ └── __main___9_0.png │ │ ├── __main_per_model__.md │ │ ├── figure_01_fly_visual_system.md │ │ ├── figure_01_fly_visual_system_files │ │ │ ├── figure_01_fly_visual_system_11_0.png │ │ │ ├── figure_01_fly_visual_system_11_1.png │ │ │ ├── figure_01_fly_visual_system_11_2.png │ │ │ ├── figure_01_fly_visual_system_15_0.png │ │ │ ├── figure_01_fly_visual_system_15_1.png │ │ │ ├── figure_01_fly_visual_system_15_2.png │ │ │ ├── figure_01_fly_visual_system_22_0.png │ │ │ ├── figure_01_fly_visual_system_26_0.png │ │ │ ├── figure_01_fly_visual_system_26_1.png │ │ │ ├── figure_01_fly_visual_system_26_2.png │ │ │ ├── figure_01_fly_visual_system_4_0.png │ │ │ └── figure_01_fly_visual_system_6_0.png │ │ ├── figure_02_simple_stimuli_responses.md │ │ ├── figure_02_simple_stimuli_responses_files │ │ │ ├── figure_02_simple_stimuli_responses_12_0.png │ │ │ ├── figure_02_simple_stimuli_responses_13_1.png │ │ │ ├── figure_02_simple_stimuli_responses_4_1.png │ │ │ ├── figure_02_simple_stimuli_responses_4_11.png │ │ │ ├── figure_02_simple_stimuli_responses_4_2.png │ │ │ ├── figure_02_simple_stimuli_responses_6_1.png │ │ │ ├── figure_02_simple_stimuli_responses_6_12.png │ │ │ └── figure_02_simple_stimuli_responses_6_2.png │ │ ├── figure_03_naturalistic_stimuli_responses.md │ │ ├── figure_03_naturalistic_stimuli_responses_files │ │ │ ├── figure_03_naturalistic_stimuli_responses_13_0.png │ │ │ ├── figure_03_naturalistic_stimuli_responses_15_0.png │ │ │ ├── figure_03_naturalistic_stimuli_responses_15_1.png │ │ │ ├── figure_03_naturalistic_stimuli_responses_15_2.png │ │ │ ├── figure_03_naturalistic_stimuli_responses_15_3.png │ │ │ ├── figure_03_naturalistic_stimuli_responses_15_52.png │ │ │ ├── figure_03_naturalistic_stimuli_responses_15_53.png │ │ │ ├── figure_03_naturalistic_stimuli_responses_15_54.png │ │ │ └── figure_03_naturalistic_stimuli_responses_6_0.png │ │ ├── figure_04_mechanisms.md │ │ └── figure_04_mechanisms_files │ │ │ ├── figure_04_mechanisms_19_1.png │ │ │ ├── figure_04_mechanisms_20_1.png │ │ │ ├── figure_04_mechanisms_20_2.png │ │ │ ├── figure_04_mechanisms_21_0.png │ │ │ ├── figure_04_mechanisms_25_1.png │ │ │ ├── figure_04_mechanisms_26_1.png │ │ │ ├── figure_04_mechanisms_26_2.png │ │ │ ├── figure_04_mechanisms_27_0.png │ │ │ ├── figure_04_mechanisms_29_0.png │ │ │ ├── figure_04_mechanisms_36_0.png │ │ │ ├── figure_04_mechanisms_38_1.png │ │ │ ├── figure_04_mechanisms_43_0.png │ │ │ ├── figure_04_mechanisms_47_0.png │ │ │ ├── figure_04_mechanisms_52_0.png │ │ │ ├── figure_04_mechanisms_54_0.png │ │ │ ├── figure_04_mechanisms_58_0.png │ │ │ ├── figure_04_mechanisms_62_1.png │ │ │ ├── figure_04_mechanisms_63_1.png │ │ │ ├── figure_04_mechanisms_68_0.png │ │ │ ├── figure_04_mechanisms_72_0.png │ │ │ ├── figure_04_mechanisms_78_0.png │ │ │ ├── figure_04_mechanisms_7_0.png │ │ │ ├── figure_04_mechanisms_80_0.png │ │ │ ├── figure_04_mechanisms_8_0.png │ │ │ └── figure_04_mechanisms_9_0.png │ ├── faq.md │ ├── images │ │ ├── black_no_text@150ppi.webp │ │ ├── flyvis_logo_big_and_tall@150ppi.webp │ │ ├── flyvis_logo_big_and_tall_night@150ppi.webp │ │ ├── flyvis_logo_dark@150ppi.webp │ │ ├── flyvis_logo_light@150ppi.webp │ │ ├── tweet_1_intro.png │ │ ├── tweet_4_network.gif │ │ ├── tweet_4_network.webm │ │ ├── tweet_5_training_light.webm │ │ └── white_no_text@150ppi.webp │ ├── index.md │ ├── install.md │ ├── javascripts │ │ └── mathjax.js │ ├── reference │ │ ├── animations.md │ │ ├── augmentation.md │ │ ├── cli.md │ │ ├── connectome.md │ │ ├── datasets.md │ │ ├── decoder.md │ │ ├── ensemble_clustering.md │ │ ├── ensemble_view.md │ │ ├── flash_responses.md │ │ ├── flyvis_cli │ │ │ ├── analysis │ │ │ │ ├── analysis.md │ │ │ │ ├── ensemble_analysis.md │ │ │ │ ├── notebook.md │ │ │ │ ├── notebook_per_ensemble.md │ │ │ │ ├── notebook_per_model.md │ │ │ │ ├── record.md │ │ │ │ └── synthetic_recordings_single.md │ │ │ ├── download_pretrained_models.md │ │ │ ├── flyvis_cli.md │ │ │ ├── init_config.md │ │ │ ├── training │ │ │ │ ├── train.md │ │ │ │ └── train_single.md │ │ │ └── validation │ │ │ │ ├── val_single.md │ │ │ │ └── validate.md │ │ ├── hydra_default_config.md │ │ ├── moving_stimulus_responses.md │ │ ├── network.md │ │ ├── network_view.md │ │ ├── optimal_stimuli.md │ │ ├── rendering.md │ │ ├── sintel.md │ │ ├── solver.md │ │ ├── tasks.md │ │ ├── utils.md │ │ └── visualization.md │ └── release.md ├── mkdocs.yml ├── overrides │ ├── assets │ │ └── images │ │ │ ├── android-chrome-192x192.png │ │ │ ├── android-chrome-512x512.png │ │ │ ├── apple-touch-icon.png │ │ │ ├── favicon-16x16.png │ │ │ ├── favicon-32x32.png │ │ │ ├── favicon.ico │ │ │ └── favicon.png │ └── partials │ │ ├── copyright.html │ │ ├── footer.html │ │ ├── header.html │ │ ├── logo.html │ │ └── nav.html └── script_to_md.py ├── examples ├── 01_flyvision_connectome.ipynb ├── 02_flyvision_optic_flow_task.ipynb ├── 03_flyvision_flash_responses.ipynb ├── 04_flyvision_moving_edge_responses.ipynb ├── 05_flyvision_umap_and_clustering_models.ipynb ├── 06_flyvision_maximally_excitatory_stimuli.ipynb ├── 07_flyvision_providing_custom_stimuli.ipynb ├── __main__.ipynb ├── __main_per_model__.ipynb ├── figure_01_fly_visual_system.ipynb ├── figure_02_simple_stimuli_responses.ipynb ├── figure_03_naturalistic_stimuli_responses.ipynb └── figure_04_mechanisms.ipynb ├── flyvis ├── __init__.py ├── analysis │ ├── __init__.py │ ├── __main__.ipynb │ ├── __main_per_model__.ipynb │ ├── animations │ │ ├── __init__.py │ │ ├── activations.py │ │ ├── animations.py │ │ ├── hexflow.py │ │ ├── hexscatter.py │ │ ├── imshow.py │ │ ├── network.py │ │ ├── sintel.py │ │ └── traces.py │ ├── clustering.py │ ├── correlation.py │ ├── flash_responses.py │ ├── moving_bar_responses.py │ ├── moving_edge_currents.py │ ├── optimal_stimuli.py │ ├── stimulus_responses.py │ ├── stimulus_responses_currents.py │ ├── validation.py │ └── visualization │ │ ├── __init__.py │ │ ├── figsize_utils.py │ │ ├── matplotlibrc │ │ ├── network_fig.py │ │ ├── plots.py │ │ └── plt_utils.py ├── config │ ├── network │ │ ├── connectome │ │ │ └── connectome.yaml │ │ ├── dynamics │ │ │ └── dynamics.yaml │ │ ├── edge_config │ │ │ ├── edge_config.yaml │ │ │ ├── sign │ │ │ │ └── sign.yaml │ │ │ ├── syn_count │ │ │ │ └── syn_count.yaml │ │ │ └── syn_strength │ │ │ │ └── syn_strength.yaml │ │ ├── network.yaml │ │ ├── node_config │ │ │ ├── bias │ │ │ │ └── bias.yaml │ │ │ ├── node_config.yaml │ │ │ └── time_const │ │ │ │ └── time_const.yaml │ │ └── stimulus_config │ │ │ └── stimulus_config.yaml │ ├── optim │ │ └── optim.yaml │ ├── penalizer │ │ └── penalizer.yaml │ ├── scheduler │ │ └── scheduler.yaml │ ├── solver.yaml │ └── task │ │ └── task.yaml ├── connectome │ ├── __init__.py │ ├── connectome.py │ └── fib25-fib19_v2.2.json ├── datasets │ ├── __init__.py │ ├── augmentation │ │ ├── __init__.py │ │ ├── augmentation.py │ │ ├── hex.py │ │ ├── temporal.py │ │ └── utils.py │ ├── datasets.py │ ├── dots.py │ ├── flashes.py │ ├── moving_bar.py │ ├── rendering │ │ ├── __init__.py │ │ ├── eye.py │ │ └── utils.py │ ├── sintel.py │ └── sintel_utils.py ├── network │ ├── __init__.py │ ├── directories.py │ ├── dynamics.py │ ├── ensemble.py │ ├── ensemble_view.py │ ├── initialization.py │ ├── network.py │ ├── network_view.py │ └── stimulus.py ├── solver.py ├── task │ ├── __init__.py │ ├── decoder.py │ ├── objectives.py │ └── tasks.py └── utils │ ├── __init__.py │ ├── activity_utils.py │ ├── cache_utils.py │ ├── chkpt_utils.py │ ├── class_utils.py │ ├── color_utils.py │ ├── compute_cloud_utils.py │ ├── config_utils.py │ ├── dataset_utils.py │ ├── df_utils.py │ ├── groundtruth_utils.py │ ├── hex_utils.py │ ├── log_utils.py │ ├── logging_utils.py │ ├── nn_utils.py │ ├── nodes_edges_utils.py │ ├── tensor_utils.py │ ├── type_utils.py │ ├── xarray_joblib_backend.py │ └── xarray_utils.py ├── flyvis_cli ├── __init__.py ├── analysis │ ├── __init__.py │ ├── analysis.py │ ├── ensemble_analysis.py │ ├── notebook.py │ ├── notebook_per_ensemble.py │ ├── notebook_per_model.py │ ├── record.py │ └── synthetic_recordings_single.py ├── download_pretrained_models.py ├── flyvis_cli.py ├── init_config.py ├── training │ ├── __init__.py │ ├── train.py │ └── train_single.py └── validation │ ├── __init__.py │ ├── val_single.py │ └── validate.py ├── license ├── pyproject.toml ├── readme.md └── tests ├── conftest.py ├── data ├── _meta.yaml └── responses.h5 ├── test_augmentation.py ├── test_cli.py ├── test_dynamics.py ├── test_ensemble.py ├── test_examples.py ├── test_hybrid_argument_parser.py ├── test_initialization.py ├── test_network.py ├── test_objectives.py ├── test_paths.py ├── test_rendering.py ├── test_sintel.py ├── test_solver.py ├── test_stimulus.py └── test_tasks.py /.env.example: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/TuragaLab/flyvis/HEAD/.env.example -------------------------------------------------------------------------------- /.github/workflows/auto_test.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/TuragaLab/flyvis/HEAD/.github/workflows/auto_test.yml -------------------------------------------------------------------------------- /.github/workflows/docs.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/TuragaLab/flyvis/HEAD/.github/workflows/docs.yml -------------------------------------------------------------------------------- /.gitignore: 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