├── .circleci ├── artifact_path ├── build_cache └── config.yml ├── .coveragerc ├── .github ├── DISCUSSION_TEMPLATE │ └── installation.yml ├── images │ └── hnn_gui.png └── workflows │ ├── codespell.yml │ ├── issue-metrics.yml │ ├── linkcheck.yml │ ├── publish-packages-on-tag.yml │ ├── unix_unit_tests.yml │ └── windows_unit_tests.yml ├── .gitignore ├── .mailmap ├── CITATION.cff ├── CODE_OF_CONDUCT.md ├── LICENSE ├── MANIFEST.in ├── Makefile ├── README.md ├── binder ├── postBuild └── requirements.txt ├── dev_scripts ├── convert_params.py └── regenerate_base_network.py ├── doc ├── Dockerfile ├── Makefile ├── _static │ ├── hnn-medium.png │ └── versions.json ├── _templates │ ├── autosummary │ │ ├── class.rst │ │ └── function.rst │ └── layout.html ├── api.rst ├── conf.py ├── contributing.md ├── governance.md ├── gui │ ├── basic_gui_usage.ipynb │ ├── index.rst │ └── tutorial_erp.ipynb ├── how_to_create_releases.md ├── index.md ├── install.md ├── network_file_desc.rst ├── roadmap.md ├── sphinxext │ └── gh_substitutions.py └── whats_new.md ├── examples ├── README.txt ├── howto │ ├── README.txt │ ├── optimize_evoked.py │ ├── optimize_rhythmic.py │ ├── plot_batch_simulate.py │ ├── plot_connectivity.py │ ├── plot_firing_pattern.py │ ├── plot_hnn_animation.py │ ├── plot_record_extracellular_potentials.py │ ├── plot_replaying_spike_data_as_input.py │ └── plot_simulate_mpi_backend.py └── workflows │ ├── README.txt │ ├── plot_simulate_alpha.py │ ├── plot_simulate_beta.py │ ├── plot_simulate_evoked.py │ ├── plot_simulate_gamma.py │ └── plot_simulate_somato.py ├── hnn_core ├── __init__.py ├── batch_simulate.py ├── cell.py ├── cell_response.py ├── cells_default.py ├── check.py ├── dipole.py ├── docs.py ├── drives.py ├── externals │ ├── __init__.py │ ├── bayesopt.py │ └── mne.py ├── extracellular.py ├── gui │ ├── __init__.py │ ├── _logging.py │ ├── _viz_manager.py │ ├── gui.py │ └── hnn_widget.ipynb ├── hnn_io.py ├── mod │ ├── ar.mod │ ├── ca.mod │ ├── cad.mod │ ├── cat.mod │ ├── dipole.mod │ ├── dipole_pp.mod │ ├── hh2.mod │ ├── kca.mod │ ├── km.mod │ └── vecevent.mod ├── mpi_child.py ├── network.py ├── network_builder.py ├── network_models.py ├── optimization │ ├── __init__.py │ ├── general_optimization.py │ ├── objective_functions.py │ └── optimize_evoked.py ├── parallel_backends.py ├── param │ ├── N20.json │ ├── default.hdf5 │ ├── default.json │ ├── gamma_L5weak_L2weak.json │ └── jones2009_base.json ├── params.py ├── params_default.py ├── tests │ ├── assets │ │ ├── gamma_L5weak_L2weak_hierarchical.json │ │ ├── jones2009_3x3_drives.json │ │ └── test_default.csv │ ├── conftest.py │ ├── regenerate_test_network.py │ ├── test_batch_simulate.py │ ├── test_cell.py │ ├── test_cell_response.py │ ├── test_cells_default.py │ ├── test_dipole.py │ ├── test_drives.py │ ├── test_extracellular.py │ ├── test_general_optimization.py │ ├── test_gui.py │ ├── test_io.py │ ├── test_mpi_child.py │ ├── test_network.py │ ├── test_optimize_evoked.py │ ├── test_parallel_backends.py │ 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