├── .bumpversion.cfg ├── .circleci └── config.yml ├── .github └── workflows │ └── python-publish.yml ├── .gitignore ├── .readthedocs.yml ├── CHANGELOG.rst ├── LICENSE ├── MANIFEST.in ├── PyRates_logo_color.png ├── PyRates_logo_color.svg ├── PyRates_logo_grey.svg ├── README.md ├── VERSION ├── documentation ├── RELEASEGUIDE.md ├── Solution_Build_Cortical_Microcircuit.ipynb ├── Task_Build_Cortical_Microcircuit.ipynb ├── Tutorial_PyRates_Basics.ipynb ├── doc │ ├── Makefile │ ├── source │ │ ├── _static │ │ │ ├── css │ │ │ │ ├── extend.css │ │ │ │ ├── pygments.css │ │ │ │ ├── scipy-central.css │ │ │ │ ├── spc-bootstrap.css │ │ │ │ └── spc-extend.css │ │ │ ├── img │ │ │ │ ├── glyphicons-halflings-white.png │ │ │ │ ├── glyphicons-halflings.png │ │ │ │ └── pyrates_logo.png │ │ │ ├── js │ │ │ │ └── copybutton.js │ │ │ ├── less │ │ │ │ ├── bootstrap │ │ │ │ │ ├── accordion.less │ │ │ │ │ ├── alerts.less │ │ │ │ │ ├── bootstrap.less │ │ │ │ │ ├── breadcrumbs.less │ │ │ │ │ ├── button-groups.less │ │ │ │ │ ├── buttons.less │ │ │ │ │ ├── carousel.less │ │ │ │ │ ├── close.less │ │ │ │ │ ├── code.less │ │ │ │ │ ├── component-animations.less │ │ │ │ │ ├── dropdowns.less │ │ │ │ │ ├── forms.less │ │ │ │ │ ├── grid.less │ │ │ │ │ ├── hero-unit.less │ │ │ │ │ ├── labels-badges.less │ │ │ │ │ ├── layouts.less │ │ │ │ │ ├── media.less │ │ │ │ │ ├── mixins.less │ │ │ │ │ ├── modals.less │ │ │ │ │ ├── navbar.less │ │ │ │ │ ├── navs.less │ │ │ │ │ ├── pager.less │ │ │ │ │ ├── pagination.less │ │ │ │ │ ├── popovers.less │ │ │ │ │ ├── progress-bars.less │ │ │ │ │ ├── reset.less │ │ │ │ │ ├── responsive-1200px-min.less │ │ │ │ │ ├── responsive-767px-max.less │ │ │ │ │ ├── responsive-768px-979px.less │ │ │ │ │ ├── responsive-navbar.less │ │ │ │ │ ├── responsive-utilities.less │ │ │ │ │ ├── responsive.less │ │ │ │ │ ├── scaffolding.less │ │ │ │ │ ├── sprites.less │ │ │ │ │ ├── tables.less │ │ │ │ │ ├── thumbnails.less │ │ │ │ │ ├── tooltip.less │ │ │ │ │ ├── type.less │ │ │ │ │ ├── utilities.less │ │ │ │ │ ├── variables.less │ │ │ │ │ └── wells.less │ │ │ │ ├── spc-bootstrap.less │ │ │ │ ├── spc-content.less │ │ │ │ ├── spc-extend.less │ │ │ │ ├── spc-footer.less │ │ │ │ ├── spc-header.less │ │ │ │ ├── spc-rightsidebar.less │ │ │ │ └── spc-utils.less │ │ │ └── scipy.css_t │ │ ├── backend.base.rst │ │ ├── backend.fortran.rst │ │ ├── backend.julia.rst │ │ ├── backend.rst │ │ ├── backend.tensorflow.rst │ │ ├── backend.torch.rst │ │ ├── basic_info.rst │ │ ├── changelog.rst │ │ ├── conf.py │ │ ├── frontend.fileio.rst │ │ ├── frontend.rst │ │ ├── frontend.template.rst │ │ ├── implemented_models.rst │ │ ├── index.rst │ │ ├── installation.rst │ │ ├── ir.rst │ │ ├── math_syntax.rst │ │ ├── model_analysis.rst │ │ ├── model_definition.rst │ │ ├── model_templates.neural_mass_models.rst │ │ ├── model_templates.oscillators.rst │ │ ├── model_templates.rst │ │ ├── pyrates.rst │ │ ├── requirements.txt │ │ ├── simple_example.rst │ │ ├── template_specification.rst │ │ ├── tests.rst │ │ └── utility.rst │ └── sphinxext │ │ ├── apigen.py │ │ ├── docscrape.py │ │ ├── docscrape_sphinx.py │ │ └── numpydoc.py ├── img │ ├── JRC_structure.png │ ├── jrc_simple.png │ ├── pyrates_architecture.png │ ├── pyrates_model.png │ ├── pyrates_structure.png │ └── qif_exc.svg ├── model_analysis │ ├── README.txt │ ├── continuation.py │ ├── dde.py │ ├── entrainment.py │ ├── optimization.py │ ├── parameter_sweeps.py │ ├── runtime.py │ └── simulations.py ├── model_implementation │ ├── README.txt │ ├── delay_coupling.py │ ├── edge_definitions.py │ ├── images │ │ └── pyrates_model.png │ ├── python_definitions.py │ └── yaml_definitions.py └── model_introductions │ ├── README.txt │ ├── images │ └── pyrates_model.png │ ├── izhikevich.py │ ├── jansenrit.py │ ├── kuramoto.py │ ├── qif.py │ ├── stuartlandau.py │ ├── theta.py │ ├── vanderpol.py │ └── wilsoncowan.py ├── model_templates ├── CNS_2019_Tutorial │ └── templates.yaml ├── __init__.py ├── base_templates.yaml ├── neural_mass_models │ ├── __init__.py │ ├── ik.yaml │ ├── jansenrit.yaml │ ├── qif.yaml │ ├── synaptic_plasticity.yaml │ ├── theta.yaml │ └── wilsoncowan.yaml ├── oscillators │ ├── __init__.py │ ├── kuramoto.yaml │ ├── stuartlandau.yaml │ └── vanderpol.yaml └── test_resources │ ├── __init__.py │ ├── linear.yaml │ ├── test_backend.yaml │ └── test_operator_caching_templates.yml ├── pyrates ├── __init__.py ├── backend │ ├── __init__.py │ ├── base │ │ ├── __init__.py │ │ ├── base_backend.py │ │ └── base_funcs.py │ ├── computegraph.py │ ├── fortran │ │ ├── __init__.py │ │ ├── fortran_backend.py │ │ └── fortran_funcs.py │ ├── julia │ │ ├── __init__.py │ │ ├── julia_backend.py │ │ └── julia_funcs.py │ ├── matlab │ │ ├── __init__.py │ │ ├── matlab_backend.py │ │ └── matlab_funcs.py │ ├── parser.py │ ├── tensorflow │ │ ├── __init__.py │ │ ├── tensorflow_backend.py │ │ └── tensorflow_funcs.py │ └── torch │ │ ├── __init__.py │ │ ├── torch_backend.py │ │ └── torch_funcs.py ├── frontend │ ├── __init__.py │ ├── dict.py │ ├── file.py │ ├── fileio │ │ ├── __init__.py │ │ ├── pickle.py │ │ └── yaml.py │ └── template │ │ ├── __init__.py │ │ ├── _io.py │ │ ├── abc.py │ │ ├── circuit.py │ │ ├── circuit.yaml │ │ ├── edge.py │ │ ├── edge.yaml │ │ ├── node.py │ │ ├── operator.py │ │ └── operator_graph.py ├── ir │ ├── __init__.py │ ├── abc.py │ ├── circuit.py │ ├── edge.py │ ├── node.py │ ├── operator.py │ └── operator_graph.py └── utility.py ├── pyrates_logo_large.png ├── requirements.txt ├── setup.py └── tests ├── README.md ├── __init__.py ├── benchmarks.py ├── conftest.py ├── resources ├── jansen_rit_template.p4 ├── jansen_rit_template.p5 └── jansen_rit_template.yaml ├── test_backend_parser.py ├── test_backend_simulations.py ├── test_file_io.py ├── test_frontend.py └── test_implemented_models.py /.bumpversion.cfg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/pyrates-neuroscience/PyRates/HEAD/.bumpversion.cfg 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