LICENSE.header.txt
LICENSE.md
README.md
pyproject.toml
requirements.in
jaxonomy/__init__.py
jaxonomy/_init.py
jaxonomy/diagnostics.py
jaxonomy/jit_cache.py
jaxonomy/lazy_loader.py
jaxonomy/logging.py
jaxonomy/precision.py
jaxonomy/profiling.py
jaxonomy/version.py
jaxonomy.egg-info/PKG-INFO
jaxonomy.egg-info/SOURCES.txt
jaxonomy.egg-info/dependency_links.txt
jaxonomy.egg-info/entry_points.txt
jaxonomy.egg-info/requires.txt
jaxonomy.egg-info/top_level.txt
jaxonomy/acausal/__init__.py
jaxonomy/acausal/acausal_compiler.py
jaxonomy/acausal/acausal_diagram.py
jaxonomy/acausal/diagram_processing.py
jaxonomy/acausal/error.py
jaxonomy/acausal/run_index_reduction_examples.py
jaxonomy/acausal/types.py
jaxonomy/acausal/component_library/__init__.py
jaxonomy/acausal/component_library/base.py
jaxonomy/acausal/component_library/battery.py
jaxonomy/acausal/component_library/component_base.py
jaxonomy/acausal/component_library/electrical.py
jaxonomy/acausal/component_library/fluid.py
jaxonomy/acausal/component_library/fluid_media.py
jaxonomy/acausal/component_library/hydraulic.py
jaxonomy/acausal/component_library/planar.py
jaxonomy/acausal/component_library/rotational.py
jaxonomy/acausal/component_library/sandbox.py
jaxonomy/acausal/component_library/thermal.py
jaxonomy/acausal/component_library/translational.py
jaxonomy/acausal/index_reduction/__init__.py
jaxonomy/acausal/index_reduction/equation_parsing.py
jaxonomy/acausal/index_reduction/equation_utils.py
jaxonomy/acausal/index_reduction/graph_utils.py
jaxonomy/acausal/index_reduction/ida_solver.py
jaxonomy/acausal/index_reduction/index_reduction.py
jaxonomy/acausal/index_reduction/archive/__init__.py
jaxonomy/acausal/index_reduction/archive/dummy_derivative_Mattsson.py
jaxonomy/acausal/index_reduction/archive/index_reduction.py
jaxonomy/acausal/index_reduction/archive/mech_oscillator.py
jaxonomy/acausal/index_reduction/archive/pendulum.py
jaxonomy/backend/__init__.py
jaxonomy/backend/_torch.py
jaxonomy/backend/backend.py
jaxonomy/backend/backend.pyi
jaxonomy/backend/ode_solver.py
jaxonomy/backend/results_data.py
jaxonomy/backend/typing.py
jaxonomy/backend/utils.py
jaxonomy/backend/_jax/__init__.py
jaxonomy/backend/_jax/bdf.py
jaxonomy/backend/_jax/dopri5.py
jaxonomy/backend/_jax/ode_solver.py
jaxonomy/backend/_jax/ode_solver_impl.py
jaxonomy/backend/_jax/python_functions.py
jaxonomy/backend/_jax/results_data.py
jaxonomy/backend/_jax/rk4.py
jaxonomy/backend/_jax/rk4_solver.py
jaxonomy/backend/_numpy/__init__.py
jaxonomy/backend/_numpy/ode_solver.py
jaxonomy/backend/_numpy/python_functions.py
jaxonomy/backend/_numpy/results_data.py
jaxonomy/cli/__init__.py
jaxonomy/cli/cli_run.py
jaxonomy/cli/jaxonomy_cli.py
jaxonomy/cli/model_interface.py
jaxonomy/cli/run_fit_sindy.py
jaxonomy/cli/run_jaxonomy.py
jaxonomy/cli/run_optimization.py
jaxonomy/cli/run_variants.py
jaxonomy/control/__init__.py
jaxonomy/control/dpc/__init__.py
jaxonomy/control/dpc/_diagram.py
jaxonomy/control/dpc/_loss.py
jaxonomy/control/dpc/_rollout.py
jaxonomy/control/dpc/_train.py
jaxonomy/dashboard/__init__.py
jaxonomy/dashboard/api.py
jaxonomy/dashboard/ensemble.py
jaxonomy/dashboard/model.py
jaxonomy/dashboard/project.py
jaxonomy/dashboard/results.py
jaxonomy/dashboard/schemas.py
jaxonomy/dashboard/uiprops.py
jaxonomy/dashboard/utils.py
jaxonomy/dashboard/serialization/__init__.py
jaxonomy/dashboard/serialization/block_interface.py
jaxonomy/dashboard/serialization/from_model_json.py
jaxonomy/dashboard/serialization/json_array.py
jaxonomy/dashboard/serialization/migrations.py
jaxonomy/dashboard/serialization/model_json.py
jaxonomy/dashboard/serialization/time_mode.py
jaxonomy/dashboard/serialization/to_model_json.py
jaxonomy/dashboard/serialization/ui_types.py
jaxonomy/framework/__init__.py
jaxonomy/framework/build_recorder.py
jaxonomy/framework/cache.py
jaxonomy/framework/containers.py
jaxonomy/framework/context.py
jaxonomy/framework/context_factory.py
jaxonomy/framework/dependency_graph.py
jaxonomy/framework/diagram.py
jaxonomy/framework/diagram_builder.py
jaxonomy/framework/discrete_dependencies.py
jaxonomy/framework/error.py
jaxonomy/framework/event.py
jaxonomy/framework/flatten.py
jaxonomy/framework/leaf_system.py
jaxonomy/framework/parameter.py
jaxonomy/framework/port.py
jaxonomy/framework/pprint.py
jaxonomy/framework/state.py
jaxonomy/framework/state_machine_builder.py
jaxonomy/framework/submodel.py
jaxonomy/framework/system_base.py
jaxonomy/framework/system_decorators.py
jaxonomy/framework/unit_propagation.py
jaxonomy/framework/units.py
jaxonomy/framework/validation.py
jaxonomy/framework/variants.py
jaxonomy/library/__init__.py
jaxonomy/library/_primitives_common.py
jaxonomy/library/ansys.py
jaxonomy/library/battery_cell.py
jaxonomy/library/conditional.py
jaxonomy/library/costs_and_losses.py
jaxonomy/library/custom.py
jaxonomy/library/data_source.py
jaxonomy/library/delay.py
jaxonomy/library/dynamics.py
jaxonomy/library/fmu_export.py
jaxonomy/library/fmu_import.py
jaxonomy/library/fmu_slave.py
jaxonomy/library/generic.py
jaxonomy/library/linear_system.py
jaxonomy/library/linearization_workflow.py
jaxonomy/library/linearize_container.py
jaxonomy/library/logic.py
jaxonomy/library/lookup_table.py
jaxonomy/library/lookup_table_fitting.py
jaxonomy/library/lqg.py
jaxonomy/library/lqr.py
jaxonomy/library/math_ops.py
jaxonomy/library/mpc.py
jaxonomy/library/mujoco.py
jaxonomy/library/neural_dae.py
jaxonomy/library/nn.py
jaxonomy/library/nonlinearities.py
jaxonomy/library/onnx_block.py
jaxonomy/library/onnx_jax_block.py
jaxonomy/library/predictor.py
jaxonomy/library/primitives.py
jaxonomy/library/quanser.py
jaxonomy/library/random.py
jaxonomy/library/reference_subdiagram.py
jaxonomy/library/replicated.py
jaxonomy/library/ros2.py
jaxonomy/library/rotations.py
jaxonomy/library/routing.py
jaxonomy/library/sindy.py
jaxonomy/library/sources.py
jaxonomy/library/state_machine.py
jaxonomy/library/tables.py
jaxonomy/library/video.py
jaxonomy/library/wrappers.py
jaxonomy/library/nmpc/__init__.py
jaxonomy/library/nmpc/direct_shooting_ipopt_nmpc.py
jaxonomy/library/nmpc/direct_transcription_ipopt_nmpc.py
jaxonomy/library/nmpc/hermite_simpson_ipopt_nmpc.py
jaxonomy/library/nmpc/trajectory_optimization.py
jaxonomy/library/nmpc/base/__init__.py
jaxonomy/library/nmpc/base/nlp_ipopt_base.py
jaxonomy/library/nmpc/base/nmpc_base.py
jaxonomy/library/nmpc/base/nmpc_ipopt_base.py
jaxonomy/library/rom/__init__.py
jaxonomy/library/rom/dmd.py
jaxonomy/library/rom/framework.py
jaxonomy/library/rom/koopman.py
jaxonomy/library/rom/linear_mor.py
jaxonomy/library/rom/pod.py
jaxonomy/library/rom/snapshots.py
jaxonomy/library/rom/surrogates.py
jaxonomy/library/state_estimators/__init__.py
jaxonomy/library/state_estimators/augmented_ekf.py
jaxonomy/library/state_estimators/continuous_time_infinite_horizon_kalman_filter.py
jaxonomy/library/state_estimators/extended_kalman_filter.py
jaxonomy/library/state_estimators/infinite_horizon_kalman_filter.py
jaxonomy/library/state_estimators/kalman_filter.py
jaxonomy/library/state_estimators/kalman_filter_base.py
jaxonomy/library/state_estimators/luenberger.py
jaxonomy/library/state_estimators/rls.py
jaxonomy/library/state_estimators/unscented_kalman_filter.py
jaxonomy/library/state_estimators/utils.py
jaxonomy/library/utils/__init__.py
jaxonomy/library/utils/csv_utils.py
jaxonomy/library/utils/plant_utils.py
jaxonomy/library/utils/rk4_utils.py
jaxonomy/mcp/__init__.py
jaxonomy/mcp/_helpers.py
jaxonomy/mcp/server.py
jaxonomy/mcp/tools/__init__.py
jaxonomy/mcp/tools/analysis_tools.py
jaxonomy/mcp/tools/model_tools.py
jaxonomy/mcp/tools/simulate_tools.py
jaxonomy/models/__init__.py
jaxonomy/models/acrobot.py
jaxonomy/models/battery_ecm.py
jaxonomy/models/bouncing_ball.py
jaxonomy/models/cartpole.py
jaxonomy/models/compact_ev.py
jaxonomy/models/compass_gait.py
jaxonomy/models/fitzhugh_nagumo.py
jaxonomy/models/hairer.py
jaxonomy/models/lotka_volterra.py
jaxonomy/models/pendulum.py
jaxonomy/models/planar_quadrotor.py
jaxonomy/models/rimless_wheel.py
jaxonomy/models/van_der_pol.py
jaxonomy/models/quadcopter/__init__.py
jaxonomy/models/quadcopter/plot_utils.py
jaxonomy/models/quadcopter/quadcopter.py
jaxonomy/models/quadcopter/trajectory_generation.py
jaxonomy/models/quadcopter/transformations.py
jaxonomy/optimization/__init__.py
jaxonomy/optimization/confidence.py
jaxonomy/optimization/implicit.py
jaxonomy/optimization/multi_start.py
jaxonomy/optimization/objectives.py
jaxonomy/optimization/parameter_tuning.py
jaxonomy/optimization/pid_autotuning.py
jaxonomy/optimization/rl_env.py
jaxonomy/optimization/sensitivity.py
jaxonomy/optimization/training.py
jaxonomy/optimization/ui_jobs.py
jaxonomy/optimization/framework/__init__.py
jaxonomy/optimization/framework/optimizers_evosax.py
jaxonomy/optimization/framework/optimizers_ipopt.py
jaxonomy/optimization/framework/optimizers_nlopt.py
jaxonomy/optimization/framework/optimizers_optax.py
jaxonomy/optimization/framework/optimizers_scipy.py
jaxonomy/optimization/framework/base/__init__.py
jaxonomy/optimization/framework/base/metrics.py
jaxonomy/optimization/framework/base/optimizable.py
jaxonomy/optimization/framework/base/optimizer.py
jaxonomy/optimization/framework/base/transformations.py
jaxonomy/simulation/__init__.py
jaxonomy/simulation/autodiff_rules.py
jaxonomy/simulation/batch.py
jaxonomy/simulation/cloud_runner.py
jaxonomy/simulation/dae_drift.py
jaxonomy/simulation/dae_projection.py
jaxonomy/simulation/errors.py
jaxonomy/simulation/event_gradient.py
jaxonomy/simulation/fast_restart.py
jaxonomy/simulation/lazy_results.py
jaxonomy/simulation/provenance.py
jaxonomy/simulation/rate_groups.py
jaxonomy/simulation/results_recorder.py
jaxonomy/simulation/simulate_distributed.py
jaxonomy/simulation/simulate_variants.py
jaxonomy/simulation/simulator.py
jaxonomy/simulation/static_sweep.py
jaxonomy/simulation/testing_systems.py
jaxonomy/simulation/types.py
jaxonomy/simulation/zero_crossing_handler.py
jaxonomy/uq/__init__.py
jaxonomy/uq/aleatoric_epistemic.py
jaxonomy/uq/distributions.py
jaxonomy/uq/morris.py
jaxonomy/uq/quasi_mc.py
jaxonomy/uq/sampling.py
jaxonomy/uq/sobol.py
jaxonomy/utils/__init__.py
jaxonomy/utils/plotting.py
test/test_brusselator.py
test/test_dashboard.py
test/test_diagnostics.py
test/test_diagnostics_followups.py
test/test_dx_followups_batch2.py
test/test_jaxonomy_improvements.py
test/test_profiler.py
test/test_readme_snippets.py
test/test_top_level_docs.py