scikit-complexity 0.2.0__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- scikit_complexity-0.2.0.dist-info/METADATA +317 -0
- scikit_complexity-0.2.0.dist-info/RECORD +1748 -0
- scikit_complexity-0.2.0.dist-info/WHEEL +4 -0
- scikit_complexity-0.2.0.dist-info/entry_points.txt +4 -0
- scikit_complexity-0.2.0.dist-info/licenses/LICENSE +21 -0
- skcomplex/__init__.py +1 -0
- skcomplex/analysis/__init__.py +101 -0
- skcomplex/analysis/_alignment.py +263 -0
- skcomplex/analysis/_automata.py +658 -0
- skcomplex/analysis/_base.py +841 -0
- skcomplex/analysis/_clusters.py +298 -0
- skcomplex/analysis/_coarse_grain.py +183 -0
- skcomplex/analysis/_collapse.py +318 -0
- skcomplex/analysis/_complexity.py +129 -0
- skcomplex/analysis/_computational_mechanics.py +220 -0
- skcomplex/analysis/_correlation.py +364 -0
- skcomplex/analysis/_defects.py +111 -0
- skcomplex/analysis/_discovery.py +101 -0
- skcomplex/analysis/_displacement.py +135 -0
- skcomplex/analysis/_distribution.py +327 -0
- skcomplex/analysis/_domains.py +220 -0
- skcomplex/analysis/_embedding.py +235 -0
- skcomplex/analysis/_emergence.py +503 -0
- skcomplex/analysis/_entropy.py +425 -0
- skcomplex/analysis/_ergodicity.py +228 -0
- skcomplex/analysis/_events.py +301 -0
- skcomplex/analysis/_fit.py +368 -0
- skcomplex/analysis/_groups.py +205 -0
- skcomplex/analysis/_information.py +488 -0
- skcomplex/analysis/_invariants.py +409 -0
- skcomplex/analysis/_irreversibility.py +421 -0
- skcomplex/analysis/_kramers_moyal.py +104 -0
- skcomplex/analysis/_large_deviations.py +378 -0
- skcomplex/analysis/_linearization.py +231 -0
- skcomplex/analysis/_local_information.py +166 -0
- skcomplex/analysis/_loops.py +394 -0
- skcomplex/analysis/_lyapunov.py +342 -0
- skcomplex/analysis/_markov.py +303 -0
- skcomplex/analysis/_mode_decomposition.py +209 -0
- skcomplex/analysis/_motifs.py +239 -0
- skcomplex/analysis/_neighbors.py +303 -0
- skcomplex/analysis/_networks.py +286 -0
- skcomplex/analysis/_operator.py +312 -0
- skcomplex/analysis/_partial_information.py +118 -0
- skcomplex/analysis/_passage.py +244 -0
- skcomplex/analysis/_recurrence.py +202 -0
- skcomplex/analysis/_reservoirs.py +387 -0
- skcomplex/analysis/_rolling.py +168 -0
- skcomplex/analysis/_scaling.py +370 -0
- skcomplex/analysis/_sections.py +225 -0
- skcomplex/analysis/_signatures.py +250 -0
- skcomplex/analysis/_sparse_identification.py +398 -0
- skcomplex/analysis/_spectrum.py +164 -0
- skcomplex/analysis/_stability.py +547 -0
- skcomplex/analysis/_surrogates.py +127 -0
- skcomplex/analysis/_symbolic.py +639 -0
- skcomplex/analysis/types.py +43 -0
- skcomplex/base.py +159 -0
- skcomplex/core/__init__.py +1 -0
- skcomplex/core/base.py +150 -0
- skcomplex/core/elements/__init__.py +21 -0
- skcomplex/core/elements/_base.py +84 -0
- skcomplex/core/elements/_compartment.py +52 -0
- skcomplex/core/elements/_density.py +52 -0
- skcomplex/core/elements/_element.py +80 -0
- skcomplex/core/elements/_field.py +192 -0
- skcomplex/core/elements/_group.py +241 -0
- skcomplex/core/elements/_lattice.py +115 -0
- skcomplex/core/elements/_point.py +66 -0
- skcomplex/core/interactions/__init__.py +89 -0
- skcomplex/core/interactions/_advection.py +134 -0
- skcomplex/core/interactions/_base.py +361 -0
- skcomplex/core/interactions/_cascade.py +195 -0
- skcomplex/core/interactions/_choice.py +320 -0
- skcomplex/core/interactions/_conservation.py +164 -0
- skcomplex/core/interactions/_coupling.py +741 -0
- skcomplex/core/interactions/_crossing.py +136 -0
- skcomplex/core/interactions/_diffusion.py +99 -0
- skcomplex/core/interactions/_encounter.py +201 -0
- skcomplex/core/interactions/_euler_lagrange.py +183 -0
- skcomplex/core/interactions/_evolution.py +520 -0
- skcomplex/core/interactions/_feedback.py +79 -0
- skcomplex/core/interactions/_gradient.py +293 -0
- skcomplex/core/interactions/_grouping.py +399 -0
- skcomplex/core/interactions/_hamiltonian.py +191 -0
- skcomplex/core/interactions/_hyperedge.py +96 -0
- skcomplex/core/interactions/_imitation.py +357 -0
- skcomplex/core/interactions/_impulse.py +133 -0
- skcomplex/core/interactions/_interaction.py +58 -0
- skcomplex/core/interactions/_jump.py +201 -0
- skcomplex/core/interactions/_life_cycle.py +424 -0
- skcomplex/core/interactions/_local_rule.py +134 -0
- skcomplex/core/interactions/_map.py +239 -0
- skcomplex/core/interactions/_matching.py +701 -0
- skcomplex/core/interactions/_movement.py +377 -0
- skcomplex/core/interactions/_neighbor.py +88 -0
- skcomplex/core/interactions/_optimization.py +206 -0
- skcomplex/core/interactions/_pair.py +82 -0
- skcomplex/core/interactions/_pair_coupling.py +169 -0
- skcomplex/core/interactions/_rate.py +240 -0
- skcomplex/core/interactions/_reaction.py +466 -0
- skcomplex/core/interactions/_reinforcement.py +226 -0
- skcomplex/core/interactions/_relaxation.py +103 -0
- skcomplex/core/interactions/_sampling.py +177 -0
- skcomplex/core/interactions/_satisfiability.py +145 -0
- skcomplex/core/interactions/_sign_adjustment.py +222 -0
- skcomplex/core/interactions/_topology.py +215 -0
- skcomplex/core/interactions/_training.py +184 -0
- skcomplex/core/interactions/_transfer.py +669 -0
- skcomplex/core/interactions/_transition.py +427 -0
- skcomplex/core/laws/__init__.py +60 -0
- skcomplex/core/laws/_base.py +194 -0
- skcomplex/core/laws/_bilinear.py +91 -0
- skcomplex/core/laws/_boundary.py +59 -0
- skcomplex/core/laws/_cascade.py +79 -0
- skcomplex/core/laws/_crossing.py +87 -0
- skcomplex/core/laws/_dissipator.py +79 -0
- skcomplex/core/laws/_drive.py +56 -0
- skcomplex/core/laws/_emission.py +81 -0
- skcomplex/core/laws/_encounter.py +96 -0
- skcomplex/core/laws/_equation.py +105 -0
- skcomplex/core/laws/_extremal.py +94 -0
- skcomplex/core/laws/_flux.py +108 -0
- skcomplex/core/laws/_fractional_noise.py +65 -0
- skcomplex/core/laws/_generator.py +66 -0
- skcomplex/core/laws/_gradient_step.py +89 -0
- skcomplex/core/laws/_jump.py +137 -0
- skcomplex/core/laws/_local_rule.py +92 -0
- skcomplex/core/laws/_match.py +321 -0
- skcomplex/core/laws/_noise.py +125 -0
- skcomplex/core/laws/_rate.py +82 -0
- skcomplex/core/laws/_rule.py +82 -0
- skcomplex/core/laws/_sample.py +65 -0
- skcomplex/core/laws/_transfer.py +165 -0
- skcomplex/core/laws/_transition.py +77 -0
- skcomplex/core/laws/_update.py +121 -0
- skcomplex/core/laws/utils/__init__.py +142 -0
- skcomplex/core/laws/utils/_agents.py +127 -0
- skcomplex/core/laws/utils/_components.py +63 -0
- skcomplex/core/laws/utils/_conditions.py +198 -0
- skcomplex/core/laws/utils/_contractions.py +74 -0
- skcomplex/core/laws/utils/_delays.py +170 -0
- skcomplex/core/laws/utils/_history.py +167 -0
- skcomplex/core/laws/utils/_local_operators.py +68 -0
- skcomplex/core/laws/utils/_lookups.py +40 -0
- skcomplex/core/laws/utils/_moments.py +122 -0
- skcomplex/core/laws/utils/_operators.py +237 -0
- skcomplex/core/laws/utils/_phase.py +126 -0
- skcomplex/core/laws/utils/_pointwise.py +160 -0
- skcomplex/core/laws/utils/_reductions.py +942 -0
- skcomplex/core/laws/utils/_signals.py +214 -0
- skcomplex/core/laws/utils/_tables.py +4 -0
- skcomplex/core/laws/utils/_tensors.py +235 -0
- skcomplex/core/spaces/__init__.py +52 -0
- skcomplex/core/spaces/_adjacency.py +34 -0
- skcomplex/core/spaces/_base.py +218 -0
- skcomplex/core/spaces/_box.py +41 -0
- skcomplex/core/spaces/_cayley.py +352 -0
- skcomplex/core/spaces/_cone.py +65 -0
- skcomplex/core/spaces/_continuous.py +93 -0
- skcomplex/core/spaces/_continuous_time.py +27 -0
- skcomplex/core/spaces/_discrete_time.py +53 -0
- skcomplex/core/spaces/_generator.py +51 -0
- skcomplex/core/spaces/_lattice.py +194 -0
- skcomplex/core/spaces/_lattice_neighborhood.py +50 -0
- skcomplex/core/spaces/_memory.py +45 -0
- skcomplex/core/spaces/_mesh.py +71 -0
- skcomplex/core/spaces/_moore.py +49 -0
- skcomplex/core/spaces/_nearest.py +41 -0
- skcomplex/core/spaces/_network.py +256 -0
- skcomplex/core/spaces/_phase.py +136 -0
- skcomplex/core/spaces/_radius.py +40 -0
- skcomplex/core/spaces/_static_time.py +34 -0
- skcomplex/core/spaces/_triangular.py +37 -0
- skcomplex/core/spaces/_von_neumann.py +51 -0
- skcomplex/core/specs/__init__.py +25 -0
- skcomplex/core/specs/_census_record_spec.py +72 -0
- skcomplex/core/specs/_census_spec.py +40 -0
- skcomplex/core/specs/_compiled_agents_spec.py +62 -0
- skcomplex/core/specs/_compiled_element_spec.py +59 -0
- skcomplex/core/specs/_compiled_interaction_spec.py +33 -0
- skcomplex/core/specs/_lattice_context_spec.py +40 -0
- skcomplex/core/specs/_lattice_state_spec.py +49 -0
- skcomplex/core/specs/_node_spec.py +64 -0
- skcomplex/core/specs/_operator_view_spec.py +135 -0
- skcomplex/core/specs/_scenario_spec.py +45 -0
- skcomplex/core/specs/_subsystem_spec.py +24 -0
- skcomplex/core/system.py +140 -0
- skcomplex/core/types.py +249 -0
- skcomplex/engine/__init__.py +5 -0
- skcomplex/engine/_utils.py +278 -0
- skcomplex/engine/backends/__init__.py +13 -0
- skcomplex/engine/backends/_base.py +329 -0
- skcomplex/engine/backends/_jax.py +285 -0
- skcomplex/engine/backends/_numba.py +601 -0
- skcomplex/engine/backends/_numba_components.py +67 -0
- skcomplex/engine/backends/_numba_loops.py +163 -0
- skcomplex/engine/backends/_numba_neighbours.py +435 -0
- skcomplex/engine/backends/_numba_printer.py +1023 -0
- skcomplex/engine/backends/_numba_stencils.py +66 -0
- skcomplex/engine/backends/_numpy.py +215 -0
- skcomplex/engine/compile/__init__.py +27 -0
- skcomplex/engine/compile/_base.py +582 -0
- skcomplex/engine/compile/_bound_renewal_spec.py +47 -0
- skcomplex/engine/compile/_compilation.py +351 -0
- skcomplex/engine/compile/_compile.py +100 -0
- skcomplex/engine/compile/_complex.py +216 -0
- skcomplex/engine/compile/_draw_lowering.py +373 -0
- skcomplex/engine/compile/_field_lowering.py +1668 -0
- skcomplex/engine/compile/_flows.py +691 -0
- skcomplex/engine/compile/_forms.py +48 -0
- skcomplex/engine/compile/_laws.py +42 -0
- skcomplex/engine/compile/_learning_compiler.py +481 -0
- skcomplex/engine/compile/_member_reductions.py +206 -0
- skcomplex/engine/compile/_members.py +244 -0
- skcomplex/engine/compile/_observables.py +940 -0
- skcomplex/engine/compile/_observer.py +185 -0
- skcomplex/engine/compile/_pass_compiler.py +1534 -0
- skcomplex/engine/compile/_probe.py +78 -0
- skcomplex/engine/compile/_renewal_law.py +70 -0
- skcomplex/engine/compile/passes/__init__.py +34 -0
- skcomplex/engine/compile/passes/_agents.py +111 -0
- skcomplex/engine/compile/passes/_agents_problem.py +143 -0
- skcomplex/engine/compile/passes/_census.py +808 -0
- skcomplex/engine/compile/passes/_check_fractional_noise.py +107 -0
- skcomplex/engine/compile/passes/_collect.py +31 -0
- skcomplex/engine/compile/passes/_compile_encounters.py +301 -0
- skcomplex/engine/compile/passes/_complex.py +198 -0
- skcomplex/engine/compile/passes/_conserved_noise.py +224 -0
- skcomplex/engine/compile/passes/_core.py +116 -0
- skcomplex/engine/compile/passes/_declare_renewals.py +84 -0
- skcomplex/engine/compile/passes/_draws.py +29 -0
- skcomplex/engine/compile/passes/_encounter_functions.py +60 -0
- skcomplex/engine/compile/passes/_encounter_jacobian.py +25 -0
- skcomplex/engine/compile/passes/_encounter_problem.py +32 -0
- skcomplex/engine/compile/passes/_events.py +204 -0
- skcomplex/engine/compile/passes/_expand_flows.py +32 -0
- skcomplex/engine/compile/passes/_field_functions.py +647 -0
- skcomplex/engine/compile/passes/_field_jacobian.py +38 -0
- skcomplex/engine/compile/passes/_field_problem.py +106 -0
- skcomplex/engine/compile/passes/_flatten.py +339 -0
- skcomplex/engine/compile/passes/_flows_problem.py +29 -0
- skcomplex/engine/compile/passes/_form.py +82 -0
- skcomplex/engine/compile/passes/_fractional_form.py +172 -0
- skcomplex/engine/compile/passes/_fractional_problem.py +91 -0
- skcomplex/engine/compile/passes/_functions.py +485 -0
- skcomplex/engine/compile/passes/_hilbert_space_error.py +10 -0
- skcomplex/engine/compile/passes/_hyperedges.py +598 -0
- skcomplex/engine/compile/passes/_jacobian.py +38 -0
- skcomplex/engine/compile/passes/_kernels.py +407 -0
- skcomplex/engine/compile/passes/_lattices.py +818 -0
- skcomplex/engine/compile/passes/_layout.py +667 -0
- skcomplex/engine/compile/passes/_lower_fields.py +225 -0
- skcomplex/engine/compile/passes/_lower_flows.py +28 -0
- skcomplex/engine/compile/passes/_markov.py +329 -0
- skcomplex/engine/compile/passes/_mask_requests.py +121 -0
- skcomplex/engine/compile/passes/_members.py +30 -0
- skcomplex/engine/compile/passes/_noise.py +196 -0
- skcomplex/engine/compile/passes/_operator_compiler.py +843 -0
- skcomplex/engine/compile/passes/_orders.py +409 -0
- skcomplex/engine/compile/passes/_owners.py +90 -0
- skcomplex/engine/compile/passes/_particles.py +69 -0
- skcomplex/engine/compile/passes/_plan.py +130 -0
- skcomplex/engine/compile/passes/_problem.py +802 -0
- skcomplex/engine/compile/passes/_reduction_lowering.py +1193 -0
- skcomplex/engine/compile/passes/_reductions.py +84 -0
- skcomplex/engine/compile/passes/_renewal_problem.py +357 -0
- skcomplex/engine/compile/passes/_request_jumps.py +51 -0
- skcomplex/engine/compile/passes/_residences.py +140 -0
- skcomplex/engine/compile/passes/_rows.py +162 -0
- skcomplex/engine/compile/passes/_set_renewals_apart.py +29 -0
- skcomplex/engine/compile/passes/_set_rules_apart.py +28 -0
- skcomplex/engine/compile/passes/_specs.py +1317 -0
- skcomplex/engine/compile/passes/_split_requests.py +44 -0
- skcomplex/engine/compile/passes/_topology_functions.py +265 -0
- skcomplex/engine/compile/passes/_topology_problem.py +27 -0
- skcomplex/engine/compile/passes/_towards.py +66 -0
- skcomplex/engine/compile/passes/_unpack_matches.py +29 -0
- skcomplex/engine/compile/passes/_unpack_renewals.py +41 -0
- skcomplex/engine/problems/__init__.py +61 -0
- skcomplex/engine/problems/_base.py +150 -0
- skcomplex/engine/problems/_base_problem_spec.py +153 -0
- skcomplex/engine/problems/_block_spec.py +48 -0
- skcomplex/engine/problems/_born_spec.py +24 -0
- skcomplex/engine/problems/_cascade_kernel.py +134 -0
- skcomplex/engine/problems/_collision_kernel.py +147 -0
- skcomplex/engine/problems/_compiled_delay_spec.py +21 -0
- skcomplex/engine/problems/_compiled_request_spec.py +46 -0
- skcomplex/engine/problems/_control_problem_spec.py +90 -0
- skcomplex/engine/problems/_declarations_spec.py +126 -0
- skcomplex/engine/problems/_delayed_state_spec.py +50 -0
- skcomplex/engine/problems/_diffusive_limit_spec.py +50 -0
- skcomplex/engine/problems/_draw_kernel.py +128 -0
- skcomplex/engine/problems/_drive_kernel.py +65 -0
- skcomplex/engine/problems/_dynamics_spec.py +28 -0
- skcomplex/engine/problems/_edge_row_search.py +78 -0
- skcomplex/engine/problems/_edge_search.py +64 -0
- skcomplex/engine/problems/_encounter_kernel.py +200 -0
- skcomplex/engine/problems/_event_kernel.py +70 -0
- skcomplex/engine/problems/_expression_printer.py +410 -0
- skcomplex/engine/problems/_extremal_kernel.py +125 -0
- skcomplex/engine/problems/_field_operator_kernel.py +105 -0
- skcomplex/engine/problems/_finite_volume_kernel.py +423 -0
- skcomplex/engine/problems/_flow_term_spec.py +45 -0
- skcomplex/engine/problems/_frame_spec.py +105 -0
- skcomplex/engine/problems/_jacobian_kernel.py +575 -0
- skcomplex/engine/problems/_kernel_spec.py +130 -0
- skcomplex/engine/problems/_kinetic_problem_spec.py +23 -0
- skcomplex/engine/problems/_law_kernel.py +604 -0
- skcomplex/engine/problems/_learning_problem_spec.py +67 -0
- skcomplex/engine/problems/_linear_term_spec.py +50 -0
- skcomplex/engine/problems/_loop_term_spec.py +44 -0
- skcomplex/engine/problems/_lowered_kernels_spec.py +59 -0
- skcomplex/engine/problems/_markov_kernel.py +68 -0
- skcomplex/engine/problems/_metric_search.py +155 -0
- skcomplex/engine/problems/_monte_carlo_kernel.py +213 -0
- skcomplex/engine/problems/_neighborhood_kernel.py +594 -0
- skcomplex/engine/problems/_noise_term_spec.py +26 -0
- skcomplex/engine/problems/_observed_spec.py +22 -0
- skcomplex/engine/problems/_operator_kernel.py +102 -0
- skcomplex/engine/problems/_operator_lowering.py +323 -0
- skcomplex/engine/problems/_operator_problem_spec.py +138 -0
- skcomplex/engine/problems/_output_spec.py +78 -0
- skcomplex/engine/problems/_pair_search.py +86 -0
- skcomplex/engine/problems/_partials_spec.py +27 -0
- skcomplex/engine/problems/_partition_spec.py +39 -0
- skcomplex/engine/problems/_printed_spec.py +24 -0
- skcomplex/engine/problems/_problem_functions_spec.py +102 -0
- skcomplex/engine/problems/_problem_spec.py +365 -0
- skcomplex/engine/problems/_random_stream.py +49 -0
- skcomplex/engine/problems/_record_spec.py +22 -0
- skcomplex/engine/problems/_recorded_spec.py +21 -0
- skcomplex/engine/problems/_reduction_kernel.py +254 -0
- skcomplex/engine/problems/_reduction_schedule_spec.py +97 -0
- skcomplex/engine/problems/_reference_spec.py +114 -0
- skcomplex/engine/problems/_relation_spec.py +29 -0
- skcomplex/engine/problems/_renewal_kernel.py +250 -0
- skcomplex/engine/problems/_request_spec.py +27 -0
- skcomplex/engine/problems/_rule_kernel.py +227 -0
- skcomplex/engine/problems/_set_symbol_spec.py +28 -0
- skcomplex/engine/problems/_source_loader.py +113 -0
- skcomplex/engine/problems/_static_search.py +42 -0
- skcomplex/engine/problems/_steps.py +39 -0
- skcomplex/engine/problems/_sweep_spec.py +26 -0
- skcomplex/engine/problems/_symmetry_spec.py +29 -0
- skcomplex/engine/problems/_too_dense.py +8 -0
- skcomplex/engine/problems/_topology_kernel.py +589 -0
- skcomplex/engine/problems/_transfer_network.py +4 -0
- skcomplex/engine/problems/_transfer_network_spec.py +50 -0
- skcomplex/engine/problems/_transfer_state_spec.py +68 -0
- skcomplex/engine/runtime/__init__.py +22 -0
- skcomplex/engine/runtime/_as_fast_as_possible.py +17 -0
- skcomplex/engine/runtime/_base.py +137 -0
- skcomplex/engine/runtime/_conservation.py +125 -0
- skcomplex/engine/runtime/_invariants.py +100 -0
- skcomplex/engine/runtime/_real_time.py +55 -0
- skcomplex/engine/runtime/_recorder.py +84 -0
- skcomplex/engine/runtime/_simulations.py +665 -0
- skcomplex/engine/runtime/_trajectories.py +314 -0
- skcomplex/engine/solvers/__init__.py +95 -0
- skcomplex/engine/solvers/_base.py +372 -0
- skcomplex/engine/solvers/_caputo.py +194 -0
- skcomplex/engine/solvers/_collocation.py +334 -0
- skcomplex/engine/solvers/_convolution.py +155 -0
- skcomplex/engine/solvers/_cosimulation.py +400 -0
- skcomplex/engine/solvers/_crank_nicolson.py +32 -0
- skcomplex/engine/solvers/_defaults.py +34 -0
- skcomplex/engine/solvers/_etdrk4.py +86 -0
- skcomplex/engine/solvers/_euler_maruyama.py +161 -0
- skcomplex/engine/solvers/_event_locator.py +249 -0
- skcomplex/engine/solvers/_external.py +94 -0
- skcomplex/engine/solvers/_fractional_abm.py +126 -0
- skcomplex/engine/solvers/_fractional_euler_maruyama.py +322 -0
- skcomplex/engine/solvers/_gillespie.py +135 -0
- skcomplex/engine/solvers/_gradient_descent.py +353 -0
- skcomplex/engine/solvers/_grunwald_letnikov.py +83 -0
- skcomplex/engine/solvers/_heun.py +89 -0
- skcomplex/engine/solvers/_history.py +184 -0
- skcomplex/engine/solvers/_horizon_error.py +10 -0
- skcomplex/engine/solvers/_imex2.py +40 -0
- skcomplex/engine/solvers/_imex_euler.py +35 -0
- skcomplex/engine/solvers/_jump_trajectories.py +98 -0
- skcomplex/engine/solvers/_kinetics.py +242 -0
- skcomplex/engine/solvers/_l1.py +91 -0
- skcomplex/engine/solvers/_lammps.py +745 -0
- skcomplex/engine/solvers/_lammps_fix_spec.py +41 -0
- skcomplex/engine/solvers/_lattice.py +79 -0
- skcomplex/engine/solvers/_lindblad.py +70 -0
- skcomplex/engine/solvers/_maps.py +105 -0
- skcomplex/engine/solvers/_mesa.py +1624 -0
- skcomplex/engine/solvers/_milstein.py +93 -0
- skcomplex/engine/solvers/_monte_carlo.py +43 -0
- skcomplex/engine/solvers/_operator.py +212 -0
- skcomplex/engine/solvers/_optimal_control.py +368 -0
- skcomplex/engine/solvers/_pontryagin.py +298 -0
- skcomplex/engine/solvers/_renewal.py +90 -0
- skcomplex/engine/solvers/_renewals.py +190 -0
- skcomplex/engine/solvers/_rk4.py +263 -0
- skcomplex/engine/solvers/_root.py +176 -0
- skcomplex/engine/solvers/_rows.py +49 -0
- skcomplex/engine/solvers/_scipy_ode.py +602 -0
- skcomplex/engine/solvers/_sde.py +164 -0
- skcomplex/engine/solvers/_semi_lagrangian.py +213 -0
- skcomplex/engine/solvers/_solver.py +159 -0
- skcomplex/engine/solvers/_split.py +394 -0
- skcomplex/engine/solvers/_ssprk.py +147 -0
- skcomplex/engine/solvers/_strang_splitting.py +178 -0
- skcomplex/engine/solvers/_unitary.py +68 -0
- skcomplex/engine/solvers/_velocity_verlet.py +171 -0
- skcomplex/engine/solvers/_yoshida4.py +242 -0
- skcomplex/engine/types.py +90 -0
- skcomplex/engine/viz/__init__.py +35 -0
- skcomplex/engine/viz/_agents.py +223 -0
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"""Laws of one component and one law kind, evaluated over members or pairs."""
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owner:
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The time symbol.
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A mapping from the name a relative function reads to the dotted name of the variable.
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63
|
+
|
|
64
|
+
stream:
|
|
65
|
+
The random stream a function with `random=True` receives, or `None` for a kernel without one.
|
|
66
|
+
|
|
67
|
+
Attributes:
|
|
68
|
+
values_:
|
|
69
|
+
The number of evaluation indices, the pairs in pair mode, and one array of values per output, of the last
|
|
70
|
+
run.
|
|
71
|
+
"""
|
|
72
|
+
|
|
73
|
+
values_: tuple[int, OptionalPairs, list[Array]]
|
|
74
|
+
|
|
75
|
+
def __init__(
|
|
76
|
+
self,
|
|
77
|
+
owner: str,
|
|
78
|
+
time: Expression,
|
|
79
|
+
references: Mapping[Expression, ReferenceSpec],
|
|
80
|
+
rows: int,
|
|
81
|
+
layout_states: LayoutSpec,
|
|
82
|
+
*,
|
|
83
|
+
layout_parameters: LayoutSpec,
|
|
84
|
+
pairs: PairsSearch | None = None,
|
|
85
|
+
outputs: Sequence[OutputSpec] = (),
|
|
86
|
+
names: Mapping[str, str] | None = None,
|
|
87
|
+
stream: RandomStream | None = None,
|
|
88
|
+
) -> None:
|
|
89
|
+
self.owner = owner
|
|
90
|
+
self.time = time
|
|
91
|
+
self.references = references
|
|
92
|
+
self.rows = rows
|
|
93
|
+
self.layout_states = layout_states
|
|
94
|
+
self.layout_parameters = layout_parameters
|
|
95
|
+
self.pairs = pairs
|
|
96
|
+
self.outputs = outputs
|
|
97
|
+
self.names = names
|
|
98
|
+
self.stream = stream
|
|
99
|
+
|
|
100
|
+
@functools.cached_property
|
|
101
|
+
def _plan(self) -> tuple[list[tuple[int, int]], list[Expression]]:
|
|
102
|
+
"""Return the slot of every output among the compiled expressions, and the expressions, found once.
|
|
103
|
+
|
|
104
|
+
Outputs that call the same function on the same arguments share one slot.
|
|
105
|
+
"""
|
|
106
|
+
slots: list[tuple[int, int]] = []
|
|
107
|
+
expressions: list[Expression] = []
|
|
108
|
+
calls: dict[tuple[int, tuple[Expression, ...]], tuple[int, int]] = {}
|
|
109
|
+
for output in self.outputs:
|
|
110
|
+
key = (id(output.function), output.arguments) if output.arguments is not None else None
|
|
111
|
+
if key is not None and key in calls:
|
|
112
|
+
slots.append(calls[key])
|
|
113
|
+
continue
|
|
114
|
+
parts = [output.expression] if output.expression is not None else list(output.arguments or ())
|
|
115
|
+
slots.append((len(expressions), len(parts)))
|
|
116
|
+
if key is not None:
|
|
117
|
+
calls[key] = slots[-1]
|
|
118
|
+
expressions.extend(parts)
|
|
119
|
+
return slots, expressions
|
|
120
|
+
|
|
121
|
+
@functools.cached_property
|
|
122
|
+
def _slots(self) -> list[tuple[int, int]]:
|
|
123
|
+
"""Start and count of the compiled values of every output."""
|
|
124
|
+
return self._plan[0]
|
|
125
|
+
|
|
126
|
+
@functools.cached_property
|
|
127
|
+
def _arguments(self) -> list[Expression]:
|
|
128
|
+
"""Symbols the compiled expressions read besides time, sorted by name."""
|
|
129
|
+
return sorted(
|
|
130
|
+
{item for expression in self._plan[1] for item in SR(expression).variables()} - {self.time},
|
|
131
|
+
key=str,
|
|
132
|
+
)
|
|
133
|
+
|
|
134
|
+
@functools.cached_property
|
|
135
|
+
def _function(self) -> Callable[..., object] | None:
|
|
136
|
+
"""NumPy function of the symbolic outputs and the arguments of calls, or `None` without expressions."""
|
|
137
|
+
expressions = self._plan[1]
|
|
138
|
+
if not expressions:
|
|
139
|
+
return None
|
|
140
|
+
printer = ExpressionPrinter(time=self.time, compiled=True).check().prepare(self._arguments)
|
|
141
|
+
return ExpressionPrinter._function_of(printer.run(expressions).code_)
|
|
142
|
+
|
|
143
|
+
@functools.cached_property
|
|
144
|
+
def _readers(self) -> dict[Expression, ReadFunction]:
|
|
145
|
+
"""Reader of every symbol resolved so far."""
|
|
146
|
+
return {}
|
|
147
|
+
|
|
148
|
+
@functools.cached_property
|
|
149
|
+
def _applied(self) -> dict[int, Array]:
|
|
150
|
+
"""Values of the global operators applied in the current evaluation, cleared when an evaluation starts."""
|
|
151
|
+
return {}
|
|
152
|
+
|
|
153
|
+
@functools.cached_property
|
|
154
|
+
def _argument_readers(self) -> list[ReadFunction]:
|
|
155
|
+
"""Readers of the arguments of the compiled function, in order."""
|
|
156
|
+
return [self._reader(item) for item in self._arguments]
|
|
157
|
+
|
|
158
|
+
def _check(self) -> None:
|
|
159
|
+
"""Check that the outputs read only declared symbols, and neighbour symbols only inside a reduction.
|
|
160
|
+
|
|
161
|
+
Raises:
|
|
162
|
+
ValidationError:
|
|
163
|
+
If an output reads an undeclared symbol, or a neighbour symbol outside a neighbourhood reduction.
|
|
164
|
+
"""
|
|
165
|
+
used = set(self._arguments)
|
|
166
|
+
unknown = used - set(self.references)
|
|
167
|
+
if unknown:
|
|
168
|
+
names = ', '.join(sorted(map(str, unknown)))
|
|
169
|
+
error_msg = (
|
|
170
|
+
f'A law of {self.owner} uses the symbols {names}, which are not declared. Declare them with `state` '
|
|
171
|
+
'or `parameter` and use them through the namespace `s` that `laws` receives.'
|
|
172
|
+
)
|
|
173
|
+
raise ValidationError(error_msg)
|
|
174
|
+
others = sorted(str(item) for item in used if self.references[item].source is ReadKind.OTHER)
|
|
175
|
+
if others:
|
|
176
|
+
error_msg = (
|
|
177
|
+
f'A law of {self.owner} reads the neighbour symbols {", ".join(others)} outside a reduction. Read '
|
|
178
|
+
'`s.other` inside `neighbors`, which reduces over the neighbours of every member, or inside a '
|
|
179
|
+
'reduction over the group.'
|
|
180
|
+
)
|
|
181
|
+
raise ValidationError(error_msg)
|
|
182
|
+
|
|
183
|
+
@property
|
|
184
|
+
def arguments(self) -> list[Expression]:
|
|
185
|
+
"""Symbols the outputs read, in the order the compiled function takes them after time."""
|
|
186
|
+
return list(self._arguments)
|
|
187
|
+
|
|
188
|
+
def gather(self, t: float, x: Array, p: Array) -> list[object]:
|
|
189
|
+
"""Return the values of the symbols the outputs read, for every evaluation index of a member kernel.
|
|
190
|
+
|
|
191
|
+
Args:
|
|
192
|
+
t:
|
|
193
|
+
The time.
|
|
194
|
+
|
|
195
|
+
x:
|
|
196
|
+
The state vector.
|
|
197
|
+
|
|
198
|
+
p:
|
|
199
|
+
The parameter vector, extended with the reductions when the kernel reads them.
|
|
200
|
+
|
|
201
|
+
Returns:
|
|
202
|
+
values:
|
|
203
|
+
One value or one array of values per symbol of `arguments`.
|
|
204
|
+
"""
|
|
205
|
+
self._applied.clear()
|
|
206
|
+
return [read(x, p, None, t) for read in self._argument_readers]
|
|
207
|
+
|
|
208
|
+
def read(self, symbol: Expression, t: float, x: Array, p: Array) -> object:
|
|
209
|
+
"""Return the values of one symbol the kernel knows, for every evaluation index of a member kernel.
|
|
210
|
+
|
|
211
|
+
Args:
|
|
212
|
+
symbol:
|
|
213
|
+
A symbol of `references`, such as an operand symbol of a derived read.
|
|
214
|
+
|
|
215
|
+
t:
|
|
216
|
+
The time.
|
|
217
|
+
|
|
218
|
+
x:
|
|
219
|
+
The state vector.
|
|
220
|
+
|
|
221
|
+
p:
|
|
222
|
+
The parameter vector, extended with the reductions when the kernel reads them.
|
|
223
|
+
|
|
224
|
+
Returns:
|
|
225
|
+
values:
|
|
226
|
+
One value or one array of values.
|
|
227
|
+
"""
|
|
228
|
+
self._applied.clear()
|
|
229
|
+
return self._reader(symbol)(x, p, None, t)
|
|
230
|
+
|
|
231
|
+
@property
|
|
232
|
+
def has_python_functions(self) -> bool:
|
|
233
|
+
"""Whether an output is computed by a function, either a callable law or a `Call`."""
|
|
234
|
+
return any(output.function is not None for output in self.outputs)
|
|
235
|
+
|
|
236
|
+
def _gather_around(
|
|
237
|
+
self,
|
|
238
|
+
reference: ReferenceSpec,
|
|
239
|
+
x: Array,
|
|
240
|
+
p: Array,
|
|
241
|
+
pairs: tuple[Indices, Indices] | None,
|
|
242
|
+
t: float,
|
|
243
|
+
) -> object:
|
|
244
|
+
"""Return the values of a symbol read at neighbouring sites or derived by a global operator."""
|
|
245
|
+
if reference.source is ReadKind.NEIGHBOR:
|
|
246
|
+
return reference.shifted.read(reference.column_of(x, p), p)
|
|
247
|
+
read = reference.derived
|
|
248
|
+
if id(read) not in self._applied:
|
|
249
|
+
values = [self._gather(item, x, p, pairs, t) for item in read.symbols]
|
|
250
|
+
operand = read.operand_values(t, values, reference.entry.rows)
|
|
251
|
+
self._applied[id(read)] = read.run(RunStateSpec(t, operand, p)).values_
|
|
252
|
+
return self._applied[id(read)]
|
|
253
|
+
|
|
254
|
+
def _reader(self, symbol: Expression) -> ReadFunction:
|
|
255
|
+
"""Return the function that reads the values of a symbol for every evaluation index, resolved once."""
|
|
256
|
+
if symbol in self._readers:
|
|
257
|
+
return self._readers[symbol]
|
|
258
|
+
reference = self.references[symbol]
|
|
259
|
+
source = reference.source
|
|
260
|
+
read: ReadFunction
|
|
261
|
+
if source is ReadKind.DERIVED or source is ReadKind.NEIGHBOR:
|
|
262
|
+
if source is ReadKind.DERIVED:
|
|
263
|
+
for item in reference.derived.symbols:
|
|
264
|
+
self._reader(item)
|
|
265
|
+
|
|
266
|
+
def read(x: Array, p: Array, pairs: OptionalPairs, t: float) -> object:
|
|
267
|
+
return self._gather_around(reference, x, p, pairs, t)
|
|
268
|
+
|
|
269
|
+
elif source is ReadKind.SINGLE or (source is ReadKind.REDUCED and reference.entry.members is None):
|
|
270
|
+
read = self._single_reader(reference.is_state, reference.index)
|
|
271
|
+
else:
|
|
272
|
+
read = self._member_reader(reference)
|
|
273
|
+
self._readers[symbol] = read
|
|
274
|
+
return read
|
|
275
|
+
|
|
276
|
+
def _member_reader(self, reference: ReferenceSpec) -> ReadFunction:
|
|
277
|
+
"""Return the function that reads a member symbol, indexed by the pairs of a pair kernel."""
|
|
278
|
+
is_state, members, source = reference.is_state, reference.members, reference.source
|
|
279
|
+
search = self.pairs if isinstance(self.pairs, PairSearch) else None
|
|
280
|
+
images = search is not None and reference.entry == search.second and is_state
|
|
281
|
+
column = reference.column
|
|
282
|
+
|
|
283
|
+
def read(x: Array, p: Array, pairs: OptionalPairs, t: float) -> Array:
|
|
284
|
+
values = (x if is_state else p)[members]
|
|
285
|
+
if source is ReadKind.MEMBER or pairs is None:
|
|
286
|
+
return values
|
|
287
|
+
first, second = pairs
|
|
288
|
+
if source is ReadKind.FIRST:
|
|
289
|
+
return values[first]
|
|
290
|
+
if images and search is not None:
|
|
291
|
+
return search.second_images(x, first, second)[:, column]
|
|
292
|
+
return values[second]
|
|
293
|
+
|
|
294
|
+
return read
|
|
295
|
+
|
|
296
|
+
def _gather(
|
|
297
|
+
self,
|
|
298
|
+
symbol: Expression,
|
|
299
|
+
x: Array,
|
|
300
|
+
p: Array,
|
|
301
|
+
pairs: OptionalPairs,
|
|
302
|
+
t: float = 0.0,
|
|
303
|
+
) -> object:
|
|
304
|
+
"""Return the values of a symbol for every evaluation index."""
|
|
305
|
+
return self._reader(symbol)(x, p, pairs, t)
|
|
306
|
+
|
|
307
|
+
@property
|
|
308
|
+
def reads_reductions(self) -> bool:
|
|
309
|
+
"""Whether an output reads a reduction, directly or through the operand of a derived read."""
|
|
310
|
+
return any(self._reads_reduction(item) for item in self.arguments)
|
|
311
|
+
|
|
312
|
+
def _reads_reduction(self, item: Expression) -> bool:
|
|
313
|
+
"""Check whether a symbol reads a reduction, directly or through the operand of a derived read."""
|
|
314
|
+
reference = self.references[item]
|
|
315
|
+
if reference.source is ReadKind.REDUCED:
|
|
316
|
+
return True
|
|
317
|
+
if reference.source is ReadKind.DERIVED:
|
|
318
|
+
return any(self._reads_reduction(symbol) for symbol in reference.derived.symbols)
|
|
319
|
+
return False
|
|
320
|
+
|
|
321
|
+
def _run(self, inputs: RunStateSpec | None) -> None:
|
|
322
|
+
"""Set the number of evaluation indices, the pairs in pair mode, and one array of values per output."""
|
|
323
|
+
state = self._state_of(inputs)
|
|
324
|
+
t, x, p = state.t, state.x, state.p
|
|
325
|
+
self._applied.clear()
|
|
326
|
+
pairs = self.pairs.run(state).pairs_ if self.pairs is not None else None
|
|
327
|
+
size = len(pairs[0]) if pairs is not None else self.rows
|
|
328
|
+
computed: list[npt.ArrayLike] = []
|
|
329
|
+
if self._function is not None:
|
|
330
|
+
computed = ExpressionPrinter._values_of(
|
|
331
|
+
self._function(t, *[read(x, p, pairs, t) for read in self._argument_readers]),
|
|
332
|
+
)
|
|
333
|
+
values: list[Array] = []
|
|
334
|
+
function_results: dict[tuple[int, int], Array] = {}
|
|
335
|
+
for output, (start, count) in zip(self.outputs, self._slots, strict=True):
|
|
336
|
+
if output.expression is not None:
|
|
337
|
+
values.append(self._broadcast(computed[start], size))
|
|
338
|
+
continue
|
|
339
|
+
key = (id(output.function), start)
|
|
340
|
+
if key not in function_results:
|
|
341
|
+
arguments = [
|
|
342
|
+
np.broadcast_to(np.asarray(value, dtype=float), (size,))
|
|
343
|
+
for value in computed[start : start + count]
|
|
344
|
+
]
|
|
345
|
+
function_results[key] = self._call(output, t, x, p, size=size, arguments=arguments)
|
|
346
|
+
values.append(function_results[key][:, output.component])
|
|
347
|
+
self.values_ = size, pairs, values
|
|
348
|
+
|
|
349
|
+
def _named_values(self, x: Array, p: Array, *, relative: bool) -> dict[str, object]:
|
|
350
|
+
"""Return the value of every state and parameter, by dotted name or by the name in the component."""
|
|
351
|
+
values: dict[str, object] = {**self.layout_states.values(x), **self.layout_parameters.values(p)}
|
|
352
|
+
if not relative:
|
|
353
|
+
return values
|
|
354
|
+
return {name: values[path] for name, path in (self.names or {}).items() if path in values}
|
|
355
|
+
|
|
356
|
+
def _keywords(self, output: OutputSpec) -> dict[str, np.random.Generator]:
|
|
357
|
+
"""Return the keyword arguments of a function: the random stream when it asks for it."""
|
|
358
|
+
if not output.random:
|
|
359
|
+
return {}
|
|
360
|
+
if self.stream is None:
|
|
361
|
+
error_msg = f'A function of {self.owner} asks for the random stream, which this kind of law does not take.'
|
|
362
|
+
raise ValidationError(error_msg)
|
|
363
|
+
return {'rng': self.stream.generator}
|
|
364
|
+
|
|
365
|
+
def _call(self, output: OutputSpec, t: float, x: Array, p: Array, *, size: int, arguments: list[Array]) -> Array:
|
|
366
|
+
"""Return the result of a function as one row per evaluation index and one column per component."""
|
|
367
|
+
function: Callable[..., object] | None = output.function
|
|
368
|
+
if function is None:
|
|
369
|
+
error_msg = f'The output of {self.owner} computed by a function holds no function.'
|
|
370
|
+
raise ValidationError(error_msg)
|
|
371
|
+
keywords = self._keywords(output)
|
|
372
|
+
if output.arguments is not None and not output.vectorized:
|
|
373
|
+
rows = [
|
|
374
|
+
np.atleast_1d(np.asarray(function(t, *row, **keywords), dtype=float))
|
|
375
|
+
for row in zip(*arguments, strict=True)
|
|
376
|
+
]
|
|
377
|
+
result = np.asarray(rows, dtype=float).reshape(size, -1) if rows else np.zeros((0, output.components))
|
|
378
|
+
return np.broadcast_to(result, (size, output.components))
|
|
379
|
+
if output.arguments is not None:
|
|
380
|
+
result = np.asarray(function(t, *arguments, **keywords), dtype=float)
|
|
381
|
+
else:
|
|
382
|
+
values = self._named_values(x, p, relative=output.relative)
|
|
383
|
+
result = np.asarray(function(t, values, **keywords), dtype=float)
|
|
384
|
+
if result.size == size * output.components:
|
|
385
|
+
return result.reshape(size, output.components)
|
|
386
|
+
return np.broadcast_to(result.reshape(-1)[: output.components], (size, output.components))
|
|
387
|
+
|
|
388
|
+
def _change_function(self, value: object) -> Callable[[float, Array, Array], Array]:
|
|
389
|
+
"""Return the function that gives the change of a jump for every evaluation index."""
|
|
390
|
+
relative = isinstance(value, CallSpec) and value.relative
|
|
391
|
+
function = value.function if isinstance(value, CallSpec) else value
|
|
392
|
+
if not callable(function) or (isinstance(value, CallSpec) and value.arguments):
|
|
393
|
+
error_msg = (
|
|
394
|
+
f'A change of a jump of {self.owner} is {value!r}. Give a number, a function `f(t, values)`, or '
|
|
395
|
+
'`CallSpec(f, relative=True)`.'
|
|
396
|
+
)
|
|
397
|
+
raise ValidationError(error_msg)
|
|
398
|
+
rows = self.rows
|
|
399
|
+
|
|
400
|
+
def change(t: float, x: Array, p: Array) -> Array:
|
|
401
|
+
values = self._named_values(x, p, relative=relative)
|
|
402
|
+
return np.broadcast_to(np.asarray(function(t, values), dtype=float), (rows,))
|
|
403
|
+
|
|
404
|
+
return change
|
|
405
|
+
|
|
406
|
+
@staticmethod
|
|
407
|
+
def _single_reader(is_state: bool, index: int) -> ReadFunction:
|
|
408
|
+
"""Return the function that reads one component shared by every evaluation index."""
|
|
409
|
+
if is_state:
|
|
410
|
+
return lambda x, p, pairs, t: x[index]
|
|
411
|
+
return lambda x, p, pairs, t: p[index]
|
|
412
|
+
|
|
413
|
+
@staticmethod
|
|
414
|
+
def _broadcast(value: npt.ArrayLike, size: int) -> Array:
|
|
415
|
+
"""Return the values of an output as one float per evaluation index."""
|
|
416
|
+
if np.ndim(value) == 0:
|
|
417
|
+
return np.full(size, value, dtype=float)
|
|
418
|
+
return np.broadcast_to(np.asarray(value, dtype=float), (size,))
|
|
419
|
+
|
|
420
|
+
@staticmethod
|
|
421
|
+
def _lower_noise(kernels: list['LawKernel']) -> tuple[Indices, Indices, int, tuple[WienerBlockSpec, ...]]:
|
|
422
|
+
"""Return the state and the Wiener process of every amplitude of noise kernels, with the processes they draw.
|
|
423
|
+
|
|
424
|
+
Processes are numbered in order of first use. An output without a named process takes one new process per
|
|
425
|
+
evaluation index, so noise without named processes draws one process per amplitude in evaluation order.
|
|
426
|
+
|
|
427
|
+
Args:
|
|
428
|
+
kernels:
|
|
429
|
+
The noise kernels in evaluation order.
|
|
430
|
+
|
|
431
|
+
Returns:
|
|
432
|
+
rows:
|
|
433
|
+
One state index per amplitude.
|
|
434
|
+
|
|
435
|
+
columns:
|
|
436
|
+
One process index per amplitude.
|
|
437
|
+
|
|
438
|
+
processes:
|
|
439
|
+
The number of processes.
|
|
440
|
+
|
|
441
|
+
blocks:
|
|
442
|
+
The blocks of correlated processes with their covariance factors.
|
|
443
|
+
"""
|
|
444
|
+
rows: list[Indices] = []
|
|
445
|
+
columns: list[Indices] = []
|
|
446
|
+
local: dict[object, Indices] = {}
|
|
447
|
+
starts: dict[object, int] = {}
|
|
448
|
+
blocks: list[WienerBlockSpec] = []
|
|
449
|
+
counter = [0, -1]
|
|
450
|
+
for kernel in kernels:
|
|
451
|
+
for item in kernel.outputs:
|
|
452
|
+
if item.target is None:
|
|
453
|
+
error_msg = f'A noise output of {kernel.owner} has no target.'
|
|
454
|
+
raise ValidationError(error_msg)
|
|
455
|
+
indices = LawKernel._member_indices(item.target, kernel.rows, kernel.pairs)
|
|
456
|
+
rows.append(indices)
|
|
457
|
+
columns.append(
|
|
458
|
+
LawKernel._process_columns(
|
|
459
|
+
item.process,
|
|
460
|
+
indices.size,
|
|
461
|
+
counter=counter,
|
|
462
|
+
local=local,
|
|
463
|
+
starts=starts,
|
|
464
|
+
blocks=blocks,
|
|
465
|
+
),
|
|
466
|
+
)
|
|
467
|
+
empty = np.zeros(0, dtype=np.intp)
|
|
468
|
+
return (
|
|
469
|
+
np.concatenate([empty, *rows]).astype(np.intp),
|
|
470
|
+
np.concatenate([empty, *columns]).astype(np.intp),
|
|
471
|
+
counter[0],
|
|
472
|
+
tuple(blocks),
|
|
473
|
+
)
|
|
474
|
+
|
|
475
|
+
@staticmethod
|
|
476
|
+
def _process_columns(
|
|
477
|
+
process: NoiseProcessSpec | None,
|
|
478
|
+
size: int,
|
|
479
|
+
*,
|
|
480
|
+
counter: list[int],
|
|
481
|
+
local: dict[object, Indices],
|
|
482
|
+
starts: dict[object, int],
|
|
483
|
+
blocks: list[WienerBlockSpec],
|
|
484
|
+
) -> Indices:
|
|
485
|
+
"""Return the process of every evaluation index of a noise output, numbering new processes in `counter`.
|
|
486
|
+
|
|
487
|
+
`counter` holds the number of processes so far and the column of the silent process, -1 until one links.
|
|
488
|
+
"""
|
|
489
|
+
if process is None:
|
|
490
|
+
counter[0] += size
|
|
491
|
+
return np.arange(counter[0] - size, counter[0], dtype=np.intp)
|
|
492
|
+
if process.key not in starts and (process.links is not None or process.dimension):
|
|
493
|
+
starts[process.key] = counter[0]
|
|
494
|
+
if process.factor is not None and process.links is None:
|
|
495
|
+
blocks.append(WienerBlockSpec(counter[0], process.dimension, process.factor))
|
|
496
|
+
counter[0] += process.dimension
|
|
497
|
+
if process.links is not None:
|
|
498
|
+
links = process.links
|
|
499
|
+
if np.all(links >= 0):
|
|
500
|
+
return (starts[process.key] + links).astype(np.intp)
|
|
501
|
+
if counter[1] < 0:
|
|
502
|
+
counter[1] = counter[0]
|
|
503
|
+
blocks.append(WienerBlockSpec(counter[0], 1, np.zeros((1, 1))))
|
|
504
|
+
counter[0] += 1
|
|
505
|
+
return np.where(links >= 0, starts[process.key] + links, counter[1]).astype(np.intp)
|
|
506
|
+
if process.dimension:
|
|
507
|
+
return np.full(size, starts[process.key] + process.index, dtype=np.intp)
|
|
508
|
+
if process.key not in local:
|
|
509
|
+
counter[0] += size
|
|
510
|
+
local[process.key] = np.arange(counter[0] - size, counter[0], dtype=np.intp)
|
|
511
|
+
if local[process.key].size != size:
|
|
512
|
+
error_msg = (
|
|
513
|
+
f'The noise process {process.key!r} drives members of groups of different sizes. Name one process per '
|
|
514
|
+
'group.'
|
|
515
|
+
)
|
|
516
|
+
raise ValidationError(error_msg)
|
|
517
|
+
return local[process.key]
|
|
518
|
+
|
|
519
|
+
@staticmethod
|
|
520
|
+
def _jump_channels(
|
|
521
|
+
kernels: list['LawKernel'],
|
|
522
|
+
changes: Mapping[int, list[tuple[ReferenceSpec, object]]],
|
|
523
|
+
) -> tuple[_JumpChannelsSpec, ...]:
|
|
524
|
+
"""Return the channels of every jump law of jump kernels.
|
|
525
|
+
|
|
526
|
+
Args:
|
|
527
|
+
kernels:
|
|
528
|
+
The jump kernels in evaluation order.
|
|
529
|
+
|
|
530
|
+
changes:
|
|
531
|
+
The changes of every jump output, keyed by the output's identity.
|
|
532
|
+
|
|
533
|
+
Returns:
|
|
534
|
+
channels:
|
|
535
|
+
One set of channels per jump law.
|
|
536
|
+
"""
|
|
537
|
+
channels, offset = [], 0
|
|
538
|
+
for kernel in kernels:
|
|
539
|
+
for item in kernel.outputs:
|
|
540
|
+
law_changes = changes[id(item)]
|
|
541
|
+
targets = np.array(
|
|
542
|
+
[LawKernel._member_indices(reference, kernel.rows, kernel.pairs) for reference, _ in law_changes],
|
|
543
|
+
dtype=np.intp,
|
|
544
|
+
).reshape(len(law_changes), kernel.rows)
|
|
545
|
+
increments = np.array(
|
|
546
|
+
[increment if isinstance(increment, float) else np.nan for _, increment in law_changes],
|
|
547
|
+
dtype=float,
|
|
548
|
+
)
|
|
549
|
+
functions = tuple(
|
|
550
|
+
None if isinstance(increment, float) else kernel._change_function(increment)
|
|
551
|
+
for _, increment in law_changes
|
|
552
|
+
)
|
|
553
|
+
channels.append(
|
|
554
|
+
_JumpChannelsSpec(offset, targets, increments, functions if any(functions) else ()),
|
|
555
|
+
)
|
|
556
|
+
offset += kernel.rows
|
|
557
|
+
return tuple(channels)
|
|
558
|
+
|
|
559
|
+
@staticmethod
|
|
560
|
+
def _member_indices(reference: ReferenceSpec, rows: int, pairs: PairsSearch | None = None) -> Indices:
|
|
561
|
+
"""Return the flat index of a target component for every evaluation index of a member or edge kernel.
|
|
562
|
+
|
|
563
|
+
Args:
|
|
564
|
+
reference:
|
|
565
|
+
The target component.
|
|
566
|
+
|
|
567
|
+
rows:
|
|
568
|
+
The number of evaluation indices of the kernel.
|
|
569
|
+
|
|
570
|
+
pairs:
|
|
571
|
+
The edges of an edge kernel, whose ends targets of the source and target roles index, or `None`.
|
|
572
|
+
|
|
573
|
+
Returns:
|
|
574
|
+
indices:
|
|
575
|
+
One flat index per evaluation index.
|
|
576
|
+
|
|
577
|
+
Raises:
|
|
578
|
+
ValidationError:
|
|
579
|
+
A target of an end of an edge lies on a network whose edges change.
|
|
580
|
+
"""
|
|
581
|
+
if reference.source is ReadKind.MEMBER:
|
|
582
|
+
return reference.flat_indices
|
|
583
|
+
if reference.source in {ReadKind.FIRST, ReadKind.SECOND} and isinstance(pairs, EdgeSearch):
|
|
584
|
+
if pairs.source is not None:
|
|
585
|
+
error_msg = (
|
|
586
|
+
f'A law targets {reference.entry.name} at an end of the edges of a network whose edges change, '
|
|
587
|
+
'whose ends a fixed channel cannot follow. Target the edge member, or the node through its own '
|
|
588
|
+
'laws.'
|
|
589
|
+
)
|
|
590
|
+
raise ValidationError(error_msg)
|
|
591
|
+
ends = pairs.sources if reference.source is ReadKind.FIRST else pairs.targets
|
|
592
|
+
return (reference.entry.start + ends * reference.entry.columns + reference.column).astype(np.intp)
|
|
593
|
+
if reference.source is ReadKind.NEIGHBOR:
|
|
594
|
+
if reference.shifted.entry is not None:
|
|
595
|
+
error_msg = (
|
|
596
|
+
f'A law targets {reference.entry.name} at the members of hyperedges that change during a run, '
|
|
597
|
+
'whose members a fixed channel cannot follow. Write a rate or an update in place of a jump.'
|
|
598
|
+
)
|
|
599
|
+
raise ValidationError(error_msg)
|
|
600
|
+
table = np.asarray(reference.shifted.table, dtype=np.intp)
|
|
601
|
+
inside = table < reference.entry.rows
|
|
602
|
+
flat = reference.entry.start + table * reference.entry.columns + reference.column
|
|
603
|
+
return np.where(inside, flat, -1).astype(np.intp)
|
|
604
|
+
return np.full(rows, reference.entry.start + reference.column, dtype=np.intp)
|
|
@@ -0,0 +1,67 @@
|
|
|
1
|
+
"""Define the learning problem spec."""
|
|
2
|
+
|
|
3
|
+
# Author: Georgios Douzas <gdouzas@icloud.com>
|
|
4
|
+
# License: MIT
|
|
5
|
+
|
|
6
|
+
from collections.abc import Mapping
|
|
7
|
+
from dataclasses import dataclass, field
|
|
8
|
+
|
|
9
|
+
from ...core.laws import GradientStepLaw
|
|
10
|
+
from ..types import TracedFunction
|
|
11
|
+
from ._base_problem_spec import BaseProblemSpec
|
|
12
|
+
from ._problem_spec import ProblemSpec
|
|
13
|
+
|
|
14
|
+
|
|
15
|
+
@dataclass(frozen=True)
|
|
16
|
+
class LearningProblemSpec(BaseProblemSpec):
|
|
17
|
+
"""Problem of a system that trains the adaptive parameters of a nested system by gradient steps, once per epoch.
|
|
18
|
+
|
|
19
|
+
Its states are the trained parameters, named by their paths from the root, and its parameters are the
|
|
20
|
+
hyperparameters of the optimizer. The nested system is compiled to its own problem, a discrete map or ordinary
|
|
21
|
+
differential equations, which the solver unrolls over the sequences of the dataset.
|
|
22
|
+
|
|
23
|
+
Args:
|
|
24
|
+
inner:
|
|
25
|
+
The problem of the nested system, compiled by the JAX backend.
|
|
26
|
+
|
|
27
|
+
model:
|
|
28
|
+
The path of the nested system.
|
|
29
|
+
|
|
30
|
+
training:
|
|
31
|
+
The path of the interaction that returns the law.
|
|
32
|
+
|
|
33
|
+
law:
|
|
34
|
+
The gradient-step law.
|
|
35
|
+
|
|
36
|
+
trained:
|
|
37
|
+
The names of the trained parameters in the states of the inner problem, in the order of the states.
|
|
38
|
+
|
|
39
|
+
hyperparameters:
|
|
40
|
+
A mapping from the name of every hyperparameter of the optimizer to its name in the parameters.
|
|
41
|
+
|
|
42
|
+
step:
|
|
43
|
+
The pure JAX function `f(t, x, p)` of the inner problem, its update or its drift.
|
|
44
|
+
|
|
45
|
+
measures:
|
|
46
|
+
A mapping from `'loss'` and the label of every metric to the pure JAX function `o(t, x, p)` of its value.
|
|
47
|
+
|
|
48
|
+
Examples:
|
|
49
|
+
>>> import numpy as np
|
|
50
|
+
>>> from skcomplex.types import FormKind
|
|
51
|
+
>>> from skcomplex.engine._utils import symbol
|
|
52
|
+
>>> from skcomplex.specs import LayoutSpec
|
|
53
|
+
>>> from skcomplex.engine.problems import LearningProblemSpec
|
|
54
|
+
>>> layout = LayoutSpec(())
|
|
55
|
+
>>> problem = LearningProblemSpec(FormKind.LEARNING, layout, layout, np.zeros(0), np.zeros(0), symbol('t'))
|
|
56
|
+
>>> problem.form.value, problem.trained
|
|
57
|
+
('learning by gradient steps', ())
|
|
58
|
+
"""
|
|
59
|
+
|
|
60
|
+
inner: ProblemSpec | None = field(default=None, repr=False)
|
|
61
|
+
model: str = ''
|
|
62
|
+
training: str = ''
|
|
63
|
+
law: GradientStepLaw | None = field(default=None, repr=False)
|
|
64
|
+
trained: tuple[str, ...] = ()
|
|
65
|
+
hyperparameters: Mapping[str, str] = field(default_factory=dict)
|
|
66
|
+
step: TracedFunction | None = field(default=None, repr=False)
|
|
67
|
+
measures: Mapping[str, TracedFunction] = field(default_factory=dict, repr=False)
|