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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"""Pass that checks the Hurst index and amplitude of fractional noise laws, with Hurst index 1/2 as noise laws."""
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# Author: Georgios Douzas <gdouzas@icloud.com>
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# License: MIT
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from __future__ import annotations
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import numpy as np
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from sage.all__sagemath_symbolics import SR, Expression
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from sage.modules.free_module_element import FreeModuleElement
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from ....core.laws import BaseLaw, FractionalNoiseLaw, NoiseLaw
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from ....errors import ValidationError
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from ..._utils import components_of, symbols_of
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from ...problems import DeclarationsSpec, KernelSpec
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from .._base import BasePass
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from .._compilation import Compilation
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BROWNIAN_HURST = 0.5
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class CheckFractionalNoisePass(BasePass):
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"""Pass that checks the Hurst index and amplitude of fractional noise laws, with Hurst index 1/2 as noise laws."""
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def _get_reads(self) -> tuple[str, ...]:
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"""Return the fields of the compilation the pass reads."""
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def _run(self, inputs: object = None) -> None:
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"""Check the fractional noise laws."""
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compilation = self.compilation_
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declarations = Compilation._required(compilation.layout, 'layout')
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compilation.lowered = [
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(spec, self._checked_fractional(spec, laws, declarations), block)
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for spec, laws, block in Compilation._required(compilation.lowered, 'lowered')
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]
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@staticmethod
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def _checked_hurst(
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spec: KernelSpec,
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law: FractionalNoiseLaw,
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declarations: DeclarationsSpec,
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description: str,
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) -> None:
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"""Raise an error when the Hurst index of a fractional noise law is not a number or a parameter in `(0, 1)`."""
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hurst = SR(law.hurst)
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if hurst.is_numeric():
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values = np.asarray([float(hurst)])
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else:
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reference = spec.references.get(hurst)
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if reference is None or reference.is_state:
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error_msg = (
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f'The {description} of {spec.owner} has the Hurst index {hurst}. Give a number or a parameter.'
|
|
58
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+
)
|
|
59
|
+
raise ValidationError(error_msg)
|
|
60
|
+
parameters = np.concatenate([np.zeros(0), *declarations.initial_parameters])
|
|
61
|
+
values = np.asarray(reference.column_of(np.zeros(0), parameters), dtype=float)
|
|
62
|
+
if not np.all((values > 0) & (values < 1)):
|
|
63
|
+
error_msg = (
|
|
64
|
+
f'The {description} of {spec.owner} has the Hurst index {hurst} = {values[0]}, outside the open '
|
|
65
|
+
'interval (0, 1). Give a Hurst index between 0 and 1.'
|
|
66
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+
)
|
|
67
|
+
raise ValidationError(error_msg)
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|
68
|
+
|
|
69
|
+
@staticmethod
|
|
70
|
+
def _checked_fractional(spec: KernelSpec, laws: list[BaseLaw], declarations: DeclarationsSpec) -> list[BaseLaw]:
|
|
71
|
+
"""Return laws with every fractional noise law of Hurst index 1/2 as a noise law, after checking the others."""
|
|
72
|
+
result: list[BaseLaw] = []
|
|
73
|
+
for law in laws:
|
|
74
|
+
if not isinstance(law, FractionalNoiseLaw):
|
|
75
|
+
result.append(law)
|
|
76
|
+
continue
|
|
77
|
+
description = CheckFractionalNoisePass._fractional_description(spec, law)
|
|
78
|
+
CheckFractionalNoisePass._checked_hurst(spec, law, declarations, description)
|
|
79
|
+
if SR(law.hurst).is_numeric() and float(SR(law.hurst)) == BROWNIAN_HURST:
|
|
80
|
+
result.append(NoiseLaw(law._get_targets()[0], law.value, law.order))
|
|
81
|
+
continue
|
|
82
|
+
values = [item for item in components_of(law.value) if isinstance(item, Expression)]
|
|
83
|
+
if not isinstance(law.value, Expression | FreeModuleElement) and not SR(law.value).is_numeric():
|
|
84
|
+
error_msg = (
|
|
85
|
+
f'The {description} of {spec.owner} has an amplitude that is not symbolic. Give an expression.'
|
|
86
|
+
)
|
|
87
|
+
raise ValidationError(error_msg)
|
|
88
|
+
read = [
|
|
89
|
+
item
|
|
90
|
+
for item in sorted(symbols_of(values), key=str)
|
|
91
|
+
if (reference := spec.references.get(item)) is not None and reference.is_state
|
|
92
|
+
]
|
|
93
|
+
if read:
|
|
94
|
+
error_msg = (
|
|
95
|
+
f'The {description} of {spec.owner} has an amplitude that depends on the state '
|
|
96
|
+
f'{spec._state_name(read[0])}. Only state-independent amplitudes are supported for a '
|
|
97
|
+
'Hurst index other than 1/2.'
|
|
98
|
+
)
|
|
99
|
+
raise ValidationError(error_msg)
|
|
100
|
+
result.append(law)
|
|
101
|
+
return result
|
|
102
|
+
|
|
103
|
+
@staticmethod
|
|
104
|
+
def _fractional_description(spec: KernelSpec, law: FractionalNoiseLaw) -> str:
|
|
105
|
+
"""Return the description of a fractional noise law by the states it drives."""
|
|
106
|
+
states = dict.fromkeys(spec._state_name(item) for item in components_of(law._get_targets()[0]))
|
|
107
|
+
return f'fractional noise law of {", ".join(states)}'
|
|
@@ -0,0 +1,31 @@
|
|
|
1
|
+
"""Collect the laws every component declares for its kernel spec."""
|
|
2
|
+
|
|
3
|
+
# Author: Georgios Douzas <gdouzas@icloud.com>
|
|
4
|
+
# License: MIT
|
|
5
|
+
|
|
6
|
+
|
|
7
|
+
from .._base import BasePass
|
|
8
|
+
from .._compilation import Compilation
|
|
9
|
+
from ._census import CensusPass
|
|
10
|
+
|
|
11
|
+
|
|
12
|
+
class CollectPass(BasePass):
|
|
13
|
+
"""Pass that collects the declared laws of every kernel spec, with no laws set apart yet."""
|
|
14
|
+
|
|
15
|
+
def _get_reads(self) -> tuple[str, ...]:
|
|
16
|
+
"""Return the fields of the compilation the pass reads."""
|
|
17
|
+
return ('specs',)
|
|
18
|
+
|
|
19
|
+
def _get_writes(self) -> tuple[str, ...]:
|
|
20
|
+
"""Return the fields of the compilation the pass writes."""
|
|
21
|
+
return ('collected', 'apart')
|
|
22
|
+
|
|
23
|
+
def _run(self, inputs: object = None) -> None:
|
|
24
|
+
"""Collect the laws of every kernel spec."""
|
|
25
|
+
compilation = self.compilation_
|
|
26
|
+
specs = Compilation._required(compilation.specs, 'specs')
|
|
27
|
+
compilation.collected = [
|
|
28
|
+
(spec, CensusPass._declared_laws(spec, CensusPass._component_of(block.node)), block)
|
|
29
|
+
for spec, block in specs
|
|
30
|
+
]
|
|
31
|
+
compilation.apart = []
|
|
@@ -0,0 +1,301 @@
|
|
|
1
|
+
"""Pass that compiles the encounter laws before reductions prune the groups they read, and takes them out."""
|
|
2
|
+
|
|
3
|
+
# Author: Georgios Douzas <gdouzas@icloud.com>
|
|
4
|
+
# License: MIT
|
|
5
|
+
|
|
6
|
+
from collections.abc import Mapping, Sequence
|
|
7
|
+
|
|
8
|
+
import numpy as np
|
|
9
|
+
import numpy.typing as npt
|
|
10
|
+
from sage.all__sagemath_symbolics import SR, Expression
|
|
11
|
+
|
|
12
|
+
from ....core.elements import FieldElement
|
|
13
|
+
from ....core.laws import BaseLaw, BilinearLaw, EncounterLaw
|
|
14
|
+
from ....core.laws.utils import COORDINATE_PREFIX, coordinate
|
|
15
|
+
from ....core.spaces import PhaseSpace
|
|
16
|
+
from ....errors import ValidationError
|
|
17
|
+
from ....specs import TableValuesSpec
|
|
18
|
+
from ....types import Indices
|
|
19
|
+
from ..._utils import symbols_of
|
|
20
|
+
from ...backends import BaseBackend
|
|
21
|
+
from ...problems import DeclarationsSpec, ReferenceSpec
|
|
22
|
+
from ...problems._encounter_kernel import EncounterKernel
|
|
23
|
+
from ...types import KineticLaw, ReadKind
|
|
24
|
+
from .._base import BaseCompiler, BasePass
|
|
25
|
+
from .._compilation import Compilation, Laws
|
|
26
|
+
|
|
27
|
+
_KINETIC_LAWS = (EncounterLaw, BilinearLaw)
|
|
28
|
+
|
|
29
|
+
|
|
30
|
+
class CompileEncountersPass(BasePass):
|
|
31
|
+
"""Pass that compiles the encounter laws before reductions prune the groups they read, and takes them out."""
|
|
32
|
+
|
|
33
|
+
def _get_reads(self) -> tuple[str, ...]:
|
|
34
|
+
"""Return the fields of the compilation the pass reads."""
|
|
35
|
+
return ('drawn', 'layout')
|
|
36
|
+
|
|
37
|
+
def _get_writes(self) -> tuple[str, ...]:
|
|
38
|
+
"""Return the fields of the compilation the pass writes."""
|
|
39
|
+
return ('drawn', 'encounters')
|
|
40
|
+
|
|
41
|
+
def _run(self, inputs: object = None) -> None:
|
|
42
|
+
"""Compile the encounter laws of the drawn laws."""
|
|
43
|
+
compilation = self.compilation_
|
|
44
|
+
specs = Compilation._required(compilation.drawn, 'drawn')
|
|
45
|
+
declarations = Compilation._required(compilation.layout, 'layout')
|
|
46
|
+
compilation.encounters = self._compiled_encounters(specs, declarations, compilation.backend)
|
|
47
|
+
compilation.drawn = [
|
|
48
|
+
(spec, [law for law in laws if not isinstance(law, _KINETIC_LAWS)]) for spec, laws in specs
|
|
49
|
+
]
|
|
50
|
+
|
|
51
|
+
@staticmethod
|
|
52
|
+
def _compiled_encounters(
|
|
53
|
+
specs: Laws,
|
|
54
|
+
declarations: DeclarationsSpec,
|
|
55
|
+
backend: BaseBackend | None,
|
|
56
|
+
) -> tuple[EncounterKernel, ...]:
|
|
57
|
+
"""Return the encounter laws of every component, lowered for their members."""
|
|
58
|
+
if not any(isinstance(law, _KINETIC_LAWS) for _, laws in specs for law in laws):
|
|
59
|
+
return ()
|
|
60
|
+
members = declarations.members
|
|
61
|
+
fused = BaseCompiler._resolve_backend(backend, members)._get_name() == 'numba'
|
|
62
|
+
components = [(spec.owner, dict(spec.references), laws) for spec, laws in specs]
|
|
63
|
+
phases = {
|
|
64
|
+
entry.name: block.node.component.space
|
|
65
|
+
for block in declarations.blocks.values()
|
|
66
|
+
if isinstance(block.node.component, FieldElement) and isinstance(block.node.component.space, PhaseSpace)
|
|
67
|
+
for entry in block.entries.values()
|
|
68
|
+
}
|
|
69
|
+
return CompileEncountersPass._compile_encounters(components, declarations.time, fused=fused, phases=phases)
|
|
70
|
+
|
|
71
|
+
@staticmethod
|
|
72
|
+
def _nonzero(table: npt.NDArray[np.generic]) -> tuple[Indices, ...]:
|
|
73
|
+
"""Return the indices of the entries of a table that are not zero, numbers or Sage expressions."""
|
|
74
|
+
if table.dtype != object:
|
|
75
|
+
return tuple(np.asarray(item, dtype=np.intp) for item in np.nonzero(table))
|
|
76
|
+
mask = np.vectorize(lambda entry: not (SR(entry).is_numeric() and SR(entry) == 0), otypes=[bool])(table)
|
|
77
|
+
return tuple(np.asarray(item, dtype=np.intp) for item in np.nonzero(mask))
|
|
78
|
+
|
|
79
|
+
@staticmethod
|
|
80
|
+
def _group_indices(item: Expression | None, references: Mapping[Expression, ReferenceSpec], owner: str) -> Indices:
|
|
81
|
+
"""Return the flat state indices of the density a symbol of an encounter stands for, one per activity."""
|
|
82
|
+
reference = references.get(item) if item is not None else None
|
|
83
|
+
if reference is None or not reference.is_state or reference.source is not ReadKind.MEMBER:
|
|
84
|
+
error_msg = (
|
|
85
|
+
f'An encounter law of {owner} reads {item}, which is not a state of a group bound to a role. '
|
|
86
|
+
'Encounters read the densities of groups on the sites of activity lattices, such as `s.candidate.f`.'
|
|
87
|
+
)
|
|
88
|
+
raise ValidationError(error_msg)
|
|
89
|
+
return reference.flat_indices.astype(np.intp)
|
|
90
|
+
|
|
91
|
+
@staticmethod
|
|
92
|
+
def _parameter_indices(
|
|
93
|
+
table: npt.NDArray[np.generic],
|
|
94
|
+
references: Mapping[Expression, ReferenceSpec],
|
|
95
|
+
owner: str,
|
|
96
|
+
) -> dict[Expression, int]:
|
|
97
|
+
"""Return the flat parameter index of every symbol of a table, after checking that it is a parameter."""
|
|
98
|
+
if table.dtype != object:
|
|
99
|
+
return {}
|
|
100
|
+
indices = {}
|
|
101
|
+
for item in sorted(symbols_of([SR(entry) for entry in table.ravel()]), key=str):
|
|
102
|
+
reference = references.get(item)
|
|
103
|
+
if reference is None or reference.is_state:
|
|
104
|
+
error_msg = (
|
|
105
|
+
f'An encounter law of {owner} reads {item} in its rates or outcome probabilities, which is not a '
|
|
106
|
+
'parameter. Write encounter rates and probabilities with numbers and parameters.'
|
|
107
|
+
)
|
|
108
|
+
raise ValidationError(error_msg)
|
|
109
|
+
indices[item] = reference.index
|
|
110
|
+
return indices
|
|
111
|
+
|
|
112
|
+
@staticmethod
|
|
113
|
+
def _rate_of_classes(rate: object, space: PhaseSpace | None, sizes: tuple[int, int, int]) -> object:
|
|
114
|
+
"""Return a rate that reads class coordinates as its table `eta[h, k]`, at the classes of the candidate."""
|
|
115
|
+
names = [str(item) for item in SR(rate).variables()] if isinstance(rate, Expression) else []
|
|
116
|
+
coordinates = [item for item in names if item.startswith(COORDINATE_PREFIX)]
|
|
117
|
+
if space is None or not coordinates:
|
|
118
|
+
return rate
|
|
119
|
+
points = np.meshgrid(*(space.coordinates_[axis.name] for axis in space.axes), indexing='ij')
|
|
120
|
+
grid = {coordinate(axis.name): point.ravel() for axis, point in zip(space.axes, points, strict=True)}
|
|
121
|
+
rows = [SR(rate).subs({item: float(values[row]) for item, values in grid.items()}) for row in range(sizes[0])]
|
|
122
|
+
return np.tile(np.asarray(rows, dtype=object)[:, None], (1, sizes[1]))
|
|
123
|
+
|
|
124
|
+
@staticmethod
|
|
125
|
+
def _checked_rate(
|
|
126
|
+
law: KineticLaw,
|
|
127
|
+
sizes: tuple[int, int, int],
|
|
128
|
+
owner: str,
|
|
129
|
+
space: PhaseSpace | None = None,
|
|
130
|
+
) -> npt.NDArray[np.generic]:
|
|
131
|
+
"""Return the rate table of a law, after checking that it has one row per candidate and one column per field."""
|
|
132
|
+
rate = CompileEncountersPass._kinetic_table(CompileEncountersPass._rate_of_classes(law.rate, space, sizes))
|
|
133
|
+
if rate.ndim and rate.shape != sizes[:2]:
|
|
134
|
+
error_msg = (
|
|
135
|
+
f'An encounter law of {owner} has a rate of shape {rate.shape}, but its candidate and field groups '
|
|
136
|
+
f'need the shape {sizes[:2]}.'
|
|
137
|
+
)
|
|
138
|
+
raise ValidationError(error_msg)
|
|
139
|
+
return rate
|
|
140
|
+
|
|
141
|
+
@staticmethod
|
|
142
|
+
def _outcome_table(law: KineticLaw, sizes: tuple[int, int, int], owner: str) -> npt.NDArray[np.generic]:
|
|
143
|
+
"""Return the outcome table of a law, the identity on the candidate's activity without one."""
|
|
144
|
+
value = law.transition if isinstance(law, EncounterLaw) else law.outcomes
|
|
145
|
+
if value is None:
|
|
146
|
+
if sizes[0] != sizes[2]:
|
|
147
|
+
error_msg = (
|
|
148
|
+
f'A bilinear law of {owner} has no outcome table, so the particles keep the candidate '
|
|
149
|
+
f'activity, but the target has {sizes[2]} activities and the candidate {sizes[0]}. Give the '
|
|
150
|
+
'outcome table.'
|
|
151
|
+
)
|
|
152
|
+
raise ValidationError(error_msg)
|
|
153
|
+
identity = np.zeros(sizes)
|
|
154
|
+
identity[np.arange(sizes[0]), :, np.arange(sizes[0])] = 1.0
|
|
155
|
+
return identity
|
|
156
|
+
table = CompileEncountersPass._kinetic_table(value)
|
|
157
|
+
if table.shape != sizes:
|
|
158
|
+
error_msg = (
|
|
159
|
+
f'An encounter law of {owner} has an outcome table of shape {table.shape}, but its candidate, field, '
|
|
160
|
+
f'and test groups need the shape {sizes}.'
|
|
161
|
+
)
|
|
162
|
+
raise ValidationError(error_msg)
|
|
163
|
+
return table
|
|
164
|
+
|
|
165
|
+
@staticmethod
|
|
166
|
+
def _compile_encounter(
|
|
167
|
+
law: KineticLaw,
|
|
168
|
+
owner: str,
|
|
169
|
+
references: Mapping[Expression, ReferenceSpec],
|
|
170
|
+
time: Expression,
|
|
171
|
+
*,
|
|
172
|
+
fused: bool = False,
|
|
173
|
+
phases: Mapping[str, PhaseSpace] | None = None,
|
|
174
|
+
) -> EncounterKernel:
|
|
175
|
+
"""Return an encounter law lowered to sparse contractions over the densities its roles bind.
|
|
176
|
+
|
|
177
|
+
Args:
|
|
178
|
+
law:
|
|
179
|
+
The encounter or bilinear law.
|
|
180
|
+
|
|
181
|
+
owner:
|
|
182
|
+
The path of the component that returns the law.
|
|
183
|
+
|
|
184
|
+
references:
|
|
185
|
+
The references of the symbols of the component's namespace.
|
|
186
|
+
|
|
187
|
+
time:
|
|
188
|
+
The time symbol.
|
|
189
|
+
|
|
190
|
+
fused:
|
|
191
|
+
Whether the gain runs in one fused loop compiled with Numba.
|
|
192
|
+
|
|
193
|
+
phases:
|
|
194
|
+
The phase space of every entry of a field on one, whose encounters run at every position.
|
|
195
|
+
|
|
196
|
+
Returns:
|
|
197
|
+
encounter:
|
|
198
|
+
The compiled law.
|
|
199
|
+
|
|
200
|
+
Raises:
|
|
201
|
+
ValidationError:
|
|
202
|
+
A density is not a state of a group, a table has the wrong shape, or a table reads a state.
|
|
203
|
+
"""
|
|
204
|
+
bilinear = isinstance(law, BilinearLaw)
|
|
205
|
+
first, second = (law.first, law.second) if bilinear else (law.candidate, law.field)
|
|
206
|
+
candidate = CompileEncountersPass._group_indices(first, references, owner)
|
|
207
|
+
linear = not bilinear and second is None
|
|
208
|
+
empty = np.zeros(0, dtype=np.intp)
|
|
209
|
+
field_indices = empty if linear else CompileEncountersPass._group_indices(second, references, owner)
|
|
210
|
+
space = (phases or {}).get(references[first].entry.name)
|
|
211
|
+
positions = 1 if space is None else space.position_size_
|
|
212
|
+
test_symbol = law.target if bilinear else law.test
|
|
213
|
+
test = (
|
|
214
|
+
candidate if test_symbol is None else CompileEncountersPass._group_indices(test_symbol, references, owner)
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)
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sizes = (candidate.size // positions, max(field_indices.size // positions, 1), test.size // positions)
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rates = CompileEncountersPass._checked_rate(law, sizes, owner, space)
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table = CompileEncountersPass._outcome_table(law, sizes, owner)
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grid = tuple(item.ravel().astype(np.intp) for item in np.indices(sizes[:2]))
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rate = TableValuesSpec(rates, grid, CompileEncountersPass._parameter_indices(rates, references, owner), time)
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nonzero = CompileEncountersPass._nonzero(table)
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entries = (nonzero[0], nonzero[1], nonzero[2])
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probabilities = TableValuesSpec(
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table,
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nonzero,
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CompileEncountersPass._parameter_indices(table, references, owner),
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time,
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)
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return (
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EncounterKernel(
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owner,
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'bilinear' if bilinear else 'transition',
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candidate,
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field_indices,
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test,
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rate=rate,
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entries=entries,
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probabilities=probabilities,
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fused=fused,
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positions=positions,
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)
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.check()
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.prepare()
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)
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@staticmethod
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def _compile_encounters(
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components: Sequence[tuple[str, Mapping[Expression, ReferenceSpec], Sequence[BaseLaw]]],
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time: Expression,
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*,
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fused: bool = False,
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phases: Mapping[str, PhaseSpace] | None = None,
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) -> tuple[EncounterKernel, ...]:
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"""Return the encounter laws of every component, lowered in declaration order.
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+
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Args:
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components:
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The path, the references of the namespace, and the laws of every component.
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+
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time:
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The time symbol.
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+
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fused:
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Whether the gains run in fused loops compiled with Numba.
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+
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+
phases:
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The phase space of every entry of a field on one.
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+
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+
Returns:
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encounters:
|
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The compiled laws.
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+
"""
|
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+
return tuple(
|
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|
+
CompileEncountersPass._compile_encounter(law, owner, references, time, fused=fused, phases=phases)
|
|
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+
for owner, references, laws in components
|
|
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for law in laws
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if isinstance(law, _KINETIC_LAWS)
|
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+
)
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+
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+
@staticmethod
|
|
281
|
+
def _kinetic_table(value: object) -> npt.NDArray[np.generic]:
|
|
282
|
+
"""Return a rate or outcome table of an encounter law as an array of floats, or of Sage expressions.
|
|
283
|
+
|
|
284
|
+
Args:
|
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|
+
value:
|
|
286
|
+
The table, a number, a Sage expression, or a nested sequence of them.
|
|
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|
+
|
|
288
|
+
Returns:
|
|
289
|
+
table:
|
|
290
|
+
A float array when every entry is a number, otherwise an object array of Sage expressions.
|
|
291
|
+
|
|
292
|
+
Examples:
|
|
293
|
+
>>> from skcomplex.engine.compile.passes._compile_encounters import CompileEncountersPass
|
|
294
|
+
>>> CompileEncountersPass._kinetic_table([[0.5, 0.5]]).dtype
|
|
295
|
+
dtype('float64')
|
|
296
|
+
"""
|
|
297
|
+
array = np.asarray(value, dtype=object)
|
|
298
|
+
try:
|
|
299
|
+
return np.asarray(array, dtype=float)
|
|
300
|
+
except TypeError:
|
|
301
|
+
return np.asarray(np.vectorize(SR, otypes=[object])(array), dtype=object)
|
|
@@ -0,0 +1,198 @@
|
|
|
1
|
+
"""Split the laws of complex states into laws of their real and imaginary parts."""
|
|
2
|
+
|
|
3
|
+
# Author: Georgios Douzas <gdouzas@icloud.com>
|
|
4
|
+
# License: MIT
|
|
5
|
+
|
|
6
|
+
import numbers
|
|
7
|
+
from collections.abc import Callable
|
|
8
|
+
|
|
9
|
+
import numpy as np
|
|
10
|
+
from sage.all__sagemath_symbolics import SR, Expression, I
|
|
11
|
+
from sage.modules.free_module_element import FreeModuleElement
|
|
12
|
+
|
|
13
|
+
from ....core.laws import BaseLaw, BoundaryLaw, CrossingLaw, EquationLaw, JumpLaw, NoiseLaw, RateLaw, UpdateLaw
|
|
14
|
+
from ....errors import ValidationError
|
|
15
|
+
from ....specs import CallSpec
|
|
16
|
+
from ..._utils import components_of
|
|
17
|
+
from .._base import BasePass
|
|
18
|
+
from .._compilation import Compilation
|
|
19
|
+
from .._complex import _is_zero, _real, _split_complex
|
|
20
|
+
from .._laws import _AGENT_LAWS
|
|
21
|
+
from ._kernels import KernelsPass
|
|
22
|
+
|
|
23
|
+
|
|
24
|
+
class LowerComplexPass(BasePass):
|
|
25
|
+
"""Pass that splits every law of a complex state into the laws of its real and imaginary parts."""
|
|
26
|
+
|
|
27
|
+
def _get_reads(self) -> tuple[str, ...]:
|
|
28
|
+
"""Return the fields of the compilation the pass reads."""
|
|
29
|
+
return ('collected',)
|
|
30
|
+
|
|
31
|
+
def _get_writes(self) -> tuple[str, ...]:
|
|
32
|
+
"""Return the fields of the compilation the pass writes."""
|
|
33
|
+
return ('lowered',)
|
|
34
|
+
|
|
35
|
+
def _run(self, inputs: object = None) -> None:
|
|
36
|
+
"""Split the collected laws of complex states."""
|
|
37
|
+
compilation = self.compilation_
|
|
38
|
+
compilation.lowered = [
|
|
39
|
+
(
|
|
40
|
+
spec,
|
|
41
|
+
[item for law in laws for item in self._split_law(law, spec.owner, spec._state_name)],
|
|
42
|
+
block,
|
|
43
|
+
)
|
|
44
|
+
for spec, laws, block in Compilation._required(compilation.collected, 'collected')
|
|
45
|
+
]
|
|
46
|
+
|
|
47
|
+
@staticmethod
|
|
48
|
+
def _split_value(
|
|
49
|
+
targets: list[Expression],
|
|
50
|
+
values: list[Expression],
|
|
51
|
+
description: str,
|
|
52
|
+
state_of: Callable[[Expression], str],
|
|
53
|
+
) -> tuple[list[Expression], list[Expression]]:
|
|
54
|
+
"""Return the real targets and real values of a law, two of each for every complex target."""
|
|
55
|
+
real_targets, real_values = [], []
|
|
56
|
+
for target, value in zip(targets, values, strict=True):
|
|
57
|
+
real, imaginary = _split_complex(value, description)
|
|
58
|
+
if LowerComplexPass._has_complex(target):
|
|
59
|
+
real_targets += [target.real_part(), target.imag_part()]
|
|
60
|
+
real_values += [real, imaginary]
|
|
61
|
+
continue
|
|
62
|
+
if not _is_zero(imaginary):
|
|
63
|
+
error_msg = (
|
|
64
|
+
f'The {description} gives the complex value {value} to the real state {state_of(target)}. Take its '
|
|
65
|
+
'real part `real_part(...)`, its imaginary part `imag_part(...)`, or its modulus `abs(...)`, or '
|
|
66
|
+
'declare the state with `domain=CC`.'
|
|
67
|
+
)
|
|
68
|
+
raise ValidationError(error_msg)
|
|
69
|
+
real_targets.append(target)
|
|
70
|
+
real_values.append(real)
|
|
71
|
+
return real_targets, real_values
|
|
72
|
+
|
|
73
|
+
@staticmethod
|
|
74
|
+
def _split_assignment(
|
|
75
|
+
law: RateLaw | NoiseLaw | UpdateLaw | BoundaryLaw,
|
|
76
|
+
owner: str,
|
|
77
|
+
state_of: Callable[[Expression], str],
|
|
78
|
+
) -> list[BaseLaw]:
|
|
79
|
+
"""Return the laws of one real target component each that a rate, noise, update, or boundary law stands for."""
|
|
80
|
+
description = f'{type(law).__name__} of {owner}'
|
|
81
|
+
targets = components_of(law._get_targets()[0])
|
|
82
|
+
values = (
|
|
83
|
+
None
|
|
84
|
+
if isinstance(law.value, CallSpec)
|
|
85
|
+
else KernelsPass._symbolic_components(law.value, len(targets), description)
|
|
86
|
+
)
|
|
87
|
+
if values is None:
|
|
88
|
+
error_msg = (
|
|
89
|
+
f'The {description} on {state_of(targets[0])} calls a function with complex values or on a complex '
|
|
90
|
+
'state. Functions take and give real values, so pass `real_part(...)` and `imag_part(...)` instead.'
|
|
91
|
+
)
|
|
92
|
+
raise ValidationError(error_msg)
|
|
93
|
+
real_targets, real_values = LowerComplexPass._split_value(targets, values, description, state_of)
|
|
94
|
+
return [
|
|
95
|
+
BasePass._replaced(law, target=target, value=value)
|
|
96
|
+
for target, value in zip(real_targets, real_values, strict=True)
|
|
97
|
+
]
|
|
98
|
+
|
|
99
|
+
@staticmethod
|
|
100
|
+
def _split_equation(equation: EquationLaw, owner: str) -> list[BaseLaw]:
|
|
101
|
+
"""Return the real equations of the real and imaginary parts of a complex equation."""
|
|
102
|
+
description = f'Equation of {owner}'
|
|
103
|
+
real_lhs, imaginary_lhs = _split_complex(equation.lhs_, description)
|
|
104
|
+
real_rhs, imaginary_rhs = _split_complex(equation.rhs_, description)
|
|
105
|
+
real = _is_zero(imaginary_lhs) and _is_zero(imaginary_rhs)
|
|
106
|
+
target = equation.target if real else None
|
|
107
|
+
equations: list[BaseLaw] = [EquationLaw(real_lhs, real_rhs, target=target).check().prepare()]
|
|
108
|
+
if not real:
|
|
109
|
+
equations.append(EquationLaw(imaginary_lhs, imaginary_rhs).check().prepare())
|
|
110
|
+
return equations
|
|
111
|
+
|
|
112
|
+
@staticmethod
|
|
113
|
+
def _split_event(event: CrossingLaw, owner: str, state_of: Callable[[Expression], str]) -> CrossingLaw:
|
|
114
|
+
"""Return an event with a real guard and a reset of real states."""
|
|
115
|
+
description = f'Event of {owner}'
|
|
116
|
+
guard = _real(_split_complex(event.guard, description), SR(event.guard), description)
|
|
117
|
+
if event.reset is None:
|
|
118
|
+
return BasePass._replaced(event, guard=guard)
|
|
119
|
+
targets = [SR(target) for target in event.reset]
|
|
120
|
+
values = [SR(value) for value in event.reset.values()]
|
|
121
|
+
real_targets, real_values = LowerComplexPass._split_value(targets, values, description, state_of)
|
|
122
|
+
return BasePass._replaced(event, guard=guard, reset=dict(zip(real_targets, real_values, strict=True)))
|
|
123
|
+
|
|
124
|
+
@staticmethod
|
|
125
|
+
def _split_jump(jump: JumpLaw, owner: str) -> JumpLaw:
|
|
126
|
+
"""Return a jump with a real rate, after checking that it changes real states."""
|
|
127
|
+
description = f'JumpLaw of {owner}'
|
|
128
|
+
if any(LowerComplexPass._has_complex(target) for target in jump.changes or {}):
|
|
129
|
+
error_msg = f'The {description} changes a complex state. Jumps change real states by real increments.'
|
|
130
|
+
raise ValidationError(error_msg)
|
|
131
|
+
return JumpLaw(_real(_split_complex(jump.rate, description), SR(jump.rate), description), jump.changes)
|
|
132
|
+
|
|
133
|
+
@staticmethod
|
|
134
|
+
def _has_complex(value: object) -> bool:
|
|
135
|
+
"""Check whether a law value or one of its components holds a complex number.
|
|
136
|
+
|
|
137
|
+
Args:
|
|
138
|
+
value:
|
|
139
|
+
An expression, a vector, a number, a sequence of them, or any other value.
|
|
140
|
+
|
|
141
|
+
Returns:
|
|
142
|
+
is_complex:
|
|
143
|
+
Whether the value holds the imaginary unit or a number with a nonzero imaginary part.
|
|
144
|
+
"""
|
|
145
|
+
if isinstance(value, Expression):
|
|
146
|
+
return bool(value.has(I))
|
|
147
|
+
if isinstance(value, np.ndarray) and value.dtype != object:
|
|
148
|
+
return bool(np.iscomplexobj(value) and np.any(value.imag != 0))
|
|
149
|
+
if isinstance(value, np.ndarray):
|
|
150
|
+
return any(LowerComplexPass._has_complex(item) for item in value.ravel())
|
|
151
|
+
if isinstance(value, FreeModuleElement | list | tuple):
|
|
152
|
+
return any(LowerComplexPass._has_complex(item) for item in np.ravel(np.asarray(list(value), dtype=object)))
|
|
153
|
+
if isinstance(value, numbers.Complex) and not isinstance(value, numbers.Real):
|
|
154
|
+
return complex(value).imag != 0
|
|
155
|
+
return False
|
|
156
|
+
|
|
157
|
+
@staticmethod
|
|
158
|
+
def _split_law(law: BaseLaw, owner: str, state_of: Callable[[Expression], str]) -> list[BaseLaw]:
|
|
159
|
+
"""Return the laws of real states and real values that a law of complex states and values stands for.
|
|
160
|
+
|
|
161
|
+
A law with no complex value is returned unchanged. A law with a complex value becomes one law per real component
|
|
162
|
+
of its target, two for every complex component, and an equation with complex sides becomes the equations of
|
|
163
|
+
their parts.
|
|
164
|
+
|
|
165
|
+
Args:
|
|
166
|
+
law:
|
|
167
|
+
The law.
|
|
168
|
+
|
|
169
|
+
owner:
|
|
170
|
+
The path of the component that returned the law.
|
|
171
|
+
|
|
172
|
+
state_of:
|
|
173
|
+
The function that returns the dotted name of the state a target symbol stands for.
|
|
174
|
+
|
|
175
|
+
Returns:
|
|
176
|
+
laws:
|
|
177
|
+
The real laws.
|
|
178
|
+
|
|
179
|
+
Raises:
|
|
180
|
+
ValidationError:
|
|
181
|
+
A real state takes a complex value, a law orders complex values, a callable or a jump targets a complex
|
|
182
|
+
state, or a law of a kind that takes only real values holds a complex value.
|
|
183
|
+
"""
|
|
184
|
+
if isinstance(law, _AGENT_LAWS) or not any(LowerComplexPass._has_complex(item) for item in law._get_values()):
|
|
185
|
+
return [law]
|
|
186
|
+
if isinstance(law, RateLaw | NoiseLaw | UpdateLaw | BoundaryLaw):
|
|
187
|
+
return LowerComplexPass._split_assignment(law, owner, state_of)
|
|
188
|
+
if isinstance(law, CrossingLaw):
|
|
189
|
+
return [LowerComplexPass._split_event(law, owner, state_of)]
|
|
190
|
+
if isinstance(law, JumpLaw):
|
|
191
|
+
return [LowerComplexPass._split_jump(law, owner)]
|
|
192
|
+
if isinstance(law, EquationLaw):
|
|
193
|
+
return LowerComplexPass._split_equation(law, owner)
|
|
194
|
+
error_msg = (
|
|
195
|
+
f'A {type(law).__name__} of {owner} holds a complex value. {type(law).__name__}s take real states and '
|
|
196
|
+
'real values.'
|
|
197
|
+
)
|
|
198
|
+
raise ValidationError(error_msg)
|