drbx 2.0.0.dev0__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.
- drbx/__init__.py +20 -0
- drbx/__main__.py +5 -0
- drbx/cli.py +586 -0
- drbx/config/__init__.py +20 -0
- drbx/config/boutinp.py +556 -0
- drbx/config/model.py +34 -0
- drbx/config/normalization.py +66 -0
- drbx/data/atomic_rates/__init__.py +1 -0
- drbx/data/atomic_rates/iz_AMJUEL_H.x_2.1.5.json +213 -0
- drbx/data/atomic_rates/iz_AMJUEL_H.x_2.3.9a.json +213 -0
- drbx/data/atomic_rates/rec_AMJUEL_H.x_2.1.8.json +213 -0
- drbx/data/atomic_rates/rec_AMJUEL_H.x_2.3.13a.json +213 -0
- drbx/geometry/__init__.py +207 -0
- drbx/geometry/embedding.py +56 -0
- drbx/geometry/essos_import.py +1385 -0
- drbx/geometry/fci_geometry.py +4622 -0
- drbx/geometry/fci_maps.py +85 -0
- drbx/geometry/island_divertor.py +291 -0
- drbx/geometry/metric_tensor.py +99 -0
- drbx/geometry/open_slab.py +150 -0
- drbx/geometry/rotating_ellipse.py +253 -0
- drbx/geometry/shifted_torus.py +225 -0
- drbx/geometry/stellarator.py +287 -0
- drbx/geometry/vmec_extender_import.py +499 -0
- drbx/geometry/vmec_jax_import.py +306 -0
- drbx/linear/__init__.py +37 -0
- drbx/linear/dispersion.py +138 -0
- drbx/linear/eigen.py +91 -0
- drbx/native/__init__.py +224 -0
- drbx/native/array_backend.py +64 -0
- drbx/native/deck_runner.py +779 -0
- drbx/native/electromagnetic.py +250 -0
- drbx/native/expression.py +173 -0
- drbx/native/fci.py +295 -0
- drbx/native/fci_2_field_rhs.py +182 -0
- drbx/native/fci_4_field_rhs.py +1267 -0
- drbx/native/fci_boundaries.py +2494 -0
- drbx/native/fci_differentiable_case.py +304 -0
- drbx/native/fci_drb_EB_rhs.py +1243 -0
- drbx/native/fci_drb_rhs.py +190 -0
- drbx/native/fci_halo.py +1575 -0
- drbx/native/fci_helpers.py +350 -0
- drbx/native/fci_model.py +294 -0
- drbx/native/fci_neutral.py +139 -0
- drbx/native/fci_operators.py +4081 -0
- drbx/native/fci_sharding.py +597 -0
- drbx/native/fci_sheath_recycling.py +206 -0
- drbx/native/fci_time_integrator.py +96 -0
- drbx/native/fci_vorticity.py +198 -0
- drbx/native/fluid_1d.py +330 -0
- drbx/native/hasegawa_wakatani.py +196 -0
- drbx/native/limiters.py +57 -0
- drbx/native/mesh.py +238 -0
- drbx/native/metrics.py +234 -0
- drbx/native/neutrals/__init__.py +58 -0
- drbx/native/neutrals/atomic_rates.py +134 -0
- drbx/native/neutrals/detachment_sol_model.py +221 -0
- drbx/native/neutrals/reactions.py +164 -0
- drbx/native/neutrals/recycling_sol_model.py +197 -0
- drbx/native/sol_flux_tube.py +133 -0
- drbx/native/stellarator_turbulence.py +343 -0
- drbx/native/transport.py +134 -0
- drbx/native/units.py +32 -0
- drbx/native/vorticity.py +252 -0
- drbx/runtime/__init__.py +53 -0
- drbx/runtime/artifacts.py +161 -0
- drbx/runtime/memory.py +144 -0
- drbx/runtime/output.py +374 -0
- drbx/runtime/paths.py +9 -0
- drbx/runtime/performance.py +161 -0
- drbx/runtime/run_config.py +184 -0
- drbx/runtime/scheduler.py +99 -0
- drbx/runtime/state.py +40 -0
- drbx/validation/__init__.py +424 -0
- drbx/validation/autodiff_diffusion.py +329 -0
- drbx/validation/autodiff_diffusion_uncertainty.py +235 -0
- drbx/validation/diverted_tokamak_movie.py +558 -0
- drbx/validation/essos_fieldline_import_campaign.py +181 -0
- drbx/validation/essos_imported_artifact_audit.py +535 -0
- drbx/validation/essos_imported_drb_movie_campaign.py +2826 -0
- drbx/validation/essos_imported_fci_campaign.py +5241 -0
- drbx/validation/essos_imported_pytree_campaign.py +406 -0
- drbx/validation/essos_vmec_closed_field_campaign.py +314 -0
- drbx/validation/essos_vmec_closed_field_transient_campaign.py +629 -0
- drbx/validation/essos_vmec_fieldline_surface_campaign.py +620 -0
- drbx/validation/fluid_1d_mms_convergence.py +250 -0
- drbx/validation/geometry_lineouts.py +136 -0
- drbx/validation/geometry_slices.py +178 -0
- drbx/validation/publication_plotting.py +91 -0
- drbx/validation/stellarator_drb_pytree_campaign.py +621 -0
- drbx/validation/stellarator_fci_geometry_campaign.py +200 -0
- drbx/validation/stellarator_fci_operator_campaign.py +304 -0
- drbx/validation/stellarator_fci_suite_campaign.py +264 -0
- drbx/validation/stellarator_metric_mms_campaign.py +289 -0
- drbx/validation/stellarator_neutral_physics_campaign.py +255 -0
- drbx/validation/stellarator_sheath_recycling_campaign.py +331 -0
- drbx/validation/stellarator_sol_showcase.py +628 -0
- drbx/validation/stellarator_vorticity_campaign.py +304 -0
- drbx/validation/vmec_extender_edge_field_campaign.py +260 -0
- drbx/validation/vmec_extender_sol_smoke_campaign.py +365 -0
- drbx-2.0.0.dev0.dist-info/METADATA +380 -0
- drbx-2.0.0.dev0.dist-info/RECORD +106 -0
- drbx-2.0.0.dev0.dist-info/WHEEL +5 -0
- drbx-2.0.0.dev0.dist-info/entry_points.txt +2 -0
- drbx-2.0.0.dev0.dist-info/licenses/LICENSE +21 -0
- drbx-2.0.0.dev0.dist-info/top_level.txt +1 -0
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from __future__ import annotations
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import json
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import tempfile
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from dataclasses import dataclass
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from pathlib import Path
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import jax.numpy as jnp
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from matplotlib import cm
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from matplotlib import colors
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from matplotlib import pyplot as plt
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import numpy as np
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from PIL import Image
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from ..geometry import SyntheticStellaratorGeometry, build_synthetic_stellarator_geometry
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from ..native.fci import laplace_parallel_fci, laplace_perp_xz
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@dataclass(frozen=True)
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class StellaratorSolShowcaseArtifacts:
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report_json_path: Path
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arrays_npz_path: Path
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snapshot_png_path: Path
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diagnostics_png_path: Path
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poster_png_path: Path
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movie_gif_path: Path
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def create_stellarator_sol_showcase_package(
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*,
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output_root: str | Path,
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case_label: str = "stellarator_sol_showcase",
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nx: int = 30,
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ny: int = 30,
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nz: int = 56,
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) -> StellaratorSolShowcaseArtifacts:
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root = Path(output_root)
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data_dir = root / "data"
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images_dir = root / "images"
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movies_dir = root / "movies"
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data_dir.mkdir(parents=True, exist_ok=True)
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images_dir.mkdir(parents=True, exist_ok=True)
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movies_dir.mkdir(parents=True, exist_ok=True)
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geometry = build_synthetic_stellarator_geometry(nx=nx, ny=ny, nz=nz)
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history, time = simulate_reduced_stellarator_sol_dynamics(geometry)
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report = build_stellarator_sol_showcase_report(geometry, history, time)
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report_json_path = data_dir / f"{case_label}.json"
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report_json_path.write_text(json.dumps(report, indent=2, sort_keys=True), encoding="utf-8")
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arrays_npz_path = data_dir / f"{case_label}.npz"
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_write_showcase_arrays(geometry, history, time, arrays_npz_path)
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snapshot_png_path = images_dir / f"{case_label}_snapshots.png"
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save_stellarator_sol_snapshot_panel(geometry, history, time, snapshot_png_path)
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diagnostics_png_path = images_dir / f"{case_label}_diagnostics.png"
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save_stellarator_sol_diagnostics_panel(geometry, history, time, diagnostics_png_path)
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poster_png_path = images_dir / f"{case_label}_poster.png"
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save_stellarator_sol_3d_frame(geometry, history[-1], float(time[-1]), poster_png_path)
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movie_gif_path = movies_dir / f"{case_label}.gif"
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save_stellarator_sol_3d_movie(geometry, history, time, movie_gif_path)
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return StellaratorSolShowcaseArtifacts(
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report_json_path=report_json_path,
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arrays_npz_path=arrays_npz_path,
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snapshot_png_path=snapshot_png_path,
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diagnostics_png_path=diagnostics_png_path,
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poster_png_path=poster_png_path,
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movie_gif_path=movie_gif_path,
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)
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def simulate_reduced_stellarator_sol_dynamics(
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geometry: SyntheticStellaratorGeometry,
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*,
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frames: int = 34,
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substeps_per_frame: int = 3,
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dt: float = 0.010,
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) -> tuple[np.ndarray, np.ndarray]:
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"""Run a compact reduced 3D SOL dynamics benchmark on the FCI geometry."""
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radial = np.asarray(geometry.radial, dtype=np.float64)
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phi = np.asarray(geometry.toroidal_angle, dtype=np.float64)
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theta = np.asarray(geometry.poloidal_angle, dtype=np.float64)
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curvature = np.asarray(geometry.curvature, dtype=np.float64)
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curvature = curvature / max(float(np.max(np.abs(curvature))), 1.0e-12)
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envelope = np.exp(-((radial - 0.73) / 0.17) ** 2)
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source_envelope = np.exp(-((radial - 0.60) / 0.12) ** 2)
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seed_modes = (
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0.18 * np.cos(2.0 * theta - 5.0 * phi)
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+ 0.13 * np.sin(4.0 * theta - 5.0 * phi + 0.7)
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+ 0.08 * np.cos(7.0 * theta - 10.0 * phi + 1.4)
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+ 0.05 * np.sin(11.0 * theta + 3.0 * phi)
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)
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state = jnp.asarray(envelope * seed_modes, dtype=jnp.float64)
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dx = float(1.0 / (geometry.maps.shape[0] - 1))
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dz = float(2.0 * np.pi / geometry.maps.shape[2])
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curvature_jax = jnp.asarray(curvature, dtype=jnp.float64)
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envelope_jax = jnp.asarray(envelope, dtype=jnp.float64)
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source_pattern = jnp.asarray(
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source_envelope
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* (
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0.160 * np.cos(4.0 * theta - 5.0 * phi)
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+ 0.105 * np.sin(2.0 * theta + 5.0 * phi)
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+ 0.070 * np.cos(6.0 * theta - 10.0 * phi + 0.3)
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),
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dtype=jnp.float64,
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)
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history = []
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time = []
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for frame in range(frames):
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history.append(np.asarray(state, dtype=np.float64))
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time.append(frame * substeps_per_frame * dt)
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for substep in range(substeps_per_frame):
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current_time = (frame * substeps_per_frame + substep) * dt
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dz_adv = (jnp.roll(state, -1, axis=2) - jnp.roll(state, 1, axis=2)) / (2.0 * dz)
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dy_adv = (jnp.roll(state, -1, axis=1) - jnp.roll(state, 1, axis=1)) / (2.0 * geometry.maps.dphi)
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radial_gradient = (jnp.roll(state, -1, axis=0) - jnp.roll(state, 1, axis=0)) / (2.0 * dx)
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nonlinear_transfer = -0.42 * state * dz_adv + 0.24 * jnp.roll(state, 2, axis=2) * dy_adv
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interchange_drive = 0.28 * curvature_jax * envelope_jax * radial_gradient
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source_drive = source_pattern * (1.0 + 0.35 * jnp.sin(7.5 * current_time))
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coherent_drive = 0.18 * curvature_jax * envelope_jax * (state + source_drive)
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saturation = -0.48 * envelope_jax * state * state * state
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damping = -0.035 * (1.0 - 0.25 * envelope_jax) * state
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diffusion = 0.010 * laplace_parallel_fci(state, geometry.maps) + 1.8e-5 * laplace_perp_xz(
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state,
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dx=dx,
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dz=dz,
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)
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state = state + dt * (
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diffusion
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+ interchange_drive
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+ coherent_drive
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+ nonlinear_transfer
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+ saturation
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+ damping
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+ source_drive
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)
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state = jnp.nan_to_num(state, nan=0.0, posinf=2.0, neginf=-2.0)
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state = jnp.clip(state, -1.5, 1.5)
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return np.asarray(history, dtype=np.float64), np.asarray(time, dtype=np.float64)
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def build_stellarator_sol_showcase_report(
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geometry: SyntheticStellaratorGeometry,
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history: np.ndarray,
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time: np.ndarray,
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) -> dict[str, object]:
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energy = np.mean(history * history, axis=(1, 2, 3))
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final = history[-1]
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radial = np.asarray(geometry.radial, dtype=np.float64)
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curvature = np.asarray(geometry.curvature, dtype=np.float64)
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positive = np.maximum(final, 0.0)
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radial_center = float(np.sum(radial * positive) / max(np.sum(positive), 1.0e-12))
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potential_proxy = np.roll(final, 2, axis=2)
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dtheta_phi = -(np.roll(potential_proxy, -1, axis=2) - np.roll(potential_proxy, 1, axis=2)) / (
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2.0 * 2.0 * np.pi / geometry.maps.shape[2]
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)
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radial_flux_proxy = float(np.mean(final * dtheta_phi * curvature))
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spectrum = np.abs(np.fft.rfftn(final, axes=(1, 2))) ** 2
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total_spectral_power = float(np.sum(spectrum))
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low_mode_power = float(np.sum(spectrum[:, :4, :6]) / max(total_spectral_power, 1.0e-12))
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mode_power = np.mean(np.abs(np.fft.rfftn(final, axes=(1, 2))) ** 2, axis=0)
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mode_power[0, 0] = 0.0
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peak_mode = np.unravel_index(int(np.argmax(mode_power)), mode_power.shape)
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cell_rms = np.std(history, axis=0)
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cell_skewness = _cell_moment(history, 3)
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report = {
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"case": "reduced_non_axisymmetric_stellarator_sol_dynamics",
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"geometry": geometry.metadata,
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"time_start": float(time[0]),
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"time_end": float(time[-1]),
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"frame_count": int(history.shape[0]),
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"energy_initial": float(energy[0]),
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"energy_final": float(energy[-1]),
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"energy_peak": float(np.max(energy)),
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"energy_growth_factor": float(energy[-1] / max(energy[0], 1.0e-12)),
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"final_rms_fluctuation": float(np.sqrt(np.mean(final * final))),
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"final_skewness": _moment(final, 3),
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"final_kurtosis": _moment(final, 4),
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"positive_fluctuation_radial_center": radial_center,
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"radial_flux_proxy": radial_flux_proxy,
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"low_mode_spectral_power_fraction": low_mode_power,
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"dominant_poloidal_mode_index": int(peak_mode[1]),
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"dominant_toroidal_mode_index": int(peak_mode[0]),
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"mean_cell_rms_fluctuation": float(np.mean(cell_rms)),
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"max_cell_rms_fluctuation": float(np.max(cell_rms)),
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"skewness_linf": float(np.max(np.abs(cell_skewness))),
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"connection_length_weighted_rms": float(
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np.sqrt(
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np.mean(
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final
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* final
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* np.asarray(geometry.connection_length)
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/ np.mean(np.asarray(geometry.connection_length))
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)
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)
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+
),
|
|
196
|
+
}
|
|
197
|
+
report["passed"] = (
|
|
198
|
+
np.isfinite(report["energy_final"])
|
|
199
|
+
and report["energy_final"] > 0.0
|
|
200
|
+
and report["final_rms_fluctuation"] > 1.0e-3
|
|
201
|
+
and abs(report["radial_flux_proxy"]) > 1.0e-5
|
|
202
|
+
and 0.0 < report["low_mode_spectral_power_fraction"] < 1.0
|
|
203
|
+
)
|
|
204
|
+
return report
|
|
205
|
+
|
|
206
|
+
|
|
207
|
+
def save_stellarator_sol_snapshot_panel(
|
|
208
|
+
geometry: SyntheticStellaratorGeometry,
|
|
209
|
+
history: np.ndarray,
|
|
210
|
+
time: np.ndarray,
|
|
211
|
+
path: str | Path,
|
|
212
|
+
) -> Path:
|
|
213
|
+
resolved = Path(path)
|
|
214
|
+
resolved.parent.mkdir(parents=True, exist_ok=True)
|
|
215
|
+
time_indices = np.asarray([0, history.shape[0] // 2, history.shape[0] - 1], dtype=int)
|
|
216
|
+
toroidal_indices = np.asarray(
|
|
217
|
+
[0, geometry.shape[1] // 4, geometry.shape[1] // 2, 3 * geometry.shape[1] // 4],
|
|
218
|
+
dtype=int,
|
|
219
|
+
)
|
|
220
|
+
x = np.asarray(geometry.coordinates_x, dtype=np.float64)
|
|
221
|
+
y = np.asarray(geometry.coordinates_y, dtype=np.float64)
|
|
222
|
+
major_radius = np.sqrt(x * x + y * y)
|
|
223
|
+
z = np.asarray(geometry.coordinates_z, dtype=np.float64)
|
|
224
|
+
vmax = float(np.percentile(np.abs(history), 99.0))
|
|
225
|
+
norm = colors.TwoSlopeNorm(vmin=-vmax, vcenter=0.0, vmax=vmax)
|
|
226
|
+
fig, axes = plt.subplots(3, 4, figsize=(16.0, 10.2), constrained_layout=True)
|
|
227
|
+
image = None
|
|
228
|
+
for row, time_index in enumerate(time_indices):
|
|
229
|
+
for col, toroidal_index in enumerate(toroidal_indices):
|
|
230
|
+
axis = axes[row, col]
|
|
231
|
+
image = axis.pcolormesh(
|
|
232
|
+
major_radius[:, toroidal_index, :],
|
|
233
|
+
z[:, toroidal_index, :],
|
|
234
|
+
history[time_index, :, toroidal_index, :],
|
|
235
|
+
shading="gouraud",
|
|
236
|
+
cmap="coolwarm",
|
|
237
|
+
norm=norm,
|
|
238
|
+
)
|
|
239
|
+
axis.plot(major_radius[0, toroidal_index, :], z[0, toroidal_index, :], color="white", lw=2.0)
|
|
240
|
+
axis.plot(major_radius[-1, toroidal_index, :], z[-1, toroidal_index, :], color="0.35", lw=1.4)
|
|
241
|
+
axis.set_aspect("equal", adjustable="box")
|
|
242
|
+
phi_value = 2.0 * np.pi * toroidal_index / geometry.shape[1]
|
|
243
|
+
axis.set_title(rf"$t={time[time_index]:.2f}$, $\phi={phi_value:.2f}$")
|
|
244
|
+
axis.set_xlabel("R")
|
|
245
|
+
axis.set_ylabel("Z")
|
|
246
|
+
if image is not None:
|
|
247
|
+
fig.colorbar(image, ax=axes, shrink=0.72, label="density fluctuation proxy")
|
|
248
|
+
fig.suptitle(
|
|
249
|
+
"Reduced 3D stellarator SOL dynamics: R-Z panels at four toroidal angles",
|
|
250
|
+
fontsize=15,
|
|
251
|
+
)
|
|
252
|
+
fig.savefig(resolved, dpi=180)
|
|
253
|
+
plt.close(fig)
|
|
254
|
+
return resolved
|
|
255
|
+
|
|
256
|
+
|
|
257
|
+
def save_stellarator_sol_diagnostics_panel(
|
|
258
|
+
geometry: SyntheticStellaratorGeometry,
|
|
259
|
+
history: np.ndarray,
|
|
260
|
+
time: np.ndarray,
|
|
261
|
+
path: str | Path,
|
|
262
|
+
) -> Path:
|
|
263
|
+
resolved = Path(path)
|
|
264
|
+
resolved.parent.mkdir(parents=True, exist_ok=True)
|
|
265
|
+
toroidal_index = 0
|
|
266
|
+
x = np.asarray(geometry.coordinates_x, dtype=np.float64)
|
|
267
|
+
y = np.asarray(geometry.coordinates_y, dtype=np.float64)
|
|
268
|
+
major_radius = np.sqrt(x * x + y * y)
|
|
269
|
+
z = np.asarray(geometry.coordinates_z, dtype=np.float64)
|
|
270
|
+
final = history[-1]
|
|
271
|
+
rms = np.std(history, axis=0)
|
|
272
|
+
skewness = _cell_moment(history, 3)
|
|
273
|
+
potential_proxy = np.roll(history, 2, axis=3)
|
|
274
|
+
dtheta = 2.0 * np.pi / geometry.shape[2]
|
|
275
|
+
radial_velocity_proxy = -(
|
|
276
|
+
np.roll(potential_proxy, -1, axis=3) - np.roll(potential_proxy, 1, axis=3)
|
|
277
|
+
) / (2.0 * dtheta)
|
|
278
|
+
flux_proxy = np.mean(history * radial_velocity_proxy * np.asarray(geometry.curvature)[None, :, :, :], axis=0)
|
|
279
|
+
spectrum = np.mean(np.abs(np.fft.rfftn(final, axes=(1, 2))) ** 2, axis=0)
|
|
280
|
+
spectrum[0, 0] = 0.0
|
|
281
|
+
energy = np.mean(history * history, axis=(1, 2, 3))
|
|
282
|
+
|
|
283
|
+
fig, axes = plt.subplots(2, 3, figsize=(14.2, 8.0), constrained_layout=True)
|
|
284
|
+
density_proxy = 1.0 + 0.35 * final
|
|
285
|
+
image0 = axes[0, 0].pcolormesh(
|
|
286
|
+
major_radius[:, toroidal_index, :],
|
|
287
|
+
z[:, toroidal_index, :],
|
|
288
|
+
density_proxy[:, toroidal_index, :],
|
|
289
|
+
shading="gouraud",
|
|
290
|
+
cmap="turbo",
|
|
291
|
+
)
|
|
292
|
+
axes[0, 0].set_title("final density proxy")
|
|
293
|
+
fig.colorbar(image0, ax=axes[0, 0], label="n / n0")
|
|
294
|
+
|
|
295
|
+
image1 = axes[0, 1].pcolormesh(
|
|
296
|
+
major_radius[:, toroidal_index, :],
|
|
297
|
+
z[:, toroidal_index, :],
|
|
298
|
+
rms[:, toroidal_index, :],
|
|
299
|
+
shading="gouraud",
|
|
300
|
+
cmap="magma",
|
|
301
|
+
)
|
|
302
|
+
axes[0, 1].set_title("fluctuation RMS")
|
|
303
|
+
fig.colorbar(image1, ax=axes[0, 1], label="std(n~)")
|
|
304
|
+
|
|
305
|
+
skew_vmax = float(np.nanpercentile(np.abs(skewness), 98.0))
|
|
306
|
+
image2 = axes[0, 2].pcolormesh(
|
|
307
|
+
major_radius[:, toroidal_index, :],
|
|
308
|
+
z[:, toroidal_index, :],
|
|
309
|
+
skewness[:, toroidal_index, :],
|
|
310
|
+
shading="gouraud",
|
|
311
|
+
cmap="coolwarm",
|
|
312
|
+
norm=colors.TwoSlopeNorm(vmin=-skew_vmax, vcenter=0.0, vmax=skew_vmax),
|
|
313
|
+
)
|
|
314
|
+
axes[0, 2].set_title("density skewness")
|
|
315
|
+
fig.colorbar(image2, ax=axes[0, 2], label="skew(n~)")
|
|
316
|
+
|
|
317
|
+
flux_vmax = float(np.nanpercentile(np.abs(flux_proxy), 98.0))
|
|
318
|
+
image3 = axes[1, 0].pcolormesh(
|
|
319
|
+
major_radius[:, toroidal_index, :],
|
|
320
|
+
z[:, toroidal_index, :],
|
|
321
|
+
flux_proxy[:, toroidal_index, :],
|
|
322
|
+
shading="gouraud",
|
|
323
|
+
cmap="coolwarm",
|
|
324
|
+
norm=colors.TwoSlopeNorm(vmin=-flux_vmax, vcenter=0.0, vmax=flux_vmax),
|
|
325
|
+
)
|
|
326
|
+
axes[1, 0].set_title("radial flux proxy")
|
|
327
|
+
fig.colorbar(image3, ax=axes[1, 0], label="<n~ vR~>")
|
|
328
|
+
|
|
329
|
+
mode_image = axes[1, 1].imshow(
|
|
330
|
+
np.log10(np.maximum(spectrum.T, 1.0e-16)),
|
|
331
|
+
origin="lower",
|
|
332
|
+
aspect="auto",
|
|
333
|
+
cmap="viridis",
|
|
334
|
+
)
|
|
335
|
+
axes[1, 1].set_title("final toroidal-poloidal spectrum")
|
|
336
|
+
axes[1, 1].set_xlabel("toroidal mode index")
|
|
337
|
+
axes[1, 1].set_ylabel("poloidal mode index")
|
|
338
|
+
fig.colorbar(mode_image, ax=axes[1, 1], label="log10 power")
|
|
339
|
+
|
|
340
|
+
axes[1, 2].plot(time, energy, color="#005f73", lw=2.4, label="energy")
|
|
341
|
+
axes[1, 2].plot(time, np.sqrt(energy), color="#9b2226", lw=2.0, label="RMS")
|
|
342
|
+
axes[1, 2].set_title("time traces")
|
|
343
|
+
axes[1, 2].set_xlabel("normalized time")
|
|
344
|
+
axes[1, 2].set_ylabel("global metric")
|
|
345
|
+
axes[1, 2].legend(frameon=False)
|
|
346
|
+
for axis in axes[:, :].flat:
|
|
347
|
+
if axis is not axes[1, 1] and axis is not axes[1, 2]:
|
|
348
|
+
axis.plot(major_radius[0, toroidal_index, :], z[0, toroidal_index, :], color="white", lw=1.6)
|
|
349
|
+
axis.plot(major_radius[-1, toroidal_index, :], z[-1, toroidal_index, :], color="0.25", lw=1.0)
|
|
350
|
+
axis.set_aspect("equal", adjustable="box")
|
|
351
|
+
axis.set_xlabel("R")
|
|
352
|
+
axis.set_ylabel("Z")
|
|
353
|
+
fig.suptitle("Reduced stellarator SOL diagnostics: fluctuations, flux proxy, and mode content", fontsize=15)
|
|
354
|
+
fig.savefig(resolved, dpi=180)
|
|
355
|
+
plt.close(fig)
|
|
356
|
+
return resolved
|
|
357
|
+
|
|
358
|
+
|
|
359
|
+
def save_stellarator_sol_3d_movie(
|
|
360
|
+
geometry: SyntheticStellaratorGeometry,
|
|
361
|
+
history: np.ndarray,
|
|
362
|
+
time: np.ndarray,
|
|
363
|
+
path: str | Path,
|
|
364
|
+
) -> Path:
|
|
365
|
+
resolved = Path(path)
|
|
366
|
+
resolved.parent.mkdir(parents=True, exist_ok=True)
|
|
367
|
+
frame_indices = np.linspace(0, history.shape[0] - 1, min(24, history.shape[0]), dtype=int)
|
|
368
|
+
with tempfile.TemporaryDirectory(prefix="drbx_stellarator_movie_") as temp_dir:
|
|
369
|
+
frame_paths = []
|
|
370
|
+
for local_index, frame_index in enumerate(frame_indices):
|
|
371
|
+
frame_path = Path(temp_dir) / f"frame_{local_index:03d}.png"
|
|
372
|
+
save_stellarator_sol_3d_frame(geometry, history[frame_index], float(time[frame_index]), frame_path)
|
|
373
|
+
frame_paths.append(frame_path)
|
|
374
|
+
images = [Image.open(frame_path).convert("P", palette=Image.Palette.ADAPTIVE) for frame_path in frame_paths]
|
|
375
|
+
images[0].save(resolved, save_all=True, append_images=images[1:], duration=120, loop=0)
|
|
376
|
+
for image in images:
|
|
377
|
+
image.close()
|
|
378
|
+
return resolved
|
|
379
|
+
|
|
380
|
+
|
|
381
|
+
def save_stellarator_sol_3d_frame(
|
|
382
|
+
geometry: SyntheticStellaratorGeometry,
|
|
383
|
+
field: np.ndarray,
|
|
384
|
+
time_value: float,
|
|
385
|
+
path: str | Path,
|
|
386
|
+
) -> Path:
|
|
387
|
+
if max(geometry.shape) >= 24:
|
|
388
|
+
try:
|
|
389
|
+
return _save_stellarator_sol_3d_frame_pyvista(geometry, field, time_value, path)
|
|
390
|
+
except Exception:
|
|
391
|
+
pass
|
|
392
|
+
resolved = Path(path)
|
|
393
|
+
resolved.parent.mkdir(parents=True, exist_ok=True)
|
|
394
|
+
x = np.asarray(geometry.coordinates_x)
|
|
395
|
+
y = np.asarray(geometry.coordinates_y)
|
|
396
|
+
z = np.asarray(geometry.coordinates_z)
|
|
397
|
+
values = np.asarray(field, dtype=np.float64)
|
|
398
|
+
vmax = float(np.percentile(np.abs(values), 99.0))
|
|
399
|
+
norm = colors.TwoSlopeNorm(vmin=-vmax, vcenter=0.0, vmax=vmax)
|
|
400
|
+
cmap = plt.get_cmap("coolwarm")
|
|
401
|
+
phi_indices = np.arange(2, geometry.shape[1] - 5, 2)
|
|
402
|
+
theta_indices = np.arange(0, geometry.shape[2], 2)
|
|
403
|
+
radial_indices = np.arange(2, geometry.shape[0] - 1, 2)
|
|
404
|
+
cut_j = 3
|
|
405
|
+
outer_i = max(geometry.shape[0] - 4, 1)
|
|
406
|
+
|
|
407
|
+
fig = plt.figure(figsize=(8.0, 7.2), constrained_layout=True)
|
|
408
|
+
ax = fig.add_subplot(111, projection="3d")
|
|
409
|
+
surface_values = values[np.ix_([outer_i], phi_indices, theta_indices)][0]
|
|
410
|
+
ax.plot_surface(
|
|
411
|
+
x[np.ix_([outer_i], phi_indices, theta_indices)][0],
|
|
412
|
+
y[np.ix_([outer_i], phi_indices, theta_indices)][0],
|
|
413
|
+
z[np.ix_([outer_i], phi_indices, theta_indices)][0],
|
|
414
|
+
facecolors=cmap(norm(surface_values)),
|
|
415
|
+
linewidth=0,
|
|
416
|
+
antialiased=False,
|
|
417
|
+
alpha=0.86,
|
|
418
|
+
shade=False,
|
|
419
|
+
)
|
|
420
|
+
cut_values = values[np.ix_(radial_indices, [cut_j], theta_indices)][:, 0, :]
|
|
421
|
+
ax.plot_surface(
|
|
422
|
+
x[np.ix_(radial_indices, [cut_j], theta_indices)][:, 0, :],
|
|
423
|
+
y[np.ix_(radial_indices, [cut_j], theta_indices)][:, 0, :],
|
|
424
|
+
z[np.ix_(radial_indices, [cut_j], theta_indices)][:, 0, :],
|
|
425
|
+
facecolors=cmap(norm(cut_values)),
|
|
426
|
+
linewidth=0,
|
|
427
|
+
antialiased=False,
|
|
428
|
+
alpha=0.96,
|
|
429
|
+
shade=False,
|
|
430
|
+
)
|
|
431
|
+
inner_i = max(geometry.shape[0] // 3, 1)
|
|
432
|
+
ax.plot_wireframe(
|
|
433
|
+
x[np.ix_([inner_i], phi_indices[::2], theta_indices[::3])][0],
|
|
434
|
+
y[np.ix_([inner_i], phi_indices[::2], theta_indices[::3])][0],
|
|
435
|
+
z[np.ix_([inner_i], phi_indices[::2], theta_indices[::3])][0],
|
|
436
|
+
color="0.25",
|
|
437
|
+
linewidth=0.35,
|
|
438
|
+
alpha=0.28,
|
|
439
|
+
)
|
|
440
|
+
scalar = cm.ScalarMappable(norm=norm, cmap=cmap)
|
|
441
|
+
scalar.set_array([])
|
|
442
|
+
fig.colorbar(scalar, ax=ax, shrink=0.72, pad=0.02, label="density fluctuation proxy")
|
|
443
|
+
ax.set_title(
|
|
444
|
+
"Native reduced FCI stellarator SOL dynamics\n"
|
|
445
|
+
f"opened toroidal/radial view, t = {time_value:.2f}",
|
|
446
|
+
fontsize=11,
|
|
447
|
+
)
|
|
448
|
+
ax.set_xlabel("X")
|
|
449
|
+
ax.set_ylabel("Y")
|
|
450
|
+
ax.set_zlabel("Z")
|
|
451
|
+
ax.view_init(elev=22.0, azim=-48.0 + 18.0 * np.sin(0.7 * time_value))
|
|
452
|
+
extent = float(np.max(np.sqrt(x * x + y * y)))
|
|
453
|
+
ax.set_xlim(-extent, extent)
|
|
454
|
+
ax.set_ylim(-extent, extent)
|
|
455
|
+
ax.set_zlim(float(np.min(z)) * 1.1, float(np.max(z)) * 1.1)
|
|
456
|
+
ax.set_box_aspect((1.0, 1.0, 0.42))
|
|
457
|
+
fig.savefig(resolved, dpi=160)
|
|
458
|
+
plt.close(fig)
|
|
459
|
+
return resolved
|
|
460
|
+
|
|
461
|
+
|
|
462
|
+
def _save_stellarator_sol_3d_frame_pyvista(
|
|
463
|
+
geometry: SyntheticStellaratorGeometry,
|
|
464
|
+
field: np.ndarray,
|
|
465
|
+
time_value: float,
|
|
466
|
+
path: str | Path,
|
|
467
|
+
) -> Path:
|
|
468
|
+
import pyvista as pv
|
|
469
|
+
|
|
470
|
+
resolved = Path(path)
|
|
471
|
+
resolved.parent.mkdir(parents=True, exist_ok=True)
|
|
472
|
+
x = np.asarray(geometry.coordinates_x)
|
|
473
|
+
y = np.asarray(geometry.coordinates_y)
|
|
474
|
+
z = np.asarray(geometry.coordinates_z)
|
|
475
|
+
values = np.asarray(field, dtype=np.float64)
|
|
476
|
+
vmax = float(np.nanpercentile(np.abs(values), 99.2))
|
|
477
|
+
if not np.isfinite(vmax) or vmax <= 0.0:
|
|
478
|
+
vmax = 1.0
|
|
479
|
+
scalar_name = "density fluctuation proxy"
|
|
480
|
+
ny = geometry.shape[1]
|
|
481
|
+
phi_window = np.arange(max(2, ny // 10), max(3, ny - ny // 5), dtype=int)
|
|
482
|
+
theta_window = np.arange(0, geometry.shape[2], 1, dtype=int)
|
|
483
|
+
radial_window = np.arange(1, geometry.shape[0] - 1, 1, dtype=int)
|
|
484
|
+
|
|
485
|
+
plotter = pv.Plotter(off_screen=True, window_size=(1280, 900))
|
|
486
|
+
plotter.set_background("white")
|
|
487
|
+
plotter.enable_anti_aliasing("ssaa")
|
|
488
|
+
|
|
489
|
+
def add_surface(
|
|
490
|
+
x_surface: np.ndarray,
|
|
491
|
+
y_surface: np.ndarray,
|
|
492
|
+
z_surface: np.ndarray,
|
|
493
|
+
scalar_values: np.ndarray,
|
|
494
|
+
*,
|
|
495
|
+
opacity: float,
|
|
496
|
+
show_scalar_bar: bool,
|
|
497
|
+
) -> None:
|
|
498
|
+
mesh = pv.StructuredGrid(x_surface, y_surface, z_surface)
|
|
499
|
+
mesh[scalar_name] = np.asarray(scalar_values, dtype=np.float64).ravel(order="F")
|
|
500
|
+
plotter.add_mesh(
|
|
501
|
+
mesh,
|
|
502
|
+
scalars=scalar_name,
|
|
503
|
+
cmap="coolwarm",
|
|
504
|
+
clim=(-vmax, vmax),
|
|
505
|
+
opacity=opacity,
|
|
506
|
+
smooth_shading=True,
|
|
507
|
+
show_edges=False,
|
|
508
|
+
show_scalar_bar=show_scalar_bar,
|
|
509
|
+
scalar_bar_args={
|
|
510
|
+
"title": scalar_name,
|
|
511
|
+
"title_font_size": 18,
|
|
512
|
+
"label_font_size": 14,
|
|
513
|
+
"shadow": False,
|
|
514
|
+
"fmt": "%.2f",
|
|
515
|
+
},
|
|
516
|
+
)
|
|
517
|
+
|
|
518
|
+
outer_i = max(geometry.shape[0] - 3, 1)
|
|
519
|
+
middle_i = max(int(0.72 * geometry.shape[0]), 1)
|
|
520
|
+
for radial_index, opacity, show_bar in ((outer_i, 0.78, True), (middle_i, 0.52, False)):
|
|
521
|
+
add_surface(
|
|
522
|
+
x[np.ix_([radial_index], phi_window, theta_window)][0],
|
|
523
|
+
y[np.ix_([radial_index], phi_window, theta_window)][0],
|
|
524
|
+
z[np.ix_([radial_index], phi_window, theta_window)][0],
|
|
525
|
+
values[np.ix_([radial_index], phi_window, theta_window)][0],
|
|
526
|
+
opacity=opacity,
|
|
527
|
+
show_scalar_bar=show_bar,
|
|
528
|
+
)
|
|
529
|
+
|
|
530
|
+
for cut_j in (max(1, ny // 12), max(2, 7 * ny // 12)):
|
|
531
|
+
add_surface(
|
|
532
|
+
x[np.ix_(radial_window, [cut_j], theta_window)][:, 0, :],
|
|
533
|
+
y[np.ix_(radial_window, [cut_j], theta_window)][:, 0, :],
|
|
534
|
+
z[np.ix_(radial_window, [cut_j], theta_window)][:, 0, :],
|
|
535
|
+
values[np.ix_(radial_window, [cut_j], theta_window)][:, 0, :],
|
|
536
|
+
opacity=0.94,
|
|
537
|
+
show_scalar_bar=False,
|
|
538
|
+
)
|
|
539
|
+
|
|
540
|
+
for theta_seed in (0.15, 1.55, 3.15):
|
|
541
|
+
line_points = _field_line_points(geometry, radial_index=outer_i, theta_seed=theta_seed)
|
|
542
|
+
line = pv.PolyData(line_points)
|
|
543
|
+
line.lines = np.hstack([[line_points.shape[0]], np.arange(line_points.shape[0])])
|
|
544
|
+
plotter.add_mesh(line, color="black", line_width=2.2, opacity=0.72)
|
|
545
|
+
|
|
546
|
+
plotter.add_text(
|
|
547
|
+
"Reduced 3D stellarator SOL dynamics\n"
|
|
548
|
+
f"opened toroidal/radial view, t = {time_value:.2f}",
|
|
549
|
+
position=(32, 835),
|
|
550
|
+
font_size=14,
|
|
551
|
+
color="black",
|
|
552
|
+
)
|
|
553
|
+
plotter.add_text(
|
|
554
|
+
"Outer and mid-radius traced surfaces plus two radial cuts show interior fluctuations",
|
|
555
|
+
position="lower_left",
|
|
556
|
+
font_size=11,
|
|
557
|
+
color="black",
|
|
558
|
+
)
|
|
559
|
+
center = (float(np.nanmean(x)), float(np.nanmean(y)), float(np.nanmean(z)))
|
|
560
|
+
radius = 1.75 * max(float(np.nanmax(x) - np.nanmin(x)), float(np.nanmax(y) - np.nanmin(y)))
|
|
561
|
+
angle = np.deg2rad(-38.0 + 26.0 * np.sin(1.35 * time_value))
|
|
562
|
+
camera = (
|
|
563
|
+
center[0] + radius * np.cos(angle),
|
|
564
|
+
center[1] + radius * np.sin(angle),
|
|
565
|
+
center[2] + 0.55 * radius,
|
|
566
|
+
)
|
|
567
|
+
plotter.camera_position = [camera, center, (0.0, 0.0, 1.0)]
|
|
568
|
+
plotter.screenshot(str(resolved))
|
|
569
|
+
plotter.close()
|
|
570
|
+
return resolved
|
|
571
|
+
|
|
572
|
+
|
|
573
|
+
def _field_line_points(
|
|
574
|
+
geometry: SyntheticStellaratorGeometry,
|
|
575
|
+
*,
|
|
576
|
+
radial_index: int,
|
|
577
|
+
theta_seed: float,
|
|
578
|
+
) -> np.ndarray:
|
|
579
|
+
x = np.asarray(geometry.coordinates_x)
|
|
580
|
+
y = np.asarray(geometry.coordinates_y)
|
|
581
|
+
z = np.asarray(geometry.coordinates_z)
|
|
582
|
+
phi = np.linspace(0.0, 2.0 * np.pi, geometry.shape[1], endpoint=False)
|
|
583
|
+
iota = np.asarray(geometry.iota[radial_index, :, 0], dtype=np.float64)
|
|
584
|
+
theta = np.mod(theta_seed + np.cumsum(iota) * geometry.maps.dphi, 2.0 * np.pi)
|
|
585
|
+
theta_indices = np.mod(np.rint(theta * geometry.shape[2] / (2.0 * np.pi)).astype(int), geometry.shape[2])
|
|
586
|
+
return np.column_stack(
|
|
587
|
+
[
|
|
588
|
+
x[radial_index, np.arange(geometry.shape[1]), theta_indices],
|
|
589
|
+
y[radial_index, np.arange(geometry.shape[1]), theta_indices],
|
|
590
|
+
z[radial_index, np.arange(geometry.shape[1]), theta_indices],
|
|
591
|
+
]
|
|
592
|
+
)
|
|
593
|
+
|
|
594
|
+
|
|
595
|
+
def _write_showcase_arrays(
|
|
596
|
+
geometry: SyntheticStellaratorGeometry,
|
|
597
|
+
history: np.ndarray,
|
|
598
|
+
time: np.ndarray,
|
|
599
|
+
path: Path,
|
|
600
|
+
) -> Path:
|
|
601
|
+
np.savez_compressed(
|
|
602
|
+
path,
|
|
603
|
+
history=np.asarray(history, dtype=np.float16),
|
|
604
|
+
time=np.asarray(time, dtype=np.float32),
|
|
605
|
+
x=np.asarray(geometry.coordinates_x, dtype=np.float32),
|
|
606
|
+
y=np.asarray(geometry.coordinates_y, dtype=np.float32),
|
|
607
|
+
z=np.asarray(geometry.coordinates_z, dtype=np.float32),
|
|
608
|
+
curvature=np.asarray(geometry.curvature, dtype=np.float32),
|
|
609
|
+
connection_length=np.asarray(geometry.connection_length, dtype=np.float32),
|
|
610
|
+
Bxy=np.asarray(geometry.metric.Bxy, dtype=np.float32),
|
|
611
|
+
)
|
|
612
|
+
return path
|
|
613
|
+
|
|
614
|
+
|
|
615
|
+
def _moment(values: np.ndarray, order: int) -> float:
|
|
616
|
+
centered = values - np.mean(values)
|
|
617
|
+
sigma = float(np.std(centered))
|
|
618
|
+
if sigma <= 0.0:
|
|
619
|
+
return 0.0
|
|
620
|
+
return float(np.mean((centered / sigma) ** order))
|
|
621
|
+
|
|
622
|
+
|
|
623
|
+
def _cell_moment(history: np.ndarray, order: int) -> np.ndarray:
|
|
624
|
+
centered = history - np.mean(history, axis=0, keepdims=True)
|
|
625
|
+
sigma = np.std(centered, axis=0)
|
|
626
|
+
safe_sigma = np.where(sigma > 1.0e-12, sigma, 1.0)
|
|
627
|
+
moment = np.mean((centered / safe_sigma[None, :, :, :]) ** order, axis=0)
|
|
628
|
+
return np.where(sigma > 1.0e-12, moment, 0.0)
|