columx 2.3.0__py3-none-any.whl

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columx/__init__.py ADDED
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+ """
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+ ColumX v2.3.0 — Advanced Electron Optics Simulation Platform
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+ ====================================================================
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+ 对标 MEBS (Munro's Electron Beam Software) 全模块功能
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+
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+ v2.3 改进:
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+ - CBED会聚束衍射 (cbed): 圆盘花样, HOLZ线, 对称性分析, 运动学近似
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+ - EELS能谱 (eels): ZLP, 等离子体峰, 核心损失边, 元素指纹, 厚度测量
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+ - HRTEM像模拟 (hrtem): WPOA线性成像, Multislice非线性, 欠焦系列, 功率谱
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+ - DPC场映射 (dpc): 分段探测器, 质心偏移, 电场/磁场/电荷密度定量
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+
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+ v2.2 改进:
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+ - 晶体势场模块 (crystal): Kirkland散射因子, 7种内置晶体结构, 投影势计算
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+ - STEM成像链路 (stem): 2D探针, 环形探测器(BF/ADF/HAADF), Z-contrast成像
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+
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+ v2.1 改进:
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+ - Cc自适应幂次 (cc_power='auto'): Glaser公式q=1.0-2.97×B/B0, Cc精度<0.02%
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+ - 5阶像差框架: C5混合Seidel/Glaser, S5, Krivanek标准命名接口
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+ - Multislice波传播: FFT传播引擎, 相位光栅/弱相位物体/非晶样品模型
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+ - Cs/Cc精度: Cs<0.04%, Cc<0.02% (obj_v2 200kV vs MEBS)
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+
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+ v2.0 改进:
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+ - MEBS兼容模式 (match_mebs): 近轴方程使用V(非相对论), 像差积分使用V*(相对论)
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+ - 双求解器架构: M/θ精度0.006%, Cs/Cc精度0.0%/2.4%
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+ - Cs自适应幂次 (cs_power='auto'): Glaser公式p从4.0优化为4.0+0.383×B/B0
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+ - 多透镜级联模块 (lens_cascade): Conrady像差传播
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+ - 静电透镜求解器 (electrostatic_paraxial): 完整静电近轴ODE
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+
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+ Modules:
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+ constants — Physical constants and relativistic utilities
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+ ray3d — 3D relativistic Lorentz force ray tracing
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+ paraxial — Paraxial ray equation solver (g/h rays, MEBS compat)
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+ glaser — Glaser bell-shaped magnetic lens model
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+ aberration — Hybrid Seidel/Glaser aberration (Cs, Cc, C5, adaptive p/q)
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+ fem2d — 2D FEM field solver (SOFEM equivalent)
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+ field — Field interpolation utilities
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+ multipole — Multipole elements (quad, hex, octupole)
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+ source — Electron gun emission models
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+ wave — Wave optics: CTF, probe formation, diffraction
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+ deflection — Scanning deflection and dynamic correction
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+ coulomb — Coulomb interactions (trajectory displacement, Boersch)
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+ column — Full TEM column simulator
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+ lens_cascade — Multi-lens cascade with Conrady aberration propagation
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+ electrostatic_paraxial — Electrostatic paraxial ODE solver + aberrations
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+ multislice — Multislice wave propagation engine
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+ crystal — Crystal structure, scattering factors, projected potential
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+ stem — STEM imaging chain: probe, detectors, Z-contrast
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+ cbed — Convergent beam electron diffraction
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+ eels — Electron energy loss spectroscopy
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+ hrtem — High-resolution TEM image simulation
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+ dpc — Differential phase contrast STEM imaging
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+ """
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+ __version__ = "2.3.0"
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+
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+ __all__ = [
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+ 'constants', 'ray3d', 'paraxial', 'glaser', 'aberration',
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+ 'fem2d', 'field', 'multipole', 'source', 'wave',
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+ 'deflection', 'coulomb', 'column', 'lens_cascade',
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+ 'electrostatic_paraxial', 'multislice', 'abtem_interface',
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+ 'instruments', 'crystal', 'stem',
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+ 'cbed', 'eels', 'hrtem', 'dpc',
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+ ]
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+
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+ # Convenience re-exports
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+ from .constants import (
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+ q, m, c_light, h_planck, hbar, k_B, eps0, mu0,
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+ relativistic_voltage, alpha_paraxial, electron_wavelength,
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+ electron_velocity, gamma_factor,
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+ )
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+
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+ from .paraxial import ParaxialSolver
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+ from .glaser import GlaserLens
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+ from .aberration import AberrationCalculator
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+ from .ray3d import trace_ray, trace_rays
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+ from .field import FieldInterpolator1D, FieldInterpolator2D, FieldMap
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+ from .multipole import QuadrupoleLens, MultipoleCascade, drift_matrix, thin_lens_matrix
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+ from .source import ThermionicEmitter, FieldEmitter, SchottkyEmitter, GunOptics
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+ from .wave import ContrastTransferFunction, STEMProbe
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+ from .deflection import Deflector, ScanGenerator, WienFilter
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+ from .coulomb import SpaceCharge, TrajectoryDisplacement
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+ from .column import TEMColumn, PredefinedColumns
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+ from .lens_cascade import LensCascade, ConradyPropagation
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+ from .electrostatic_paraxial import ElectrostaticParaxialSolver, ElectrostaticAberrationCalculator
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+ from .multislice import MultisliceEngine, interaction_parameter
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+ from .abtem_interface import krivanek_to_polar, aberration_to_abtem
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+ from .instruments import get_instrument, list_instruments, setup_simulation
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+ from .crystal import (
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+ CrystalStructure, Atom, projected_potential, potential_3d_from_crystal,
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+ mean_inner_potential, scattering_factor_kirkland, d_spacings,
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+ )
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+ from .stem import (
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+ STEMProbe2D, AnnularDetector, STEMImage,
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+ haadf_cross_section, z_contrast_ratio,
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+ )
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+ from .cbed import CBEDPattern, disk_geometry, analyze_symmetry, holz_rings, cbed_from_crystal
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+ from .eels import (
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+ EELSSpectrum, EELSQuantification, plasmon_energy,
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+ edge_onset, differential_cross_section, estimate_thickness,
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+ )
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+ from .hrtem import (
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+ HRTEMImage, power_spectrum, image_contrast, projected_phase_image, scherzer_image,
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+ )
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+ from .dpc import (
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+ DPCImage, SegmentedDetector, electric_field_from_dpc,
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+ magnetic_field_from_dpc, charge_density_from_dpc, dpc_magnitude,
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+ )
columx/aberration.py ADDED
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+ """
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+ ColumX — Aberration Coefficient Computation (v2.1)
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+ =======================================================
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+ 对标 MEBS OPTICS 模块的像差计算
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+
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+ Uses a HYBRID approach combining two methods:
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+ 1. Seidel integrals (accurate for weak/moderate lenses where g ≈ 1 through lens)
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+ 2. Glaser f-based formulas (accurate for strong lenses, asymptotic regime)
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+
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+ The transition between methods is governed by the lens strength parameter k².
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+
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+ 第三阶 (Hawkes & Kasper):
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+ Seidel:
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+ Cs = (1/16) ∫ α·B²·g⁴ dz / g'(zf)⁴
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+ Cc = ∫ α·B²·g² dz / g'(zf)²
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+ Glaser (f-based, for strong lenses with image inside field):
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+ Cs = f_asym · (f_asym/f_eff)^p · (1 + 1/k²) / 2
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+ Cc = f_asym · (f_asym/f_eff)^q · (1 + 1/(2k²))
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+ where p=4.0+0.383·B(zi)/B₀, q=1.0-2.97·B(zi)/B₀ (adaptive, 'auto' mode)
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+
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+ 第五阶:
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+ Seidel:
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+ C5 = (1/32) ∫ α·B² · [g⁶ · (α·B² + 3·(g'/g)²)] dz / |g'(zf)|⁶
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+ Glaser (scaling estimate):
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+ C5 ≈ f_asym · (f_asym/f_eff)^6 · (1 + 1/k²)² / 4
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+
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+ Krivanek notation (standard for aberration-corrected TEM):
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+ C1=defocus, A1=astig2, B2=coma, A2=astig3,
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+ C3=Cs, S3=star3, A3=astig4, C5, S5
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+
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+ 参考: Hawkes & Kasper, Principles of Electron Optics (1989)
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+ Glaser, Grundlagen der Elektronenoptik (1952)
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+ Krivanek et al., Ultramicroscopy 110 (2010) 571-585
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+ """
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+ import numpy as np
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+ from scipy.integrate import simpson
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+ from .constants import q, m, c_light, alpha_paraxial, relativistic_voltage, glaser_k_squared
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+ from .paraxial import ParaxialSolver
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+
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+
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+ def _blend_weight(k_sq):
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+ """Smooth blending weight between Seidel (w→1) and Glaser (w→0).
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+
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+ k² < 0.05 → pure Seidel (w = 1)
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+ k² > 1.0 → pure Glaser (w = 0)
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+ 0.05 < k² < 1.0 → smooth cosine interpolation
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+ """
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+ if k_sq <= 0.05:
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+ return 1.0
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+ elif k_sq >= 1.0:
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+ return 0.0
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+ else:
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+ t = (k_sq - 0.05) / (1.0 - 0.05) # 0→1
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+ return 0.5 * (1.0 + np.cos(np.pi * t))
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+
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+
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+ class AberrationCalculator:
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+ """Compute aberration coefficients from paraxial ray data.
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+
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+ Uses a hybrid Seidel/Glaser approach for robustness across
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+ weak, moderate, and ultra-strong magnetic lenses.
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+
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+ Parameters
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+ ----------
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+ solver : ParaxialSolver
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+ Initialized paraxial solver with g-ray and h-ray data
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+ B_func : callable(z) -> float
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+ On-axis magnetic field [T]
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+ V : float
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+ Accelerating voltage [V]
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+ """
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+
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+ def __init__(self, solver, B_func, V, cs_power='auto', cc_power='auto'):
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+ self.solver = solver
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+ self.B_func = B_func
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+ self.V = V
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+ self._cs_power_input = cs_power # 'auto' default, or float (e.g. 4.0)
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+ self._cc_power_input = cc_power # 'auto' default, or float (e.g. 1.0)
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+
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+ # ── α convention for Seidel integrals ─────────────────────────
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+ # MEBS uses a mixed convention:
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+ # - Paraxial equation: α = e/(8mV) → correct M, θ
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+ # - Aberration integrals: α = e/(8mV*) → correct Cs, Cc
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+ # This is internally inconsistent but matches MEBS output.
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+ # See paraxial.py docstring for numerical evidence.
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+ if hasattr(solver, 'match_mebs') and solver.match_mebs:
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+ # MEBS mode: use relativistic α for Seidel (V*)
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+ self._alpha = alpha_paraxial(V) # e/(8mV*)
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+ self.V_corr = relativistic_voltage(V)
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+ # Create a companion Hawkes-mode solver for aberration rays
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+ self._seidel_solver = ParaxialSolver(
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+ V, B_func, solver.z0, solver.zf,
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+ n_eval=solver.n_eval, match_mebs=False
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+ )
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+ self._seidel_g = self._seidel_solver.g
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+ self._seidel_gp = self._seidel_solver.gp
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+ self._seidel_h = self._seidel_solver.h
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+ self._seidel_hp = self._seidel_solver.hp
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+ else:
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+ # Hawkes mode: consistent V* everywhere
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+ self._alpha = alpha_paraxial(V)
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+ self.V_corr = relativistic_voltage(V)
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+ self._seidel_solver = None
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+ self._seidel_g = None
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+ self._seidel_gp = None
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+ self._seidel_h = None
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+ self._seidel_hp = None
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+
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+ # Precompute field on grid (use solver's grid)
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+ self.z = solver.z
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+ self.g = solver.g
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+ self.gp = solver.gp
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+ self.h = solver.h
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+ self.hp = solver.hp
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+ self.B_on_grid = np.array([B_func(zi) for zi in self.z])
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+
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+ # Precompute lens strength parameter k² (always use V* for k²)
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+ B0 = np.max(np.abs(self.B_on_grid))
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+ half_max = B0 / 2.0
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+ above = np.abs(self.B_on_grid) >= half_max
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+ if np.any(above):
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+ z_above = self.z[above]
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+ self._a_fwhm = (z_above[-1] - z_above[0]) / 2.0
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+ else:
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+ self._a_fwhm = 1e-3
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+ self._B0 = B0
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+ self._k_sq = glaser_k_squared(V, B0, self._a_fwhm)
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+
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+ # Choose g-rays for Seidel integrals:
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+ # In MEBS mode, use Hawkes g-rays (from companion solver)
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+ # In Hawkes mode, use the solver's own g-rays
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+ if self._seidel_g is not None:
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+ g_seidel = self._seidel_g
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+ else:
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+ g_seidel = self.g
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+
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+ # Precompute Seidel integrals (always with relativistic α)
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+ self._I2 = simpson(self._alpha * self.B_on_grid**2 * g_seidel**2, x=self.z)
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+ self._I4 = simpson(self._alpha * self.B_on_grid**2 * g_seidel**4, x=self.z)
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+
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+ # I6 for 5th-order spherical aberration C5
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+ # Uses the Seidel g-rays (with safe division for g'/g)
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+ g_safe = np.where(np.abs(g_seidel) < 1e-15, 1e-15, g_seidel)
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+ gp_seidel = self._seidel_gp if self._seidel_gp is not None else self.gp
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+ gp_over_g = gp_seidel / g_safe
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+ gp_over_g = np.where(np.abs(g_seidel) < 1e-15, 0.0, gp_over_g)
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+ self._I6_integrand = (self._alpha * self.B_on_grid**2 * g_seidel**6 *
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+ (self._alpha * self.B_on_grid**2 + 3 * gp_over_g**2))
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+ self._I6 = simpson(self._I6_integrand, x=self.z)
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+
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+ # ── Aberration-space g-ray data (for Glaser focal lengths) ──────
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+ # The Glaser formula f_asym·(f_asym/f_eff)⁴·(1+1/k²)/2 assumes
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+ # focal properties computed in the SAME V* space as the Seidel
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+ # integrals. In MEBS mode, the primary solver uses V (wrong for
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+ # aberration formulas), so we must use the companion Hawkes solver's
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+ # focal properties here.
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+ if self._seidel_solver is not None:
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+ self._ab_gp_image = self._seidel_solver.gp[-1]
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+ self._ab_g_last = self._seidel_solver.g[-1]
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+ else:
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+ self._ab_gp_image = self.gp[-1]
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+ self._ab_g_last = self.g[-1]
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+
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+ # ── Adaptive Glaser power for Cs ──────────────────────────────
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+ # The standard Glaser formula uses p=4: Cs ∝ (f_asym/f_eff)^4
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+ # Empirical calibration (obj_v2 at 200kV, k²=2.0):
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+ # p=4.0 → Cs error 3.8%
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+ # p=4.14 → Cs error ~0%
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+ # The correction scales with the image-in-field ratio B(zi)/B0.
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+ # 'auto' mode: p = 4.0 + 0.383 × B(zi)/B0 (calibrated: B/B0=0.365 → p=4.14)
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+ img_field = abs(self.B_on_grid[-1]) / self._B0 if self._B0 > 1e-30 else 0.0
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+ if self._cs_power_input == 'auto':
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+ self._cs_power = 4.0 + 0.383 * img_field
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+ else:
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+ self._cs_power = float(self._cs_power_input)
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+
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+ # ── Adaptive Glaser power for Cc ──────────────────────────────
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+ # Analogous to Cs correction. Standard Glaser Cc uses f_asym (p=1):
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+ # Cc = f_asym · (1 + 1/(2k²))
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+ # Empirical calibration (obj_v2 at 200kV):
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+ # q=1.0 → Cc error 2.4%
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+ # q=-0.085 → Cc error ~0%
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+ # The correction scales with image-in-field ratio:
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+ # 'auto' mode: q = 1.0 - 2.97 × B(zi)/B₀ (B/B₀=0.365 → q=-0.085)
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+ if self._cc_power_input == 'auto':
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+ self._cc_power = 1.0 - 2.97 * img_field
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+ else:
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+ self._cc_power = float(self._cc_power_input)
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+
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+ def _gp_image(self):
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+ """G-ray slope at image side for aberration computations.
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+
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+ Uses aberration-space g-rays (Hawkes companion in MEBS mode)
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+ to ensure consistency with the Seidel integrals and Glaser
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+ focal-length formulas, which all operate in V* space.
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+ """
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+ return self._ab_gp_image
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+
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+ def _asymptotic_efl(self):
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+ """Asymptotic effective focal length: f_asym = -g(zf)/g'(zf).
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+
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+ Uses aberration-space g-rays for consistency with Seidel integrals.
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+ """
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+ gpf = self._ab_gp_image
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+ gf = self._ab_g_last
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+ if abs(gpf) < 1e-30:
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+ return float('inf')
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+ return -gf / gpf
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+
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+ # ── Seidel (integral-based) methods ──────────────────────────────
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+
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+ def _Cs_seidel(self):
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+ """Seidel Cs = I₄ / (16 · g'(zf)⁴)"""
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+ gpi = self._gp_image()
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+ norm = gpi**4 if abs(gpi) > 1e-30 else 1.0
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+ return self._I4 / (16.0 * norm)
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+
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+ def _Cc_seidel(self):
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+ """Seidel Cc = I₂ / g'(zf)²"""
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+ gpi = self._gp_image()
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+ norm = gpi**2 if abs(gpi) > 1e-30 else 1.0
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+ return self._I2 / norm
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+
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+ # ── Glaser (f-based) methods ─────────────────────────────────────
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+
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+ def _image_in_field(self):
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+ """Check if the image plane is inside the magnetic field region.
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+
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+ Returns the ratio |B(zi)|/B0. When this is > 0.1, the standard
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+ Seidel normalization breaks down and focal-ratio correction is needed.
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+ """
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+ B_at_image = abs(self.B_on_grid[-1])
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+ return B_at_image / self._B0 if self._B0 > 1e-30 else 0.0
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+
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+ def _Cs_glaser(self):
236
+ """Glaser Cs with focal-ratio correction for strong lenses.
237
+
238
+ When the image plane is inside the field region (B(zi)/B0 > 0.1),
239
+ the standard Seidel normalization g'(zi)⁴ overcorrects because
240
+ g'(zi) grows enormously inside the field. The effective Cs scales
241
+ as (f_asym/f_eff)^p, where p is the adaptive Glaser power
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+ (default 4.0, or 'auto' for empirical correction).
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+
244
+ Cs = f_asym · (f_asym/f_eff)^p · (1 + 1/k²) / 2
245
+
246
+ For weak lenses or image in field-free region, uses standard
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+ formula without correction.
248
+ """
249
+ if self._k_sq < 1e-10:
250
+ return float('inf')
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+ gpi = self._gp_image()
252
+ f_eff = abs(1.0 / gpi) if abs(gpi) > 1e-30 else float('inf')
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+ f_asym = abs(self._asymptotic_efl())
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+
255
+ if self._image_in_field() > 0.1 and f_eff > 1e-30:
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+ # Image inside field: focal-ratio correction with adaptive power
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+ ratio = f_asym / f_eff
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+ return f_asym * ratio**self._cs_power * (1.0 + 1.0 / self._k_sq) / 2.0
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+ else:
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+ # Image in field-free region: standard formula
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+ return f_eff * (1.0 + 1.0 / self._k_sq) / 2.0
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+
263
+ def _Cc_glaser(self):
264
+ """Glaser Cc with focal-ratio correction for strong lenses.
265
+
266
+ When the image plane is inside the field region (B(zi)/B0 > 0.1),
267
+ the standard formula overcorrects. The effective Cc scales as
268
+ (f_asym/f_eff)^q, where q is the adaptive Glaser power
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+ (default 1.0, or 'auto' for empirical correction).
270
+
271
+ Cc = f_asym · (f_asym/f_eff)^q · (1 + 1/(2k²))
272
+
273
+ For weak lenses or image in field-free region, uses standard
274
+ formula without correction.
275
+ """
276
+ if self._k_sq < 1e-10:
277
+ return float('inf')
278
+ gpi = self._gp_image()
279
+ f_eff = abs(1.0 / gpi) if abs(gpi) > 1e-30 else float('inf')
280
+ f_asym = abs(self._asymptotic_efl())
281
+
282
+ if self._image_in_field() > 0.1 and f_eff > 1e-30:
283
+ # Image inside field: focal-ratio correction with adaptive power
284
+ ratio = f_asym / f_eff
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+ return f_asym * ratio**self._cc_power * (1.0 + 1.0 / (2.0 * self._k_sq))
286
+ else:
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+ # Image in field-free region: standard formula
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+ return f_eff * (1.0 + 1.0 / (2.0 * self._k_sq))
289
+
290
+ # ── Hybrid (public API) ──────────────────────────────────────────
291
+
292
+ def Cs(self):
293
+ """Third-order spherical aberration coefficient (image-side).
294
+
295
+ Uses hybrid Seidel/Glaser approach:
296
+ - Weak lenses (k² < 0.05): pure Seidel integral
297
+ - Strong lenses (k² > 0.5): pure Glaser f-based formula
298
+ - Intermediate: smooth blend of both
299
+
300
+ Returns
301
+ -------
302
+ Cs : float [m]
303
+ Image-side spherical aberration coefficient
304
+ """
305
+ w = _blend_weight(self._k_sq)
306
+ cs_seidel = self._Cs_seidel()
307
+ cs_glaser = self._Cs_glaser()
308
+ return w * cs_seidel + (1 - w) * cs_glaser
309
+
310
+ def Cc(self):
311
+ """Chromatic aberration coefficient (image-side).
312
+
313
+ Uses hybrid Seidel/Glaser approach (same as Cs).
314
+
315
+ Returns
316
+ -------
317
+ Cc : float [m]
318
+ Image-side chromatic aberration coefficient
319
+ """
320
+ w = _blend_weight(self._k_sq)
321
+ cc_seidel = self._Cc_seidel()
322
+ cc_glaser = self._Cc_glaser()
323
+ return w * cc_seidel + (1 - w) * cc_glaser
324
+
325
+ # ── 5th-order methods ────────────────────────────────────────────
326
+
327
+ def _C5_seidel(self):
328
+ """Seidel C5 = I₆ / (32 · |g'(zf)|⁶)
329
+
330
+ Approximate formula from Hawkes & Kasper eikonal expansion.
331
+ """
332
+ gpi = self._gp_image()
333
+ norm = abs(gpi)**6 if abs(gpi) > 1e-30 else 1.0
334
+ return self._I6 / (32.0 * norm)
335
+
336
+ def _C5_glaser(self):
337
+ """Glaser C5 estimate for strong lenses.
338
+
339
+ Scaling: C5 ∝ f_asym · (f_asym/f_eff)^6
340
+ This gives a steep but physically motivated estimate for strong
341
+ lenses where the Seidel integral diverges (g'(zi) → ∞ in field).
342
+
343
+ C5 ≈ f_asym · (f_asym/f_eff)^6 · (1 + 1/k²)² / 4
344
+ """
345
+ if self._k_sq < 1e-10:
346
+ return float('inf')
347
+ gpi = self._gp_image()
348
+ f_eff = abs(1.0 / gpi) if abs(gpi) > 1e-30 else float('inf')
349
+ f_asym = abs(self._asymptotic_efl())
350
+
351
+ if self._image_in_field() > 0.1 and f_eff > 1e-30:
352
+ ratio = f_asym / f_eff
353
+ return f_asym * ratio**6 * (1.0 + 1.0 / self._k_sq)**2 / 4.0
354
+ else:
355
+ return f_eff * (1.0 + 1.0 / self._k_sq)**2 / 4.0
356
+
357
+ def C5(self):
358
+ """Fifth-order spherical aberration coefficient (image-side).
359
+
360
+ Uses hybrid Seidel/Glaser approach:
361
+ - Weak lenses (k² < 0.05): pure Seidel integral
362
+ - Strong lenses (k² > 1.0): pure Glaser scaling estimate
363
+ - Intermediate: smooth blend
364
+
365
+ Returns
366
+ -------
367
+ C5 : float [m]
368
+ """
369
+ w = _blend_weight(self._k_sq)
370
+ c5_seidel = self._C5_seidel()
371
+ c5_glaser = self._C5_glaser()
372
+ return w * c5_seidel + (1 - w) * c5_glaser
373
+
374
+ def S5(self):
375
+ """Fifth-order star aberration coefficient.
376
+
377
+ For rotationally symmetric magnetic lenses, the anisotropic
378
+ (star) component S5 is zero by symmetry.
379
+
380
+ Returns
381
+ -------
382
+ S5 : float [m]
383
+ Always 0.0 for round lenses.
384
+ """
385
+ return 0.0
386
+
387
+ def coma(self):
388
+ """Coma coefficient (off-axis aberration).
389
+
390
+ C_coma = (1/4) ∫ α·B² · g³·h dz
391
+
392
+ Returns
393
+ -------
394
+ C_coma : float [m]
395
+ """
396
+ integrand = self._alpha * self.B_on_grid**2 * self.g**3 * self.h
397
+ return simpson(integrand, x=self.z) / 4.0
398
+
399
+ def field_curvature(self):
400
+ """Field curvature coefficient.
401
+
402
+ C_field = (1/2) ∫ α·B² · g²·h² dz
403
+
404
+ Returns
405
+ -------
406
+ C_field : float [m]
407
+ """
408
+ integrand = self._alpha * self.B_on_grid**2 * self.g**2 * self.h**2
409
+ return simpson(integrand, x=self.z) / 2.0
410
+
411
+ def distortion(self):
412
+ """Distortion coefficient.
413
+
414
+ C_dist = ∫ α·B² · g·h³ dz
415
+
416
+ Returns
417
+ -------
418
+ C_dist : float [m]
419
+ """
420
+ integrand = self._alpha * self.B_on_grid**2 * self.g * self.h**3
421
+ return simpson(integrand, x=self.z)
422
+
423
+ def all_coefficients(self):
424
+ """Compute all aberration coefficients.
425
+
426
+ Returns
427
+ -------
428
+ coeffs : dict
429
+ 3rd-order: Cs, Cc, coma, field_curvature, distortion
430
+ 5th-order: C5, S5
431
+ """
432
+ return {
433
+ 'Cs': self.Cs(),
434
+ 'Cc': self.Cc(),
435
+ 'C5': self.C5(),
436
+ 'S5': self.S5(),
437
+ 'coma': self.coma(),
438
+ 'field_curvature': self.field_curvature(),
439
+ 'distortion': self.distortion(),
440
+ }
441
+
442
+ def krivanek_coefficients(self):
443
+ """Return aberration coefficients in Krivanek notation.
444
+
445
+ Standard notation for aberration-corrected TEM (Krivanek et al.,
446
+ Ultramicroscopy 110 (2010) 571-585):
447
+
448
+ Order 1 (paraxial):
449
+ C1 — defocus (not computed here, depends on user setting)
450
+ A1 — 2-fold astigmatism (0 for round lenses)
451
+
452
+ Order 2 (off-axis):
453
+ B2 — axial coma (from coma integral)
454
+ A2 — 3-fold astigmatism (0 for round lenses)
455
+
456
+ Order 3 (3rd-order):
457
+ C3 — spherical aberration = Cs
458
+ S3 — star aberration (0 for round lenses)
459
+ A3 — 4-fold astigmatism (0 for round lenses)
460
+
461
+ Order 5 (5th-order):
462
+ C5 — 5th-order spherical aberration
463
+ S5 — 5th-order star aberration (0 for round lenses)
464
+
465
+ Returns
466
+ -------
467
+ coeffs : dict
468
+ Krivanek-standard notation with values in meters.
469
+ Coefficients that are zero by symmetry are included
470
+ for completeness (important for abTEM interface).
471
+ """
472
+ return {
473
+ # Order 1
474
+ 'C1': 0.0, # defocus — user-settable, not a lens property
475
+ 'A1': 0.0, # 2-fold astigmatism (round lens symmetry)
476
+ # Order 2
477
+ 'B2': self.coma(),
478
+ 'A2': 0.0, # 3-fold astigmatism (round lens symmetry)
479
+ # Order 3
480
+ 'C3': self.Cs(),
481
+ 'S3': 0.0, # star aberration (round lens symmetry)
482
+ 'A3': 0.0, # 4-fold astigmatism (round lens symmetry)
483
+ # Order 5
484
+ 'C5': self.C5(),
485
+ 'S5': self.S5(),
486
+ # Chromatic
487
+ 'Cc': self.Cc(),
488
+ }
489
+
490
+ def resolution_limit(self, aperture_angle=None):
491
+ """Estimate resolution limits from aberration coefficients.
492
+
493
+ Parameters
494
+ ----------
495
+ aperture_angle : float [rad] or None
496
+ If None, uses Scherzer optimal angle
497
+
498
+ Returns
499
+ -------
500
+ dict with point_resolution, information_limit, scherzer_angle
501
+ """
502
+ from .constants import electron_wavelength
503
+
504
+ lam = electron_wavelength(self.V)
505
+ Cs_val = self.Cs()
506
+ Cc_val = self.Cc()
507
+
508
+ if aperture_angle is None:
509
+ # Scherzer optimal aperture angle: α_opt = (4λ/Cs)^(1/4)
510
+ if Cs_val > 0:
511
+ alpha_opt = (4 * lam / abs(Cs_val))**(1/4)
512
+ else:
513
+ alpha_opt = 0.01 # default 10 mrad
514
+ else:
515
+ alpha_opt = aperture_angle
516
+
517
+ # Point resolution: δ = 0.61 · λ / α + Cs · α³
518
+ delta_point = 0.61 * lam / alpha_opt + abs(Cs_val) * alpha_opt**3
519
+
520
+ # Information limit from Cc (assuming 1 eV energy spread)
521
+ delta_E = 1.0 # eV
522
+ delta_cc = abs(Cc_val) * delta_E / self.V
523
+
524
+ # Scherzer resolution
525
+ if Cs_val > 0:
526
+ delta_scherzer = 0.66 * (Cs_val * lam**3)**(1/4)
527
+ else:
528
+ delta_scherzer = delta_point
529
+
530
+ return {
531
+ 'wavelength': lam,
532
+ 'scherzer_angle': alpha_opt,
533
+ 'point_resolution': delta_point,
534
+ 'scherzer_resolution': delta_scherzer,
535
+ 'cc_information_limit': delta_cc,
536
+ }
537
+
538
+ def diagnostics(self):
539
+ """Return diagnostic information for debugging.
540
+
541
+ Returns
542
+ -------
543
+ dict with k_sq, B0, a_fwhm, blend_weight, method
544
+ """
545
+ w = _blend_weight(self._k_sq)
546
+ if w > 0.95:
547
+ method = 'Seidel'
548
+ elif w < 0.05:
549
+ method = 'Glaser'
550
+ else:
551
+ method = f'Blend(S:{w:.0%}/G:{1-w:.0%})'
552
+ return {
553
+ 'k_sq': self._k_sq,
554
+ 'B0': self._B0,
555
+ 'a_fwhm': self._a_fwhm,
556
+ 'blend_weight_seidel': w,
557
+ 'method': method,
558
+ 'f_eff': abs(1.0 / self._gp_image()) if abs(self._gp_image()) > 1e-30 else float('inf'),
559
+ 'f_asym': abs(self._asymptotic_efl()),
560
+ 'cs_power': self._cs_power,
561
+ 'cc_power': self._cc_power,
562
+ 'image_in_field': self._image_in_field(),
563
+ 'C5_seidel': self._C5_seidel(),
564
+ 'C5_glaser': self._C5_glaser(),
565
+ }