bias_study Namespace Reference

Functions
	n_to_d_nm (n)
	run_case (name, overrides)

Variables
	MODULE_ROOT = Path(__file__).resolve().parent.parent.parent
	REPO_ROOT = MODULE_ROOT.parent
float	Omega = 1.18e-29
float	b_111 = 2.482e-10
	I_SIM
	V_SIM
dict	SOLVER_CONFIG
dict	BASE_PARAMS
dict	CASES
str	out_dir = Path(__file__).parent / 'bias_study_output'
	exist_ok
list	all_results = []
	t0 = time.time()
	flush
	t1 = time.time()
	res = run_case(name, overrides)
	elapsed = time.time() - t1
	total = time.time() - t0
	fig1
	axes1
	figsize
	sharex
	dose = res['dose']
int	mask = dose > 1e-8
	label
	fontsize
	ncol
	True
	alpha
	dpi
	fig2
	ax2
	ratio = res['flux_i'][mask] / np.maximum(res['flux_v'][mask], 1e-30)
	y
	color
	linestyle
	linewidth
	ax3a
	ax3b
	ns = np.arange(1, I_SIM + 1)
	d_nm = n_to_d_nm(ns)
	c_i = res['c_i_01']
	p = r['params']

Detailed Description

Bias study — examines how dislocation bias (Z_i) and production bias (f_cl_i, f_cl_v)
affect SIA and vacancy cluster size peaks, and plots the fundamental monomer fluxes.

With the loop geometry correction (A_loop * n^{1/2} for n ≥ 4), the Z_i_loop bias
creates differential SIA vs vacancy absorption that drives net loop growth.

Function Documentation

n_to_d_nm()

bias_study.n_to_d_nm

(

n

)

Definition at line 42 of file bias_study.py.

run_case()

bias_study.run_case	(		name,
			overrides
	)

Run one simulation and return full results + rate info.

Definition at line 68 of file bias_study.py.

Variable Documentation

all_results

list bias_study.all_results = []

Definition at line 247 of file bias_study.py.

alpha

bias_study.alpha

Definition at line 286 of file bias_study.py.

ax2

bias_study.ax2

Definition at line 301 of file bias_study.py.

ax3a

bias_study.ax3a

Definition at line 321 of file bias_study.py.

ax3b

bias_study.ax3b

Definition at line 321 of file bias_study.py.

axes1

bias_study.axes1

Definition at line 275 of file bias_study.py.

b_111

float bias_study.b_111 = 2.482e-10

Definition at line 41 of file bias_study.py.

BASE_PARAMS

dict bias_study.BASE_PARAMS

Initial value:

=  {
    'E_m_1D': 0.4, 'i_mobile': 10, 'L_hat': 71.8,
    'c_C': 1.94e-4, 'E_b_C_SIA': 0.65,
    'rho_d': 1e13,
    'shape_function': 'linear',
}

Definition at line 60 of file bias_study.py.

c_i

bias_study.c_i = res['c_i_01']

Definition at line 326 of file bias_study.py.

CASES

dict bias_study.CASES

Definition at line 192 of file bias_study.py.

color

bias_study.color

Definition at line 307 of file bias_study.py.

d_nm

bias_study.d_nm = n_to_d_nm(ns)

Definition at line 323 of file bias_study.py.

dose

bias_study.dose = res['dose']

Definition at line 278 of file bias_study.py.

dpi

bias_study.dpi

Definition at line 295 of file bias_study.py.

elapsed

bias_study.elapsed = time.time() - t1

Definition at line 261 of file bias_study.py.

exist_ok

bias_study.exist_ok

Definition at line 240 of file bias_study.py.

fig1

bias_study.fig1

Definition at line 275 of file bias_study.py.

fig2

bias_study.fig2

Definition at line 301 of file bias_study.py.

figsize

bias_study.figsize

Definition at line 275 of file bias_study.py.

flush

bias_study.flush

Definition at line 251 of file bias_study.py.

fontsize

bias_study.fontsize

Definition at line 285 of file bias_study.py.

I_SIM

bias_study.I_SIM

Definition at line 46 of file bias_study.py.

label

bias_study.label

Definition at line 280 of file bias_study.py.

linestyle

bias_study.linestyle

Definition at line 307 of file bias_study.py.

linewidth

bias_study.linewidth

Definition at line 307 of file bias_study.py.

mask

int bias_study.mask = dose > 1e-8

Definition at line 279 of file bias_study.py.

MODULE_ROOT

bias_study.MODULE_ROOT = Path(__file__).resolve().parent.parent.parent

Definition at line 17 of file bias_study.py.

ncol

bias_study.ncol

Definition at line 285 of file bias_study.py.

ns

bias_study.ns = np.arange(1, I_SIM + 1)

Definition at line 322 of file bias_study.py.

Omega

float bias_study.Omega = 1.18e-29

Definition at line 40 of file bias_study.py.

out_dir

str bias_study.out_dir = Path(__file__).parent / 'bias_study_output'

Definition at line 239 of file bias_study.py.

p

bias_study.p = r['params']

Definition at line 358 of file bias_study.py.

ratio

bias_study.ratio = res['flux_i'][mask] / np.maximum(res['flux_v'][mask], 1e-30)

Definition at line 305 of file bias_study.py.

REPO_ROOT

bias_study.REPO_ROOT = MODULE_ROOT.parent

Definition at line 18 of file bias_study.py.

res

bias_study.res = run_case(name, overrides)

Definition at line 256 of file bias_study.py.

sharex

bias_study.sharex

Definition at line 275 of file bias_study.py.

SOLVER_CONFIG

dict bias_study.SOLVER_CONFIG

Initial value:

=  {
    't_span':   (1e-6, 1e5),   # → 0.1 dpa at G=1e-6
    'n_points': 150,
    'log_time': True,
    'rtol':     1e-5,
    'atol':     1e-20,
    'solver_method': {
        'linsol': 'gmres',
        'window_width': 50,
        'concentration_threshold': 1e-18, 'window_pad': 10,
    }
}

Definition at line 47 of file bias_study.py.

t0

bias_study.t0 = time.time()

Definition at line 248 of file bias_study.py.

t1

bias_study.t1 = time.time()

Definition at line 254 of file bias_study.py.

total

bias_study.total = time.time() - t0

Definition at line 269 of file bias_study.py.

True

bias_study.True

Definition at line 286 of file bias_study.py.

V_SIM

bias_study.V_SIM

Definition at line 46 of file bias_study.py.

y

bias_study.y

Definition at line 307 of file bias_study.py.