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PICMI_inputs_runtime_component_analyze.py
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#!/usr/bin/env python3
#
# This is a script that adds particle components at runtime,
# then performs checkpoint / restart and compares the result
# to the original simulation.
import sys
import numpy as np
from pywarpx import callbacks, particle_containers, picmi
##########################
# physics parameters
##########################
dt = 7.5e-10
##########################
# numerics parameters
##########################
max_steps = 10
nx = 64
ny = 64
xmin = 0
xmax = 0.03
ymin = 0
ymax = 0.03
##########################
# numerics components
##########################
grid = picmi.Cartesian2DGrid(
number_of_cells = [nx, ny],
lower_bound = [xmin, ymin],
upper_bound = [xmax, ymax],
lower_boundary_conditions = ['dirichlet', 'periodic'],
upper_boundary_conditions = ['dirichlet', 'periodic'],
lower_boundary_conditions_particles = ['absorbing', 'periodic'],
upper_boundary_conditions_particles = ['absorbing', 'periodic'],
moving_window_velocity = None,
warpx_max_grid_size = 32
)
solver = picmi.ElectrostaticSolver(
grid=grid, method='Multigrid', required_precision=1e-6,
warpx_self_fields_verbosity=0
)
##########################
# physics components
##########################
electrons = picmi.Species(
particle_type='electron', name='electrons'
)
##########################
# diagnostics
##########################
particle_diag = picmi.ParticleDiagnostic(
name = 'diag1',
period = 10,
write_dir = '.',
warpx_file_prefix = f'Python_restart_runtime_components_plt'
)
field_diag = picmi.FieldDiagnostic(
name = 'diag1',
grid = grid,
period = 10,
data_list = ['phi'],
write_dir = '.',
warpx_file_prefix = f'Python_restart_runtime_components_plt'
)
checkpoint = picmi.Checkpoint(
name = 'chkpoint',
period = 5,
write_dir = '.',
warpx_file_min_digits = 5,
warpx_file_prefix = f'Python_restart_runtime_components_chk'
)
##########################
# simulation setup
##########################
sim = picmi.Simulation(
solver = solver,
time_step_size = dt,
max_steps = max_steps,
verbose = 1
)
sim.add_species(
electrons,
layout = picmi.GriddedLayout(
n_macroparticle_per_cell=[0, 0], grid=grid
)
)
for arg in sys.argv:
if arg.startswith("amr.restart"):
restart_file_name = arg.split("=")[1]
sim.amr_restart = restart_file_name
sys.argv.remove(arg)
sim.add_diagnostic(particle_diag)
sim.add_diagnostic(field_diag)
sim.add_diagnostic(checkpoint)
sim.initialize_inputs()
sim.initialize_warpx()
##########################
# python particle data access
##########################
# set numpy random seed so that the particle properties generated
# below will be reproducible from run to run
np.random.seed(30025025)
electron_wrapper = particle_containers.ParticleContainerWrapper("electrons")
electron_wrapper.add_real_comp("newPid")
def add_particles():
nps = 10
x = np.linspace(0.005, 0.025, nps)
y = np.zeros(nps)
z = np.linspace(0.005, 0.025, nps)
ux = np.random.normal(loc=0, scale=1e3, size=nps)
uy = np.random.normal(loc=0, scale=1e3, size=nps)
uz = np.random.normal(loc=0, scale=1e3, size=nps)
w = np.ones(nps) * 2.0
newPid = 5.0
electron_wrapper.add_particles(
x=x, y=y, z=z, ux=ux, uy=uy, uz=uz,
w=w, newPid=newPid
)
callbacks.installbeforestep(add_particles)
##########################
# simulation run
##########################
step_number = sim.extension.warpx.getistep(lev=0)
sim.step(max_steps - 1 - step_number)
##########################
# check that the new PIDs are properly set
##########################
assert electron_wrapper.nps == 90
assert electron_wrapper.particle_container.get_comp_index("w") == 2
assert electron_wrapper.particle_container.get_comp_index("newPid") == 6
new_pid_vals = electron_wrapper.get_particle_real_arrays("newPid", 0)
for vals in new_pid_vals:
assert np.allclose(vals, 5)
##########################
# take the final sim step
##########################
sim.step(1)