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import yt, glob
from mpi4py import MPI
import numpy as np
import scipy.constants as scc
yt.funcs.mylog.setLevel(50)
# my_max = 1.e11 # for smooth rendering
my_max = 5.e10 # for layered rendering
species_to_plot = ['plasma_e', 'beam', 'driver']
# For each species, provide [red, green, blue, alpha] between 0. and 1.
species_colors = { 'plasma_e': [1., 1., 1., .15],
'beam' : [1., 1., 1., .2 ],
'driver' : [1., 1., 1., .2 ] }
# provide these to avoid jitter when using a moving window
use_moving_window = True
plot_mr_patch = False
rendering_type = 'layers' # 'layers' or 'smooth'
maxwell_solver = 'ckc' # 'ckc' or 'yee'
cfl = 0.99
file_list = glob.glob('plotfiles/plt?????')
bounds = ( -my_max, my_max )
z_shift = 0.
w = (.01*my_max)**2
def jitter_shift(ds, ad, cfl, iteration):
if maxwell_solver == 'yee':
dt = 1./scc.c * 1./np.sqrt((1./ad['dx'][-1]**2 + 1./ad['dy'][-1]**2 + 1./ad['dz'][-1]**2))
elif maxwell_solver == 'ckc':
dt = cfl * min( [ ad['dx'][-1], ad['dy'][-1], ad['dz'][-1] ] ) / scc.c
z_front = dt * float(iteration) * scc.c + 7.5e-6*yt.units.meter
z_shift = z_front-ds.domain_right_edge[2]
return z_shift
def get_species_ytpoints(ad, species, color_vec):
xp = ad[species,'particle_position_x'].v
yp = ad[species,'particle_position_y'].v
zp = ad[species,'particle_position_z'].v
if species == 'plasma_e':
selection = np.abs(xp)<2.e-6
zp = zp[selection]
yp = yp[selection]
xp = xp[selection]
vertices = np.column_stack((xp,yp,zp))
colors = np.tile(color_vec,(vertices.shape[0], 1))
points = yt.visualization.volume_rendering.render_source.PointSource(vertices, colors=colors, radii=1)
return points
def img_onestep(filename):
ds = yt.load( filename )
ad = ds.all_data()
iteration=int(filename[-5:])
sc = yt.create_scene(ds, field='Ez')
if use_moving_window:
z_shift = jitter_shift( ds, ad, cfl, iteration )
array_shift = z_shift * np.array([0., 0., 1.])
if plot_mr_patch:
box_patch = yt.visualization.volume_rendering.render_source.BoxSource(
left_edge =ds.index.grids[1].LeftEdge +array_shift,
right_edge=ds.index.grids[1].RightEdge+array_shift,
color=[1.,0.1,0.1,.01] )
sc.add_source(box_patch)
########################
### volume rendering ###
########################
source = sc[0]
source.use_ghost_zones = True
source.grey_opacity = True
source.set_log(False)
tf = yt.ColorTransferFunction(bounds)
if rendering_type == 'smooth':
tf.add_gaussian(-my_max/4, width=15**2*w, height=[0.0, 0.0, 1.0, 1])
tf.add_gaussian( my_max/4, width=15**2*w, height=[1.0, 0.0, 0.0, 1])
if rendering_type == 'layers':
# NEGATIVE
tf.add_gaussian(-.04 *my_max, width=8*w, height=[0.1, 0.1, 1.0, 0.2])
tf.add_gaussian(-.2 *my_max, width=5*w, height=[0.1, 0.1, 1.0, 0.5])
tf.add_gaussian(-.6 *my_max, width=w, height=[0.0, 0.0, 1.0, 1.])
# POSITIVE
tf.add_gaussian(.04 *my_max, width=8*w, height=[1.0, 1.0, 0.2, 0.2])
tf.add_gaussian(.2 *my_max, width=5*w, height=[1.0, 1.0, 0.2, 0.5])
tf.add_gaussian(.6 *my_max, width=w, height=[1.0, 1.0, 0.0, 1.])
######################
### plot particles ###
######################
species_points = {}
for species in species_to_plot:
species_points[ species ] = get_species_ytpoints(ad,
species, species_colors[species])
sc.add_source( species_points[ species ] )
source.tfh.tf = tf
source.tfh.bounds = bounds
#########################
### camera properties ###
#########################
cam = sc.camera
cam.resolution = (2048, 2048)
cam.width = .00018*yt.units.meter
cam.focus = ds.domain_center + \
np.array([0., 0., 10.e-6 ])*yt.units.meter + \
array_shift
cam.position = ds.domain_center + \
np.array([15., 15., -5. ])*yt.units.micrometer + \
array_shift
cam.normal_vector = [-0.3, -0.3, -.2]
cam.switch_orientation()
# save image
if rendering_type == 'smooth':
sc.save('img_' + str(my_number_list[count]).zfill(4), sigma_clip=5.)
if rendering_type == 'layers':
sc.save('img_' + str(my_number_list[count]).zfill(4), sigma_clip=2.)
file_list.sort()
# Total number of files
nfiles = len(file_list)
# Each file has a unique number
number_list = range(nfiles)
comm_world = MPI.COMM_WORLD
me = comm_world.Get_rank()
nrank = comm_world.Get_size()
# List of files to process for current proc
my_list = file_list[ (me*nfiles)/nrank : ((me+1)*nfiles)/nrank ]
# List if file numbers for current proc
my_number_list = number_list[ (me*nfiles)/nrank : ((me+1)*nfiles)/nrank ]
for count, filename in enumerate(my_list):
print('processing ' + filename)
img_onestep(filename)
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