def make_model(images_dir=os.path.join(base_dir, 'images')):
print('get contiguous')
kml_file = os.path.join(base_dir, 'contigua.kml')
with open(kml_file) as f:
contiguous = parser.parse(f).getroot().Document
coordinates = contiguous.Placemark.LineString.coordinates.text.split(' ')
cont_coord = []
for x in coordinates:
x = x.split(',')
if len(x) > 1 and float(x[1]) > -12 and float(x[1]) < -3:
cont_coord.append([float(x[0]), float(x[1])])
print('initializing the model')
start_time = datetime(2022, 1, 22, 12, 0)
mapfile = get_datafile(os.path.join(base_dir, './brazil-coast.BNA'))
gnome_map = MapFromBNA(mapfile, refloat_halflife=6) # hours
duration = timedelta(days=1)
timestep = timedelta(minutes=5)
end_time = start_time + duration
steps = duration.total_seconds() / timestep.total_seconds()
print("Total step: %.4i " % (steps))
# one hour timestep
model = Model(start_time=start_time,
duration=duration,
time_step=timestep,
map=gnome_map,
uncertain=False,
cache_enabled=False)
oil_name = 'GENERIC MEDIUM CRUDE'
wd = UniformDistribution(low=.0002, high=.0002)
subs = GnomeOil(oil_name, initializers=plume_initializers(distribution=wd))
#model.spills += point_line_release_spill(release_time=start_time, start_position=(-35.153, -8.999, 0.0), num_elements=1000, end_release_time=end_time, substance= subs, units='kg')
#model.spills += point_line_release_spill(release_time=start_time, start_position=(-35.176, -9.135, 0.0), num_elements=1000, end_release_time=end_time, substance= subs, units='kg')
#model.spills += point_line_release_spill(release_time=start_time, start_position=(-35.062, -9.112, 0.0), num_elements=1000, end_release_time=end_time, substance= subs, units='kg')
#model.spills += point_line_release_spill(release_time=start_time, start_position=(-34.994, -9.248, 0.0), num_elements=1000, end_release_time=end_time, substance= subs, units='kg')
for idx in range(0, len(cont_coord)):
model.spills += point_line_release_spill(
num_elements=500,
start_position=(cont_coord[idx][0], cont_coord[idx][1], 0.0),
release_time=start_time,
end_release_time=start_time + timedelta(days=1),
amount=500,
substance=subs,
units='kg')
#shp_file = os.path.join(base_dir, 'surface_concentration')
#scripting.remove_netcdf(shp_file + ".zip")
#model.outputters += ShapeOutput(shp_file,
# zip_output=False,
# surface_conc="kde",
# )
print('adding movers:')
print('adding a RandomMover:')
model.movers += RandomMover(diffusion_coef=10000)
print('adding a current mover:')
# # this is HYCOM currents
curr_file = get_datafile(os.path.join(base_dir, 'currents.nc'))
model.movers += GridCurrentMover(curr_file, num_method='Euler')
print('adding a grid wind mover:')
wind_file = get_datafile(os.path.join(base_dir, 'wind.nc'))
#topology_file = get_datafile(os.path.join(base_dir, 'WindSpeedDirSubsetTop.dat'))
#w_mover = GridWindMover(wind_file, topology_file)
w_mover = GridWindMover(wind_file)
w_mover.uncertain_speed_scale = 1
w_mover.uncertain_angle_scale = 0.2 # default is .4
w_mover.wind_scale = 2
model.movers += w_mover
print('adding outputters')
renderer = Renderer(mapfile,
images_dir,
image_size=(900, 600),
output_timestep=timestep,
draw_ontop='forecast')
#set the viewport to zoom in on the map:
#renderer.viewport = ((-37, -11), (-34, -8)) #alagoas
renderer.viewport = ((-36, -10), (-30, 5))
model.outputters += renderer
netcdf_file = os.path.join(base_dir, 'contigua.nc')
scripting.remove_netcdf(netcdf_file)
model.outputters += NetCDFOutput(netcdf_file,
which_data='standard',
surface_conc='kde')
return model
def make_model():
print 'initializing the model'
start_time = datetime(2004, 12, 31, 13, 0)
model = Model(start_time=start_time,
duration=timedelta(days=3),
time_step=30 * 60,
uncertain=False)
print 'adding the map'
model.map = GnomeMap()
renderer = Renderer(output_dir=images_dir,
image_size=(800, 600),
output_timestep=timedelta(hours=1),
draw_ontop='uncertain')
renderer.viewport = ((-76.5, 37.), (-75.8, 38.))
print 'adding outputters'
model.outputters += renderer
netcdf_file = os.path.join(base_dir, 'script_plume.nc')
scripting.remove_netcdf(netcdf_file)
model.outputters += NetCDFOutput(netcdf_file, which_data='most',
output_timestep=timedelta(hours=2))
print 'adding two spills'
# Break the spill into two spills, first with the larger droplets
# and second with the smaller droplets.
# Split the total spill volume (100 m^3) to have most
# in the larger droplet spill.
# Smaller droplets start at a lower depth than larger
wd = WeibullDistribution(alpha=1.8,
lambda_=.00456,
min_=.0002) # 200 micron min
end_time = start_time + timedelta(hours=24)
# at this point only one non-weathering substance is allowed; this should change in the future
substance=NonWeatheringSubstance(standard_density=900, initializers=plume_initializers(distribution=wd))
spill = subsurface_plume_spill(num_elements=50,
start_position=(-76.126872, 37.680952,
1700.0),
release_time=start_time,
distribution=wd,
amount=90, # default volume_units=m^3
units='m^3',
end_release_time=end_time,
# substance='oil_crude',
#substance=NonWeatheringSubstance(standard_density=900),
substance=substance,
#density=900,
)
model.spills += spill
wd = WeibullDistribution(alpha=1.8,
lambda_=.00456,
max_=.0002) # 200 micron max
spill = point_line_release_spill(num_elements=50,
units='m^3',
start_position=(-76.126872, 37.680952,
1800.0),
release_time=start_time,
amount=90,
#element_type=plume(distribution=wd,
# density=900.0)
#substance = NonWeatheringSubstance(initializers=plume_initializers(distribution=wd))
substance=substance
)
model.spills += spill
print 'adding a RandomMover:'
model.movers += RandomMover(diffusion_coef=50000)
print 'adding a RiseVelocityMover:'
model.movers += RiseVelocityMover()
print 'adding a RandomMover3D:'
model.movers += RandomMover3D(vertical_diffusion_coef_above_ml=5,
vertical_diffusion_coef_below_ml=.11,
mixed_layer_depth=10)
# print 'adding a wind mover:'
# series = np.zeros((2, ), dtype=gnome.basic_types.datetime_value_2d)
# series[0] = (start_time, (30, 90))
# series[1] = (start_time + timedelta(hours=23), (30, 90))
# wind = Wind(timeseries=series, units='knot')
#
# default is .4 radians
# w_mover = gnome.movers.WindMover(wind, uncertain_angle_scale=0)
#
# model.movers += w_mover
print 'adding a simple mover:'
s_mover = SimpleMover(velocity=(0.0, -.3, 0.0))
model.movers += s_mover
return model
def make_model(images_dir=os.path.join(base_dir, 'images')):
print 'initializing the model'
start_time = datetime(2012, 10, 25, 0, 1)
# start_time = datetime(2015, 12, 18, 06, 01)
# 1 day of data in file
# 1/2 hr in seconds
model = Model(start_time=start_time,
duration=timedelta(hours=2),
time_step=900)
mapfile = get_datafile(os.path.join(base_dir, 'nyharbor.bna'))
print 'adding the map'
'''TODO: sort out MapFromBna's map_bounds parameter...
it does nothing right now, and the spill is out of bounds'''
model.map = MapFromBNA(mapfile, refloat_halflife=0.0) # seconds
# draw_ontop can be 'uncertain' or 'forecast'
# 'forecast' LEs are in black, and 'uncertain' are in red
# default is 'forecast' LEs draw on top
renderer = Renderer(mapfile, images_dir, image_size=(1024, 768))
# renderer.viewport = ((-73.5, 40.5), (-73.1, 40.75))
# renderer.viewport = ((-122.9, 45.6), (-122.6, 46.0))
print 'adding outputters'
model.outputters += renderer
netcdf_file = os.path.join(base_dir, 'script_ny_plume.nc')
scripting.remove_netcdf(netcdf_file)
model.outputters += NetCDFOutput(netcdf_file, which_data='all')
print 'adding two spills'
# Break the spill into two spills, first with the larger droplets
# and second with the smaller droplets.
# Split the total spill volume (100 m^3) to have most
# in the larger droplet spill.
# Smaller droplets start at a lower depth than larger
end_time = start_time + model.duration
# wd = WeibullDistribution(alpha=1.8,
# lambda_=.00456,
# min_=.0002) # 200 micron min
#
# spill = subsurface_plume_spill(num_elements=10,
# start_position=(-74.15,
# 40.5,
# 7.2),
# release_time=start_time,
# distribution=wd,
# amount=90, # default volume_units=m^3
# units='m^3',
# end_release_time=end_time,
# density=600)
#
# model.spills += spill
# wd = WeibullDistribution(alpha=1.8,
# lambda_=.00456,
# max_=.0002) # 200 micron max
oil_name = 'ALASKA NORTH SLOPE (MIDDLE PIPELINE, 1997)'
wd = UniformDistribution(low=.0002,
high=.0002)
spill = point_line_release_spill(num_elements=10, amount=90,
units='m^3',
start_position=(-74.15,
40.5,
7.2),
release_time=start_time,
substance = GnomeOil(oil_name,initializers=plume_initializers(distribution=wd))
#element_type=plume(distribution=wd,
#substance_name='ALASKA NORTH SLOPE (MIDDLE PIPELINE, 1997)')
)
model.spills += spill
print 'adding a RandomMover:'
model.movers += RandomMover(diffusion_coef=50000)
print 'adding a RiseVelocityMover:'
model.movers += RiseVelocityMover()
print 'adding a RandomMover3D:'
# model.movers += RandomMover3D(vertical_diffusion_coef_above_ml=5,
# vertical_diffusion_coef_below_ml=.11,
# mixed_layer_depth=10)
# the url is broken, update and include the following four lines
# url = ('http://geoport.whoi.edu/thredds/dodsC/clay/usgs/users/jcwarner/Projects/Sandy/triple_nest/00_dir_NYB05.ncml')
# gc = GridCurrent.from_netCDF(url)
# u_mover = PyCurrentMover(gc, default_num_method='RK2')
# model.movers += u_mover
# print 'adding a wind mover:'
# series = np.zeros((2, ), dtype=gnome.basic_types.datetime_value_2d)
# series[0] = (start_time, (30, 90))
# series[1] = (start_time + timedelta(hours=23), (30, 90))
# wind = Wind(timeseries=series, units='knot')
#
# default is .4 radians
# w_mover = gnome.movers.WindMover(wind, uncertain_angle_scale=0)
#
# model.movers += w_mover
print 'adding a simple mover:'
# s_mover = SimpleMover(velocity=(0.0, -.3, 0.0))
# model.movers += s_mover
return model
def make_model(images_dir=os.path.join(base_dir, 'images2')):
print('initializing the model')
start_time = datetime(int(sys.argv[1]), int(sys.argv[2]), int(sys.argv[3]),
int(sys.argv[4]), int(sys.argv[5]))
mapfile = get_datafile(os.path.join(base_dir, './brazil-coast.bna'))
gnome_map = MapFromBNA(mapfile, refloat_halflife=6) # hours
# # the image output renderer
# global renderer
#duration = timedelta(minutes=5)
#timestep = timedelta(minutes=5)
duration = timedelta(minutes=5)
timestep = timedelta(minutes=5)
endtime = start_time + duration
steps = duration.total_seconds() / timestep.total_seconds()
print("Total step: %.4i " % (steps))
model = Model(start_time=start_time,
duration=duration,
time_step=timestep,
map=gnome_map,
uncertain=False,
cache_enabled=False)
oil_name = 'GENERIC MEDIUM CRUDE'
wd = UniformDistribution(low=.0002, high=.0002)
subs = GnomeOil(oil_name, initializers=plume_initializers(distribution=wd))
#print 'adding a spill'
#spill = point_line_release_spill(num_elements=122,
# start_position=(-35.14,
# -9.40, 0.0),
# release_time=start_time)
#model.spills += spill
#spill2 = spatial_release_spill(-35.14,-9.40, 0.0, start_time)
#model.spills += spill2
#print 'load nc'
#netcdf_file = os.path.join(base_dir, 'maceio.nc')
#relnc = InitElemsFromFile(netcdf_file,release_time=start_time)
#relnc = InitElemsFromFile(netcdf_file,index=5)
#spillnc = Spill(release=relnc)
#print spillnc.release.num_elements
#print spillnc.release.name
#print spillnc.substance
#print relnc._init_data['age']
#print relnc.release_time
#model.spills += spillnc
#model._load_spill_data()
#for sc in model.spills.items():
# sc.prepare_for_model_run()
#print(relnc.num_elements)
#print(relnc.num_released)
# add particles - it works
print('adding particles')
# Persistent oil spill in contiguous zone border
if int(sys.argv[6]) == 1:
release = release_from_splot_data(start_time, 'contiguous.txt')
print("Adding new particles")
model.spills += Spill(release=release, substance=subs)
# Particles from previows simulation step
try:
f = open('step.txt')
f.close()
release2 = release_from_splot_data(start_time, 'step.txt')
model.spills += Spill(release=release2, substance=subs)
except IOError:
print('No previous step, using only contiguous.txt')
#assert rel.num_elements == exp_num_elems
#assert len(rel.start_position) == exp_num_elems
#cumsum = np.cumsum(exp)
#for ix in xrange(len(cumsum) - 1):
# assert np.all(rel.start_position[cumsum[ix]] ==
# rel.start_position[cumsum[ix]:cumsum[ix + 1]])
#assert np.all(rel.start_position[0] == rel.start_position[:cumsum[0]])
#spnc = Spill(release=None)
#spnc.release = relnc
print('adding a RandomMover:')
#model.movers += RandomMover(diffusion_coef=10000, uncertain_factor=2)
model.movers += RandomMover(diffusion_coef=10000)
print('adding a current mover:')
# # this is HYCOM currents
curr_file = get_datafile(os.path.join(base_dir, 'corrente15a28de09.nc'))
model.movers += GridCurrentMover(curr_file, num_method='Euler')
print('adding a grid wind mover:')
wind_file = get_datafile(os.path.join(base_dir, 'vento15a28de09.nc'))
#topology_file = get_datafile(os.path.join(base_dir, 'WindSpeedDirSubsetTop.dat'))
#w_mover = GridWindMover(wind_file, topology_file)
w_mover = GridWindMover(wind_file)
w_mover.uncertain_speed_scale = 1
w_mover.uncertain_angle_scale = 0.2 # default is .4
w_mover.wind_scale = 2
model.movers += w_mover
print('adding outputters')
renderer = Renderer(mapfile,
images_dir,
image_size=(900, 600),
output_timestep=timestep,
draw_ontop='forecast')
#set the viewport to zoom in on the map:
#renderer.viewport = ((-37, -11), (-34, -8)) #alagoas
renderer.viewport = ((-55, -34), (-30, 5)) #1/4 N alagoas
model.outputters += renderer
netcdf_file = os.path.join(base_dir, 'step.nc')
scripting.remove_netcdf(netcdf_file)
model.outputters += NetCDFOutput(netcdf_file,
which_data='standard',
surface_conc='kde')
return model