Note
Go to the end to download the full example code
SHYFEM: Using model input from unstructured grid
from datetime import timedelta
import numpy as np
from opendrift.readers.unstructured import shyfem
from opendrift.models.oceandrift import OceanDrift
o = OceanDrift(loglevel=20) # Set loglevel to 0 for debug information
o.set_config('general:coastline_action', 'previous')
shyfem = shyfem.Reader('https://iws.ismar.cnr.it/thredds/dodsC/emerge/shyfem_unstructured_adriatic.nc')
o.add_reader(shyfem)
print(shyfem)
# Seed elements at defined positions, depth and time
N = 1000
z = -15*np.random.uniform(0, 1, N)
o.seed_elements(lon=12.4, lat=45.25, radius=1000, number=N,
z=z, time=shyfem.start_time)
13:59:00 INFO opendrift.models.basemodel:539: OpenDriftSimulation initialised (version 1.10.7 / v1.10.6-119-g1da5bec)
13:59:00 INFO opendrift.readers.unstructured.shyfem:67: Opening dataset: https://iws.ismar.cnr.it/thredds/dodsC/emerge/shyfem_unstructured_adriatic.nc
13:59:00 INFO opendrift.readers.unstructured.shyfem:72: Opening file with Dataset
13:59:01 INFO opendrift.readers.unstructured.shyfem:77: Reading grid and coordinate variables..
===========================
Reader: https://iws.ismar.cnr.it/thredds/dodsC/emerge/shyfem_unstructured_adriatic.nc
Projection:
+proj=lonlat
Coverage: [degrees]
xmin: 12.240470 xmax: 19.917908
ymin: 39.957329 ymax: 45.799709
Corners (lon, lat):
( 12.24, 45.80) ( 19.92, 45.80)
( 12.24, 39.96) ( 19.92, 39.96)
Vertical levels [m]:
[-0.6000000238418579 -1.600000023841858 -2.5 -3.5 -4.5 -5.5 -7.0 -9.0
-11.0 -13.0 -16.0 -21.0 -27.0 -34.0 -41.5 -50.0 -60.0 -72.5 -90.0 -110.0
-135.0 -175.0 -225.0 -275.0 -350.0 -450.0 -550.0 -650.0 -750.0 -850.0
-950.0 -1050.0 -1155.0]
Available time range:
start: 2021-04-08 00:00:00 end: 2021-04-08 23:00:00 step: None
Variables:
depth
sea_water_salinity
sea_water_temperature
sea_floor_depth_below_sea_level
x_sea_water_velocity
y_sea_water_velocity
water_surface_height_above_reference_datum
sea_water_speed - derived from ['x_sea_water_velocity', 'y_sea_water_velocity']
===========================
0:00:01.3 open dataset
0:00:00.0 build index
Running model
o.run(time_step=1800, duration=timedelta(hours=12))
13:59:01 INFO opendrift.models.basemodel:2591: Fallback values will be used for the following variables which have no readers:
13:59:01 INFO opendrift.models.basemodel:2594: x_wind: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: y_wind: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: upward_sea_water_velocity: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: ocean_vertical_diffusivity: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wave_significant_height: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wave_stokes_drift_x_velocity: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wave_stokes_drift_y_velocity: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wave_period_at_variance_spectral_density_maximum: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wave_mean_period_from_variance_spectral_density_second_frequency_moment: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_swell_wave_to_direction: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_swell_wave_peak_period_from_variance_spectral_density: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_swell_wave_significant_height: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wind_wave_to_direction: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wind_wave_mean_period: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: sea_surface_wind_wave_significant_height: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: surface_downward_x_stress: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: surface_downward_y_stress: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: turbulent_kinetic_energy: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: turbulent_generic_length_scale: 0.000000
13:59:01 INFO opendrift.models.basemodel:2594: ocean_mixed_layer_thickness: 50.000000
13:59:01 INFO opendrift.models.basemodel:2753: Adding a dynamical landmask with max. priority based on assumed maximum speed of 1 m/s. Adding a customised landmask may be faster...
13:59:07 INFO opendrift.models.basemodel:1701: Using existing reader for land_binary_mask
13:59:07 INFO opendrift.models.basemodel:1713: All points are in ocean
13:59:07 INFO opendrift.models.basemodel:2882: 2021-04-08 00:00:00 - step 1 of 24 - 1000 active elements (0 deactivated)
13:59:08 INFO opendrift.models.basemodel:2882: 2021-04-08 00:30:00 - step 2 of 24 - 1000 active elements (0 deactivated)
13:59:08 INFO opendrift.models.basemodel:2882: 2021-04-08 01:00:00 - step 3 of 24 - 1000 active elements (0 deactivated)
13:59:09 INFO opendrift.models.basemodel:2882: 2021-04-08 01:30:00 - step 4 of 24 - 1000 active elements (0 deactivated)
13:59:09 INFO opendrift.models.basemodel:2882: 2021-04-08 02:00:00 - step 5 of 24 - 1000 active elements (0 deactivated)
13:59:09 INFO opendrift.models.basemodel:2882: 2021-04-08 02:30:00 - step 6 of 24 - 1000 active elements (0 deactivated)
13:59:10 INFO opendrift.models.basemodel:2882: 2021-04-08 03:00:00 - step 7 of 24 - 1000 active elements (0 deactivated)
13:59:10 INFO opendrift.models.basemodel:2882: 2021-04-08 03:30:00 - step 8 of 24 - 1000 active elements (0 deactivated)
13:59:10 INFO opendrift.models.basemodel:2882: 2021-04-08 04:00:00 - step 9 of 24 - 1000 active elements (0 deactivated)
13:59:11 INFO opendrift.models.basemodel:2882: 2021-04-08 04:30:00 - step 10 of 24 - 1000 active elements (0 deactivated)
13:59:11 INFO opendrift.models.basemodel:2882: 2021-04-08 05:00:00 - step 11 of 24 - 1000 active elements (0 deactivated)
13:59:12 INFO opendrift.models.basemodel:2882: 2021-04-08 05:30:00 - step 12 of 24 - 1000 active elements (0 deactivated)
13:59:12 INFO opendrift.models.basemodel:2882: 2021-04-08 06:00:00 - step 13 of 24 - 1000 active elements (0 deactivated)
13:59:12 INFO opendrift.models.basemodel:2882: 2021-04-08 06:30:00 - step 14 of 24 - 1000 active elements (0 deactivated)
13:59:13 INFO opendrift.models.basemodel:2882: 2021-04-08 07:00:00 - step 15 of 24 - 1000 active elements (0 deactivated)
13:59:13 INFO opendrift.models.basemodel:2882: 2021-04-08 07:30:00 - step 16 of 24 - 1000 active elements (0 deactivated)
13:59:13 INFO opendrift.models.basemodel:2882: 2021-04-08 08:00:00 - step 17 of 24 - 1000 active elements (0 deactivated)
13:59:14 INFO opendrift.models.basemodel:2882: 2021-04-08 08:30:00 - step 18 of 24 - 1000 active elements (0 deactivated)
13:59:14 INFO opendrift.models.basemodel:2882: 2021-04-08 09:00:00 - step 19 of 24 - 1000 active elements (0 deactivated)
13:59:14 INFO opendrift.models.basemodel:2882: 2021-04-08 09:30:00 - step 20 of 24 - 1000 active elements (0 deactivated)
13:59:15 INFO opendrift.models.basemodel:2882: 2021-04-08 10:00:00 - step 21 of 24 - 1000 active elements (0 deactivated)
13:59:15 INFO opendrift.models.basemodel:2882: 2021-04-08 10:30:00 - step 22 of 24 - 1000 active elements (0 deactivated)
13:59:16 INFO opendrift.models.basemodel:2882: 2021-04-08 11:00:00 - step 23 of 24 - 1000 active elements (0 deactivated)
13:59:16 INFO opendrift.models.basemodel:2882: 2021-04-08 11:30:00 - step 24 of 24 - 1000 active elements (0 deactivated)
Print and plot results
print(o)
===========================
--------------------
Reader performance:
--------------------
https://iws.ismar.cnr.it/thredds/dodsC/emerge/shyfem_unstructured_adriatic.nc
0:00:01.3 open dataset
0:00:00.0 build index
0:00:08.7 total
0:00:00.0 preparing
0:00:08.7 reading
0:00:00.0 masking
--------------------
global_landmask
0:00:00.0 total
0:00:00.0 preparing
0:00:00.0 reading
0:00:00.0 masking
--------------------
Performance:
16.4 total time
1.3 configuration
5.7 preparing main loop
5.7 making dynamical landmask
0.0 moving elements to ocean
8.9 readers
0.0 global_landmask
0.1 postprocessing
9.2 main loop
8.7 https://iws.ismar.cnr.it/thredds/dodsC/emerge/shyfem_unstructured_adriatic.nc
0.0 updating elements
0.0 cleaning up
--------------------
===========================
Model: OceanDrift (OpenDrift version 1.10.7)
1000 active Lagrangian3DArray particles (0 deactivated, 0 scheduled)
-------------------
Environment variables:
-----
sea_floor_depth_below_sea_level
x_sea_water_velocity
y_sea_water_velocity
1) https://iws.ismar.cnr.it/thredds/dodsC/emerge/shyfem_unstructured_adriatic.nc
-----
land_binary_mask
1) global_landmask
-----
Readers not added for the following variables:
ocean_mixed_layer_thickness
ocean_vertical_diffusivity
sea_surface_swell_wave_peak_period_from_variance_spectral_density
sea_surface_swell_wave_significant_height
sea_surface_swell_wave_to_direction
sea_surface_wave_mean_period_from_variance_spectral_density_second_frequency_moment
sea_surface_wave_period_at_variance_spectral_density_maximum
sea_surface_wave_significant_height
sea_surface_wave_stokes_drift_x_velocity
sea_surface_wave_stokes_drift_y_velocity
sea_surface_wind_wave_mean_period
sea_surface_wind_wave_significant_height
sea_surface_wind_wave_to_direction
surface_downward_x_stress
surface_downward_y_stress
turbulent_generic_length_scale
turbulent_kinetic_energy
upward_sea_water_velocity
x_wind
y_wind
Time:
Start: 2021-04-08 00:00:00 UTC
Present: 2021-04-08 12:00:00 UTC
Calculation steps: 24 * 0:30:00 - total time: 12:00:00
Output steps: 25 * 0:30:00
===========================
Animations
o.animation(color='z', markersize=5, corners=[12.2, 12.6, 45.1, 45.5])
o.animation_profile(color='z', markersize=5)
14:01:10 INFO opendrift.models.basemodel:5350: Saving animation to /root/project/docs/source/gallery/animations/example_shyfem_0.gif...
14:03:04 INFO opendrift.models.basemodel:3848: Time to make animation: 0:03:47.179055
14:03:04 INFO opendrift.models.basemodel:5350: Saving animation to /root/project/docs/source/gallery/animations/example_shyfem_1.gif...
14:03:05 INFO opendrift.models.basemodel:4038: Time to make animation: 0:00:01.580843
o.plot(fast=True, buffer = 1., corners=[12.2, 12.6, 45.1, 45.5])
14:03:05 WARNING opendrift.models.basemodel:3226: Plotting fast. This will make your plots less accurate.
0.3984006735749549 ALPHA
(<GeoAxes: title={'center': 'OpenDrift - OceanDrift\n2021-04-08 00:00 to 2021-04-08 12:00 UTC (25 steps)'}>, <Figure size 773.734x1100 with 1 Axes>)
Total running time of the script: (4 minutes 9.949 seconds)