/
wofost_utils.py
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/
wofost_utils.py
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#!/usr/bin/env python
from pathlib import Path
import datetime as dt
import numpy as np
import matplotlib.pyplot as plt
import matplotlib
import pandas as pd
from pcse.fileinput import CABOFileReader, YAMLCropDataProvider, CABOWeatherDataProvider
from pcse.fileinput import YAMLCropDataProvider, YAMLAgroManagementReader
from pcse.util import WOFOST71SiteDataProvider
from pcse.base import ParameterProvider
from pcse.models import Wofost71_WLP_FD, Wofost71_PP
import ipywidgets.widgets as widgets
from ipywidgets import interact, interactive, fixed
from pandas.plotting import register_matplotlib_converters
register_matplotlib_converters()
regions = ["Ashanti", "Brong_Ahafo", "Central",
"Eastern", "Greater_Accra", "Northern",
"Upper_East", "Upper_West", "Volta",
"Western"]
agromanagement_contents = """
Version: 1.0
AgroManagement:
- {year:d}-01-01:
CropCalendar:
crop_name: '{crop}'
variety_name: '{variety}'
crop_start_date: {crop_start_date}
crop_start_type: sowing
crop_end_date: {crop_end_date}
crop_end_type: harvest
max_duration: 150
TimedEvents: null
StateEvents: null
"""
WOFOST_PARAMETERS = ['DVS', 'LAI', 'TAGP', 'TWSO', 'TWLV', 'TWST',
'TWRT', 'TRA', 'RD', 'SM']
LABELS = ["Development stage [-]", "LAI [m2/m2]",
"Total Biomass [kg/ha]",
"Total Storage Organ Weight [kg/ha]",
"Total Leaves Weight [kg/ha]",
"Total Stems Weight [kg/ha]",
"Total Root Weight [kg/ha]",
"Transpiration rate [cm/d]",
"Rooting depth [cm]",
"Soil moisture [cm3/cm3]"]
WOFOST_LABELS = dict(zip(WOFOST_PARAMETERS, LABELS))
def set_up_wofost(crop_start_date, crop_end_date,
meteo, crop, variety, soil,
wav=100, co2=400, rdmsol=100.):
cropdata = YAMLCropDataProvider(fpath="./WOFOST_crop_parameters")
cropdata.set_active_crop(crop, variety)
soildata = CABOFileReader(soil)
soildata['RDMSOL'] = rdmsol
sitedata = WOFOST71SiteDataProvider(WAV=wav, CO2=co2)
parameters = ParameterProvider(cropdata=cropdata, soildata=soildata, sitedata=sitedata)
with open("temporal.amgt", 'w') as fp:
fp.write(agromanagement_contents.format(year=crop_start_date.year,
crop=crop, variety=variety, crop_start_date=crop_start_date,
crop_end_date=crop_end_date))
agromanagement = YAMLAgroManagementReader("temporal.amgt")
wdp = CABOWeatherDataProvider(meteo, fpath=f"./data/meteo/{meteo}/")
return parameters, agromanagement, wdp
def run_wofost(parameters, agromanagement, wdp, potential=False):
if potential:
wofsim = Wofost71_PP(parameters, wdp, agromanagement)
else:
wofsim = Wofost71_WLP_FD(parameters, wdp, agromanagement)
print(parameters)
wofsim.run_till_terminate()
df_results = pd.DataFrame(wofsim.get_output())
df_results = df_results.set_index("day")
return df_results, wofsim
def change_sowing_date(start_sowing, end_sowing, meteo, crop, variety, soil, mgmt,
n_days=10):
fig, axs = plt.subplots(nrows=5, ncols=2, sharex=True, squeeze=True,
figsize=(16,16))
axs = axs.flatten()
sowing_date = start_sowing
while sowing_date < end_sowing:
parameters, agromanagement, wdp = set_up_wofost(
sowing_date, sowing_date + dt.timedelta(days=150),
meteo, crop, variety, soil)
df_results, simulator = run_wofost(parameters, agromanagement, wdp,
potential=False)
sowing_date += dt.timedelta(days=n_days)
for j, p in enumerate(WOFOST_PARAMETERS):
axs[j].plot_date(df_results.index, df_results[p], '-')
axs[j].set_ylabel(WOFOST_LABELS[p], fontsize=8)
# fig.autofmt_xdate()
plt.gcf().autofmt_xdate()
plt.gca().fmt_xdata = matplotlib.dates.DateFormatter('%Y-%m-%d')
plt.xlim(start_sowing, None)
axs[8].set_xlabel("Time [d]")
axs[9].set_xlabel("Time [d]")
def change_sowing_slider():
interact(change_sowing_date,
start_sowing=widgets.DatePicker(value=dt.date(2011, 7, 1),
description="Earliest possible sowing date"),
end_sowing=widgets.DatePicker(value=dt.date(2011, 8, 10),
description="Latest possible sowing date"),
meteo=widgets.Dropdown(
options=regions, value='Upper_East', description='Region:',
disabled=False,),
n_days = widgets.IntSlider(min=1, max=20, value=10),
crop=fixed("maize"),
variety=fixed("Maize_VanHeemst_1988"),
soil=fixed("ec4.new"),
mgmt=fixed("ghana_maize.amgt"))
def wofost_parameter_sweep_func(crop_start_date=dt.date(2011, 7, 1),
crop_end_date=dt.datetime(2011, 11, 1),
span=40.0, tdwi=20., tsum1=750., tsum2=859.,
tsumem=70,rgrlai=0.05,cvo=0.05, cvl=0.05,
meteo="Upper_East", crop="maize",
variety="Maize_VanHeemst_1988", soil="ec4.new",
wav=100, co2=400, rdmsol=100., potential=False):
cropdata = YAMLCropDataProvider(fpath="./WOFOST_crop_parameters")
cropdata.set_active_crop(crop, variety)
soildata = CABOFileReader(soil)
soildata["RDMSOL"] = rdmsol
sitedata = WOFOST71SiteDataProvider(WAV=wav, CO2=co2)
parameters = ParameterProvider(cropdata=cropdata, soildata=soildata, sitedata=sitedata)
for p, v in zip(["SPAN", "TSUM1", "TSUM2", "TSUMEM", "TDWI", "RGRLAI", "CVO", "CVL"],
[span, tsum1, tsum2, tsumem, tdwi, rgrlai, cvo, cvl]):
parameters.set_override(p, v, check=True)
with open("temporal.amgt", 'w') as fp:
fp.write(agromanagement_contents.format(year=crop_start_date.year,
crop=crop, variety=variety, crop_start_date=crop_start_date,
crop_end_date=crop_end_date))
agromanagement = YAMLAgroManagementReader("temporal.amgt")
wdp = CABOWeatherDataProvider(meteo, fpath=f"./data/meteo/{meteo}/")
df_results, simulator = run_wofost(parameters, agromanagement, wdp,
potential=potential)
fig, axs = plt.subplots(nrows=5, ncols=2, sharex=True, squeeze=True,
figsize=(16,16))
axs = axs.flatten()
for j, p in enumerate(WOFOST_PARAMETERS):
axs[j].plot_date(df_results.index, df_results[p], '-')
axs[j].set_ylabel(WOFOST_LABELS[p], fontsize=8)
plt.gcf().autofmt_xdate()
plt.gca().fmt_xdata = matplotlib.dates.DateFormatter('%Y-%m-%d')
axs[8].set_xlabel("Time [d]")
axs[9].set_xlabel("Time [d]")
key = f"span_{span}-tdwi_{tdwi}-tsum1_{tsum1}-tsum2_{tsum2}-tsumem_{tsumem}"
key += f"-rgrlai_{rgrlai}-wav_{wav}-cvo_{cvo}-cvl_{cvl}"
if potential:
key += "-POT.csv"
else:
key += "-LIM.csv"
df_results.to_csv(key, encoding="utf-8", index=False)
def wofost_parameter_sweep():
widgets.interact_manual(wofost_parameter_sweep_func,
crop_start_date=widgets.fixed(dt.date(2011, 7, 1)),
crop_end_date=widgets.fixed(dt.date(2011, 11, 1)),
span=widgets.FloatSlider(value=40.0, min=20, max=50),
cvo = widgets.FloatSlider(value=0.72, min=0.1, max=0.9, step=0.02),
cvl = widgets.FloatSlider(value=0.72, min=0.1, max=0.9, step=0.02),
tdwi=widgets.FloatSlider(value=20.0,min=5, max=50),
tsum1=widgets.FloatSlider(value=750.0,min=100, max=1500),
tsum2=widgets.FloatSlider(value=859.0,min=100, max=1500),
tsumem=widgets.FloatSlider(value=70,min=10, max=200),
rgrlai=widgets.FloatSlider(value=0.05, min=0.001, max=0.3, step=0.01),
meteo=widgets.fixed("Upper_East"),
crop=widgets.fixed("maize"),
variety=widgets.fixed("Maize_VanHeemst_1988"),
soil=widgets.fixed("ec4.new"),
wav=widgets.FloatSlider(value=5, min=0, max=100),
co2=widgets.fixed(400),
rdmsol=widgets.fixed(100.),
potential=widgets.Checkbox(value=False, description='Potential mode',
icon='check'))