def run_lgrass(scenario_id=1,
inputs_dir_path='inputs',
outputs_dir_path='outputs'):
""" Run lgrass.lpy file from external script
:param str inputs_dir_path: the path to the input files (meteo, list of simulations...)
:param str outputs_dir_path: the path to the outputs files
:param int scenario_id: the index of the scenario to be run from the list of simulations CSV file
"""
# Scenario to be run
scenarii_df = pd.read_csv(os.path.join('inputs', 'plan_simulation.csv'),
index_col='Scenario')
scenario = scenarii_df.loc[scenario_id].to_dict()
scenario_name = scenario['name']
# Update parameters of flowering model
flowering_model = lgrass.flowering_functions.FloweringFunctions()
flowering_model.param.__dict__.update(
(k, scenario[k])
for k in set(scenario).intersection(flowering_model.param.__dict__))
# Load lsystem
lpy_filename = os.path.join(lgrass.__path__[0], "lgrass.lpy")
lsystem = Lsystem(lpy_filename)
# Update parameters
lsystem.option_profile = "plateau"
lsystem.flowering_model = flowering_model
lsystem.derivationLength = int(scenario['derivationLength'])
lsystem.option_tallage = scenario['option_tallage']
lsystem.option_senescence = scenario['option_senescence']
lsystem.option_floraison = scenario['option_floraison']
lsystem.meteo_path = os.path.join(inputs_dir_path,
scenario['meteo_filename'])
lsystem.sowing_date = scenario['sowing_date']
lsystem.site = scenario['site']
lsystem.output_induction_file_name = '{}_induction'.format(scenario_name)
lsystem.output_organ_lengths_file_name = '{}_organ_lengths'.format(
scenario_name)
lsystem.cutting_dates = [] if pd.isna(scenario['cutting_dates']) \
else [scenario['cutting_dates']] if isinstance(scenario['cutting_dates'], int) \
else [int(i) for i in scenario['cutting_dates'].split("_")]
lsystem.ParamP[0]['C'] = scenario['value_C']
lsystem.ParamP[0]['Premiecroiss'] = scenario['Premiecroiss']
lsystem.ParamP[0]['PS_compensation_point'] = scenario[
'PS_compensation_point']
if outputs_dir_path:
lsystem.OUTPUTS_DIRPATH = outputs_dir_path
# Run the lsystem
try:
lsystem.derive(
) # permet le declenchement de la fonction "End" du script lpy
lsystem.clear()
except Exception as e:
print(e)
def test_run(overwrite_desired_data=False):
lpy_filename = os.path.join(lgrass.__path__[0], "lgrass.lpy")
lsys = Lsystem(lpy_filename)
axiom = lsys.axiom
lsys.meteo_path = os.path.join(INPUTS_DIRPATH, 'meteo_file.csv')
lsys.INPUTS_DIRPATH = INPUTS_DIRPATH
lsys.OUTPUTS_DIRPATH = OUTPUTS_DIRPATH
lsys.GRAPHS_DIRPATH = GRAPHS_DIRPATH
lsys.derivationLength = NSTEP
lsys.DureeExp = NSTEP
lsys.option_tallage = True
lsys.option_senescence = True
lsys.option_floraison = True
lsys.option_caribu = 'Off'
lsys.option_tiller_regression = False
lsys.option_mophogenetic_regulation_by_carbone = False
lsys.derive(axiom, NSTEP)
# convert the outputs to Pandas dataframe
surface_biomass = pd.read_csv(lsys.chemin_fichier1.name)
evol = pd.read_csv(lsys.chemin_fichier2.name)
output_induction_file_path = os.path.join(OUTPUTS_DIRPATH,
'output_induction.csv')
output_induction = pd.read_csv(output_induction_file_path)
output_organ_lengths_file_path = os.path.join(OUTPUTS_DIRPATH,
'output_organ_lengths.csv')
output_organ_lengths = pd.read_csv(output_organ_lengths_file_path)
# # compare outputs
compare_actual_to_desired(OUTPUTS_DIRPATH, surface_biomass,
DESIRED_SORTIE_SURFACE_BIOMASS_FILENAME,
lsys.chemin_fichier1.name,
overwrite_desired_data)
compare_actual_to_desired(OUTPUTS_DIRPATH, evol,
DESIRED_SERIE_FOLIAIRE_FILENAME,
lsys.chemin_fichier2.name,
overwrite_desired_data)
compare_actual_to_desired(OUTPUTS_DIRPATH, output_induction,
DESIRED_OUTPUT_INDUCTION_FILENAME,
output_induction_file_path,
overwrite_desired_data)
compare_actual_to_desired(OUTPUTS_DIRPATH, output_organ_lengths,
DESIRED_OUTPUT_ORGAN_LENGTHS_FILENAME,
output_organ_lengths_file_path,
overwrite_desired_data)
if overwrite_desired_data:
print("New desired files written")
else:
print("Test passed successfully")
def lsystem(file_name, axiom='', derivationlength=-1, parameters={}):
""" Build a lsystem object from file_name """
l = Lsystem(file_name, parameters)
if len(axiom):
l.makeCurrent()
if type(axiom) != AxialTree:
axiom = AxialTree(axiom)
l.axiom = axiom
#l.done()
if derivationlength >= 0:
l.derivationLength = derivationlength
return l
def lsystem(file_name, axiom = '', derivationlength = -1, parameters = {}):
""" Build a lsystem object from file_name """
l = Lsystem(file_name, parameters)
if len(axiom):
l.makeCurrent()
if type(axiom) != AxialTree:
axiom = AxialTree(axiom)
l.axiom = axiom
#l.done()
if derivationlength >= 0:
l.derivationLength = derivationlength
return l
flowering_param.param.temp_vern_inter = x[1]
flowering_param.param.temp_vern_max = x[2]
flowering_param.param.daily_vern_rate = x[3]
flowering_param.param.basic_vern_rate = x[4]
flowering_param.param.photoperiod_min = x[5]
flowering_param.param.photoperiod_max = x[6]
flowering_param.param.max_photo_ind_rate = x[7]
flowering_param.param.coeff_primordia_emission_vegetative = x[8]
flowering_param.param.coeff_primordia_emission_reproductive = x[9]
name = str(x[10][0]) + "_" + str(x[10][1])
print(name)
names.append(name)
lpy_filename = os.path.join('lgrass.lpy')
testsim[name] = Lsystem(lpy_filename)
testsim[name].derivationLength = 200
testsim[name].meteo_path = 'D:/Simon/Comites_de_these/Comite_de_these_2/Modelisation/Meteo_sites_GEVES_daylength.csv'
testsim[name].sowing_date = x[10][1]
testsim[name].site = x[10][0]
testsim[name].flowering_model = flowering_param
testsim[name].output_induction_file_name = 'induction_' + name
testsim[name].output_organ_lengths_file_name = 'organ_lengths_' + name
# function to run an L-system from the 'testsim' dictionnary
def runlsystem(n):
testsim[names[n]].derive() # permet le declenchement de la fonction "End" du script lpy
# print(testsim[names[n]].output_dict)
# with open(os.path.join(OUTPUTS_DIRPATH, 'sortie_test_path', str(n) + '.csv'), 'wb') as sortie_test_path:
# sortie_test = csv.writer(sortie_test_path)
