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Init script insert zh pnc to gn -- version 0.0.1 --

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Colas Geier 2025-06-18 10:13:17 +02:00
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5_GEONATURE/GN_ZH/ins_zh_from_api.py Normal file
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import geopandas as gpd
from uuid import uuid4
import json,urllib.request
from numpy import ndarray
dict_columns = {
'code_zh': 'code',
'nom_zh': 'main_name',
'date_visite':'create_date',
}
def get_nomenclature_id(con,cd,typ):
"""
Get the id_nomenclature for a given cd and typ.
Parameters
----------
con : sqlalchemy.engine.Engine
The database connection.
cd : str
The code of the nomenclature.
typ : str
The type of the nomenclature.
Returns
-------
int or None
The id of the nomenclature or None if the nomenclature does not exist.
"""
sql = """
SELECT ref_nomenclatures.get_id_nomenclature('{typ}', '{cd}')
""".format(cd=cd,typ=typ)
with con.begin() as cnx:
res = cnx.execute(sql)
return res.one()[0] if res else None
def to_tzh(df,con):
tab = 't_zh'
sch = 'pr_zh'
lst_columns = [
x['name'] for x in con.dialect.get_columns(con,tab,sch) if x['name'] in df.columns
]
to_ins = df[lst_columns].copy()
try:
to_ins.to_postgis(
name=tab,
con=con,
schema=sch,
index=False,
if_exists='append',
method='multi'
)
except Exception as e:
print(e)
finally:
print("INSERT data TO t_zh OK !")
return gpd.pd.read_sql('SELECT id_zh,code FROM pr_zh.t_zh',con=con)
# id_zh = df[['code','pk']].rename(columns={'pk':'id_zh'})
def to_cor_lim_list(cor_lim,con):
"""
Insert into cor_lim_list the list of delimitation for each zh area
:param cor_lim: a dataframe with columns id_lim_list,cd_nomenclature_delimitation
:param con: a sqlalchemy connection
:return: None
"""
_cor_lim = (cor_lim
.set_index('id_lim_list')
.cd_nomenclature_delimitation.str.split(',',expand=True)
.stack()
.str.strip()
.to_frame('cd_lim')
.droplevel(-1)
)
_cor_lim['id_lim'] = [get_nomenclature_id(con,x,'CRIT_DELIM') for x in _cor_lim.cd_lim]
_cor_lim.drop('cd_lim',axis=1,inplace=True)
try:
_cor_lim.to_sql(
name='cor_lim_list',
con=con,
schema='pr_zh',
index=True,
if_exists='append',
method='multi'
)
except Exception as e:
print(e)
finally:
print("INSERT Délimitation TO cor_lim_list OK !")
def to_cor_zh_cb(id_zh,df,con):
"""
Insert habitats to cor_zh_cb table.
Parameters
----------
id_zh : pd.DataFrame
DataFrame containing 'code' and 'id_zh' columns.
df : pd.DataFrame
DataFrame containing 'code' and 'habitat_corine_biotope' columns.
con : sqlalchemy.engine.Engine
Connection to the geonature database.
Returns
-------
None
"""
cor_zh_cb = (df
.merge(id_zh,how='left',on='code')
.set_index('id_zh')
.habitat_corine_biotope.str.split(',')
.explode()
.str.strip()
.to_frame('lb_code')
.droplevel(-1)
)
try:
cor_zh_cb.to_sql(
name='cor_zh_cb',
con=con,
schema='pr_zh',
index=True,
if_exists='append',
method='multi'
)
except Exception as e:
print(e)
finally:
print("INSERT habitats to cor_zh_cb OK !")
def check_cd_nomenclature_impact(cd):
dizaine = range(0,100,10)
_cd = [x+'.0' if float(x) not in dizaine and not x.endswith('.0') else x for x in cd]
return _cd
def to_t_activity(id_zh,actv,con):
_activ = (actv
.merge(id_zh,how='left',on='code')
.drop('code',axis=1))
t_activ = gpd.pd.DataFrame()
for i,x in _activ.iterrows():
res = gpd.pd.DataFrame(json.loads(x['acti_impact']))
res['id_zh'] = x['id_zh']
t_activ = gpd.pd.concat([t_activ,res])
t_activ.set_index('id_zh',inplace=True)
t_activ.dropna(inplace=True,axis=1,how='all')
t_activ.dropna(inplace=True,axis=0,how='all')
t_activ['id_activity'] = [get_nomenclature_id(con,x,'ACTIV_HUM') for x in t_activ.cd_activite_humaine]
t_activ['id_position'] = [get_nomenclature_id(con,x,'LOCALISATION') for x in t_activ.localisation]
t_activ['id_impact_list'] = [uuid4() for _ in range(len(t_activ))]
impact_list = (t_activ[['id_impact_list','impact']]
.set_index('id_impact_list')
.impact.explode()
.to_frame('cd_impact')
.reset_index()
)
impact_list['_cd_impact'] = check_cd_nomenclature_impact(impact_list.cd_impact)
impact_list['id_impact'] = [get_nomenclature_id(con,x,'IMPACTS') for x in impact_list._cd_impact]
t_activ.drop(['cd_activite_humaine','localisation','impact'],axis=1,inplace=True)
impact_list.drop(['cd_impact','_cd_impact'],axis=1,inplace=True)
try:
t_activ.to_sql(
name='t_activity',
con=con,
schema='pr_zh',
index=True,
if_exists='append',
method='multi'
)
except Exception as e:
print(e)
finally:
print("INSERT activity to t_activity OK !")
try:
impact_list.to_sql(
name='cor_impact_list',
con=con,
schema='pr_zh',
index=True,
if_exists='append',
method='multi'
)
except Exception as e:
print(e)
finally:
print("INSERT impact to cor_impact_list OK !")
def check_habitat(habitat,con):
sql = '''
SELECT lb_code FROM pr_zh.bib_cb
WHERE lb_code {symbol} {code}
'''.format(
symbol='IN' if isinstance(habitat,(list,gpd.pd.Series,ndarray)) else '=',
code=tuple(habitat) if isinstance(habitat,(list,gpd.pd.Series,ndarray)) else f"'{habitat}'"
)
with con.begin() as cnx:
res = cnx.execute(sql).all()
return [x[0] for x in res if x]
def filter_habitat(habitat,con):
iscd_zh = check_habitat(habitat,con)
_cd_zh = habitat[habitat.isin(iscd_zh)]
_cd_notzh = habitat[~habitat.isin(iscd_zh)]
cd_zh = _cd_zh.groupby(_cd_zh.index).aggregate(', '.join)
cd_notzh = _cd_notzh.groupby(_cd_notzh.index).aggregate(', '.join)
return cd_zh,cd_notzh
def check_observ(obs,org,con):
_obs = normalize_observers(obs)
sql = '''
SELECT
r.id_role AS ids_observers,
CONCAT(r.nom_role, ' ', prenom_role) AS observers
FROM utilisateurs.t_roles r
JOIN utilisateurs.bib_organismes USING (id_organisme)
WHERE CONCAT(UPPER(r.nom_role), ' ', INITCAP(prenom_role)) {symbol} {code}
AND nom_organisme = '{org}'
'''.format(
symbol='IN' if isinstance(_obs,(list,gpd.pd.Series,ndarray)) else '=',
code=tuple(_obs) if isinstance(_obs,(list,gpd.pd.Series,ndarray)) else f"'{_obs}'",
org=org
)
with con.begin() as cnx:
res = cnx.execute(sql).all()
return [x[0] for x in res if x]
def insert_observ(obs,org,con):
check_observ(obs,org,con)
pass
def normalize_observers(obs):
_obs = obs.str.split(' ',expand=True)
_obs[0] = _obs[0].str.upper()
_obs[1] = _obs[1].str.title()
_obs_stack = _obs.stack().droplevel(-1)
return _obs_stack.groupby(_obs_stack.index).aggregate(' '.join)
def insert_orga(org,con):
pass
def select_orga_user(org,con):
sql ='''
SELECT id_organisme FROM utilisateurs.bib_organismes
WHERE nom_organisme = '{nom}'
'''.format(nom=org[0])
with con.begin() as cnx:
_res = cnx.execute(sql)
res = _res.one_or_none()
return res
def insert_orga_user(org,con):
res = select_orga_user(org,con)
if not res :
Q = input("Organisme `{}` non trouvé dans le schéma `utilisateurs`, voulez-vous l'ajouter ? (y/n) ".format(org[0]))
if Q.lower() != 'y':
return 'No'
sql ='''
INSERT INTO utilisateurs.bib_organismes (nom_organisme)
VALUES ('{nom}')
--ON CONFLICT (nom_organisme) DO NOTHING
RETURNING id_organisme;
'''.format(nom=org[0])
with con.begin() as cnx:
_res = cnx.execute(sql)
res = _res.one_or_none()
else:
print("Organisme `{}` existant dans le schéma `utilisateurs`".format(org[0]))
return res[0]
def select_orga_przh(org,con):
sql ='''
SELECT id_org FROM pr_zh.bib_organismes
WHERE name = '{nom}'
'''.format(nom=org[0])
with con.begin() as cnx:
_res = cnx.execute(sql)
res = _res.one_or_none()
return res
def insert_orga_przh(org,con):
res = select_orga_przh(org,con)
if not res :
Q = input("Organisme `{}` non trouvé dans le schéma `pr_zh`, voulez-vous l'ajouter ? (y/n) ".format(org[0]))
if Q.lower() != 'y':
return 'No'
sql ='''
INSERT INTO pr_zh.bib_organismes (name,abbrevation,is_op_org)
VALUES ('{nom}', {abbrev}, TRUE)
--ON CONFLICT (name,abbrevation) DO NOTHING
RETURNING id_org;
'''.format(nom=org[0],abbrev=f"'{org[1]}'" if org[1] else 'NULL')
with con.begin() as cnx:
_res = cnx.execute(sql)
res = _res.fetchall()
else:
print("Organisme `{}` existant dans le schéma `pr_zh`".format(org[0]))
return res[0]
def insert_users_missing(user,org,con):
id_org = insert_orga_przh(org,con)
id_user_orga = insert_orga_user(org,con)
obsv_missing = insert_observ(user,id_user_orga,con)
def insert_zh_fromapi(url,con,dep_filter,orga,prefix_hab_rq=''):
"""
Insert data from API into geonature database
Parameters
----------
url : str
url of the API
con : sqlalchemy.engine.Engine
connection to the geonature database
dep_filter : str
filter code_zh by this department code
prefix_hab_rq : str
prefix to add to remark_pres field for habitats not in geonature database
Returns
-------
None
"""
api = gpd.read_file(url)
df = (api#[api.code_zh.str.startswith(dep_filter)]
.rename(columns=dict_columns)
.rename_geometry('geom')
.merge(load_missing_propertie(url,'cd_nomenclature_delimitation',dep_filter),on='code')
)
insert_users_missing(df.observers,orga,con)
df['zh_uuid'] = [uuid4() for _ in range(len(df))]
df['id_lim_list'] = [uuid4() for _ in range(len(df))]
df['id_sdage'] = [get_nomenclature_id(con,x,'SDAGE') for x in df.cd_typo_sdage]
cd_hab = (df
.set_index('code')
.habitat_corine_biotope
.str.split(',').explode()
.str.strip())
hab_zh,hab_notzh = filter_habitat(cd_hab,con)
_df = (df
.drop('habitat_corine_biotope',axis=1)
.merge(hab_zh,how='left',right_index=True,left_on='code'))
_df = _df.merge(
prefix_hab_rq + hab_notzh.rename('remark_pres'),
how='left',right_index=True,left_on='code'
)
c = _df[_df.action=="Créer"].copy()
u = _df[_df.action=="Modifier"].copy()
if not c.empty:
id_zh = to_tzh(c,con)
to_cor_zh_cb(id_zh,c,con)
to_cor_lim_list(c[['id_lim_list','cd_nomenclature_delimitation']],con)
to_t_activity(id_zh,c[['code','acti_impact']],con)
if not u.empty:
raise('Script à coder !')
def load_missing_propertie(url,propertie,dep_filter='38'):
"""
Load from api the missing properties for the given url, propertie and dep_filter.
Parameters
----------
url : str
url of the api
propertie : str
name of the propertie to retrieve
dep_filter : str
filter for the department, default is '38'
Returns
-------
pd.DataFrame
DataFrame with columns 'code' and propertie
"""
data = urllib.request.urlopen(url).read()
output = json.loads(data)
features = output['items']['features']
res = {
'code':[x['properties']['code_zh'] for x in features if x['properties']['code_zh'].startswith(dep_filter)],
propertie:[
','.join(x['properties'][propertie])
for x in features
if x['properties']['code_zh'].startswith(dep_filter)],
}
return gpd.pd.DataFrame(res)
if __name__ == "__main__":
from sqlalchemy import create_engine
from sqlalchemy.engine import URL
# Parametres bdd
user = ''
pwd = ""
adr = ''
base = ''
url = URL.create("postgresql+psycopg2", username=user, password=pwd, host=adr, database=base)
con_gn = create_engine(url)
from pycen import con_gn
# Numéro de département permettant d'identifier les zones humides concernées par le territoire
# ['38', '05'], default : 38
dep_filter = '38'
# Préfixe ajouté dans le champs remark_pres lorsque des habitats décrits ne sont pas des habitats dit "humides"
prefix_hab_rmk = 'Autre(s) habitat(s) décrit(s) :\n'
# [Nom de l'organisme, Abbreviation]
organisme = ['Parc national des Écrins','PNE']
api = 'https://geonature.ecrins-parcnational.fr/api/exports/api/21?departement=38'
# insert_zh_fromapi(api,con_gn,dep_filter,organisme,prefix_hab_rq=prefix_hab_rmk)