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# Import
import os
from os.path import exists
import re
import sys
import unicodedata
from math import *
from datetime import datetime
from io import StringIO
from fiona import BytesCollection
import logging
import platform
import json
import psycopg2
from psycopg2.extras import RealDictCursor
import geopandas as gp
import pandas as pd
import numpy as np
import requests
import shapely
from shapely.geometry import Polygon, MultiPolygon
if not platform.system() != "Linux":
import resource
# -------------
# ---- LOG ----
# -------------
def initLogging(logsPath):
start_date = datetime.now()
logFilePath = logsPath + 'log_' + start_date.strftime("%d-%m-%Y") + '.log'
if os.path.isfile(logFilePath):
# debugLog(style.YELLOW, "The log file {} already exist".format(logFilePath), logging.INFO)
# Ask user to clean log ?
# while True:
# cleanLogResponse = input("Do you want to clean the log file {} ? (y/n) : ".format(logFilePath))
# if cleanLogResponse.lower() not in ('y', 'n'):
# print(style.RED + "Sorry, wrong response... \n", style.RESET)
# else:
# # Good response
# break
# if cleanLogResponse.lower() == 'y':
os.remove(logFilePath)
# print(style.GREEN + "Log file {} was reset successfully \n".format(logFilePath), style.RESET)
# else:
# print('\n')
# Init instance of logger
currLogger = logging.getLogger('main')
currLogger.setLevel(logging.DEBUG)
# Define logger and destination path
fileHandler = logging.FileHandler(logFilePath, encoding='utf-8')
formatter = logging.Formatter('%(asctime)s - [%(levelname)s] %(message)s')
formatter.datefmt = '%d/%m/%Y %H:%M:%S'
fileHandler.setFormatter(formatter)
#TODO: Add history and backup handler
# Add handler
currLogger.addHandler(fileHandler)
# First log
debugLog(style.YELLOW, "Logger is initialized", logging.INFO, onlyFile=True)
def debugLog(color, message, level=logging.INFO, onlyFile=False):
currLogger = logging.getLogger('main')
# Log in file
if level == logging.INFO:
currLogger.info(message)
elif level == logging.WARN:
currLogger.warning(message)
elif level == logging.ERROR:
currLogger.error(message)
elif level == logging.CRITICAL:
currLogger.critical(message)
else:
currLogger.info(message)
if not onlyFile:
# Print in console
print(color + message + '\n', style.RESET)
def startTimerLog(taskname):
# Log time
start_date = datetime.now()
debugLog(style.MAGENTA, "Start task \'{}\' at {}".format(taskname, start_date.strftime("%d/%m/%Y, %H:%M:%S")), logging.INFO)
# Create timer dict obj
timer = {'taskname': taskname, 'start_date': start_date}
return timer
def endTimerLog(timer):
# Log time end
end_date = datetime.now()
time_elapsed = datetime.now() - timer["start_date"]
# Split timedelta
time_el_d = time_elapsed.days
time_el_h = floor(time_elapsed.seconds / 3600)
time_el_m = floor(time_elapsed.seconds / 60)
time_el_s = time_elapsed.seconds - (time_el_m * 60)
time_el_ms = time_elapsed.microseconds
# Log
debugLog(style.MAGENTA, "End task \'{}\' at {} in {} days {} hours {} min {} sec {} micros".format(timer["taskname"], end_date.strftime("%d/%m/%Y, %H:%M:%S"), time_el_d, time_el_h, time_el_m, time_el_s, time_el_ms), logging.INFO)
# ------------------------
# ---- ENV OPERATIONS ----
# ------------------------
def checkEnvFile():
# Init all var in .env file
file_exists = exists('.env')
dbHost = os.getenv('DB_HOST')
dbUser = os.getenv('DB_USER')
dbPwd = os.getenv('DB_PWD')
dbName = os.getenv('DB_NAME')
dbSchema = os.getenv('DB_SCHEMA')
targetProj = os.getenv('TARGET_PROJ')
boolTempFile = os.getenv('REMOVE_TEMP_FILE')
skipExistingData = os.getenv('SKIP_EXISTING_DATA')
enableTruncate = os.getenv('ENABLE_TRUNCATE')
# Check if file exists
if file_exists == False:
debugLog(style.RED, "The .env file is not found. Please create it based on .env.example", logging.ERROR)
sys.exit(0)
else:
# Check all var in .env file
if (dbHost == None or dbUser == None or dbPwd == None or dbName == None or dbSchema == None or targetProj == None or boolTempFile == None or skipExistingData == None or enableTruncate == None):
debugLog(style.RED, "Please make sure you have correctly initialized the .env file", logging.ERROR)
sys.exit(0)
# -------------------------
# ---- DATE OPERATIONS ----
# -------------------------
def getMinNowDate():
# Get now date and format
dt = datetime.now()
dt = dt.strftime("%d-%m-%Y_%H-%M-%S")
return dt
def dateConverter(o):
# Date converter (for JSON serialization)
if isinstance(o, datetime):
return o.__str__()
# -------------------------
# ---- TEXT OPERATIONS ----
# -------------------------
def strip_accents(text):
"""
Strip accents from input String.
:param text: The input string.
:type text: String.
:returns: The processed String.
:rtype: String.
"""
try:
text = unicode(text, 'utf-8')
except (TypeError, NameError): # unicode is a default on python 3
pass
text = unicodedata.normalize('NFD', text)
text = text.encode('ascii', 'ignore')
text = text.decode("utf-8")
return str(text)
def text_to_id(text):
"""
Convert input text to id.
:param text: The input string.
:type text: String.
:returns: The processed String.
:rtype: String.
"""
text = strip_accents(text.lower())
text = re.sub('[ ]+', '_', text)
text = re.sub('[^0-9a-zA-Z_-]', '', text)
return text
# -------------------------
# ---- DATA OPERATIONS ----
# -------------------------
def connectDB(params_DB, jsonEnable = False):
try:
conn = psycopg2.connect(**params_DB)
cur = None
if jsonEnable:
cur = conn.cursor(cursor_factory=RealDictCursor)
else:
cur = conn.cursor()
# Log
debugLog(style.GREEN, "Database connection successfully opened", logging.INFO, True)
return conn, cur
except (Exception, psycopg2.Error) as error :
debugLog(style.RED, "Error while trying to connect in PostgreSQL database : {}".format(error), logging.ERROR)
def closeDB(conn, cur):
try:
# Commit (save change)
conn.commit()
# Close DB connection
cur.close()
# Log
debugLog(style.GREEN, "Database connection successfully closed", logging.INFO, True)
except (Exception, psycopg2.Error) as error :
debugLog(style.RED, "Error while trying to connect in PostgreSQL database : {}".format(error), logging.ERROR)
def getCountfromDB(DB_params, DB_schema, tableName, queryFilter=None, connInput = None, curInput = None):
conn = None
cur = None
if connInput is None and curInput is None:
# Connect DB
conn, cur = connectDB(DB_params)
else:
conn = connInput
cur = curInput
# Build request
countQuery = "SELECT COUNT(*) FROM " + DB_schema + "." + tableName
if queryFilter:
countQuery = countQuery + " WHERE " + queryFilter
# Execute query
cur.execute(countQuery)
countValue = cur.fetchone()[0]
# Log
debugLog(style.BLUE, "Found {} entites in table {}".format(countValue, tableName), logging.INFO)
if connInput is None and curInput is None:
# Final close cursor & DB
closeDB(conn, cur)
return countValue
def getDatafromDB(DB_params, sqlQuery, connInput = None, curInput = None):
conn = None
cur = None
if connInput is None and curInput is None:
# Connect DB
conn, cur = connectDB(DB_params, jsonEnable=True)
else:
conn = connInput
cur = curInput
# Get all Data
cur.execute(sqlQuery)
dataValues = json.dumps(cur.fetchall(), indent=2, default=dateConverter)
if connInput is None and curInput is None:
# Final close cursor & DB
closeDB(conn, cur)
return dataValues
def insertDataInDB(DBcursor, sqlQuery):
# Insert Data
DBcursor.execute(sqlQuery)
#TODO: Get return data ?
# dataValues = json.dumps(cur.fetchall(), indent=2, default=dateConverter)
return DBcursor
def updateDataInDB(DBcursor, sqlQuery):
# Update Data
DBcursor.execute(sqlQuery)
#TODO: Get return data ?
# dataValues = json.dumps(cur.fetchall(), indent=2, default=dateConverter)
return DBcursor
def deleteDataInDB(DB_params, DB_schema, tableName, queryFilter=None):
# Connect DB
conn, cur = connectDB(DB_params)
# Build request
deleteQuery = "DELETE FROM " + DB_schema + "." + tableName
if queryFilter:
deleteQuery = deleteQuery + " WHERE " + queryFilter
# Execute query
cur.execute(deleteQuery)
# Execute COMMIT
commmitQuery = "COMMIT;"
cur.execute(commmitQuery)
# Final close cursor & DB
closeDB(conn, cur)
return
def deleteCustomDataInDB(DB_params, sqlQuery):
conn = None
cur = None
# Connect DB
conn, cur = connectDB(DB_params, jsonEnable=True)
# Get all Data
cur.execute(sqlQuery)
# Final close cursor & DB
closeDB(conn, cur)
return
def getGDFfromDB(DB_params, sqlQuery, projection):
# Connect DB
conn, cur = connectDB(DB_params)
# Get data (schema in sqlQuery)
df = gp.read_postgis(sqlQuery, conn, crs=projection)
# Get length
lenDF = len(df)
# Log
debugLog(style.GREEN, "Datas was loaded successfully (with {} entites) \n".format(lenDF), logging.INFO)
# Final close cursor & DB
closeDB(conn, cur)
return df
def insertGDFintoDB(DB_params, DB_schema, gdf, tablename, columnsListToDB):
# Start Insert Timer
insertTimer = startTimerLog('Inserting GDF data')
# Connect DB
conn, cur = connectDB(DB_params)
# Save dataframe to an in memory buffer
buffer = StringIO()
gdf.to_csv(buffer, sep=';', index_label='id', header=False, index=False)
buffer.seek(0)
# Set Schema 'base'
cur.execute(f'SET search_path TO ' + DB_schema)
# Insert with copy_from
try:
cur.copy_from(buffer, tablename, sep=";", columns=columnsListToDB)
conn.commit()
except (Exception, psycopg2.DatabaseError) as error:
debugLog(style.RED, "Error while inserting : {}".format(error), logging.ERROR)
# Rollback and close
conn.rollback()
cur.close()
return 1
# Final close cursor & DB
closeDB(conn, cur)
# End Insert Timer
endTimerLog(insertTimer)
def splitList(alist, wanted_parts=1):
length = len(alist)
return [ alist[i*length // wanted_parts: (i+1)*length // wanted_parts]
for i in range(wanted_parts) ]
# -------------------------
# ---- GEOM OPERATIONS ----
# -------------------------
def wfs2gp_df(layer_name, url, bbox=None, wfs_version="2.0.0", outputFormat='application/gml+xml; version=3.2', reprojMetro=False, targetProj=None):
# Concat params
params = dict(service='WFS', version=wfs_version,request='GetFeature', typeName=layer_name, outputFormat=outputFormat, crs=targetProj)
# Load data in Bytes
with BytesCollection(requests.get(url,params=params).content) as f:
# Make GDF
df = gp.GeoDataFrame.from_features(f)
# Log
lenDF = len(df)
debugLog(style.GREEN, "API datas loaded successfully (with {} entites) \n".format(lenDF), logging.INFO)
# Reproj
if reprojMetro:
df = df.set_crs("EPSG:4326")
if targetProj:
df = checkAndReproj(df, targetProj)
return df
def checkAndReproj(df, targetProj):
# Get actual DF proj
currentProj = df.crs
debugLog(style.YELLOW, "Current projection of dataframe : {}".format(currentProj), logging.INFO)
if currentProj != targetProj:
# Reproj to targeted proj
df = df.to_crs(targetProj)
# Log
newProj = df.crs
debugLog(style.GREEN, "Successful reproj to : {}".format(newProj), logging.INFO)
else:
debugLog(style.GREEN, "No need to reproj this dataframe", logging.INFO)
return df
def convertGeomToWKT(df):
#TODO!: Check actual format ?
# print(type(df.geometry))
# Convert geom to WKT
df = df.to_wkt()
debugLog(style.GREEN, "Successful convert dataframe geom into WKT format", logging.INFO)
return df
def createGridFromDF(df, gridTileSize: int):
"""
Generate grid based on initial dataframe bbox
Arguments:
df: <dataframe> initial DF
gridTileSize: <integer> wished size for tiles
Returns:
The GeoDataFrame of the grid merged with initial DF
"""
# Start Grid Timer
gridTimer = startTimerLog('Generate Grid with size ' + str(gridTileSize) + "x" + str(gridTileSize))
# Instanciate Geodataframe
gdf = gp.GeoDataFrame(df, crs=df.crs)
# Calculate bounds from initial geom DF
gdf.total_bounds
# Get total area for the grid
xmin, ymin, xmax, ymax= gdf.total_bounds
# Define cell size
cell_size = gridTileSize
# Define Projection of the grid
crs = "epsg:2154"
# Create the cells in a loop
grid_cells = []
for x0 in np.arange(xmin, xmax + cell_size, cell_size):
for y0 in np.arange(ymin, ymax+cell_size, cell_size):
# Bounds
x1 = x0-cell_size
y1 = y0+cell_size
grid_cells.append( shapely.geometry.box(x0, y0, x1, y1) )
# Compile result in Geodataframe
gridGDF = gp.GeoDataFrame(grid_cells, columns=['geometry'], crs=crs)
# Log grid length
debugLog(style.BLUE, "Grid generated with : {} tiles".format(len(gridGDF)), logging.INFO)
# End Grid Timer
endTimerLog(gridTimer)
# Log Merge time
mergeTimer = startTimerLog('Merge grid with geom')
# Keep only revellant cell - Merge with communes gdf
#TODO!: overlap (intersect) to optimize ?
mergedGDF = gridGDF.sjoin(gdf, how='inner', predicate='intersects')
# Clean other column
mergedGDF = mergedGDF.drop(columns=['index_right'])
# Log merged length
debugLog(style.BLUE, "Merged Grid generated with : {} tiles as result".format(len(mergedGDF)), logging.INFO)
# End Merge time
endTimerLog(mergeTimer)
return mergedGDF
def checkAndDeleteEmptyGeomFromGDF(df):
# Log
debugLog(style.YELLOW, "Analyze and delete lines with empty geom in current GeoDataFrame", logging.INFO)
# Origin length
orgGDFLength = len(df)
# Get geometry from GDF
geomSerie = df.loc[:,'geometry']
# Check empty geom and remove concerned line
geomSerieEmpty = geomSerie.is_empty
# Invert value to make filter (True = keep)
arrEmptyInv = []
for index, row in geomSerieEmpty.items():
arrEmptyInv.append(not row)
# Make geoSerie
geomSerieEmptyInv = pd.Series(arrEmptyInv)
# Filter GDF lines based in empty value
df = df.loc[geomSerieEmptyInv]
# Final length
finGDFLength = len(df)
# Result length
resLength = orgGDFLength - finGDFLength
# Finally log + return
debugLog(style.GREEN, "{} empty geom(s) was deleted".format(str(resLength)), logging.INFO)
return df
def checkAndRepairGeomFromGDF(df):
# Log
debugLog(style.YELLOW, "Analyze and repair geom(s) in current GeoDataFrame", logging.INFO)
# Get geometry from GDF
geomSerie = df.loc[:,'geometry']
# Check valid geom from geoSerie
geomSerieWrong = geomSerie.is_valid
# Invert value to make filter (True = need to repair)
arrEmptyInv = []
for index, row in geomSerieWrong.items():
arrEmptyInv.append(not row)
# Make GeoSerie
geomSerieWrongInv = pd.Series(arrEmptyInv)
# Filter GDF lines based in wrong value
currentGDFWrong = df.loc[geomSerieWrongInv]
# Get Length
lengthWrongGeom = len(currentGDFWrong)
if lengthWrongGeom:
# Init var
multiExist = False
# Check if one of geom is MULTI
allGeomType = currentGDFWrong.geom_type
for geomT in allGeomType:
if geomT == 'MultiPolygon' or geomT == 'MultiLineString':
multiExist = True
# Explode if multi geom
if multiExist:
currentGDFWrong = currentGDFWrong.explode(index_parts=False)
# Repair each geom and insert in initial GDF
for index, row in currentGDFWrong.iterrows():
# Get only geom
currWrongGeom = row['geometry']
# Repair with buffer 0
repairGeom = currWrongGeom.buffer(0.01)
# Set repaired geom into GDF
df.loc[[index], 'geometry'] = repairGeom
# Finally log + return
debugLog(style.GREEN, "{} geom(s) was repaired".format(str(lengthWrongGeom)), logging.INFO)
return df
def makeBufferFromGDF(df, bufferSize):
# Make buffer on all geometry in GDF
df = df.buffer(bufferSize)
return df
def flattenGeom(GDFgeometry):
'''
Takes a GeoSeries of 3D Multi/Polygons (has_z) and returns a list of 2D Multi/Polygons
'''
new_geo = []
for p in GDFgeometry:
if p.has_z:
if p.geom_type == 'Polygon':
lines = [xy[:2] for xy in list(p.exterior.coords)]
new_p = Polygon(lines)
new_geo.append(new_p)
elif p.geom_type == 'MultiPolygon':
new_multi_p = []
for ap in p:
lines = [xy[:2] for xy in list(ap.exterior.coords)]
new_p = Polygon(lines)
new_multi_p.append(new_p)
new_geo.append(MultiPolygon(new_multi_p))
return new_geo
# --------------------------
# ---- FILES OPERATIONS ----
# --------------------------
# def loadGeoJSONtoDF(filePath):
# #TODO!: Try/Catch error ?
# # Read
# currentDf = gp.read_file(filePath)
# # Count
# lenDF = len(currentDf)
# # Log
# debugLog(style.GREEN, "GeoJSON file \'{}\' loaded successfully (with {} entites)".format(filePath, lenDF), logging.INFO)
# return currentDf
def createGDFfromGeoJSON(filePath):
try:
# Read
currentGDF = gp.read_file(filePath)
# Count
lenDF = len(currentGDF)
# Log
debugLog(style.GREEN, "GeoJSON file \'{}\' loaded successfully (with {} entites)".format(filePath, lenDF), logging.INFO)
# Return
return currentGDF
except(Exception) as error:
debugLog(style.RED, "Error while trying to open file : {}".format(error), logging.INFO)
return None
def checkAndCreateDirectory(dirPath):
# Check if directory exist then create if not
if not os.path.isdir(dirPath):
os.mkdir(dirPath)
debugLog(style.YELLOW, "The directory {} was created".format(dirPath))
# ----------------
# ---- MEMORY ----
# ----------------
def memory_limit(percentage: float):
if platform.system() != "Linux":
debugLog(style.RED, 'Memory limitation only works on linux !', logging.ERROR)
return
soft, hard = resource.getrlimit(resource.RLIMIT_AS)
resource.setrlimit(resource.RLIMIT_AS, (get_memory() * 1024 * percentage, hard))
def get_memory():
with open('/proc/meminfo', 'r') as mem:
free_memory = 0
for i in mem:
sline = i.split()
if str(sline[0]) in ('MemFree:', 'Buffers:', 'Cached:'):
free_memory += int(sline[1])
return free_memory
def memory(percentage=0.8):
def decorator(function):
def wrapper(*args, **kwargs):
memory_limit(percentage)
try:
return function(*args, **kwargs)
except MemoryError:
mem = get_memory() / 1024 /1024
debugLog(style.YELLOW, 'Remain: %.2f GB'.format(mem), logging.INFO)
sys.stderr.write('\n\nERROR: Memory Exception\n')
sys.exit(1)
return wrapper
return decorator
# ---------------
# ---- OTHER ----
# ---------------
# Loop in GDF row
# for index, row in gdf.iterrows():
# Make file with GDF
# gdf.to_file('file.shp')
# Regroup
# unionGeom = unary_union(df)
# dataUnion = {'geometry': unionGeom}
# unionDF = gp.GeoDataFrame(dataUnion, crs=ENV_targetProj)
# Shape temp name file
# tempResultFileName = './tmp/temp_result_' + text_to_id(currMDataName) + "_" + dt + ".shp"
# Simplify (GeoSerie)
# dataSerieExplode = dataSerieExplode.simplify(0,1)
# Clean attributes (keep only geometry) with explode
# currentGeoSerie = df.loc[:,'geometry']
# allGeoSerie = currentGeoSerie.explode(index_parts=False)
# currGDF = gp.GeoDataFrame(allGeoSerie)
# Rename HELL
# unionDF = gp.GeoDataFrame(dataSerieExplode, crs=ENV_targetProj)
# unionDF = unionDF.rename(columns={'0':'geometry'}, inplace=True)
# unionDF.columns = ['geometry']
# unionDF = unionDF.loc[:,'geometry']
# unionDF.set_geometry('geometry', inplace=True)
# Concat example
# evaGDF = pd.concat([evaGDF, addGDF])
# -- SIMPLIFY DATA TEST --
# evaOneGDF = createGDFfromGeoJSON("./temp_eva_one_geom.shp")
# evaOneGeoSerie = evaOneGDF.loc[:,'geometry']
# evaOneGeoSerie = evaOneGeoSerie.explode(index_parts=False)
# # evaOneSimplify = evaOneGeoSerie.simplify(0,1)
# evaOneSimplify = evaOneGeoSerie.simplify(3)
# evaOneFinalGDF = gp.GeoDataFrame(evaOneSimplify)
# evaOneFinalGDF.columns = ['geometry']
# print(evaOneFinalGDF)
# evaOneFinalGDF.to_file("./result_eva_simplify10.shp")
# # ---
# batiOneGDF = createGDFfromGeoJSON("./temp_bati_one_geom.shp")
# batiOneBuffered = makeBufferFromGDF(batiOneGDF, 2)
# print(batiOneBuffered)
# # batiOneGeoSerie = batiOneBuffered.loc[:,'geometry']
# batiOneSimplify = batiOneBuffered.simplify(1)
# batiOneFinalGDF = gp.GeoDataFrame(batiOneSimplify)
# batiOneFinalGDF.columns = ['geometry']
# print(batiOneFinalGDF)
# batiOneFinalGDF.to_file("./result_bati_simplify.shp")
# ALTERNATE TEST LOAD FROM API
# url = "https://download.data.grandlyon.com/wfs/grandlyon"
# wfs = WebFeatureService(url=url, version="2.0.0")
# print(wfs)
# Service provider
# print(wfs.identification.title)
# Get WFS version
# print(wfs.version)
# Available methods
# print([operation.name for operation in wfs.operations])
# Available data layers
# print(list(wfs.contents))
# Get features from WFS
# response = wfs11.getfeature(typename='bvv:gmd_ex', bbox=(4500000,5500000,4500500,5500500), srsname='urn:x-ogc:def:crs:EPSG:31468')
# response = wfs.getfeature(typename='ms:adr_voie_lieu.adrnomvoie')
# print(response)
# # Convert in native Python type
# # Create list
# list = ('toto', 'titi', 'tutu', 'tata')
# print(list)
# print(type(list))
# print(list[0])
# # Tuple to Array
# list_arr = np.asarray(list)
# print(list_arr)
# print(type(list_arr))
# print(list_arr[0])
# # Array to Tuple
# list_flat = tuple(list_arr)
# print(list_flat)
# print(type(list_flat))
# print(list_flat[0])
# ---------------------
# ---- COLOR STYLE ----
# ---------------------
class style():
BLACK = '\033[30m'
RED = '\033[31m'
GREEN = '\033[32m'
YELLOW = '\033[33m'
BLUE = '\033[34m'
MAGENTA = '\033[35m'
CYAN = '\033[36m'
WHITE = '\033[37m'
UNDERLINE = '\033[4m'
RESET = '\033[0m'