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rastercaster.py
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rastercaster.py
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#!/usr/bin/env python
# -*- coding: utf-8 -*-
""" TODO Docstring. """
# TODO: filler vlakjes moeten geupdate worden als een naburig vlakje is aangepast
# Tijdelijk opgelost door alle filler vlakjes altijd opnieuw te maken aan het eind
# TODO: Bij laatste GDAL-Translate ook een progress bar weergeven
# Lijkt niet mogelijk
# TODO: in alle datalagen (elevation point, surface, aux) de optie relative toevoegen (default false) om interactie met base raster mogelijk te maken
import argparse
import logging
import os, sys
import configparser
import shutil
import psycopg2
import traceback
import subprocess
from shutil import copyfile
from osgeo import ogr, gdal, osr
from osgeo.gdalnumeric import *
from osgeo.gdalconst import *
logger = logging.getLogger(__name__)
def system_custom(cmd):
try:
if isinstance(cmd, list):
cmd = ' && '.join(cmd)
process = subprocess.Popen(cmd, stdout=subprocess.PIPE, stderr=subprocess.STDOUT, shell=True)
output, error = process.communicate()
returncode = process.poll()
logger.info(output)
if returncode != 0:
raise ValueError('Executable terminated, see log file')
except (ValueError, IndexError):
exit('Executable terminated, see log file')
class settingsObject:
"""Contains the settings from the ini file"""
def __init__(self):
self.host = 'localhost'
self.port = 5432
def read(self, inifile):
config = configparser.RawConfigParser()
config.read(inifile)
# database
self.host = config.get('database', 'host')
self.port = config.get('database', 'port')
self.username = config.get('database', 'username')
self.password = config.get('database', 'password')
self.database = config.get('database', 'database')
# inputs
self.base_raster = config.get('inputs', 'base_raster')
# parameters
self.pixelsize = config.get('parameters', 'pixelsize')
self.filler_seg_dist = config.get('parameters', 'filler_seg_dist')
self.elevation_point_search_radius = config.get('parameters', 'elevation_point_search_radius')
# output
self.output_file = config.get('output', 'output_file')
def db_connection(host, port, dbname, user, password):
db_conn="dbname={dbname_value} user={user_value} host={host_value} port={port_value} password={password_value}".format(dbname_value=dbname, user_value=user, host_value=host, port_value=port, password_value=password)
#Connect met de database
try:
conn = psycopg2.connect(db_conn)
except:
logger.info("I am unable to connect to the database")
logger.info(db_conn)
return conn
def execute_sql_command(host, port, database, username, password, sql, verbose=False):
try:
conn = db_connection(host, port, database, username, password)
cur = conn.cursor()
cur.execute(sql)
if verbose==True:
logger.debug(sql)
try:
conn.commit()
except psycopg2.DatabaseError as e:
if conn:
conn.rollback()
conn.close()
logger.error('Error %s'%e)
raise Exception('SQL Commit error')
except:
if conn:
conn.close()
print(traceback.format_exc())
raise Exception('SQL Error')
finally:
if conn:
conn.close()
def execute_sql_file(host, port, database, username, password, filename, verbose=False):
logger.info('Started execute_sql_file:' + filename)
try:
conn = db_connection(host, port, database, username, password)
cur = conn.cursor()
with open(filename, 'r') as file:
sql = file.read()
cur.execute(sql)
if verbose==True:
logger.debug('execute_sql_file:' + filename)
try:
conn.commit()
except psycopg2.DatabaseError as e:
if conn:
conn.rollback()
conn.close()
logger.error('Error %s'%e)
raise Exception('SQL Commit error')
except:
if conn:
conn.close()
print(traceback.format_exc())
raise Exception('SQL Error')
finally:
if conn:
conn.close()
def install(settings):
answer = input(r'Existing rastercaster data in the database will be overwritten. Are you sure? (Y/N): ')
if answer in ('Y', 'y', 'J', 'j', 'prima joh'):
# (create database if not exists)
# enable postgis
print('Enable PostGIS...')
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql='''CREATE EXTENSION IF NOT EXISTS postgis;''')
# add rastercaster functions and tables to the database
print('Add RasterCaster functions and tables to the database...')
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql='''CREATE SCHEMA IF NOT EXISTS rc;''')
script_path = os.path.dirname(os.path.abspath(__file__))
print(script_path)
rastercaster_dir = os.path.join(script_path, r'sql')
print(rastercaster_dir)
for file in os.listdir(rastercaster_dir):
filename = os.path.join(rastercaster_dir, file)
if filename.endswith(".sql"):
execute_sql_file(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, filename=filename)
continue
else:
continue
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql='''DELETE FROM rc.instellingen; INSERT INTO rc.instellingen VALUES ('pixelsize','{p}'), ('filler_seg_dist','{f}'), ('elevation_point_search_radius', '{e}');'''.format(p=settings.pixelsize, f=settings.filler_seg_dist, e=settings.elevation_point_search_radius))
def cast_raster(settings):
#________________________________________
# get list of surface ids to be exported
print('''Building molds...''')
conn = db_connection(host=settings.host, port=settings.port, dbname=settings.database, user=settings.username, password=settings.password)
cur = conn.cursor()
try:
sql = '''SELECT id FROM rc.surface_admin WHERE exported < updated ORDER BY id;'''
cur.execute(sql)
export_ids_weird_format = list(cur)
sql = '''SELECT id FROM rc.surface_admin ORDER BY id;'''
cur.execute(sql)
all_ids_weird_format = list(cur)
sql='''SELECT count(*) FROM rc.surface WHERE definition_type IN ('tin', 'filler');'''
cur.execute(sql)
must_fill_open_pixels = cur.fetchone()[0] > 0
try:
conn.commit()
except psycopg2.DatabaseError as e:
if conn:
conn.rollback()
logger.error('Error %s' % e)
except psycopg2.DatabaseError:
print(traceback.format_exc())
finally:
if conn:
conn.close()
all_ids=list()
for id in all_ids_weird_format:
all_ids.append(id[0])
#_______________________________________________________________
# generate (in database) partial rasters that are new or updated
export_ids=list()
for id in export_ids_weird_format:
export_ids.append(id[0])
failed_ids=list()
has_failed=False
if len(export_ids) > 0:
print('''Mixing gypsum...''')
count = 0;
for id in export_ids:
try:
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql='''SELECT rc.update_raster({id});'''.format(id=id))
except:
has_failed=True
failed_ids.append(id)
continue
try:
count+=1;
ogr.TermProgress_nocb((count)/len(export_ids))
except:
continue
print('''Mixing mortar...''')
count = 0;
for id in all_ids:
try:
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql='''SELECT rc.update_filler(id) FROM rc.surface WHERE id = {id} AND definition_type = 'filler';'''.format(id=id))
except:
has_failed=True
failed_ids.append(id)
continue
try:
count+=1;
ogr.TermProgress_nocb((count)/len(all_ids))
except:
continue
#____________________________________________________________
# stitch all partial rasters together (base raster not involved yet)
if len(all_ids) > len(failed_ids): # prevent Exception when no surface has successfully been cast
print('''Casting gypsum to molds...''')
count = 0
tifList=list()
for id in all_ids:
if id not in failed_ids:
ds_string = "PG:host='{h}' port={p} dbname='{d}' user='{u}' password='{pw}' schema='rc' table='surface_admin' mode='2' where='id = {id}'".format(h=settings.host, p=settings.port, d=settings.database, u=settings.username, pw=settings.password, id=id)
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql='''UPDATE rc.surface_admin SET exported = now() WHERE id = {id};'''.format(id=id))
tifList.append(ds_string)
try:
count+=1;
ogr.TermProgress_nocb((count)/len(all_ids))
except:
continue
vrtname=os.path.join('/vsimem/', r'cast.vrt')
gdal.BuildVRT(destName=vrtname, srcDSOrSrcDSTab=tifList, srcNodata=-9999, VRTNodata=-9999, outputSRS='EPSG:28992')
cast_inmem=os.path.join('/vsimem/', r'cast.tif')
vrt = gdal.Open(vrtname)
tmp = gdal.Translate(destName=cast_inmem, srcDS=vrt, format='Gtiff', noData=-9999, outputSRS='EPSG:28992', outputType=gdal.GDT_Float32, creationOptions=['COMPRESS=DEFLATE'])
tmp = None
#________________
# fill open pixels if there are any filler or tin surfaces in the raster
print('''Drying gypsum...''')
if must_fill_open_pixels:
# ### create a mask that has value 1 for all pixels outside the rc.surface polygon
# ### ### write vrt dimensions (width, height, upperleftx, upperlefty) to database
sql = '''
DELETE FROM rc.instellingen WHERE variabele IN ('vrt_width', 'vrt_height', 'vrt_ulx', 'vrt_uly');
INSERT INTO rc.instellingen (variabele, waarde) VALUES
('vrt_width','{w}'),
('vrt_height','{h}'),
('vrt_ulx','{x}'),
('vrt_uly','{y}')
;
SELECT rc.create_fillnodatamask();
'''.format(w=vrt.RasterXSize,h=vrt.RasterYSize, x=vrt.GetGeoTransform()[0] ,y=vrt.GetGeoTransform()[3])
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql=sql)
vrt = None
gdal.Unlink(vrtname)
mask_in_db_string = "PG:host='{h}' port={p} dbname='{d}' user='{u}' password='{pw}' schema='rc' table='fillnodatamask' mode='2'".format(h=settings.host, p=settings.port, d=settings.database, u=settings.username, pw=settings.password)
mask_inmem1=os.path.join('/vsimem/', r'mask1.tif')
mask_in_db = gdal.Open(mask_in_db_string)
tmp = gdal.Translate(destName=mask_inmem1, srcDS=mask_in_db, noData=0)
tmp = None
mask_in_db = None
# ### create a mask that has value 1 for all active pixels in the cast AND for all pixels outside the rc.surface polygon (1+1=2)
m = gdal.Open(mask_inmem1, GA_ReadOnly)
m_band = m.GetRasterBand(1)
m_data = BandReadAsArray(m_band)
c = gdal.Open(cast_inmem, GA_ReadOnly)
c_band = c.GetRasterBand(1)
c_data = BandReadAsArray(c_band)
dataOut = ((c_data==-9999)+(m_data))!=2
driver = gdal.GetDriverByName(str('GTiff'))
mask_inmem2 = '/vsimem/mask2.tif'
dsOut = driver.Create(str(mask_inmem2), m.RasterXSize, m.RasterYSize, 1, m_band.DataType)
CopyDatasetInfo(m,dsOut)
bandOut=dsOut.GetRasterBand(1)
BandWriteArray(bandOut, dataOut)
m_band = None
m = None
c_band = None
c = None
bandOut = None
dsOut = None
# ### use the created mask as input in gdal.FillNoData
castDs = gdal.Open(cast_inmem, GA_Update)
castBand = castDs.GetRasterBand(1)
mask = gdal.Open(mask_inmem2)
maskBand = mask.GetRasterBand(1)
filled = gdal.FillNodata(targetBand = castBand, maskBand = maskBand, maxSearchDist = 2, smoothingIterations = 0)
filled = None
maskBand = None
mask = None
castBand = None
castDs = None
#___________________________________________
# make vrt of base raster and cast
tifList = list()
tifList.append(cast_inmem)
# ### somehow there two versions of EPSG:28992 exist that differ in their TOWGS84 parameter
# ### gdal treats these as different projections, and therefore will not add both to the same vrt
# ### if this is the case, the base raster is read into memory, it's projection overwritten with the same version of EPGS:28992 as the RasterCaster output
if settings.base_raster != '':
base_raster_ds = gdal.Open(settings.base_raster)
base_raster_sr = osr.SpatialReference(wkt = base_raster_ds.GetProjection())
last_db_raster_ds = gdal.Open(ds_string)
last_db_raster_sr = osr.SpatialReference(wkt = last_db_raster_ds.GetProjection())
if base_raster_sr.GetAttrValue(str('authority'), 0) == last_db_raster_sr.GetAttrValue(str('authority'), 0) and base_raster_sr.GetAttrValue(str('authority'), 1) == last_db_raster_sr.GetAttrValue(str('authority'), 1):
if base_raster_sr != last_db_raster_sr:
print('''NOTICE: Base raster and database rasters have different definitions of the same SRS ({a}:{c}). Casting will take some extra time.'''.format(a=base_raster_sr.GetAttrValue(str('authority'), 0), c=base_raster_sr.GetAttrValue(str('authority'), 1)))
tr = gdal.Translate(destName='/vsimem/baseraster.tif', srcDS=base_raster_ds)
base_raster_inmem = gdal.Open('/vsimem/baseraster.tif', GA_Update)
res = base_raster_inmem.SetProjection(last_db_raster_ds.GetProjection())
res = None
base_raster_inmem = None
tifList.insert(0, '/vsimem/baseraster.tif')
else:
tifList.insert(0, settings.base_raster)
vrtname=os.path.join('/vsimem/','cast.vrt')
tmp = gdal.BuildVRT(destName=vrtname, srcDSOrSrcDSTab=tifList, srcNodata=-9999, VRTNodata=-9999, outputSRS='EPSG:28992')
tmp = None
tmp = gdal.Translate(destName=settings.output_file, srcDS=vrtname, noData=-9999, stats=True, outputType=gdal.GDT_Float32, creationOptions=['COMPRESS=DEFLATE'])
tmp = None
castDs=None
else:
if settings.base_raster == '':
print('''WARNING! No surfaces were successfully cast. Returning no result.''' )
else:
print('''WARNING! No surfaces were successfully cast. Returning base raster.''' )
base_raster_ds = gdal.Open(settings.base_raster)
tmp = gdal.Translate(destName=settings.output_file, srcDS=base_raster_ds, noData=-9999, stats=True, outputType=gdal.GDT_Float32, creationOptions=['COMPRESS=DEFLATE'])
if has_failed==True:
print('Warning: rasters for some surfaces were not succesfully generated. IDs: {f}'.format(f=failed_ids))
else:
print('Rasters for all surfaces were succesfully generated.')
print('Done! Raster has been cast to {o}'.format(o=settings.output_file))
def aux(settings):
# delete autogenerated aux geoms and generate them again
sql = '''DELETE FROM rc.auxiliary_line WHERE autogenerated;'''
sql += '''SELECT rc.ApproxAuxLines(id) FROM rc.surface;'''
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql=sql);
def rastercaster(**kwargs):
# read inifile
print('Read inifile')
settings = settingsObject()
settings.read(kwargs['inifile'])
if kwargs['install']==True:
print('Installing rastercaster from {ini}'.format(ini=kwargs['inifile']))
install(settings)
elif kwargs['cast']==True:
if kwargs['full']==True:
execute_sql_command(host=settings.host, port=settings.port, database=settings.database, username=settings.username, password=settings.password, sql='''UPDATE rc.surface_admin SET updated = now();''');
print('Casting raster from {ini}'.format(ini=kwargs['inifile']))
cast_raster(settings)
elif kwargs['aux']==True:
print('Generating auxiliary lines for {ini}'.format(ini=kwargs['inifile']))
aux(settings)
return 0
def get_parser():
""" Return argument parser. """
parser = argparse.ArgumentParser(
description=__doc__
)
parser.add_argument('inifile', metavar='INIFILE')
parser.add_argument('-install', default=False, help='Install RasterCaster into database', dest='install', action='store_true')
parser.add_argument('-cast', default=False, help='Cast raster (export from database to tif)', dest='cast', action='store_true')
parser.add_argument('-full', default=False, help='Regenerate partial rasters for all surfaces before casting', dest='full', action='store_true')
parser.add_argument('-aux', default=False, help='Generate auxiliary lines for all surfaces. Existing autogenerated lines are overwritten.', dest='aux', action='store_true')
return parser
def main():
""" Call command with args from parser. """
kwargs = vars(get_parser().parse_args())
logging.basicConfig(stream=sys.stderr,
level=logging.DEBUG,
format='%(message)s')
try:
return rastercaster(**kwargs)
except:
logger.exception('An exception has occurred.')
return 1
if __name__ == '__main__':
exit(main())