/
buffer_statistics.py
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/
buffer_statistics.py
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import os
import sys
import time
import numpy as np
from ConfigParser import ConfigParser
import rpy2.rinterface as rinterface
import rpy2.robjects as robjects
import rpy2.robjects.numpy2ri as npri
import osgeo.osr as osr
try:
import simplejson as json
except ImportError:
import json
# Prevent R outputs to stdout
f = open(os.devnull, 'w')
sys.stdout = f
# Zoo service return values
SERVICE_FAILED = 4
SERVICE_SUCCEEDED = 3
def BufferStatistics(conf, inputs, outputs):
mimeType = outputs['bufferstatistics']['mimeType']
lon = float(inputs['lon']['value'])
lat = float(inputs['lat']['value'])
try:
epsg = int(inputs['epsg']['value'])
except ValueError:
conf["lenv"]["message"] = "Parameter \"epsg\" is not valid or not supported."
return SERVICE_FAILED
if epsg != 4326:
conf["lenv"]["message"] = "Request CRS is not supported."
return SERVICE_FAILED
coords = reprojectCoordinates((lon,lat), epsg)
config = ConfigParser()
config.read('Layers.ini')
alllayers = config.sections()
inputlayer = str(inputs['layer']['value'])
if inputlayer == 'all' or inputlayer == 'NULL':
layers = alllayers
elif inputlayer in alllayers:
layers = [inputlayer]
else:
conf["lenv"]["message"] = "Request layer (" + inputlayer + ") is not supported"
return SERVICE_FAILED
try:
buffer=int(inputs['buffer']['value'])
if buffer not in [100,500,5000,50000,500000]:
conf["lenv"]["message"] = "Request buffer (" + str(buffer) + ") is not supported"
return SERVICE_FAILED
except:
if str(inputs['buffer']['value']) == 'NULL':
buffer = 5000
else:
conf["lenv"]["message"] = "Request buffer (" + str(inputs['buffer']['value']) + ") is not supported"
return SERVICE_FAILED
layerstatistics = []
for layer in layers:
values = getRasterValues(coords[0],coords[1],config.get(layer, 'filepath'), buffer)
PixelCount = len(values)
NoDataValues = int(np.isnan(values).sum())
DataValues = PixelCount - NoDataValues
valuesnanremove = values[~np.isnan(values)]
if config.get(layer, 'type') == "Values":
layerstatistics.append({'layername': config.get(layer, 'name'),
'description': config.get(layer, 'description').replace('\n', ' '),
'datatype': config.get(layer, 'type'),
'unit': config.get(layer, 'unit'),
'pixel': PixelCount,
'datapixel': DataValues,
'nodatapixel': NoDataValues,
'bufferradius': buffer,
'statistics': calculateStatistics(valuesnanremove)})
elif config.get(layer, 'type') == "Classes":
classstring = config.get(layer, 'classes')
classes = {}
for cl in classstring.split('\n'):
c = cl.split(',',1)
classes[c[0]] = c[1]
layerstatistics.append({'layername': config.get(layer, 'name'),
'description': config.get(layer, 'description').replace('\n', ' '),
'datatype': config.get(layer, 'type'),
'unit': config.get(layer, 'unit'),
'pixel': PixelCount,
'datapixel': DataValues,
'nodatapixel': NoDataValues,
'bufferradius': buffer,
'classes': calculateAreaShare(values,classes)})
outputs['bufferstatistics']['value'] = json.dumps({'layers':layerstatistics})
# return SERVICE_FAILED
return SERVICE_SUCCEEDED
def getRasterValues(lon, lat, layer, buffervalue):
startTime = time.time()
rinterface.initr()
r = robjects.r
r.require('raster')
ras = r.raster(layer)
rasvalues = r.extract(ras, r.cbind(lon,lat), buffer=buffervalue, small=True)
values = npri.ri2numpy(rasvalues[0])
endTime = time.time()
print(str(endTime - startTime))
return values
def calculateStatistics(values):
statistics = [{'name': "Minimum", 'value': values.min()},
{'name': "Maximum", 'value': values.max()},
{'name': "Mean", 'value': values.mean()},
{'name': "Sum", 'value': values.sum()},
{'name': "Standard deviation", 'value': values.std()},
{'name': "Variance", 'value': values.var()}]
return statistics
def calculateAreaShare(values, classes):
PixelCount = len(values)
NoDataValues = int(np.isnan(values).sum())
values = values[~np.isnan(values)]
if NoDataValues > 0:
areashares = [{'value' : 'No data',
'name' : 'No data',
'frequency': NoDataValues,
'areashare': float(NoDataValues)/PixelCount*100.0}]
else:
areashares = []
for kvp in countUnique(values):
value = kvp['value']
frequency = kvp['frequency']
try:
classname = classes[str(value)]
except:
classname = "Classname unknown"
areashares.append({'value' : value,
'name' : classname,
'frequency': frequency,
'areashare': float(frequency)/PixelCount*100.0})
return areashares
def countUnique(keys):
uniq_keys = np.unique(keys)
bins = uniq_keys.searchsorted(keys)
values = uniq_keys.tolist()
frequency = np.bincount(bins).tolist()
result = []
for i in range(len(values)):
result.append({'value':int(values[i]),'frequency':frequency[i]})
return result
def reprojectCoordinates(coords, epsg_code):
"""
Reproject the requested coordinates to Mollweide projection. EPSG
code of input CRS must be known to GDAL.
"""
srs = osr.SpatialReference()
srs.ImportFromEPSG(int(epsg_code))
mollweideSrs = osr.SpatialReference()
# From spatialreference.org: http://spatialreference.org/ref/sr-org/7/
mollweideSrs.ImportFromProj4("+proj=moll +lon_0=0 +x_0=0 +y_0=0 +ellps=WGS84 +units=m +no_defs")
ct = osr.CoordinateTransformation(srs, mollweideSrs)
(x, y, z) = ct.TransformPoint(float(coords[0]), float(coords[1]))
return (x, y)