def coords2mn(self,
grid,
station_names,
station_x,
station_y,
grid_epsg=4326,
station_epsg=4326):
'''Calculate nearest m, n indices on a grid for an array of type (['name', x, y])
where x and y are coordinates (longitude/latitude or eastin/northing etc.).
If the two are different coordinate systems, will convert the array to the grid
coordinate system (using EPSG codes, default is 4326=WGS84'''
def find_nearest(grid, query):
m = np.unravel_index(
np.abs(grid.y - query[1]).argmin(), np.shape(grid.y))[0]
n = np.unravel_index(
np.abs(grid.x - query[0]).argmin(), np.shape(grid.x))[1]
return [m, n]
grid_proj = pyproj.Proj("+init=EPSG:%i" % grid_epsg)
station_proj = pyproj.Proj("+init=EPSG:%i" % station_epsg)
if grid_epsg != station_epsg:
station_x, station_y = pyproj.transform(station_proj, grid_proj,
station_x, station_y)
obs_idx = [
find_nearest(grid, [station_x[i], station_y[i]])
for i in range(0,
np.size(station_names) - 1)
]
self.names = station_names
self.m = [i[0] for i in obs_idx]
self.n = [i[1] for i in obs_idx]
self.num_obs = np.shape(obs_idx)[0]
def reproj_wgs84(self):
# In basemap, the sinusoidal projection is global, so we won't use it.
# Instead we'll convert the grid back to lat/lons.
sinu = pyproj.Proj(
"+proj=sinu +R=6371007.181000 +nadgrids=@null +wktext")
wgs84 = pyproj.Proj("+init=EPSG:4326")
self.Lon, self.Lat = pyproj.transform(sinu, wgs84, self.xv, self.yv)
def transform(in_proj = 'EPSG:3011',out_proj = 'EPSG:4326', lat=0.0, lon=0.0):
"""
Transform coordinates from one spatial reference system to another.
in_proj is your current reference system
out_proj is the reference system you want to transform to, default is EPSG:4326 = WGS84
(Another good is EPSG:4258 = ETRS89 (Europe), almost the same as WGS84 (in Europe)
and not always clear if coordinates are in WGS84 or ETRS89, but differs <1m.
lat = latitude
lon = longitude
To find your EPSG check this website: http://spatialreference.org/ref/epsg/
"""
import mpl_toolkits.basemap.pyproj as pyproj
o_proj = pyproj.Proj("+init="+out_proj)
i_proj = pyproj.Proj("+init="+in_proj)
if type(lat) == list:
if len(lat) != len(lon):
print(u'Length of Latitude differs from length of Longitude! When providing lists och coordinates they must have the same length')
x, y = None, None
else:
x = []
y = []
for i in range(len(lat)):
x_i, y_i = pyproj.transform(i_proj, o_proj, float(lon[i]), float(lat[i]))
x.append(x_i)
y.append(y_i)
else:
x, y = pyproj.transform(i_proj, o_proj, float(lon), float(lat))
return y, x
def flowline_latlon(coords, fromproj=pyproj.Proj("+init=epsg:3413"), toproj=pyproj.Proj("+init=EPSG:4326")):
"""Convert coords into lat/lon so that Basemap can convert them back for plotting (don't know why this is necessary, but it works)
Defaults:
fromproj = NSIDC Polar Stereographic North
toproj = WGS84 lat-lon
"""
xs = coords[:,0]
ys = coords[:,1]
x_lon, y_lat = pyproj.transform(fromproj, toproj, xs, ys)
latlon_coords = np.asarray(zip(x_lon, y_lat))
return latlon_coords
def getCoord(dataframe):
df = dataframe.copy()
WGS84 = pyproj.Proj(init='epsg:4326')
Lambert2 = pyproj.Proj(init='epsg:27572')
for i in np.arange(len(df)):
x = df.ix[i].X_COORDINATE
y = df.ix[i].Y_COORDINATE
lons, lats = pyproj.transform(Lambert2, WGS84, x, y)
df.set_value(i, 'LONGITUDE', lons)
df.set_value(i, 'LATITUDE', lats)
return df
def extract_coord_val(self, lon_sel, lat_sel):
# Convert requested lat/lon to sinusoidal coords
sinu = pyproj.Proj(
"+proj=sinu +R=6371007.181000 +nadgrids=@null +wktext")
wgs84 = pyproj.Proj("+init=EPSG:4326")
lon_sel_sinu, lat_sel_sinu = pyproj.transform(wgs84, sinu, lon_sel,
lat_sel)
# Method for extracting raster values at given coordinates
y_sel = int((lat_sel_sinu - self.originY) / self.pixelHeight)
x_sel = int((lon_sel_sinu - self.originX) / self.pixelWidth)
return self.data[y_sel, x_sel]
def _calculate_center_second_domain(self):
'''
Calculate the center of the second domain for running in UPP mode
'''
grid_ratio = self.nml['geogrid']['parent_grid_ratio'][1]
i_start = self.nml['geogrid']['i_parent_start']
j_start = self.nml['geogrid']['j_parent_start']
e_we = self.nml['geogrid']['e_we']
e_sn = self.nml['geogrid']['e_sn']
ref_lat = self.nml['geogrid']['ref_lat']
ref_lon = self.nml['geogrid']['ref_lon']
truelat1 = self.nml['geogrid']['truelat1']
truelat2 = self.nml['geogrid']['truelat2']
# new dx and dy
self.dx = float(self.nml['geogrid']['dx']) / grid_ratio
self.dy = float(self.nml['geogrid']['dy']) / grid_ratio
# define projection string
projstring = (
"+init=EPSG:4326 +proj=lcc +lat_1=%s +lat_2=%s +lat_0=%s "
"+lon_0=%s +x_0=0 +y_0=0 +ellps=WGS84 +datum=WGS84 "
"+units=m +no_defs" %
(str(truelat1), str(truelat2), str(ref_lat), str(ref_lon)))
projection = pyproj.Proj(projstring)
# calculate east/west/south/north
west = (-self.nml['geogrid']['dx'] * (e_we[0] - 1) * 0.5) + (
(i_start[1] - 1) * self.nml['geogrid']['dx'])
south = (-self.nml['geogrid']['dy'] * (e_sn[0] - 1) * 0.5) + (
(j_start[1] - 1) * self.nml['geogrid']['dy'])
east = west + ((e_we[1] - 1) * self.dx)
north = south + ((e_sn[1] - 1) * self.dy)
# new ref_lat and ref_lon
self.ref_lon, self.ref_lat = projection((west + east) * 0.5,
(north + south) * 0.5,
inverse=True)
def __init__(self, grid, debug=False):
""" initalize the object. """
# check that basemap is available
if not _BASEMAP_AVAILABLE:
raise MissingOptionalDependency(
"Basemap is required to use GridMapDisplay but is not " +
"installed")
self.grid = grid
self.debug = debug
# set up the projection
lat0 = grid.axes['lat']['data'][0]
lon0 = grid.axes['lon']['data'][0]
self.proj = pyproj.Proj(proj='aeqd', datum='NAD83',
lat_0=lat0, lon_0=lon0)
# determine grid latitudes and longitudes.
x_1d = grid.axes['x_disp']['data']
y_1d = grid.axes['y_disp']['data']
x_2d, y_2d = np.meshgrid(x_1d, y_1d)
self.grid_lons, self.grid_lats = self.proj(x_2d, y_2d, inverse=True)
# set attributes
self.mappables = []
self.fields = []
self.origin = 'origin'
self.basemap = None
def __init__(self, grid, debug=False):
""" initalize the object. """
self.grid = grid
self.debug = debug
# set up the projection
lat0 = grid.axes['lat']['data'][0]
lon0 = grid.axes['lon']['data'][0]
self.proj = pyproj.Proj(proj='lcc',
datum='NAD83',
lat_0=lat0,
lon_0=lon0,
x_0=0.0,
y_0=0.0)
# determine grid latitudes and longitudes.
x_1d = grid.axes['x_disp']['data']
y_1d = grid.axes['y_disp']['data']
x_2d, y_2d = np.meshgrid(x_1d, y_1d)
self.grid_lons, self.grid_lats = self.proj(x_2d, y_2d, inverse=True)
# set attributes
self.mappables = []
self.fields = []
self.basemap = None
def compute_station_distance(self):
''' Compute the maximum station to station distance.
'''
# Get the longitude and latidue coordinates of the stations.
lon_lat = [stat.get_lon_lat() for stat in self.stations]
lon = [x[0] for x in lon_lat]
lat = [x[1] for x in lon_lat]
proj = pyproj.Proj(init=self.map_config['epsg'])
x, y = proj(lon, lat)
x = np.reshape(x, (len(x), 1))
y = np.reshape(y, (len(y), 1))
x_mat = np.tile(np.array(x), (1, len(x)))
y_mat = np.tile(np.array(y), (1, len(y)))
rows, cols = np.ogrid[:x_mat.shape[0], :x_mat.shape[1]]
rows = rows - np.arange(x_mat.shape[0])
x_mat_roll = x_mat[rows, cols]
rows, cols = np.ogrid[:y_mat.shape[0], :y_mat.shape[1]]
rows = rows - np.arange(y_mat.shape[0])
y_mat_roll = y_mat[rows, cols]
# Compute the distances between all stations.
dist = np.sqrt((x_mat - x_mat_roll)**2 + (y_mat - y_mat_roll)**2)
self.max_station_dist = np.max(dist)
def transformWrfProj(curs, domainNum, wrfLong, wrfLat, proj='epsg_4326'):
"""Uses pyproj to transform from WRF Lambert Conformal Conic to a new projection.
Args:
curs: WinDB2 cursor
domainNum: WinDB2 domain number
wrfLong: 1D or 2D Numpy array of WRF longitudes
wrfLat: 1D or 2D Numpy array of WRF longitudes
proj: Defaults to WGS84, use a pyproj legal projection string to change e.g. proj='epsg:4326'
Returns:
Reprojected long and lat arrays in of the same dimension of the input data
"""
import numpy as np
import mpl_toolkits.basemap.pyproj as pyproj
# Temporarily convert to 1D if we've been passed a grid
if len(wrfLong.shape) == 2 and len(wrfLat.shape) == 2:
twoDToOneD = True
wrfLongShape = wrfLong.shape
wrfLong = wrfLong.ravel()
wrfLatShape = wrfLat.shape
wrfLat = wrfLat.ravel()
else:
twoDToOneD = False
# Get the SRID of the WRF domain
sql = """SELECT proj4text FROM spatial_ref_sys WHERE srid=(SELECT st_srid(geom) FROM horizgeom WHERE domainkey=""" + str(
domainNum) + """ LIMIT 1)"""
curs.execute(sql)
wrfProj4Str = curs.fetchone()[0]
# Create the WRF projection
wrfProj4 = pyproj.Proj(wrfProj4Str)
# Transform from WRF to WGS84
wrfWgs84Lon, wrfWgs84Lat = pyproj.transform(wrfProj4,
pyproj.Proj(init='epsg:4326'),
wrfLong, wrfLat)
# Convert back to 2D if necessary
if twoDToOneD:
wrfWgs84Lon = np.reshape(wrfWgs84Lon, wrfLongShape)
wrfWgs84Lat = np.reshape(wrfWgs84Lat, wrfLatShape)
return wrfWgs84Lon, wrfWgs84Lat
def compute_map_configuration(self):
''' The map limits computed from the stations.
'''
# Get the longitude and latidue coordinates of the stations.
lon_lat = [stat.get_lon_lat() for stat in self.stations]
lon = [x[0] for x in lon_lat]
lat = [x[1] for x in lon_lat]
# Get the UTM zone for the map limits.
self.map_config['utmZone'] = geom_util.lon2UtmZone(
np.mean([np.min(lon), np.max(lon)]))
self.map_config['ellips'] = 'wgs84'
self.map_config['lon_0'] = geom_util.zone2UtmCentralMeridian(
self.map_config['utmZone'])
self.map_config['lat_0'] = 0
if np.mean([np.min(lat), np.max(lat)]) >= 0:
self.map_config['hemisphere'] = 'north'
else:
self.map_config['hemisphere'] = 'south'
#lon_lat_min = np.min(lon_lat, 0)
#lon_lat_max = np.max(lon_lat, 0)
#map_extent = lon_lat_max - lon_lat_min
#self.map_config['limits'] = np.hstack([lon_lat_min, lon_lat_max])
# Get the epsg code of the UTM projection.
search_dict = {
'projection': 'utm',
'ellps': self.map_config['ellips'].upper(),
'zone': self.map_config['utmZone'],
'no_defs': True,
'units': 'm'
}
if self.map_config['hemisphere'] == 'south':
search_dict['south'] = True
epsg_dict = geom_util.get_epsg_dict()
code = [(c, x) for c, x in list(epsg_dict.items()) if x == search_dict]
self.map_config['epsg'] = 'epsg:' + code[0][0]
proj = pyproj.Proj(init=self.map_config['epsg'])
x_coord, y_coord = proj(lon, lat)
x_min = np.floor(np.min(x_coord) / float(self.map_dx)) * self.map_dx
x_max = np.ceil(np.max(x_coord) / float(self.map_dx)) * self.map_dx
y_min = np.floor(np.min(y_coord) / float(self.map_dy)) * self.map_dy
y_max = np.ceil(np.max(y_coord) / float(self.map_dy)) * self.map_dy
self.map_config['x_lim'] = (x_min, x_max)
self.map_config['y_lim'] = (y_min, y_max)
# Compute the maximum station to station distance.
self.compute_station_distance()
# Set the data length of the stations.
for cur_station in self.stations:
cur_station.data_length = np.ceil(self.window_length)
def proj(self):
""" Deprecated proj attribute. """
warnings.warn(
"The 'proj' attribute has been deprecated and will be removed "
"in future versions of Py-ART", category=DeprecatedAttribute)
lat0 = self.grid.origin_latitude['data'][0]
lon0 = self.grid.origin_longitude['data'][0]
return pyproj.Proj(proj='aeqd', datum='NAD83', lat_0=lat0, lon_0=lon0)
def getGeoProj(self):
import mpl_toolkits.basemap.pyproj as pyproj
p1 = self._location["projParameter"].split()
params = {}
for p in p1:
ps = p.split("=")
if len(ps) == 2:
params[ps[0]] = ps[1]
else:
params[ps[0]] = True
return pyproj.Proj(projparams=params)
def ll2utm(lon, lat):
#lon needs to be between +/-180
zone = (int((180 + lon) / 6.0) + 1) % 60
print "ZONE: ", zone
#zone needs to be between 1 and 60
centralMeridian = zone * 6 - 180 - 3
south = False
if lat < 0.0:
south = True
p = pyproj.Proj(proj='utm', zone=zone, south=south, ellps='WGS84')
return p(lon, lat)
def interior_grid(path, grid, basemap, level, plot_type):
'''
Return the bins of the Radar in the interior of the path.
Parameters
----------
path : Matplotlib Path instance
grid : :py:class:`pyart.core.Grid` Instance
level : int
Section from the grid to be considered.
plot_type : "gridZ", "gridY" or "gridX"
Plot type used
Returns
-------
xy : Numpy Array
Array of the shape (bins,2) containing the x,y
coordinate for every bin inside path
index : Numpy Array
Array of the shape (bins,2) containing the ray and range
coordinate for every bin inside path
'''
if plot_type == "gridZ":
x, y = np.meshgrid(grid.axes['x_disp']['data'],
grid.axes['y_disp']['data'])
ny = len(grid.axes['y_disp']['data'])
if basemap is not None:
from mpl_toolkits.basemap import pyproj
proj = pyproj.Proj(proj='aeqd', datum='NAD83',
lat_0=grid.axes['lat']['data'][0],
lon_0=grid.axes['lon']['data'][0])
lat, lon = proj(x, y, inverse=True)
x, y = basemap(lat, lon)
elif plot_type == "gridY":
x, y = np.meshgrid(grid.axes['x_disp']['data'] / 1000.,
grid.axes['z_disp']['data'] / 1000.)
ny = len(grid.axes['z_disp']['data'])
elif plot_type == "gridX":
x, y = np.meshgrid(grid.axes['y_disp']['data'] / 1000.,
grid.axes['z_disp']['data'] / 1000.)
ny = len(grid.axes['z_disp']['data'])
xys = np.empty(shape=(x.size, 2))
xys[:, 0] = x.flatten()
xys[:, 1] = y.flatten()
# XXX in new versions (1.3) of mpl there is contains_pointS function
ind = np.nonzero([path.contains_point(xy) for xy in xys])[0]
x_index = ind / ny
y_index = ind % ny
index = np.concatenate((x_index[np.newaxis],
y_index[np.newaxis]), axis=0)
return (xys[ind], index.transpose().astype(np.int))
def ice_map(date_inp,m):
date_code=str(date_inp.year)+'%02.0f' % date_inp.month
file_path='/Users/paulchamberlain/Data/SOCCOM/SEA_ICE/NOAAG02135/'+str(date_inp.strftime("%B"))+'/shp_extent/extent_S_'+date_code+'_polyline/extent_S_'+date_code+'_polyline'
prj_file = open(file_path+'.prj', 'r')
prj_txt = prj_file.read()
srs = osr.SpatialReference()
srs.ImportFromESRI([prj_txt])
shpProj = pyproj.Proj(srs.ExportToProj4())
mapProj = pyproj.Proj(m.proj4string)
sf = shapefile.Reader(file_path)
shapes = sf.shapes()
shpX = []
shpY = []
for n in range(len(shapes)):
shpX = [px[0] for px in shapes[n].points]
shpY = [px[1] for px in shapes[n].points]
lonlat = np.array(shpProj(shpX,shpY,inverse=True)).T
ice_data = np.array(mapProj(lonlat[:,0],lonlat[:,1])).T
m.plot(ice_data[:,0],ice_data[:,1],linewidth=.9,color='m')
return m
def projection_proj(self):
# Proj instance as specified by the projection attribute.
# Raises a ValueError if the pyart_aeqd projection is specified.
projparams = self.get_projparams()
if projparams['proj'] == 'pyart_aeqd':
raise ValueError(
'Proj instance can not be made for the pyart_aeqd projection')
if not _PYPROJ_AVAILABLE:
raise MissingOptionalDependency(
"Basemap is required to create a Proj instance but it " +
"is not installed")
proj = pyproj.Proj(projparams)
return proj
def getCoordsOfReguarGridInWrfCoords(curs, domainNum, outputLong, outputLat,
nInputLong, nInputLat):
"""Calculates the WRF native coordinates of a regularly defined long, lat grid. The return values are meant
to plug directly into the mpl_toolkits.basemap.interp function.
@param curs: Psycopg2 cursor of the WinDB database
@param domainNum: WinDB domain number
@param outputLong: 1D Numpy array of longitudes in the regular grid
@param outputLat: 1D Numpy array of latitudes in the regular grid
@return: wrfX -> 1D WRF native longitudinal coordinate
wrfY -> 1D WRF native latitudinal coordinate
regGridInWrfX -> 2D WRF native longitudinal coordinate of the regular grid longitudinal coordinates
regGridInWrfY -> 2D WRF native latitudinal coordinate of the regular grid latitudinal coordinates
"""
import numpy as np
import mpl_toolkits.basemap.pyproj as pyproj
# Get the coordinates of the WRF grid in the native WRF projection
sql = """SELECT generate_series(x.min::int, x.max::int,(x.max::int - x.min::int)/({} - 1)) as x_coords
FROM (SELECT min(st_x(geom)), max(st_x(geom)), resolution
FROM horizgeom h, domain d
WHERE h.domainkey=d.key AND domainkey={}
GROUP BY d.resolution) x
ORDER BY x_coords""".format(nInputLong, domainNum)
curs.execute(sql)
results = curs.fetchall()
wrfX = np.array(results)[:, 0]
sql = """SELECT generate_series(y.min::int, y.max::int,(y.max::int - y.min::int)/({} - 1)) as y_coords
FROM (SELECT min(st_y(geom)), max(st_y(geom)), resolution
FROM horizgeom h, domain d
WHERE h.domainkey=d.key AND domainkey={}
GROUP BY d.resolution) y
ORDER BY y_coords""".format(nInputLat, domainNum)
curs.execute(sql)
results = curs.fetchall()
wrfY = np.array(results)[:, 0]
# Get the SRID of the WRF domain
sql = """SELECT proj4text FROM spatial_ref_sys WHERE srid=(SELECT st_srid(geom) FROM horizgeom WHERE domainkey=""" + str(
domainNum) + """ LIMIT 1)"""
curs.execute(sql)
wrfProj4Str = curs.fetchone()[0]
# Change the WRF coordinates of the regular long, lat grid
# Great tutorial on Basemap Proj4 transformations here: http://all-geo.org/volcan01010/2012/11/change-coordinates-with-pyproj/
wrfProj4 = pyproj.Proj(wrfProj4Str)
longGrid, latGrid = np.meshgrid(outputLong, outputLat)
regGridInWrfX, regGridInWrfY = wrfProj4(longGrid, latGrid)
return wrfX, wrfY, regGridInWrfX, regGridInWrfY
def nearest_point_grid(grid, basemap, zvalue, yvalue, xvalue):
'''
Return the nearest bins to a given position.
Parameters
----------
grid : :py:class:`pyart.core.Grid` Instance
xvalue, yvalue, zvalue : float, list of float or array of shape (npoints,)
position in the plot coordinate system
Returns
-------
index : Numpy Array
Array of the shape (npoints, 3) containing the index in the Z, Y ,X
axis of grid.
'''
if isinstance(xvalue, (list, tuple, np.ndarray)):
xvalue = np.array((xvalue))
else:
xvalue = np.array((xvalue, ))
if isinstance(yvalue, (list, tuple, np.ndarray)):
yvalue = np.array((yvalue))
else:
yvalue = np.array((yvalue, ))
if isinstance(zvalue, (list, tuple, np.ndarray)):
zvalue = np.array((zvalue))
else:
zvalue = np.array((zvalue, ))
if basemap is not None:
from mpl_toolkits.basemap import pyproj
proj = pyproj.Proj(proj='aeqd',
datum='NAD83',
lat_0=grid.axes['lat']['data'][0],
lon_0=grid.axes['lon']['data'][0])
lat, lon = proj(xvalue, yvalue, inverse=True)
xvalue, yvalue = basemap(lat, lon)
zdata, zvalue = np.meshgrid(grid.axes["z_disp"]["data"], zvalue)
z_index = np.argmin(np.abs(zdata - zvalue), axis=1)
ydata, yvalue = np.meshgrid(grid.axes["y_disp"]["data"], yvalue)
y_index = np.argmin(np.abs(ydata - yvalue), axis=1)
xdata, xvalue = np.meshgrid(grid.axes["x_disp"]["data"], xvalue)
x_index = np.argmin(np.abs(xdata - xvalue), axis=1)
index = np.concatenate((
z_index[np.newaxis],
y_index[np.newaxis],
x_index[np.newaxis],
),
axis=0)
return index.transpose().astype(np.int)
def my_project(in_east, in_north, direction):
'''
Sample user-defined projection and inverse projection of (lon,lat) to (x,y)
function [out_east,out_north] = my_project(in_east,in_north,direction)
DESCRIPTION:
Define projections between geographical and Euclidean coordinates
INPUT:
in_east = 1D vector containing longitude (forward) x (reverse)
in_north = 1D vector containing latitude (forward) y (reverse)
direction = ['forward' ; 'inverse']
OUTPUT:
(lon,lat) or (x,y) depending on choice of forward or reverse projection
EXAMPLE USAGE
lon,lat = my_project(x,y,'reverse')
'''
#import mpl_toolkits.basemap.pyproj as pyproj
from mpl_toolkits.basemap import pyproj
#state_plane = pyproj.Proj(r'+proj=tmerc +datum=NAD83 +lon_0=-70d10 lat_0=42d50 k=.9999666666666667 x_0=900000 y_0=0 +to_meter=1')
#state_plane = pyproj.Proj(r'+proj=tmerc +lat_0=42.83333333333334 +lon_0=-70.16666666666667 +k=0.9999666666666667 +x_0=900000 +y_0=0 +ellps=GRS80 +units=m +no_defs')
state_plane = pyproj.Proj(r'+proj=tmerc +lat_0=42d50 +lon_0=-70d10 +k=0.9999666666666667 +x_0=900000 +y_0=0 +ellps=GRS80 +units=m +no_defs')
wgs = pyproj.Proj(proj='latlong', datum='WGS84', ellps='WGS84')
if direction=='forward':
lon = in_east
lat = in_north
x,y = pyproj.transform(wgs, state_plane, lon, lat)
return x, y
else:
x = in_east
y = in_north
lon, lat = pyproj.transform(state_plane, wgs, x, y)
return lon, lat
def get_proj(ifile):
"""
MAP_PROJ - Model projection [1=Lambert, 2=polar stereographic,
3=mercator, 6=lat-lon] (required)
TRUELAT1 - required for MAP_PROJ = 1, 2, 3 (defaults to 0 otherwise)
TRUELAT2 - required for MAP_PROJ = 6 (defaults to 0 otherwise)
STAND_LON - Standard longitude used in model projection (required)
REF_LON, REF_LON - A reference longitude and latitude (required)
KNOWNI, KNOWNJ - The I and J locations of REF_LON and REF_LAT (required)
POLE_LAT - optional for MAP_PROJ = 6 (defaults to 90 otherwise)
POLE_LAT - optional for MAP_PROJ = 6 (defaults to 0 otherwise)
DX, DY - required for MAP_PROJ = 1, 2, 3 (defaults to 0 otherwise)
LATINC, LONINC - required for MAP_PROJ = 6 (defaults to 0 otherwise)
"""
projname = {
1: "lambert_conformal_conic",
2: 'polar_stereographic',
3: 'mercator'
}[ifile.MAP_PROJ]
var = ifile.createVariable(projname, 'i', ())
var.grid_mapping_name = projname
var.earth_radius = 6370000.
var.false_easting = 0
var.false_northing = 0
x0_from_cen = len(ifile.dimensions['west_east']) / 2 * ifile.DX
y0_from_cen = len(ifile.dimensions['south_north']) / 2 * ifile.DY
if projname == 'mercator':
var.longitude_of_projection_origin = ifile.STAND_LON
var.standard_parallel = ifile.TRUELAT1
elif projname == "lambert_conformal_conic":
var.standard_parallel = np.array([ifile.TRUELAT1, ifile.TRUELAT2])
var.longitude_of_central_meridian = ifile.STAND_LON
var.latitude_of_projection_origin = ifile.MOAD_CEN_LAT
elif projname == 'polar_stereographic':
var.straight_vertical_longitude_from_pole = ifile.STAND_LON
var.latitude_of_projection_origin = ifile.TRUELAT1
var.standard_parallel = ifile.MOAD_CEN_LAT
from PseudoNetCDF.coordutil import getproj4_from_cf_var
from mpl_toolkits.basemap import pyproj
projstr = getproj4_from_cf_var(var)
proj = pyproj.Proj(projstr)
gcx, gcy = proj(ifile.CEN_LON, ifile.CEN_LAT)
glx = gcx - x0_from_cen
gly = gcy - y0_from_cen
var.false_easting = -glx
var.false_northing = -gly
return projname
def compute_distance_grid(self):
''' Compute the hypo- and epi-distance for all stations.
'''
x_grid, y_grid = np.meshgrid(self.map_x_coord, self.map_y_coord)
proj = pyproj.Proj(init=self.map_config['epsg'])
for cur_station in self.compute_stations:
stat_lon_lat = cur_station.get_lon_lat()
stat_x, stat_y = proj(stat_lon_lat[0], stat_lon_lat[1])
cur_station.epi_dist = np.sqrt((stat_x - x_grid)**2 +
(stat_y - y_grid)**2)
cur_station.hypo_dist = np.sqrt(cur_station.epi_dist**2 +
(cur_station.z +
self.hypo_depth)**2)
def cartesian_to_geographic(x, y, projparams):
"""
Geographic to Cartesian coordinate transform.
Transform a set of Cartesian/Cartographic coordinates (x, y) to a
geographic coordinate system (lat, lon) using pyproj or a build in
Azimuthal equidistance projection.
Parameters
----------
x, y : array-like
Cartesian coordinates in meters unless R is defined in different units
in the projparams parameter.
projparams : dict or str
Projection parameters passed to pyproj.Proj. If this parameter is a
dictionary with a 'proj' key equal to 'pyart_aeqd' then a azimuthal
equidistant projection will be used that is native to Py-ART and
does not require pyproj/basemap to be installed. In this case a
non-default value of R can be specified by setting the 'R' key to the
desired value.
Returns
-------
lon, lat : array
Longitude and latitude of the Cartesian coordinates in degrees.
"""
if isinstance(projparams, dict) and projparams.get('proj') == 'pyart_aeqd':
# Use Py-ART's Azimuthal equidistance projection
lon_0 = projparams['lon_0']
lat_0 = projparams['lat_0']
if 'R' in projparams:
R = projparams['R']
lon, lat = cartesian_to_geographic_aeqd(x, y, lon_0, lat_0, R)
else:
lon, lat = cartesian_to_geographic_aeqd(x, y, lon_0, lat_0)
else:
# Use pyproj for the projection
# check that pyproj is available
if not _PYPROJ_AVAILABLE:
raise MissingOptionalDependency(
"Basemap is required to use cartesian_to_geographic "
"with a projection other than pyart_aeqd but it is not "
"installed")
proj = pyproj.Proj(projparams)
lon, lat = proj(x, y, inverse=True)
return lon, lat
def _convert_map_extent(self):
# convert map units to lat / lons using pyproj
#if self.epsg is not None:
# p1 = pyproj.Proj("+init=EPSG:{}".format(self.epsg))
#else:
p1 = pyproj.Proj(self.proj4, errcheck=True, preserve_units=True)
extent = self.extent_proj
self.llcrnrlon, self.llcrnrlat = p1(extent[0], extent[1], inverse=True)
self.urcrnrlon, self.urcrnrlat = p1(extent[2], extent[3], inverse=True)
self.Basemap_kwargs.update({'llcrnrlon': self.llcrnrlon,
'llcrnrlat': self.llcrnrlat,
'urcrnrlon': self.urcrnrlon,
'urcrnrlat': self.urcrnrlat})
def get_map(self, **kwargs):
from mpl_toolkits.basemap import Basemap
# from .conventions.ioapi import get_ioapi_sphere
if (getattr(self.coord, "COORDTYPE", 0) in (2, 6, 7) and all([
hasattr(self.coord, k) for k in ("P_GAM", "P_ALP", "P_BET")
]) and all(
[hasattr(self, k) for k in ("XORIG", "YORIG", "XCELL", "YCELL")])):
llcrnrx = self.XORIG
urcrnrx = self.XORIG + self.NCOLS * self.XCELL
llcrnry = self.YORIG
urcrnry = self.YORIG + self.NROWS * self.YCELL
# semi_major_axis, semi_minor_axis = get_ioapi_sphere()
semi_major_axis, semi_minor_axis = (6370997, 6370997)
if self.coord.COORDTYPE == 2:
from mpl_toolkits.basemap import pyproj
p = pyproj.Proj(proj='lcc',
a=semi_major_axis,
b=semi_major_axis,
lon_0=self.coord.P_GAM,
lat_1=self.coord.P_ALP,
lat_2=self.coord.P_BET,
lat_0=self.coord.YCENT)
llcrnrlon, llcrnrlat = p(llcrnrx, llcrnry, inverse=True)
urcrnrlon, urcrnrlat = p(urcrnrx, urcrnry, inverse=True)
m = Basemap(projection='lcc',
rsphere=(semi_major_axis, semi_major_axis),
lon_0=self.coord.P_GAM,
lat_1=self.coord.P_ALP,
lat_2=self.coord.P_BET,
lat_0=self.coord.YCENT,
llcrnrlon=llcrnrlon,
llcrnrlat=llcrnrlat,
urcrnrlat=urcrnrlat,
urcrnrlon=urcrnrlon,
**kwargs)
return m
else:
raise ("Only lcc")
else:
raise ("Only lcc")
def basemap(test):
arc1960 = pyproj.Proj("+init=EPSG:21036")
shp = fiona.open(
'/Users/admin/Dropbox/CODING/PYTHON/sites/tango_with_django_project/geofiles/relions/PAs_UTM_1.shp'
)
bds = shp.bounds
shp.close()
extra = 0.01
ll = arc1960(bds[0], bds[1], inverse=True)
ur = arc1960(bds[2], bds[3], inverse=True)
coords = list(chain(ll, ur))
w, h = coords[2] - coords[0], coords[3] - coords[1]
map = Basemap(llcrnrlon=coords[0] - extra * w,
llcrnrlat=coords[1] - extra + 0.01 * h,
urcrnrlon=coords[2] + extra * w,
urcrnrlat=coords[3] + extra + 0.01 * h,
resolution='i')
plt.show()
return 1
def save_png(self):
''' Save the result as a png image.
'''
# TODO: Think about a consistent method to save results, that provide a
# single file output like the grid_2d and those that provide outputs
# that can be combined in a spreadsheet like the value results. The
# saving currently is not consistent. See also the todo note in
# window_processor modul in the process method.
from mpl_toolkits.basemap import pyproj
import matplotlib.pyplot as plt
map_config = self.metadata['map_config']
proj = pyproj.Proj(init=map_config['epsg'])
#stat_lon_lat = [x.get_lon_lat() for x in sm.compute_stations]
#stat_lon = [x[0] for x in stat_lon_lat]
#stat_lat = [x[1] for x in stat_lon_lat]
#stat_x, stat_y = proj(stat_lon, stat_lat)
plt.pcolormesh(self.x_coord, self.y_coord, self.grid, cmap='rainbow')
plt.colorbar()
plt.contour(self.x_coord, self.y_coord, self.grid, colors='k')
#plt.scatter(stat_x, stat_y)
plt.show()
def run(FILE_NAME):
# Identify the data field.
DATAFIELD_NAME = '500m 16 days EVI'
if USE_GDAL:
import gdal
GRID_NAME = 'MODIS_Grid_16DAY_500m_VI'
gname = 'HDF4_EOS:EOS_GRID:"{0}":{1}:{2}'.format(
FILE_NAME, GRID_NAME, DATAFIELD_NAME)
gdset = gdal.Open(gname)
data = gdset.ReadAsArray().astype(np.float64)
# Construct the grid.
x0, xinc, _, y0, _, yinc = gdset.GetGeoTransform()
nx, ny = (gdset.RasterXSize, gdset.RasterYSize)
x = np.linspace(x0, x0 + xinc * nx, nx)
y = np.linspace(y0, y0 + yinc * ny, ny)
xv, yv = np.meshgrid(x, y)
# In basemap, the sinusoidal projection is global, so we won't use it.
# Instead we'll convert the grid back to lat/lons.
sinu = pyproj.Proj("+proj=sinu +R=6371007.181 +nadgrids=@null +wktext")
wgs84 = pyproj.Proj("+init=EPSG:4326")
lon, lat = pyproj.transform(sinu, wgs84, xv, yv)
# Read the attributes.
meta = gdset.GetMetadata()
long_name = meta['long_name']
units = meta['units']
_FillValue = np.float(meta['_FillValue'])
scale_factor = np.float(meta['scale_factor'])
valid_range = [np.float(x) for x in meta['valid_range'].split(', ')]
del gdset
else:
from pyhdf.SD import SD, SDC
hdf = SD(FILE_NAME, SDC.READ)
# Read dataset.
data2D = hdf.select(DATAFIELD_NAME)
data = data2D[:, :].astype(np.double)
# Read geolocation dataset from HDF-EOS2 dumper output.
GEO_FILE_NAME = 'lat_MOD13A1.A2007257.h09v05.005.2007277183254.output'
GEO_FILE_NAME = os.path.join(os.environ['HDFEOS_ZOO_DIR'],
GEO_FILE_NAME)
lat = np.genfromtxt(GEO_FILE_NAME, delimiter=',', usecols=[0])
lat = lat.reshape(data.shape)
GEO_FILE_NAME = 'lon_MOD13A1.A2007257.h09v05.005.2007277183254.output'
GEO_FILE_NAME = os.path.join(os.environ['HDFEOS_ZOO_DIR'],
GEO_FILE_NAME)
lon = np.genfromtxt(GEO_FILE_NAME, delimiter=',', usecols=[0])
lon = lon.reshape(data.shape)
# Read attributes.
attrs = data2D.attributes(full=1)
lna = attrs["long_name"]
long_name = lna[0]
vra = attrs["valid_range"]
valid_range = vra[0]
fva = attrs["_FillValue"]
_FillValue = fva[0]
sfa = attrs["scale_factor"]
scale_factor = sfa[0]
ua = attrs["units"]
units = ua[0]
invalid = np.logical_or(data > valid_range[1], data < valid_range[0])
invalid = np.logical_or(invalid, data == _FillValue)
data[invalid] = np.nan
data = data / scale_factor
data = np.ma.masked_array(data, np.isnan(data))
m = Basemap(projection='cyl',
resolution='i',
llcrnrlat=25,
urcrnrlat=45,
llcrnrlon=-120,
urcrnrlon=-90)
m.drawcoastlines(linewidth=0.5)
m.drawparallels(np.arange(20, 50, 10), labels=[1, 0, 0, 0])
m.drawmeridians(np.arange(-125, -75, 10), labels=[0, 0, 0, 1])
m.pcolormesh(lon[::2], lat[::2], data[::2], latlon=True)
cb = m.colorbar()
cb.set_label(units)
basename = os.path.basename(FILE_NAME)
plt.title('{0}\n{1}'.format(basename, long_name))
fig = plt.gcf()
# plt.show()
pngfile = "{0}.py.png".format(basename)
fig.savefig(pngfile)
parser.add_argument('stl_filename', nargs='?',help='stl filname (if not used, stl_filename = dfxbasename.stl)',default='')
parser.add_argument('--proj', nargs=1, metavar=('projname'), default = (''), help='name of the projection (ex EPSG:32646 (UTM46N)) if a projection is considered')
args = parser.parse_args()
if args.stl_filename == '':
args.stl_filename = args.dxf_filename[0:-4]+'.stl'
fid = open(args.dxf_filename)
fout = open(args.stl_filename,'w')
if args.proj!='':
print "projecting the nodes coordinates"
import mpl_toolkits.basemap.pyproj as pyproj
sProj = "+init=%s" %args.proj[0]
myproj=pyproj.Proj(sProj)
else:
print "no projection carried out"
while fid.readline(): #0
sId = fid.readline().strip() #eg 3DFACE
if not sId in ["SECTION","POINT","3DFACE","ENDSEC"]:
print sId
print("unknown format file")
break
options[sId]();