def test_trajectory(self):
dt1 = datetime(2012, 4, 1, 0)
p1 = Point()
p1.time = dt1
p1.location = sPoint(-121, 49, 40)
member1 = Member(value=random.uniform(30,40), unit='°C', name='Water Temperatire', description='water temperature', standard='sea_water_temperature')
member2 = Member(value=random.uniform(80,100), unit='PSU', name='Salinity', description='salinity', standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
dt2 = datetime(2012, 4, 1, 1)
p2 = Point()
p2.time = dt2
p2.location = sPoint(-120, 50, 60)
member3 = Member(value=random.uniform(30,40), unit='°C', name='Water Temperatire', description='water temperature', standard='sea_water_temperature')
member4 = Member(value=random.uniform(80,100), unit='PSU', name='Salinity', description='salinity', standard='salinity')
p2.add_member(member3)
p2.add_member(member4)
tr = Trajectory(elements=[p1,p2])
tr.calculate_bounds()
assert len(tr.get_path()) == 2
assert tr.size == 2
assert tr.type == "Trajectory"
assert tr.time_range[0] == dt1
assert tr.time_range[-1] == dt2
assert tr.depth_range[0] == p1.location.z
assert tr.depth_range[-1] == p2.location.z
assert tr.upper_right().equals(sPoint(p2.location.x, p2.location.y))
assert tr.lower_left().equals(sPoint(p1.location.x, p1.location.y))
def parse_station(self, metadata, data):
"""
Creates a Station object from metadata and data for the station
- metadata: NerrStation object
- data: list of NerrData objects
returns a Station object
"""
if not isinstance(metadata, NerrStation) or not isinstance(data, list) or len(data) < 1:
return None
retval = Station()
retval.uid = metadata.code
retval.name = metadata.name
retval.description = str('%s-%s' % (metadata.id,metadata.code))
point_dict = dict()
for d in data:
for value_date in d.value_and_utc():
if value_date[0] is not None:
param = d.get_top_param()
if value_date[1] not in point_dict:
point_dict[value_date[1]] = Point()
point_dict[value_date[1]].time = value_date[1]
if param.upper() == 'DEPTH':
point_dict[value_date[1]].location = Location(metadata.location.longitude, metadata.location.latitude, float(value_date[0]))
else:
point_dict[value_date[1]].add_member(dict(name=param,value=value_date[0],unit=unit(param)))
for point in point_dict.values():
retval.add_element(point)
retval.set_location(Location(metadata.location.longitude, metadata.location.latitude))
return retval
def __init__(self, wqx_metadata, wqx_data):
if not isinstance(wqx_metadata, WqxOutbound):
wqx_metadata = WqxOutbound(wqx_metadata)
if not isinstance(wqx_data, WqxOutbound):
wqx_data = WqxOutbound(wqx_data)
if wqx_data.failed or wqx_metadata.failed:
self.feature = None
else:
stations = []
station_lookup = []
# Create a station for every MonitoringLocation
for org in wqx_metadata.organizations:
for ml in org.locations:
s = Station()
s.uid = ml.id
s.name = ml.name
s.set_property("station_type", ml.type)
s.set_property("location_description", ml.description)
s.set_property("huc", ml.huc)
s.set_property("county", ml.county)
s.set_property("state", ml.state)
s.set_property("country", ml.country)
s.set_property("organization_id", org.description.id)
s.set_property("organization_name", org.description.name)
s.set_property("vertical_units", ml.vertical_measure_units)
s.set_property("horizontal_crs", ml.horizontal_crs_name)
s.set_property("vertical_crs", ml.vertical_crs_name)
# Now set the station's location
vertical = 0
try:
vertical = float(ml.vertical_measure_value)
except:
pass
# convert the vertical to meters if it is ft (which it always is)
if ml.vertical_measure_units == "ft":
vertical /= 3.28084
s.set_property("vertical_units", "m")
s.location = sPoint(float(ml.longitude), float(ml.latitude), vertical)
stations.append(s)
station_lookup.append(s.uid)
for org in wqx_data.organizations:
for a in org.activities:
p = Point()
p.time = a.start_time
for r in a.results:
p.add_member(Member(value=r.value, unit=r.units, name=r.name, description=r.short_name, standard=None, quality=r.quality, method_id=a.method_id, method_name=a.method_name))
# Assign data to the correct station pulled from the metadata
station = stations[station_lookup.index(a.location_id)]
p.location = station.location
station.add_element(p)
self.feature = StationCollection(elements=stations)
def test_section_collection(self):
s_collection = SectionCollection()
# 20 sections
for x in xrange(0,20):
day = 1
hour = 0
sc = Section()
dt = None
# 10 profiles per section
for x in xrange(0,10):
lat = random.randint(40,44)
lon = random.randint(-74,-70)
loc = sPoint(lon,lat,0)
minute = 0
dt = datetime(2012, 4, day, hour, minute)
hour += 1
prof = Profile()
prof.location = loc
prof.time = dt
# Each with 20 depths
for y in xrange(0,20):
p = Point()
p.time = dt
p.location = sPoint(loc.x, loc.y, y)
m1 = Member(value=random.uniform(30,40), unit='°C', name='Water Temperatire', description='water temperature', standard='sea_water_temperature')
m2 = Member(value=random.uniform(80,100), unit='PSU', name='Salinity', description='salinity', standard='salinity')
p.add_member(m1)
p.add_member(m2)
prof.add_element(p)
# Next depth is 2 minutes from now
dt = dt + timedelta(minutes=2)
sc.add_element(prof)
s_collection.add_element(sc)
s_collection.calculate_bounds()
assert s_collection.depth_range[0] == 0
assert s_collection.depth_range[-1] == 19
assert s_collection.time_range[0] == datetime(2012, 4, 1, 0)
for section in s_collection:
assert section.type == "Section"
for profile in section:
assert profile.type == "Profile"
for point in profile:
assert point.type == "Point"
for point in s_collection.flatten():
assert point.type == "Point"
def __init__(self, **kwargs):
super(SweTimeSeries,self).__init__(**kwargs)
# Parse out GML point. Defaults to 0 depth if none specified
self.geo_srs = Crs(testXMLAttribute(self._location.find(nsp("Point", self.GML_NS)), 'srsName'))
geo = [float(v) for v in testXMLValue(self._location.find(nsp("Point/pos", self.GML_NS))).split(" ")]
if self.geo_srs.axisorder == "yx":
self.geo = sPoint(geo[1], geo[0])
else:
self.geo = sPoint(geo[0], geo[1])
try:
self.geo.z = geo[2]
except:
pass
pc = PointCollection()
for row in self.results.data:
p = Point()
time = None
z = None
lat = None
lon = None
for field in row:
if field.axis == "time":
t = dateutil.parser.parse(field.value)
p.time = t.astimezone(dateutil.tz.tzutc())
elif field.axis == "Long":
lon = field
elif field.axis == "Lat":
lat = field
elif field.axis == "h":
z = field
else:
m = Member(value=field.value,
unit=field.units,
units_definition=field.units_url,
name=field.name,
definition=field.definition,
standard=field.definition)
p.add_member(m)
# Set the spatial point
if lon.srs != lat.srs:
raise ValueError("Longitude and Latitude need to have the same SRS/CRS!")
p.location = sPoint(float(lon.value), float(lat.value), float(z.value))
pc.add_element(p)
self.data = pc
def test_set_get_member(self):
p = Point()
member = Member(value=5.4,
unit='m',
name='Sea Surface Height',
description='a description',
standard='sea_surface_height')
p.add_member(member)
assert member == p.get_member(name='Sea Surface Height')
def test_point(self):
dt = datetime.utcnow()
p = Point()
p.location = sPoint(-123.17, 48.33, 10)
p.time = dt
assert p.location.x == -123.17
assert p.location.y == 48.33
assert p.location.z == 10
assert p.time == dt
assert p.type == "Point"
def test_profile_collection(self):
day = 1
pc = ProfileCollection()
dt = None
# 10 profiles
for x in range(0,10):
lat = random.randint(40,44)
lon = random.randint(-74,-70)
loc = sPoint(lon,lat,0)
hour = 0
minute = 0
dt = datetime(2012, 4, day, hour, minute)
prof = Profile()
prof.location = loc
prof.time = dt
# Each with 20 depths
for y in range(0,20):
p = Point()
p.time = dt
p.location = sPoint(loc.x, loc.y, y)
m1 = Member(value=random.uniform(30,40), unit='°C', name='Water Temperature', description='water temperature', standard='sea_water_temperature')
m2 = Member(value=random.uniform(80,100), unit='PSU', name='Salinity', description='salinity', standard='salinity')
p.add_member(m1)
p.add_member(m2)
prof.add_element(p)
# Next depth is 2 minutes from now
dt = dt + timedelta(minutes=2)
pc.add_element(prof)
pc.calculate_bounds()
assert pc.size == 10
assert pc.point_size == 200
assert len(pc.time_range) == 200
assert pc.time_range[0] == datetime(2012, 4, 1, 0, 0)
assert pc.time_range[-1] == dt - timedelta(minutes=2)
assert len(pc.depth_range) == 200
assert pc.depth_range[0] == 0
assert pc.depth_range[-1] == 19
for profile in pc:
assert profile.type == "Profile"
for point in profile:
assert point.type == "Point"
for point in pc.flatten():
assert point.type == "Point"
def test_point(self):
dt = datetime.utcnow()
p = Point()
p.location = sPoint(-123.17, 48.33, 10)
p.time = dt
assert p.location.x == -123.17
assert p.location.y == 48.33
assert p.location.z == 10
assert p.time == dt
assert p.type == "Point"
def __init__(self, response_list, nerrs_stations=None):
assert isinstance(response_list, dict)
if nerrs_stations is None:
from pyoos.collectors.nerrs.nerrs_soap import NerrsSoap
nerrs_stations = NerrsSoap().stations
def get_station(feature):
for s in nerrs_stations:
if s['Station_Code'].lower() == feature.lower():
return s
skip_tags = ["DateTimeStamp", "utcStamp", "data", "MaxWSpdT"]
stations = []
for feature, response in response_list.items():
if not isinstance(response, etree._Element):
response = etree.fromstring(response)
feature = get_station(feature)
s = Station()
s.uid = feature['Station_Code']
s.name = feature['Station_Name']
s.location = sPoint(feature['Longitude'], feature['Latitude'], 0)
s.set_property("state", feature['State'])
s.set_property("siteid", feature['NERR_Site_ID'])
s.set_property("horizontal_crs", "EPSG:4326")
s.set_property("vertical_units", "m")
s.set_property("vertical_crs", "EPSG:4297")
s.set_property("location_description", feature['Reserve_Name'])
for data in response.findall(".//data"):
p = Point()
t = AsaTime.parse(testXMLValue(data.find("utcStamp")))
t = t.replace(tzinfo=pytz.utc)
p.time = t
p.location = s.location
for child in data:
if child.tag not in skip_tags:
try:
val = float(child.text)
p.add_member(Member(value=val, name=child.tag, description=child.tag,
unit=units(child.tag), standard=standard(child.tag)))
except TypeError:
# Value was None
pass
s.add_element(p)
stations.append(s)
self.feature = StationCollection(elements=stations)
def test_trajectory_collection(self):
t_collection = TrajectoryCollection()
# 20 trajectories
for x in xrange(0,20):
tr = Trajectory()
month = random.randint(1,12)
dt = datetime(2012, month, 1, 0)
# Starting point
lat = random.randint(40,44)
lon = random.randint(-74,-70)
depth = 0
# 100 points in each trajectory
for l in xrange(0,100):
lat += random.uniform(-0.25,0.25)
lon += random.uniform(-0.25,0.25)
depth += random.randint(-4,4)
if depth < 0:
depth = 0
p1 = Point()
p1.location = sPoint(lon,lat,depth)
dt += timedelta(hours=1)
p1.time = dt
member1 = Member(value=random.uniform(30,40), unit='°C', name='Water Temperature', description='water temperature', standard='sea_water_temperature')
member2 = Member(value=random.uniform(80,100), unit='PSU', name='Salinity', description='salinity', standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
tr.add_element(p1)
t_collection.add_element(tr)
t_collection.calculate_bounds()
assert len(t_collection.time_range) == 2000
assert len(t_collection.depth_range) == 2000
for trajectory in t_collection:
assert trajectory.type == "Trajectory"
for point in trajectory:
assert point.type == "Point"
for point in t_collection.flatten():
assert point.type == "Point"
def _get_point(self, profile, point):
"""
Finds the given point in the profile, or adds it in sorted z order.
"""
cur_points_z = [p.location.z for p in profile.elements]
try:
cur_idx = cur_points_z.index(point.z)
return profile.elements[cur_idx]
except ValueError:
new_idx = bisect_left(cur_points_z, point.z)
new_point = Point()
new_point.location = sPoint(point)
new_point.time = profile.time
profile.elements.insert(new_idx, new_point)
return new_point
def __init__(self, wqx_metadata, wqx_data):
if not isinstance(wqx_metadata, WqxOutbound):
wqx_metadata = WqxOutbound(wqx_metadata)
if not isinstance(wqx_data, WqxOutbound):
wqx_data = WqxOutbound(wqx_data)
if wqx_data.failed or wqx_metadata.failed:
self.feature = None
else:
s = Station()
s.uid = wqx_metadata.location.id
s.name = wqx_metadata.location.name
s.set_property("station_type", wqx_metadata.location.type)
s.set_property("location_description", wqx_metadata.location.description)
s.set_property("huc", wqx_metadata.location.huc)
s.set_property("county", wqx_metadata.location.county)
s.set_property("state", wqx_metadata.location.state)
s.set_property("country", wqx_metadata.location.country)
s.set_property("organization_id", wqx_metadata.organization.id)
s.set_property("organization_name", wqx_metadata.organization.name)
s.set_property("vertical_units", wqx_metadata.location.vertical_measure_units)
s.set_property("horizontal_crs", wqx_metadata.location.horizontal_crs_name)
s.set_property("vertical_crs", wqx_metadata.location.vertical_crs_name)
for a in wqx_data.activities:
p = Point()
p.time = a.start_time
for r in a.results:
p.add_member(Member(value=r.value, unit=r.units, name=r.name, description=r.short_name, standard=None, quality=r.quality, method_id=a.method_id, method_name=a.method_name))
s.add_element(p)
# Now set the station's location
vertical = 0
try:
vertical = float(wqx_metadata.location.vertical_measure_value)
except:
pass
# convert the vertical to meters if it is ft (which it always is)
if wqx_metadata.location.vertical_measure_units == "ft":
vertical /= 3.28084
s.set_property("vertical_units", "m")
s.location = sPoint(float(wqx_metadata.location.longitude), float(wqx_metadata.location.latitude), vertical)
self.feature = s
def test_station_profile(self):
sp = StationProfile()
sp.name = "Profile Station"
sp.location = sPoint(-77, 33)
sp.uid = "1234"
sp.set_property("authority", "IOOS")
# add a sequence of profiles
for y in xrange(3):
dt1 = datetime(2013, 1, 1, 12, 0, 10 * y)
prof1 = Profile()
prof1.location = sPoint(-77, 33)
prof1.time = dt1
# add a string of points going down in z
for x in xrange(5):
p1 = Point()
p1.time = dt1
p1.location = sPoint(-77, 33, -5 * x)
member1 = Member(value=30 - (2 * x), units='°C', name='Water Temperature', description='water temperature', standard='sea_water_temperature')
member2 = Member(value=80 + (2 * x), units='PSU', name='Salinity', description='salinity', standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
prof1.add_element(p1)
sp.add_element(prof1)
sp.calculate_bounds()
assert sp.size == 3
assert len(sp.time_range) == 3
assert sp.depth_range[0] == -20
assert sp.depth_range[-1] == 0
assert sp.get_property("authority") == "IOOS"
assert sp.uid == "1234"
assert len(sp.get_unique_members()) == 2
def parse_station(self, metadata, data):
"""
Creates a Station object from metadata and data for the station
- metadata: NerrStation object
- data: list of NerrData objects
returns a Station object
"""
if not isinstance(metadata, NerrStation) or not isinstance(
data, list) or len(data) < 1:
return None
retval = Station()
retval.uid = metadata.code
retval.name = metadata.name
retval.description = str('%s-%s' % (metadata.id, metadata.code))
point_dict = dict()
for d in data:
for value_date in d.value_and_utc():
if value_date[0] is not None:
param = d.get_top_param()
if value_date[1] not in point_dict:
point_dict[value_date[1]] = Point()
point_dict[value_date[1]].time = value_date[1]
if param.upper() == 'DEPTH':
point_dict[value_date[1]].location = Location(
metadata.location.longitude,
metadata.location.latitude, float(value_date[0]))
else:
point_dict[value_date[1]].add_member(
dict(name=param,
value=value_date[0],
unit=unit(param)))
for point in point_dict.values():
retval.add_element(point)
retval.set_location(
Location(metadata.location.longitude, metadata.location.latitude))
return retval
def test_trajectory_collection(self):
t_collection = TrajectoryCollection()
# 20 trajectories
for x in range(0, 20):
tr = Trajectory()
month = random.randint(1, 12)
dt = datetime(2012, month, 1, 0)
# Starting point
lat = random.randint(40, 44)
lon = random.randint(-74, -70)
depth = 0
# 100 points in each trajectory
for l in range(0, 100):
lat += random.uniform(-0.25, 0.25)
lon += random.uniform(-0.25, 0.25)
depth += random.randint(-4, 4)
if depth < 0:
depth = 0
p1 = Point()
p1.location = sPoint(lon, lat, depth)
dt += timedelta(hours=1)
p1.time = dt
member1 = Member(value=random.uniform(30, 40),
unit='°C',
name='Water Temperature',
description='water temperature',
standard='sea_water_temperature')
member2 = Member(value=random.uniform(80, 100),
unit='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
tr.add_element(p1)
t_collection.add_element(tr)
t_collection.calculate_bounds()
assert len(t_collection.time_range) == 2000
assert len(t_collection.depth_range) == 2000
for trajectory in t_collection:
assert trajectory.type == "Trajectory"
for point in trajectory:
assert point.type == "Point"
for point in t_collection.flatten():
assert point.type == "Point"
def __init__(self, wqx_metadata, wqx_data):
if not isinstance(wqx_metadata, WqxOutbound):
wqx_metadata = WqxOutbound(wqx_metadata)
if not isinstance(wqx_data, WqxOutbound):
wqx_data = WqxOutbound(wqx_data)
if wqx_data.failed or wqx_metadata.failed:
self.feature = None
else:
stations = []
station_lookup = []
# Create a station for every MonitoringLocation
for org in wqx_metadata.organizations:
for ml in org.locations:
s = Station()
s.uid = ml.id
s.name = ml.name
s.set_property("station_type", ml.type)
s.set_property("location_description", ml.description)
s.set_property("huc", ml.huc)
s.set_property("county", ml.county)
s.set_property("state", ml.state)
s.set_property("country", ml.country)
s.set_property("organization_id", org.description.id)
s.set_property("organization_name", org.description.name)
s.set_property("vertical_units", ml.vertical_measure_units)
s.set_property("horizontal_crs", ml.horizontal_crs_name)
s.set_property("vertical_crs", ml.vertical_crs_name)
# Now set the station's location
vertical = 0
try:
vertical = float(ml.vertical_measure_value)
except:
pass
# convert the vertical to meters if it is ft (which it always is)
if ml.vertical_measure_units == "ft":
vertical /= 3.28084
s.set_property("vertical_units", "m")
s.location = sPoint(float(ml.longitude), float(ml.latitude), vertical)
stations.append(s)
station_lookup.append(s.uid)
for org in wqx_data.organizations:
for a in org.activities:
p = Point()
p.time = a.start_time
for r in a.results:
p.add_member(Member(value=r.value, unit=r.units, name=r.name, description=r.short_name, standard=None, quality=r.quality, method_id=a.method_id, method_name=a.method_name))
# Assign data to the correct station pulled from the metadata
station = stations[station_lookup.index(a.location_id)]
p.location = station.location
station.add_element(p)
self.feature = StationCollection(elements=stations)
def __init__(self, response_list, nerrs_stations=None):
assert isinstance(response_list, dict)
if nerrs_stations is None:
from pyoos.collectors.nerrs.nerrs_soap import NerrsSoap
nerrs_stations = NerrsSoap().stations
def get_station(feature):
for s in nerrs_stations:
if s['Station_Code'].lower() == feature.lower():
return s
skip_tags = ["DateTimeStamp", "utcStamp", "data", "MaxWSpdT"]
stations = []
for feature, response in response_list.iteritems():
if not isinstance(response, etree._Element):
response = etree.fromstring(response)
feature = get_station(feature)
s = Station()
s.uid = feature['Station_Code']
s.name = feature['Station_Name']
s.location = sPoint(float(feature['Longitude']),
float(feature['Latitude']), 0)
s.set_property("state", feature['State'])
s.set_property("siteid", feature['NERR_Site_ID'])
s.set_property("horizontal_crs", "EPSG:4326")
s.set_property("vertical_units", "m")
s.set_property("vertical_crs", "EPSG:4297")
s.set_property("location_description", feature['Reserve_Name'])
for data in response.findall(".//data"):
p = Point()
t = AsaTime.parse(testXMLValue(data.find("utcStamp")))
t = t.replace(tzinfo=pytz.utc)
p.time = t
p.location = s.location
for child in data:
if child.tag not in skip_tags:
try:
val = float(child.text)
p.add_member(
Member(value=val,
unit=units(child.tag),
name=child.tag,
description=child.tag,
standard=standard(child.tag)))
except TypeError:
# Value was None
pass
s.add_element(p)
stations.append(s)
self.feature = StationCollection(elements=stations)
def test_section(self):
day = 1
hour = 0
sc = Section()
dt = None
# 10 profiles
for x in xrange(0, 10):
lat = random.randint(40, 44)
lon = random.randint(-74, -70)
loc = sPoint(lon, lat, 0)
minute = 0
dt = datetime(2012, 4, day, hour, minute)
hour += 1
prof = Profile()
prof.location = loc
prof.time = dt
# Each with 20 depths
for y in xrange(0, 20):
p = Point()
p.time = dt
p.location = sPoint(loc.x, loc.y, y)
m1 = Member(value=random.uniform(30, 40),
unit='°C',
name='Water Temperatire',
description='water temperature',
standard='sea_water_temperature')
m2 = Member(value=random.uniform(80, 100),
unit='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p.add_member(m1)
p.add_member(m2)
prof.add_element(p)
# Next depth is 2 minutes from now
dt = dt + timedelta(minutes=2)
sc.add_element(prof)
sc.calculate_bounds()
assert len(sc.get_path()) == 10
assert sc.size == 10
assert sc.point_size == 200
assert sc.type == "Section"
assert len(sc.time_range) == 200
assert sc.time_range[0] == datetime(2012, 4, 1, 0, 0)
assert sc.time_range[-1] == dt - timedelta(minutes=2)
assert len(sc.depth_range) == 200
assert sc.depth_range[0] == 0
assert sc.depth_range[-1] == 19
def test_section_collection(self):
s_collection = SectionCollection()
# 20 sections
for x in range(0,20):
day = 1
hour = 0
sc = Section()
dt = None
# 10 profiles per section
for x in range(0,10):
lat = random.randint(40,44)
lon = random.randint(-74,-70)
loc = sPoint(lon,lat,0)
minute = 0
dt = datetime(2012, 4, day, hour, minute)
hour += 1
prof = Profile()
prof.location = loc
prof.time = dt
# Each with 20 depths
for y in range(0,20):
p = Point()
p.time = dt
p.location = sPoint(loc.x, loc.y, y)
m1 = Member(value=random.uniform(30,40), unit='°C', name='Water Temperature', description='water temperature', standard='sea_water_temperature')
m2 = Member(value=random.uniform(80,100), unit='PSU', name='Salinity', description='salinity', standard='salinity')
p.add_member(m1)
p.add_member(m2)
prof.add_element(p)
# Next depth is 2 minutes from now
dt = dt + timedelta(minutes=2)
sc.add_element(prof)
s_collection.add_element(sc)
s_collection.calculate_bounds()
assert s_collection.depth_range[0] == 0
assert s_collection.depth_range[-1] == 19
assert s_collection.time_range[0] == datetime(2012, 4, 1, 0)
for section in s_collection:
assert section.type == "Section"
for profile in section:
assert profile.type == "Profile"
for point in profile:
assert point.type == "Point"
for point in s_collection.flatten():
assert point.type == "Point"
def test_station_profile(self):
sp = StationProfile()
sp.name = "Profile Station"
sp.location = sPoint(-77, 33)
sp.uid = "1234"
sp.set_property("authority", "IOOS")
# add a sequence of profiles
for y in range(3):
dt1 = datetime(2013, 1, 1, 12, 0, 10 * y)
prof1 = Profile()
prof1.location = sPoint(-77, 33)
prof1.time = dt1
# add a string of points going down in z
for x in range(5):
p1 = Point()
p1.time = dt1
p1.location = sPoint(-77, 33, -5 * x)
member1 = Member(value=30 - (2 * x),
units='°C',
name='Water Temperature',
description='water temperature',
standard='sea_water_temperature')
member2 = Member(value=80 + (2 * x),
units='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
prof1.add_element(p1)
sp.add_element(prof1)
sp.calculate_bounds()
assert sp.size == 3
assert len(sp.time_range) == 3
assert sp.depth_range[0] == -20
assert sp.depth_range[-1] == 0
assert sp.get_property("authority") == "IOOS"
assert sp.uid == "1234"
assert len(sp.get_unique_members()) == 2
def __init__(self, wqx_metadata, wqx_data):
if not isinstance(wqx_metadata, WqxOutbound):
wqx_metadata = WqxOutbound(wqx_metadata)
if not isinstance(wqx_data, WqxOutbound):
wqx_data = WqxOutbound(wqx_data)
if wqx_data.failed or wqx_metadata.failed:
self.feature = None
else:
s = Station()
s.uid = wqx_metadata.location.id
s.name = wqx_metadata.location.name
s.set_property("station_type", wqx_metadata.location.type)
s.set_property("location_description",
wqx_metadata.location.description)
s.set_property("huc", wqx_metadata.location.huc)
s.set_property("county", wqx_metadata.location.county)
s.set_property("state", wqx_metadata.location.state)
s.set_property("country", wqx_metadata.location.country)
s.set_property("organization_id", wqx_metadata.organization.id)
s.set_property("organization_name", wqx_metadata.organization.name)
s.set_property("vertical_units",
wqx_metadata.location.vertical_measure_units)
s.set_property("horizontal_crs",
wqx_metadata.location.horizontal_crs_name)
s.set_property("vertical_crs",
wqx_metadata.location.vertical_crs_name)
for a in wqx_data.activities:
p = Point()
p.time = a.start_time
for r in a.results:
p.add_member(
Member(value=r.value,
unit=r.units,
name=r.name,
description=r.short_name,
standard=None,
quality=r.quality,
method_id=a.method_id,
method_name=a.method_name))
s.add_element(p)
# Now set the station's location
vertical = 0
try:
vertical = float(wqx_metadata.location.vertical_measure_value)
except:
pass
# convert the vertical to meters if it is ft (which it always is)
if wqx_metadata.location.vertical_measure_units == "ft":
vertical /= 3.28084
s.set_property("vertical_units", "m")
s.location = sPoint(float(wqx_metadata.location.longitude),
float(wqx_metadata.location.latitude),
vertical)
self.feature = s
def __init__(self, **kwargs):
super(SweTimeSeries, self).__init__(**kwargs)
# Parse out GML point. Defaults to 0 depth if none specified
self.geo_srs = Crs(
testXMLAttribute(self._location.find(nsp("Point", self.GML_NS)),
'srsName'))
geo = [
float(v) for v in testXMLValue(
self._location.find(nsp("Point/pos", self.GML_NS))).split(" ")
]
if self.geo_srs.axisorder == "yx":
self.geo = sPoint(geo[1], geo[0])
else:
self.geo = sPoint(geo[0], geo[1])
try:
self.geo.z = geo[2]
except:
pass
pc = PointCollection()
for row in self.results.data:
p = Point()
time = None
z = None
lat = None
lon = None
for field in row:
if field.axis == "time":
t = dateutil.parser.parse(field.value)
p.time = t.astimezone(dateutil.tz.tzutc())
elif field.axis == "Long":
lon = field
elif field.axis == "Lat":
lat = field
elif field.axis == "h":
z = field
else:
m = Member(value=field.value,
unit=field.units,
units_definition=field.units_url,
name=field.name,
definition=field.definition,
standard=field.definition)
p.add_member(m)
# Set the spatial point
if lon.srs != lat.srs:
raise ValueError(
"Longitude and Latitude need to have the same SRS/CRS!")
p.location = sPoint(float(lon.value), float(lat.value),
float(z.value))
pc.add_element(p)
self.data = pc
def __init__(self, element):
record = DataRecord(element)
# Top level org structure
stations_field = record.get_by_name("stations")
stations = {}
sensors = {}
for station in stations_field.content.field:
s = Station()
s.name = station.name
s.uid = station.content.get_by_name("stationID").content.value
# Location
vector = station.content.get_by_name("platformLocation").content
srss = vector.referenceFrame.split("&")
hsrs = None
try:
hsrs = Crs(srss[0])
except ValueError:
pass
vsrs = None
try:
vsrs = Crs(srss[-1].replace("2=http:", "http:"))
except ValueError:
pass
s.set_property("horizontal_srs", hsrs)
s.set_property("vertical_srs", vsrs)
s.set_property("localFrame", vector.localFrame)
lat = vector.get_by_name("latitude").content.value
lon = vector.get_by_name("longitude").content.value
z = vector.get_by_name("height").content.value
loc = [lon, lat]
if z:
loc.append(z)
s.location = sPoint(*loc)
# Sensors
for sensor in station.content.get_by_name("sensors").content.field:
name = sensor.name
uri = sensor.content.get_by_name("sensorID").content.value
height = None
location_quantity = sensor.content.get_by_name(
"height").content
if location_quantity.referenceFrame == "#%s_frame" % s.name:
# Uses the station as reference frame
if location_quantity.value and z:
height = z + location_quantity.value
horizontal_srs = s.get_property("horizontal_srs")
vertical_srs = s.get_property("vertical_srs")
else:
# Uses its own height
if location_quantity.value:
height = location_quantity.value
horizontal_srs = None
vertical_srs = None
if hasattr(sensor, 'referenceFrame'):
srss = sensor.referenceFrame.split("&")
try:
horizontal_srs = Crs(srss[0])
except ValueError:
pass
try:
vertical_srs = Crs(srss[-1].replace(
"2=http:", "http:"))
except ValueError:
pass
loc = [s.location.x, s.location.y]
if height:
loc.append(height)
location = sPoint(*loc)
sensors[name] = {
'station': s.uid,
'name': name,
'uri': uri,
'horizontal_srs': horizontal_srs,
'vertical_srs': vertical_srs,
'location': location,
'columns': [], # Array of Members representing the columns
'values': [] # Array of Points (the actual data)
}
stations[s.uid] = s
# Start building the column structure
data_array = record.get_by_name("observationData").content
data_record = data_array.elementType.content
columns = []
# Data outside of the <field name="sensors"> DataChoice element
for f in data_record.field:
columns.append(f)
# Data inside of DataChoice
sensor_data = data_record.get_by_name("sensor")
for sendata in sensor_data.content.item:
if sendata.content is not None:
sensors[sendata.name]['columns'] = []
sensors[sendata.name]['values'] = []
for f in sendata.content.field:
# Create a model Member for each column that will be copied and filled with data from each row
sensors[sendata.name]['columns'].append(f)
decimalSeparator = data_array.encoding.decimalSeparator
tokenSeparator = data_array.encoding.tokenSeparator
blockSeparator = data_array.encoding.blockSeparator
collapseWhiteSpaces = data_array.encoding.collapseWhiteSpaces
data_values = data_array.values
self.raw_data = copy(data_values)
for row in filter(lambda x: x != "",
data_values.split(blockSeparator)):
pt = None
members = []
values = row.split(tokenSeparator)
sensor_key = None
i = 0
for x in columns:
if isinstance(
x.content, Time
) and x.content.definition == "http://www.opengis.net/def/property/OGC/0/SamplingTime":
pt = Point()
pt.time = parser.parse(values[i])
elif isinstance(x.content, DataChoice):
sensor_key = values[i]
dc_cols = sensors[sensor_key]['columns']
for j, c in enumerate(dc_cols):
if isinstance(c.content, AbstractSimpleComponent):
m = Member(units=c.content.uom,
name=c.name,
standard=c.content.definition,
value=float(values[i + 1]))
members.append(m)
elif isinstance(
c.content, Time
) and c.content.definition == "http://www.opengis.net/def/property/OGC/0/SamplingTime":
pt = Point()
pt.time = parser.parse(values[i])
# For each data column
i += 1
elif isinstance(x.content, AbstractSimpleComponent):
m = Member(units=x.content.uom,
name=x.name,
standard=x.content.definition,
value=float(values[i]))
members.append(m)
else:
print "WHAT AM I"
i += 1
pt.members = members
pt.location = stations[sensors[sensor_key]['station']].location
sensors[sensor_key]['values'].append(pt)
for k, v in stations.iteritems():
for sk, sv in sensors.iteritems():
# Match on station uid
if sv['station'] == k:
v.elements = self._merge_points(v.elements or [],
sv['values'])
if len(stations) > 1:
self.feature = StationCollection(elements=stations)
elif len(stations) == 1:
self.feature = next(stations.itervalues())
else:
print "No stations found!"
def __init__(self, element):
record = DataRecord(element)
# Top level org structure
stations_field = record.get_by_name("stations")
stations = {}
sensors = {}
for station in stations_field.content.field:
s = Station()
s.name = station.name
s.uid = station.content.get_by_name("stationID").content.value
# Location
vector = station.content.get_by_name("platformLocation").content
srss = vector.referenceFrame.split("&")
hsrs = None
try:
hsrs = Crs(srss[0])
except ValueError:
pass
vsrs = None
try:
vsrs = Crs(srss[-1].replace("2=http:", "http:"))
except ValueError:
pass
s.set_property("horizontal_srs", hsrs)
s.set_property("vertical_srs", vsrs)
s.set_property("localFrame", vector.localFrame)
lat = vector.get_by_name("latitude").content.value
lon = vector.get_by_name("longitude").content.value
z = vector.get_by_name("height").content.value
loc = [lon, lat]
if z:
loc.append(z)
s.location = sPoint(*loc)
# Sensors
for sensor in station.content.get_by_name("sensors").content.field:
name = sensor.name
uri = sensor.content.get_by_name("sensorID").content.value
height = None
location_quantity = sensor.content.get_by_name("height").content
if location_quantity.referenceFrame == "#%s_frame" % s.name:
# Uses the station as reference frame
if location_quantity.value and z:
height = z + location_quantity.value
horizontal_srs = s.get_property("horizontal_srs")
vertical_srs = s.get_property("vertical_srs")
else:
# Uses its own height
if location_quantity.value:
height = location_quantity.value
horizontal_srs = None
vertical_srs = None
if hasattr(sensor, 'referenceFrame'):
srss = sensor.referenceFrame.split("&")
try:
horizontal_srs = Crs(srss[0])
except ValueError:
pass
try:
vertical_srs = Crs(srss[-1].replace("2=http:", "http:"))
except ValueError:
pass
loc = [s.location.x, s.location.y]
if height:
loc.append(height)
location = sPoint(*loc)
sensors[name] = { 'station' : s.uid,
'name' : name,
'uri' : uri,
'horizontal_srs' : horizontal_srs,
'vertical_srs' : vertical_srs,
'location' : location,
'columns' : [], # Array of Members representing the columns
'values' : [] # Array of Points (the actual data)
}
stations[s.uid] = s
# Start building the column structure
data_array = record.get_by_name("observationData").content
data_record = data_array.elementType.content
columns = []
# Data outside of the <field name="sensors"> DataChoice element
for f in data_record.field:
columns.append(f)
# Data inside of DataChoice
sensor_data = data_record.get_by_name("sensor")
for sendata in sensor_data.content.item:
if sendata.content is not None:
sensors[sendata.name]['columns'] = []
sensors[sendata.name]['values'] = []
for f in sendata.content.field:
# Create a model Member for each column that will be copied and filled with data from each row
sensors[sendata.name]['columns'].append(f)
decimalSeparator = data_array.encoding.decimalSeparator
tokenSeparator = data_array.encoding.tokenSeparator
blockSeparator = data_array.encoding.blockSeparator
collapseWhiteSpaces = data_array.encoding.collapseWhiteSpaces
data_values = data_array.values
self.raw_data = copy(data_values)
for row in filter(lambda x: x != "", data_values.split(blockSeparator)):
pt = None
members = []
values = row.split(tokenSeparator)
sensor_key = None
i = 0
for x in columns:
if isinstance(x.content, Time) and x.content.definition == "http://www.opengis.net/def/property/OGC/0/SamplingTime":
pt = Point()
pt.time = parser.parse(values[i])
elif isinstance(x.content, DataChoice):
sensor_key = values[i]
dc_cols = sensors[sensor_key]['columns']
for j,c in enumerate(dc_cols):
if isinstance(c.content, AbstractSimpleComponent):
m = Member( units=c.content.uom,
name=c.name,
standard=c.content.definition,
value=float(values[i+1]))
members.append(m)
elif isinstance(c.content, Time) and c.content.definition == "http://www.opengis.net/def/property/OGC/0/SamplingTime":
pt = Point()
pt.time = parser.parse(v)
# For each data column
i += 1
elif isinstance(x.content, AbstractSimpleComponent):
m = Member( units=x.content.uom,
name=x.name,
standard=x.content.definition,
value=float(values[i]))
members.append(m)
else:
print "WHAT AM I"
i += 1
pt.members = members
pt.location = stations[sensors[sensor_key]['station']].location
sensors[sensor_key]['values'].append(pt)
for k,v in stations.iteritems():
for sk, sv in sensors.iteritems():
# Match on station uid
if sv['station'] == k:
v.elements = self._merge_points(v.elements or [], sv['values'])
if len(stations) > 1:
self.feature = StationCollection(elements=stations)
elif len(stations) == 1:
self.feature = next(stations.itervalues())
else:
print "No stations found!"
def __init__(self, awc_list):
for awc_data in awc_list:
if isinstance(awc_data, str) or isinstance(awc_data, unicode):
try:
self._root = etree.fromstring(str(awc_data))
except ValueError:
# Strip out the XML header due to UTF8 encoding declaration
self._root = etree.fromstring(awc_data[56:])
else:
raise ValueError("Cannot parse response into ElementTree xml object")
'''Code to get station iterator goes here
'''
stations = []
station_lookup = []
times = []
for metar in self._root.iter('METAR'):
uid = metar.find("station_id").text
if uid not in station_lookup:
s = Station()
s.uid = uid
vertical = metar.find("elevation_m").text
if vertical is None:
vertical = 0
s.location = sPoint(float(metar.find("latitude").text), float(metar.find("longitude").text), float(vertical))
s.set_property("metar_type", metar.find("metar_type").text)
s.set_property("horizontal_crs", "GCS")
s.set_property("vertical_units", "m")
s.set_property("vertical_crs", "AGL")
stations.append(s)
station_lookup.append(s.uid)
times.append({})
else:
s = stations[station_lookup.index(uid)]
variables = ["elevation_m", "raw_text", "temp_c", "dewpoint_c", "wind_dir_degrees", "wind_speed_kt", "visibility_statute_mi", "altim_in_hg", "wx_string", "sky_condition", "flight_category"]
for variable in variables:
time_string = metar.find("observation_time").text
dt = datetime.strptime(time_string, "%Y-%m-%dT%H:%M:%SZ")
if dt.tzinfo is None:
dt = dt.replace(tzinfo=pytz.utc)
dt = dt.astimezone(pytz.utc)
if dt not in times[station_lookup.index(s.uid)].keys():
times[station_lookup.index(s.uid)][dt] = []
if metar.find(variable) != None:
if variable in set(["raw_text", "flight_category", "wx_string"]):
times[station_lookup.index(s.uid)][dt].append(Member(value=metar.find(variable).text, unit=None, name=variable, description=variable, standard=None))
elif variable == "sky_condition":
sky_condition = []
for cond in metar.findall(variable):
cover = cond.attrib["sky_cover"]
try:
alt = cond.attrib["cloud_base_ft_agl"]
except:
alt = None
sky_condition.append({"sky_cover" : cover, "cloud_base_ft_agl" : alt})
times[station_lookup.index(s.uid)][dt].append(Member(value=sky_condition, unit="ft_above_ground_level", name=variable, description=variable, standard=None))
else:
times[station_lookup.index(s.uid)][dt].append(Member(value=float(metar.find(variable).text), unit=variable.split("_")[-1], name=variable, description=variable, standard=None))
for time_dict, station in zip(times, stations):
for dts, members in time_dict.iteritems():
p = Point()
p.time = dts
p.location = station.location
p.members = members
station.add_element(p)
self.feature = StationCollection(elements=stations)
def test_point_collection(self):
dt1 = datetime.date(2007, 12, 5)
p1 = Point()
p1.time = dt1
p1.location = sPoint(-180, -90, 0)
member1 = Member(value=5.4, unit='m', name='Sea Surface Height', description='sea height', standard='sea_surface_height')
member2 = Member(value=8.1, unit='m', name='Wave Height', description='wave height', standard='wave_height')
p1.add_member(member1)
p1.add_member(member2)
dt2 = datetime.date(2008, 2, 14)
p2 = Point()
p2.time = dt2
p2.location = sPoint(-120, 50, 10)
member3 = Member(value=5.4, unit='m', name='Sea Surface Height', description='sea height', standard='sea_surface_height')
member4 = Member(value=8.1, unit='m', name='Wave Height', description='wave height', standard='wave_height')
p2.add_member(member3)
p2.add_member(member4)
pc = PointCollection(elements=[p1,p2])
pc.calculate_bounds()
assert pc.size == 2
assert pc.time_range[0] == dt1
assert pc.time_range[-1] == dt2
assert pc.depth_range[0] == p1.location.z
assert pc.depth_range[-1] == p2.location.z
assert pc.upper_right().equals(sPoint(p2.location.x, p2.location.y))
assert pc.lower_left().equals(sPoint(p1.location.x, p1.location.y))
def __init__(self, awc_list):
for awc_data in awc_list:
try:
self._root = etree.fromstring(awc_data.encode())
except Exception as e:
warnings.warn(
"Could not read from {!r}, got {}".format(awc_data, e)
)
continue
"""Code to get station iterator goes here."""
stations = []
station_lookup = []
times = []
for metar in self._root.iter("METAR"):
uid = metar.find("station_id").text
if uid not in station_lookup:
s = Station()
s.uid = uid
vertical = metar.find("elevation_m").text
if vertical is None:
vertical = 0
s.location = sPoint(
float(metar.find("latitude").text),
float(metar.find("longitude").text),
float(vertical),
)
s.set_property("metar_type", metar.find("metar_type").text)
s.set_property("horizontal_crs", "GCS")
s.set_property("vertical_units", "m")
s.set_property("vertical_crs", "AGL")
stations.append(s)
station_lookup.append(s.uid)
times.append({})
else:
s = stations[station_lookup.index(uid)]
variables = [
"elevation_m",
"raw_text",
"temp_c",
"dewpoint_c",
"wind_dir_degrees",
"wind_speed_kt",
"visibility_statute_mi",
"altim_in_hg",
"wx_string",
"sky_condition",
"flight_category",
]
for variable in variables:
time_string = metar.find("observation_time").text
dt = datetime.strptime(time_string, "%Y-%m-%dT%H:%M:%SZ")
if dt.tzinfo is None:
dt = dt.replace(tzinfo=pytz.utc)
dt = dt.astimezone(pytz.utc)
if dt not in list(
times[station_lookup.index(s.uid)].keys()
):
times[station_lookup.index(s.uid)][dt] = []
if metar.find(variable):
if variable in {"raw_text", "flight_category", "wx_string"}:
times[station_lookup.index(s.uid)][dt].append(
Member(
value=metar.find(variable).text,
unit=None,
name=variable,
description=variable,
standard=None,
)
)
elif variable == "sky_condition":
sky_condition = []
for cond in metar.findall(variable):
cover = cond.attrib["sky_cover"]
try:
alt = cond.attrib["cloud_base_ft_agl"]
except Exception:
alt = None
sky_condition.append(
{
"sky_cover": cover,
"cloud_base_ft_agl": alt,
}
)
times[station_lookup.index(s.uid)][dt].append(
Member(
value=sky_condition,
unit="ft_above_ground_level",
name=variable,
description=variable,
standard=None,
)
)
else:
times[station_lookup.index(s.uid)][dt].append(
Member(
value=float(metar.find(variable).text),
unit=variable.split("_")[-1],
name=variable,
description=variable,
standard=None,
)
)
for time_dict, station in zip(times, stations):
for dts, members in time_dict.items():
p = Point()
p.time = dts
p.location = station.location
p.members = members
station.add_element(p)
self.feature = StationCollection(elements=stations)
def __init__(self, waterml_data):
if isinstance(waterml_data, str) or isinstance(waterml_data, unicode):
try:
self._root = etree.fromstring(str(waterml_data))
except ValueError:
# Strip out the XML header due to UTF8 encoding declaration
self._root = etree.fromstring(waterml_data[56:])
else:
self._root = waterml_data
response = WaterML_1_1(self._root).response
stations = []
station_lookup = []
for timeseries in response.time_series:
station_code = sorted(timeseries.source_info.site_codes)[0]
# Create station if we have not seen it
if station_code not in station_lookup:
s = Station()
s.uid = station_code
info = timeseries.source_info
s.name = info.site_name
s.set_property("station_type", info.site_types)
s.set_property("huc", info.site_properties.get("hucCd"))
s.set_property("county", info.site_properties.get("countyCd"))
s.set_property("state", info.site_properties.get("stateCd"))
# Now set the station's location
vertical = info.elevation
if vertical is None:
vertical = 0
try:
location = info.location.geo_coords[0]
srs = info.location.srs[0]
except:
print "Could not find a location for %s... skipping station" % s.uid
continue
s.location = sPoint(float(location[0]), float(location[1]), vertical)
s.set_property("horizontal_crs", srs)
s.set_property("vertical_units", "m")
s.set_property("vertical_crs", info.vertical_datum)
s.set_property("location_description", info.location.notes)
stations.append(s)
station_lookup.append(s.uid)
times = {}
variable = timeseries.variable
for variable_timeseries in timeseries.values:
for r in variable_timeseries:
dt = r.date_time
if dt.tzinfo is None:
dt = dt.replace(tzinfo=pytz.utc)
dt = dt.astimezone(pytz.utc)
if dt not in times.keys():
times[dt] = []
times[dt].append(Member(value=r.value, unit=variable.unit.code, name=variable.variable_name, description=variable.variable_description, standard=variable.variable_code))
station = stations[station_lookup.index(station_code)]
for dts,members in times.iteritems():
p = Point()
p.time = dts
p.location = station.location
p.members = members
station.add_element(p)
self.feature = StationCollection(elements=stations)
def test_trajectory(self):
dt1 = datetime(2012, 4, 1, 0)
p1 = Point()
p1.time = dt1
p1.location = sPoint(-121, 49, 40)
member1 = Member(value=random.uniform(30, 40),
unit='°C',
name='Water Temperatire',
description='water temperature',
standard='sea_water_temperature')
member2 = Member(value=random.uniform(80, 100),
unit='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
dt2 = datetime(2012, 4, 1, 1)
p2 = Point()
p2.time = dt2
p2.location = sPoint(-120, 50, 60)
member3 = Member(value=random.uniform(30, 40),
unit='°C',
name='Water Temperatire',
description='water temperature',
standard='sea_water_temperature')
member4 = Member(value=random.uniform(80, 100),
unit='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p2.add_member(member3)
p2.add_member(member4)
tr = Trajectory(elements=[p1, p2])
tr.calculate_bounds()
assert len(tr.get_path()) == 2
assert tr.size == 2
assert tr.type == "Trajectory"
assert tr.time_range[0] == dt1
assert tr.time_range[-1] == dt2
assert tr.depth_range[0] == p1.location.z
assert tr.depth_range[-1] == p2.location.z
assert tr.upper_right().equals(sPoint(p2.location.x, p2.location.y))
assert tr.lower_left().equals(sPoint(p1.location.x, p1.location.y))
def _build_station_collection(self, parsed_metadata, parsed_data):
stations = []
for station_code, station_metadata in parsed_metadata.items():
s = Station()
s.uid = station_code
s.name = station_metadata['nwsli']
s.location = sPoint(station_metadata['longitude'],
station_metadata['latitude'],
0) # hads always vertically zero
s.set_property("location_description",
station_metadata['location_text'])
s.set_property("state", station_metadata['state'])
s.set_property("country", "USA") # @TODO
s.set_property("vertical_units", "ft")
s.set_property("horizontal_crs", "EPSG:4326")
s.set_property("vertical_crs", None)
s.set_property("hsa", station_metadata['hsa'])
s.set_property("init_transmit", station_metadata['init_transmit'])
s.set_property("manufacturer", station_metadata['manufacturer'])
s.set_property("owner", station_metadata['owner'])
s.set_property("channel", station_metadata['channel'])
stations.append(s)
# data
# possibility no data for this station, or vars filtered all out
if station_code not in parsed_data:
continue
# need to group into distinct time/z value pairs
# create a keyfunc (creates string of <z>-<timestamp>)
zandtime = lambda x: str(x[3]) + "-" + str(
time.mktime(x[1].timetuple()))
# annotate data with z values, sort, group by keyfunc (z/time)
grouped_data = groupby(
sorted([(x[0], x[1], x[2], parsed_metadata[station_code]
['variables'][x[0]]['base_elevation'])
for x in parsed_data[station_code]],
key=zandtime), zandtime)
for _, group in grouped_data:
# group is an iterator, turn it into a list (it will have at least one item)
groupvals = list(group)
p = Point()
p.time = groupvals[0][1]
p.location = sPoint(station_metadata['longitude'],
station_metadata['latitude'],
groupvals[0][3])
for val in groupvals:
std_var = self.get_variable_info(val[0])
if std_var is None:
print("Unknown PE Code, ignoring: {} (station: {}).".
format(val[0], station_code))
continue
p.add_member(
Member(value=val[2],
standard=std_var[0],
unit=std_var[1],
name=std_var[2],
description=std_var[3]))
s.add_element(p)
return StationCollection(elements=stations)
def __init__(self, awc_list):
for awc_data in awc_list:
self._root = etree.fromstring(awc_data.encode())
'''Code to get station iterator goes here.'''
stations = []
station_lookup = []
times = []
for metar in self._root.iter('METAR'):
uid = metar.find("station_id").text
if uid not in station_lookup:
s = Station()
s.uid = uid
vertical = metar.find("elevation_m").text
if vertical is None:
vertical = 0
s.location = sPoint(float(metar.find("latitude").text),
float(metar.find("longitude").text),
float(vertical))
s.set_property("metar_type", metar.find("metar_type").text)
s.set_property("horizontal_crs", "GCS")
s.set_property("vertical_units", "m")
s.set_property("vertical_crs", "AGL")
stations.append(s)
station_lookup.append(s.uid)
times.append({})
else:
s = stations[station_lookup.index(uid)]
variables = [
"elevation_m", "raw_text", "temp_c", "dewpoint_c",
"wind_dir_degrees", "wind_speed_kt",
"visibility_statute_mi", "altim_in_hg", "wx_string",
"sky_condition", "flight_category"
]
for variable in variables:
time_string = metar.find("observation_time").text
dt = datetime.strptime(time_string, "%Y-%m-%dT%H:%M:%SZ")
if dt.tzinfo is None:
dt = dt.replace(tzinfo=pytz.utc)
dt = dt.astimezone(pytz.utc)
if dt not in list(times[station_lookup.index(
s.uid)].keys()):
times[station_lookup.index(s.uid)][dt] = []
if metar.find(variable) != None:
if variable in set(
["raw_text", "flight_category", "wx_string"]):
times[station_lookup.index(s.uid)][dt].append(
Member(value=metar.find(variable).text,
unit=None,
name=variable,
description=variable,
standard=None))
elif variable == "sky_condition":
sky_condition = []
for cond in metar.findall(variable):
cover = cond.attrib["sky_cover"]
try:
alt = cond.attrib["cloud_base_ft_agl"]
except:
alt = None
sky_condition.append({
"sky_cover": cover,
"cloud_base_ft_agl": alt
})
times[station_lookup.index(s.uid)][dt].append(
Member(value=sky_condition,
unit="ft_above_ground_level",
name=variable,
description=variable,
standard=None))
else:
times[station_lookup.index(s.uid)][dt].append(
Member(value=float(metar.find(variable).text),
unit=variable.split("_")[-1],
name=variable,
description=variable,
standard=None))
for time_dict, station in zip(times, stations):
for dts, members in time_dict.items():
p = Point()
p.time = dts
p.location = station.location
p.members = members
station.add_element(p)
self.feature = StationCollection(elements=stations)
def test_profile(self):
dt1 = datetime(2012, 1, 1, 12, 0)
p1 = Point()
p1.time = dt1
p1.location = sPoint(-120, 50, 0)
member1 = Member(value=34.7, unit='°C', name='Water Temperatire', description='water temperature', standard='sea_water_temperature')
member2 = Member(value=80, unit='PSU', name='Salinity', description='salinity', standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
dt2 = datetime(2012, 1, 1, 12, 10)
p2 = Point()
p2.time = dt2
p2.location = sPoint(-120, 50, 10)
member3 = Member(value=34.1, unit='°C', name='Water Temperatire', description='water temperature', standard='sea_water_temperature')
member4 = Member(value=70, unit='PSU', name='Salinity', description='salinity', standard='salinity')
p2.add_member(member3)
p2.add_member(member4)
dt3 = datetime(2012, 1, 1, 12, 20)
p3 = Point()
p3.time = dt3
p3.location = sPoint(-120, 50, 20)
member5 = Member(value=32.6, unit='°C', name='Water Temperatire', description='water temperature', standard='sea_water_temperature')
member6 = Member(value=60, unit='PSU', name='Salinity', description='salinity', standard='salinity')
p3.add_member(member5)
p3.add_member(member6)
pc = Profile(elements=[p1,p2,p3])
pc.location = sPoint(-120, 50)
pc.time = dt1
pc.calculate_bounds()
assert pc.size == 3
assert pc.time == dt1
assert len(pc.time_range) == 3
assert pc.time_range[0] == dt1
assert pc.time_range[-1] == dt3
assert len(pc.depth_range) == 3
assert pc.depth_range[0] == p1.location.z
assert pc.depth_range[-1] == p3.location.z
assert pc.upper_right().equals(pc.location)
assert pc.lower_left().equals(pc.location)
def test_station(self):
dt1 = datetime(2012, 1, 1, 12, 0)
p1 = Point()
p1.time = dt1
member1 = Member(value=34.7, unit='°C', name='Water Temperature', description='water temperature', standard='sea_water_temperature')
member2 = Member(value=80, unit='PSU', name='Salinity', description='salinity', standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
dt2 = datetime(2012, 1, 1, 12, 10)
p2 = Point()
p2.time = dt2
member3 = Member(value=34.1, unit='°C', name='Water Temperature', description='water temperature', standard='sea_water_temperature')
member4 = Member(value=70, unit='PSU', name='Salinity', description='salinity', standard='salinity')
p2.add_member(member3)
p2.add_member(member4)
dt3 = datetime(2012, 1, 1, 12, 20)
p3 = Point()
p3.time = dt3
member5 = Member(value=32.6, unit='°C', name='Water Temperature', description='water temperature', standard='sea_water_temperature')
member6 = Member(value=60, unit='PSU', name='Salinity', description='salinity', standard='salinity')
member6 = Member(value=112, unit='%', name='DO', description='do', standard='do')
p3.add_member(member5)
p3.add_member(member6)
pc = Station(elements=[p1,p2,p3])
pc.name = "Super Station"
pc.location = sPoint(-120, 50, 0)
pc.location_name = "Just south of the super pier"
pc.uid = "123097SDFJL2"
pc.set_property("authority", "IOOS")
pc.calculate_bounds()
assert pc.size == 3
assert len(pc.time_range) == 3
assert pc.time_range[0] == dt1
assert pc.time_range[-1] == dt3
assert len(pc.depth_range) == 3
assert pc.depth_range[0] == p1.location.z
assert pc.upper_right().equals(pc.location)
assert pc.lower_left().equals(pc.location)
assert pc.get_property("authority") == "IOOS"
assert pc.uid == "123097SDFJL2"
assert pc.location_name == "Just south of the super pier"
assert len(pc.get_unique_members()) == 3
filtered_elements = pc.filter_by_time(starting=dt1, ending=dt2)
assert len(list(filtered_elements)) == 2
filtered_variables = pc.filter_by_variable("sea_water_temperature")
assert len(list(filtered_variables)) == 3
filtered_variables = pc.filter_by_variable("do")
assert len(list(filtered_variables)) == 1
def _build_station_collection(self, parsed_metadata, parsed_data):
stations = []
for station_code, station_metadata in parsed_metadata.iteritems():
s = Station()
s.uid = station_code
s.name = station_metadata['nwsli']
s.location = sPoint(station_metadata['longitude'],
station_metadata['latitude'],
0) # hads always vertically zero
s.set_property("location_description" , station_metadata['location_text'])
s.set_property("state" , station_metadata['state'])
s.set_property("country" , "USA") # @TODO
s.set_property("vertical_units" , "ft")
s.set_property("horizontal_crs" , "EPSG:4326")
s.set_property("vertical_crs" , None)
s.set_property("hsa" , station_metadata['hsa'])
s.set_property("init_transmit" , station_metadata['init_transmit'])
s.set_property("manufacturer" , station_metadata['manufacturer'])
s.set_property("owner" , station_metadata['owner'])
s.set_property("channel" , station_metadata['channel'])
stations.append(s)
# data
# possibility no data for this station, or vars filtered all out
if station_code not in parsed_data:
continue
# need to group into distinct time/z value pairs
# create a keyfunc (creates string of <z>-<timestamp>)
zandtime = lambda x: str(x[3]) + "-" + str(time.mktime(x[1].timetuple()))
# annotate data with z values, sort, group by keyfunc (z/time)
grouped_data = groupby(sorted(map(lambda x: (x[0],
x[1],
x[2],
parsed_metadata[station_code]['variables'][x[0]]['base_elevation']),
parsed_data[station_code]),
key=zandtime),
zandtime)
for _, group in grouped_data:
# group is an iterator, turn it into a list (it will have at least one item)
groupvals = list(group)
p = Point()
p.time = groupvals[0][1]
p.location = sPoint(station_metadata['longitude'],
station_metadata['latitude'],
groupvals[0][3])
for val in groupvals:
std_var = self.get_variable_info(val[0])
if std_var is None:
print "Unknown PE Code, ignoring:", val[0], "(station:", station_code, ")"
continue
p.add_member(Member(value=val[2],
standard=std_var[0],
unit=std_var[1],
name=std_var[2],
description=std_var[3]))
s.add_element(p)
return StationCollection(elements=stations)
def test_set_get_member(self):
p = Point()
member = Member(value=5.4, unit='m', name='Sea Surface Height', description='a description', standard='sea_surface_height')
p.add_member(member)
assert member == p.get_member(name='Sea Surface Height')
def __init__(self, waterml_data):
if isinstance(waterml_data, str) or isinstance(waterml_data, unicode):
try:
self._root = etree.fromstring(str(waterml_data))
except ValueError:
# Strip out the XML header due to UTF8 encoding declaration
self._root = etree.fromstring(waterml_data[56:])
else:
self._root = waterml_data
response = WaterML_1_1(self._root).response
stations = []
station_lookup = []
for timeseries in response.time_series:
station_code = sorted(timeseries.source_info.site_codes)[0]
# Create station if we have not seen it
if station_code not in station_lookup:
s = Station()
s.uid = station_code
info = timeseries.source_info
s.name = info.site_name
s.set_property("station_type", info.site_types)
s.set_property("huc", info.site_properties.get("hucCd"))
s.set_property("county", info.site_properties.get("countyCd"))
s.set_property("state", info.site_properties.get("stateCd"))
# Now set the station's location
vertical = info.elevation
if vertical is None:
vertical = 0
try:
location = info.location.geo_coords[0]
srs = info.location.srs[0]
except:
print "Could not find a location for %s... skipping station" % s.uid
continue
s.location = sPoint(float(location[0]), float(location[1]),
vertical)
s.set_property("horizontal_crs", srs)
s.set_property("vertical_units", "m")
s.set_property("vertical_crs", info.vertical_datum)
s.set_property("location_description", info.location.notes)
stations.append(s)
station_lookup.append(s.uid)
times = {}
variable = timeseries.variable
for variable_timeseries in timeseries.values:
for r in variable_timeseries:
dt = r.date_time
if dt.tzinfo is None:
dt = dt.replace(tzinfo=pytz.utc)
dt = dt.astimezone(pytz.utc)
if dt not in times.keys():
times[dt] = []
times[dt].append(
Member(value=r.value,
unit=variable.unit.code,
name=variable.variable_name,
description=variable.variable_description,
standard=variable.variable_code))
station = stations[station_lookup.index(station_code)]
for dts, members in times.iteritems():
p = Point()
p.time = dts
p.location = station.location
p.members = members
station.add_element(p)
self.feature = StationCollection(elements=stations)
def test_profile(self):
dt1 = datetime(2012, 1, 1, 12, 0)
p1 = Point()
p1.time = dt1
p1.location = sPoint(-120, 50, 0)
member1 = Member(value=34.7,
unit='°C',
name='Water Temperatire',
description='water temperature',
standard='sea_water_temperature')
member2 = Member(value=80,
unit='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p1.add_member(member1)
p1.add_member(member2)
dt2 = datetime(2012, 1, 1, 12, 10)
p2 = Point()
p2.time = dt2
p2.location = sPoint(-120, 50, 10)
member3 = Member(value=34.1,
unit='°C',
name='Water Temperatire',
description='water temperature',
standard='sea_water_temperature')
member4 = Member(value=70,
unit='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p2.add_member(member3)
p2.add_member(member4)
dt3 = datetime(2012, 1, 1, 12, 20)
p3 = Point()
p3.time = dt3
p3.location = sPoint(-120, 50, 20)
member5 = Member(value=32.6,
unit='°C',
name='Water Temperatire',
description='water temperature',
standard='sea_water_temperature')
member6 = Member(value=60,
unit='PSU',
name='Salinity',
description='salinity',
standard='salinity')
p3.add_member(member5)
p3.add_member(member6)
pc = Profile(elements=[p1, p2, p3])
pc.location = sPoint(-120, 50)
pc.time = dt1
pc.calculate_bounds()
assert pc.size == 3
assert pc.time == dt1
assert len(pc.time_range) == 3
assert pc.time_range[0] == dt1
assert pc.time_range[-1] == dt3
assert len(pc.depth_range) == 3
assert pc.depth_range[0] == p1.location.z
assert pc.depth_range[-1] == p3.location.z
assert pc.upper_right().equals(pc.location)
assert pc.lower_left().equals(pc.location)
def test_section(self):
day = 1
hour = 0
sc = Section()
dt = None
# 10 profiles
for x in xrange(0, 10):
lat = random.randint(40, 44)
lon = random.randint(-74, -70)
loc = sPoint(lon, lat, 0)
minute = 0
dt = datetime(2012, 4, day, hour, minute)
hour += 1
prof = Profile()
prof.location = loc
prof.time = dt
# Each with 20 depths
for y in xrange(0, 20):
p = Point()
p.time = dt
p.location = sPoint(loc.x, loc.y, y)
m1 = Member(
value=random.uniform(30, 40),
unit="°C",
name="Water Temperatire",
description="water temperature",
standard="sea_water_temperature",
)
m2 = Member(
value=random.uniform(80, 100),
unit="PSU",
name="Salinity",
description="salinity",
standard="salinity",
)
p.add_member(m1)
p.add_member(m2)
prof.add_element(p)
# Next depth is 2 minutes from now
dt = dt + timedelta(minutes=2)
sc.add_element(prof)
sc.calculate_bounds()
assert len(sc.get_path()) == 10
assert sc.size == 10
assert sc.point_size == 200
assert sc.type == "Section"
assert len(sc.time_range) == 200
assert sc.time_range[0] == datetime(2012, 4, 1, 0, 0)
assert sc.time_range[-1] == dt - timedelta(minutes=2)
assert len(sc.depth_range) == 200
assert sc.depth_range[0] == 0
assert sc.depth_range[-1] == 19
