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(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 get_pwqmn(station_id, **kwargs):
conn = sqlite3.connect(app.config.get("DATABASE"))
with conn:
conn.row_factory = sqlite3.Row
cur = conn.cursor()
cur.execute("SELECT * FROM stations WHERE STATION='%s'" % station_id)
row = cur.fetchone()
if row is not None:
# Serve out OME
s = pStation()
s.uid = row["STATION"]
s.name = row["NAME"]
s.description = row["LOCATION"]
s.location = sPoint(row["Longitude"], row["Latitude"], 0)
s.set_property("country", "CA")
s.set_property("organization_name", "Ontario Ministry of the Environment")
s.set_property("organization_id", "ENE")
filters = []
starting = kwargs.get("starting", None)
ending = kwargs.get("ending", None)
obs = kwargs.get("observedProperties", None)
if starting is not None:
filters.append("AND DATE > %s" % starting.strftime("%Y-%m-%dT%H:%M:%S"))
if ending is not None:
filters.append("AND DATE < %s" % ending.strftime("%Y-%m-%dT%H:%M:%S"))
if obs is not None:
obs = map(lambda x: "'%s'" % x, obs)
filters.append("AND PARM in (%s)" % ",".join(obs))
cur.execute("SELECT * FROM data WHERE STATION='%s' %s ORDER BY DATE ASC" % (station_id, " ".join(filters)))
rows = cur.fetchall()
for d, members in itertools.groupby(rows, key=lambda s: s[3]):
p = Point()
p.time = datetime.strptime(d, "%Y-%m-%dT%H:%M:%S").replace(tzinfo=pytz.utc)
for m in members:
p.add_member(
Member(
value=m["RESULT"],
unit=m["UNITS"],
name=m["PARM"],
description=m["PARM_DESCRIPTION"],
standard=None,
method_id=m["METHOD"],
method_name=m["METHOD"],
)
)
s.add_element(p)
s.calculate_bounds()
publisher = {
"name": "Ontario Ministry of the Environment",
"url": "http://www.ene.gov.on.ca/environment/en/resources/collection/data_downloads/index.htm#PWQMN",
}
return s, publisher
return None, None
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_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 xrange(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 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)
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_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 __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_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_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